VEuPathDB Ontology
type: Ontology
version IRI: eupath.owl
creator: Chris Stoeckert
creator: Cristian Cocos
creator: Jie Zheng
creator: John Judkins
description: The VEuPathDB ontology is an application ontology developed to encode our understanding of what data is about in the public resources developed and maintained by the Eukaryotic Pathogen, Host and Vector Genomics Resource (VEuPathDB; https://veupathdb.org). The VEuPathDB ontology was previously named the EuPathDB ontology prior to EuPathDB joining with VectorBase.The ontology was built based on the Ontology of Biomedical Investigations (OBI) with integration of other OBO ontologies such as PATO, OGMS, DO, etc. as needed for coverage. Currently the VEuPath ontology is primarily intended to be used for support of the VEuPathDB sites. Terms with VEuPathDB ontology IDs that are not specific to VEuPathDB will be submitted to OBO Foundry ontologies for subsequent import and replacement of those terms when they are available.
license: http://creativecommons.org/licenses/by/4.0/
version info: 2023-05-30

BFO OWL specification label
type: AnnotationProperty
definition: Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification.
curator note: Really of interest to developers only
sub property of: label

BFO CLIF specification label
type: AnnotationProperty
definition: Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2
definition source: Person:Alan Ruttenberg
curator note: Really of interest to developers only
sub property of: label

VEuPathDB alternative label
type: AnnotationProperty
definition: An alternative label used in VEuPathDB project websites.
sub property of: alternative label

obsolete EuPathDB definition
type: AnnotationProperty
definition: definition shown on EuPathDB website
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/166
deprecated: true

obsolete Amazonia data dictionary label (es)
type: AnnotationProperty
comment: Label of terms used in Amazonia data dictionary. It is in Spanish.
deprecated: true

obsolete Amazonia preferred label (en)
type: AnnotationProperty
comment: English label used in Amazonia project for display on the website
deprecated: true

obsolete Amazonia preferred label (es)
type: AnnotationProperty
comment: Spanish label used in Amazonia project for display on the website
deprecated: true

obsolete ontological label
type: AnnotationProperty
comment: label of term used in the ontology
deprecated: true

obsolete PRISM data dictionary label (en)
type: AnnotationProperty
comment: Label of terms used in PRISM data dictionary. It is in English.
deprecated: true

obsolete PRISM preferred label (en)
type: AnnotationProperty
comment: English label used in Prism project for display on the website
deprecated: true

obsolete Amazonia description
type: AnnotationProperty
comment: Term description provided by Amazonia group
deprecated: true

obsolete PRISM description
type: AnnotationProperty
comment: Term description provided by PRISM group
deprecated: true

obsolete term type
type: AnnotationProperty
has obsolescence reason: IAO_0000103
comment: Three options of term type: - category: used for organize the filter in the website, not ontology term - variable: term in the data dictionary of project. Should have mapped ontology term associate with it - value: controlled vocubulary used for annotation of variable in the data dictionary. Should have mapped ontology term associate with it
deprecated: true

obsolete resource ID
type: AnnotationProperty
comment: specify ICEMR term original from which database
deprecated: true

obsolete ontological definition
type: AnnotationProperty
comment: definition of term in ontology
deprecated: true

display order
type: AnnotationProperty
definition: An annotation property used to specify the order of terms displayed on a website.
alternative label: displayOrder

obsolete Indian data dictionary label (en)
type: AnnotationProperty
comment: Label of terms used in Indian data dictionary. It is in English.
deprecated: true

obsolete Indian preferred label (en)
type: AnnotationProperty
comment: English label used in Indian project for display on the website
deprecated: true

obsolete Indian description
type: AnnotationProperty
comment: Term description provided by Indian group
deprecated: true

obsolete Amazonia data dictionary label (en)
type: AnnotationProperty
comment: Translated English label of terms in Amazonia data dictionary.
deprecated: true

variable
type: AnnotationProperty
example of usage: In a data file, there is a column with name 'age'. It mapped to EuPath ontology term 'age at visit'. We can add 'implements variable' annotation with value 'age' to term 'age at visit'.
definition: Column header for each variable from the original datasets (use format from datasets, not data dictionary).
alternative label: column header

obsolete column order
type: AnnotationProperty
definition: The column order of variables in the original data files
alternative label: colOrder
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/166
deprecated: true

data file
type: AnnotationProperty
definition: The original file name for the data file the variable was found in, or a shortened version of the file name that contains all relevant information to identify the data file.
alternative label: dataFile

category
type: AnnotationProperty
definition: The highest level parent term (Household, Participant, Observation, Specimen) the variable falls under.

codebook description
type: AnnotationProperty
definition: The variable description from the data dictionary. Useful for assigning display labels. To be provided either directly from the data provider in their codebook or filled out by ClinEpi Outreach before handing over to Ontology.
alternative label: codebookDescription

codebook values
type: AnnotationProperty
definition: All possible responses and their mapped terms for each variable, from the data dictionary. Useful for value mapping.
alternative label: codebookValues

term type
type: AnnotationProperty
definition: An annotation that specifies how a term is used in generation search filters on a website. It has five options: category: a term to organize the variables for exploration on the website variable: a variable in the dataset variable, derived: one term that is calculated, using the data in two or more other variables multifilter: any value below it in the hierarchy will be displayed as a multifilter value: the value of a multifilter
alternative label: termType

replaces
type: AnnotationProperty
definition: Annotation property that records the ontology term IRI originally used in the study.
term editor: VEuPathDB team
alternative label: replaces
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

obsolete datafile value
type: AnnotationProperty
definition: An annotation property to specify the value code used in the dataset.
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/166
deprecated: true

unit label
type: AnnotationProperty
definition: Annotation property that specifies units that are associated with a variable (if any) in a human-readable format. Use abbreviations.
term editor: VEuPathDB team
alternative label: unitLabel
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

unit IRI
type: AnnotationProperty
definition: Annotation property that specifies the ontology term IRI of unit, generally from the unit ontology (UO).
term editor: VEuPathDB team
alternative label: unitIRI
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

dataSet
type: AnnotationProperty
definition: Annotation property that specifies which dataset a term belongs to.
term editor: VEuPathDB team
alternative label: dataSet
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

repeated
type: AnnotationProperty
definition: Annotation property that indicates terms that were assessed longitudinally / repeatedly over time.
term editor: VEuPathDB team
alternative label: repeated
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

is featured
type: AnnotationProperty
definition: Annotation property that specifies important terms to be highlighted.
term editor: VEuPathDB team
alternative label: is_featured
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

hidden
type: AnnotationProperty
definition: Annotation property that indicates that the term is hidden from the UI and download files.
term editor: VEuPathDB team
alternative label: hidden
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

scale
type: AnnotationProperty
definition: Annotation property that identifies terms that are on the log scale or natural log scale, as opposed to on the linear scale.
term editor: VEuPathDB team
alternative label: scale
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

is temporal
type: AnnotationProperty
definition: Annotation property that specifies terms that are related to time, to be used in visualizations looking at data over time. Also to be used in subsetting tab histograms (to indicate that the data range should not include the origin)
term editor: VEuPathDB team
alternative label: is_temporal
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

merge key
type: AnnotationProperty
definition: Annotation property that specifies key terms with longitudinal/repeated measures in the studies.
term editor: VEuPathDB team
alternative label: mergeKey
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

default display range min
type: AnnotationProperty
definition: Annotation property that specifies default minimum value for each term's range. Useful to ensure that histograms for related terms have the same x-axis range
term editor: VEuPathDB team
alternative label: defaultDisplayRangeMin
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

default display range max
type: AnnotationProperty
definition: Annotation property that specifies the default maximum value for each term's range. Useful to ensure that histograms for related terms have the same x-axis range
term editor: VEuPathDB team
alternative label: defaultDisplayRangeMax
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

default bin width
type: AnnotationProperty
definition: Annotation property that specifies the bin width for each term's histogram.
term editor: VEuPathDB team
alternative label: defaultBinWidth
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

force string type
type: AnnotationProperty
definition: Annotation property used to annotate numeric terms as strings. Numeric terms annotated as strings will ALWAYS be ordinal. Study specific.
term editor: VEuPathDB team
alternative label: forceStringType
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/185

obsolete sourced by VectorBase ID
type: AnnotationProperty
definition: Term ID as previously used by VectorBase
deprecated: true

editor preferred term
type: AnnotationProperty
editor preferred term: editor preferred term
has curation status: IAO_0000122
definition: The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

example of usage
type: AnnotationProperty
editor preferred term: example of usage
has curation status: IAO_0000122
definition: A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

in branch
type: AnnotationProperty
editor preferred term: in branch
definition: An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet.
term editor: GROUP:OBI
definition source: OBI_0000277

has curation status
type: AnnotationProperty
editor preferred term: has curation status
term editor: PERSON:Alan Ruttenberg
term editor: PERSON:Bill Bug
term editor: PERSON:Melanie Courtot

definition
type: AnnotationProperty
editor preferred term: definition
has curation status: IAO_0000122
definition: The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
editor note: 2012-04-05: Barry Smith The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible. Can you fix to something like: A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property. Alan Ruttenberg Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. On the specifics of the proposed definition: We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

editor note
type: AnnotationProperty
editor preferred term: editor note
has curation status: IAO_0000122
definition: An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obofoundry.org/obo/obi>

term editor
type: AnnotationProperty
editor preferred term: term editor
has curation status: IAO_0000122
definition: Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people
editor note: 20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

alternative label
type: AnnotationProperty
editor preferred term: alternative label
has curation status: IAO_0000125
definition: A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like.
term editor: OBO Operations committee
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
comment: Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related).

definition source
type: AnnotationProperty
editor preferred term: definition source
has curation status: IAO_0000122
definition: Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007
term editor: PERSON:Daniel Schober
definition source: Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

has obsolescence reason
type: AnnotationProperty
editor preferred term: has obsolescence reason
definition: Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification.
term editor: PERSON:Alan Ruttenberg
term editor: PERSON:Melanie Courtot

curator note
type: AnnotationProperty
editor preferred term: curator note
has curation status: IAO_0000122
definition: An administrative note of use for a curator but of no use for a user
term editor: PERSON:Alan Ruttenberg

term tracker item
type: AnnotationProperty
editor preferred term: term tracker item
example of usage: the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/
has curation status: IAO_0000125
definition: An IRI or similar locator for a request or discussion of an ontology term.
term editor: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
definition source: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
comment: The 'tracker item' can associate a tracker with a specific ontology term.

ontology term requester
type: AnnotationProperty
editor preferred term: ontology term requester
has curation status: IAO_0000125
definition: The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition.
term editor: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
definition source: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
comment: The 'term requester' can credit the person, organization or project who request the ontology term.

is denotator type
type: AnnotationProperty
editor preferred term: is denotator type
definition: Relates an class defined in an ontology, to the type of it's denotator
editor note: In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')
term editor: Alan Ruttenberg

imported from
type: AnnotationProperty
editor preferred term: imported from
has curation status: IAO_0000125
definition: For external terms/classes, the ontology from which the term was imported
term editor: PERSON:Alan Ruttenberg
term editor: PERSON:Melanie Courtot
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

expand expression to
type: AnnotationProperty
editor preferred term: expand expression to
example of usage: ObjectProperty: RO_0002104 Label: has plasma membrane part Annotations: IAO_0000424 "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"
definition: A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones
term editor: Chris Mungall

expand assertion to
type: AnnotationProperty
editor preferred term: expand assertion to
example of usage: ObjectProperty: RO??? Label: spatially disjoint from Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"
definition: A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom.
term editor: Chris Mungall

first order logic expression
type: AnnotationProperty
editor preferred term: first order logic expression
term editor: PERSON:Alan Ruttenberg

antisymmetric property
type: AnnotationProperty
editor preferred term: antisymmetric property
example of usage: part_of antisymmetric property xsd:true
definition: Use boolean value xsd:true to indicate that the property is an antisymmetric property
term editor: Alan Ruttenberg
sub property of: logical characteristic of object property

OBO foundry unique label
type: AnnotationProperty
editor preferred term: OBO foundry unique label
has curation status: IAO_0000125
definition: An alternative name for a class or property which is unique across the OBO Foundry.
editor note: The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools .
term editor: PERSON:Alan Ruttenberg
term editor: PERSON:Bjoern Peters
term editor: PERSON:Chris Mungall
term editor: PERSON:Melanie Courtot
definition source: GROUP:OBO Foundry <http://obofoundry.org/>

has ID digit count
type: AnnotationProperty
editor preferred term: has ID digit count
example of usage: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"
definition: Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix" annotation property value concatenated with an integer in the id range (left padded with "0"s to make this many digits)
term editor: Person:Alan Ruttenberg

has ID range allocated to
type: AnnotationProperty
editor preferred term: has ID range allocated
example of usage: Datatype: idrange:1 Annotations: 'has ID range allocated to': "Chris Mungall" EquivalentTo: xsd:integer[> 2151 , <= 2300]
definition: Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms
term editor: Person:Alan Ruttenberg

has ID policy for
type: AnnotationProperty
editor preferred term: has ID policy for
example of usage: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"
definition: Relating an ontology used to record id policy to the ontology namespace whose policy it manages
term editor: Person:Alan Ruttenberg

has ID prefix
type: AnnotationProperty
editor preferred term: has ID prefix
example of usage: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"
definition: Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with "0"s to make this many digits) to construct an ID for a term being created.
term editor: Person:Alan Ruttenberg

elucidation
type: AnnotationProperty
editor preferred term: elucidation
term editor: person:Alan Ruttenberg
definition source: Person:Barry Smith
elucidation: Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms

has associated axiom(nl)
type: AnnotationProperty
editor preferred term: has associated axiom(nl)
term editor: Person:Alan Ruttenberg
definition source: Person:Alan Ruttenberg
elucidation: An axiom associated with a term expressed using natural language

has associated axiom(fol)
type: AnnotationProperty
editor preferred term: has associated axiom(fol)
term editor: Person:Alan Ruttenberg
definition source: Person:Alan Ruttenberg
elucidation: An axiom expressed in first order logic using CLIF syntax

is allocated id range
type: AnnotationProperty
editor preferred term: is allocated id range
definition: Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. "IAO_0020000-IAO_0020999"
term editor: PERSON:Alan Ruttenberg
comment: Add as annotation triples in the granting ontology

has ontology root term
type: AnnotationProperty
editor preferred term: has ontology root term
definition: Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root.
term editor: Nicolas Matentzoglu

may be identical to
type: AnnotationProperty
editor preferred term: may be identical to
definition: A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged.
term editor: David Osumi-Sutherland
term tracker item: #40
ontology term requester: VFB
comment: Edges asserting this should be annotated with to record evidence supporting the assertion and its provenance.

scheduled for obsoletion on or after
type: AnnotationProperty
editor preferred term: scheduled for obsoletion on or after
definition: Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date.
term editor: Chris Mungall, Jie Zheng
term tracker item: https://github.com/geneontology/go-ontology/issues/15532
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/32
ontology term requester: GO ontology
range: dateTime

has axiom label
type: AnnotationProperty
editor preferred term: has axiom id
term editor: Person:Alan Ruttenberg
definition source: Person:Alan Ruttenberg
elucidation: A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI

term replaced by
type: AnnotationProperty
editor preferred term: term replaced by
has curation status: IAO_0000125
definition: Use on obsolete terms, relating the term to another term that can be used as a substitute
term editor: Person:Alan Ruttenberg
definition source: Person:Alan Ruttenberg
comment: Add as annotation triples in the granting ontology

ISA alternative term
type: AnnotationProperty
editor preferred term: ISA alternative term
has curation status: IAO_0000122
definition: An alternative term used by the ISA tools project (http://isa-tools.org).
editor note: Requested by Alejandra Gonzalez-Beltran https://sourceforge.net/tracker/?func=detail&aid=3603413&group_id=177891&atid=886178
term editor: Person: Alejandra Gonzalez-Beltran
term editor: Person: Philippe Rocca-Serra
definition source: ISA tools project (http://isa-tools.org)

NIAID GSCID-BRC alternative term
type: AnnotationProperty
editor preferred term: NIAID GSCID-BRC alternative term
has curation status: IAO_0000122
definition: An alternative term used by the National Institute of Allergy and Infectious Diseases (NIAID) Genomic Sequencing Centers for Infectious Diseases (GSCID) and Bioinformatics Resource Centers (BRC).
term editor: PERSON: Chris Stoeckert, Jie Zheng
definition source: NIAID GSCID-BRC metadata working group

IEDB alternative term
type: AnnotationProperty
editor preferred term: IEDB alternative term
has curation status: IAO_0000122
definition: An alternative term used by the IEDB.
term editor: PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters
definition source: IEDB

logical characteristic of object property
type: AnnotationProperty
definition: This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL.
definition source: OBO Operations call
created by: http://orcid.org/0000-0001-5208-3432

defined by construct
type: AnnotationProperty
example of usage: 'part disjoint with' 'defined by construct' """ PREFIX owl: <http://www.w3.org/2002/07/owl#> PREFIX : <http://example.org/ CONSTRUCT { [ a owl:Restriction ; owl:onProperty :part_of ; owl:someValuesFrom ?a ; owl:disjointWith [ a owl:Restriction ; owl:onProperty :part_of ; owl:someValuesFrom ?b ] ] } WHERE { ?a :part_disjoint_with ?b . }
definition: Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation.
term tracker item: https://github.com/ontodev/robot/issues/963
contributor: https://orcid.org/0000-0002-7356-1779
contributor: https://orcid.org/0000-0002-8688-6599

abbreviation
type: AnnotationProperty
example of usage: CHEBI:26523 (reactive oxygen species) has an exact synonym (ROS), which is of type OMO:0003000 (abbreviation)
definition: A synonym type for describing abbreviations or initalisms
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

ambiguous synonym
type: AnnotationProperty
definition: A synonym type for describing ambiguous synonyms
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

dubious synonym
type: AnnotationProperty
definition: A synonym type for describing dubious synonyms
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

layperson synonym
type: AnnotationProperty
example of usage: EFO:0006346 (severe cutaneous adverse reaction) has an exact synonym (scar), which is of the type OMO:0003003 (layperson synonym)
definition: A synonym type for describing layperson or colloquial synonyms
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

plural form
type: AnnotationProperty
example of usage: CHEBI:23367 (molecular entity) has an exact synonym (molecular entities), which is of the type OMO:0003004 (plural form)
definition: A synonym type for describing pluralization synonyms
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

UK spelling synonym
type: AnnotationProperty
example of usage: CHEBI:16189 (sulfate) has an exact synonym (sulphate), which is of the type OMO:0003005 (UK spelling synonym)
definition: A synonym type for describing UK spelling variants
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/122
contributor: https://orcid.org/0000-0003-4423-4370
created: 2023-03-03
sub property of: SynonymType

has broad synonym
type: AnnotationProperty
definition: An alternative label for a class or property which has a more general meaning than the preferred name/primary label.
term editor: http://orcid.org/0000-0001-5208-3432
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/18
sub property of: alternative label

has exact synonym
type: AnnotationProperty
definition: An alternative label for a class or property which has the exact same meaning than the preferred name/primary label.
term editor: http://orcid.org/0000-0001-5208-3432
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/20
sub property of: alternative label

has narrow synonym
type: AnnotationProperty
definition: An alternative label for a class or property which has a more specific meaning than the preferred name/primary label.
term editor: http://orcid.org/0000-0001-5208-3432
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/19
sub property of: alternative label

has related synonym
type: AnnotationProperty
definition: An alternative label for a class or property that has been used synonymously with the primary term name, but the usage is not strictly correct.
term editor: http://orcid.org/0000-0001-5208-3432
term tracker item: https://github.com/information-artifact-ontology/ontology-metadata/issues/21
sub property of: alternative label

part of
type: ObjectProperty
inverse of: has part
type: TransitiveProperty
definition: a core relation that holds between a part and its whole
alternative label: part_of
imported from: ro.owl

has part
type: ObjectProperty
type: TransitiveProperty
definition: a core relation that holds between a whole and its part
alternative label: has_part
imported from: ro.owl

realized in
type: ObjectProperty
inverse of: realizes
domain: realizable entity
range: process
alternative label: is realized by
alternative label: realized_in
imported from: ro.owl

realizes
type: ObjectProperty
domain: process
range: realizable entity
imported from: ro.owl

precedes
type: ObjectProperty
type: TransitiveProperty
definition: x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
imported from: ro.owl

occurs in
type: ObjectProperty
inverse of: contains process
domain: occurrent
range: independent continuant
definition: b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t
alternative label: occurs_in
alternative label: unfolds in
alternative label: unfolds_in
imported from: ro.owl

contains process
type: ObjectProperty
definition: [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t
imported from: ro.owl

executed by
type: ObjectProperty
inverse of: executes

executes
type: ObjectProperty
property chain axiom: realizes
property chain axiom: concretizes

obsolete material may be used for
type: ObjectProperty
definition: A relation between a medication material and a disease or symptom that it may treat.
editor note: no longer in use
has obsolescence reason: IAO_0000103
deprecated: true

obsolete manifestation of
type: ObjectProperty
has obsolescence reason: IAO_0000103
deprecated: true

obsolete may treat
type: ObjectProperty
definition: A relation between a medication material and a disease or symptom that it may treat.
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/121
deprecated: true

obsolete has active ingredient
type: ObjectProperty
definition: A relation between a drug product and (one of) its active ingredient.
has obsolescence reason: IAO_0000228
term replaced by: has active ingredient
deprecated: true

has measurement unit label
type: ObjectProperty
sub property of: has part
imported from: iao.owl

is about
type: ObjectProperty
example of usage: This document is about information artifacts and their representations
has curation status: IAO_0000125
definition: A (currently) primitive relation that relates an information artifact to an entity.
editor note: 7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of "mentions" relation. Weaken the is_about relationship to be primitive. We will try to build it back up by elaborating the various subproperties that are more precisely defined. Some currently missing phenomena that should be considered "about" are predications - "The only person who knows the answer is sitting beside me" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic.
term editor: person:Alan Ruttenberg
definition source: Smith, Ceusters, Ruttenberg, 2000 years of philosophy
imported from: iao.owl

mentions
type: ObjectProperty
sub property of: is about
definition: An information artifact IA mentions an entity E exactly when it has a component/part that denotes E
imported from: iao.owl

denotes
type: ObjectProperty
sub property of: is about
example of usage: A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance "Alan" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between "Alan" and the person that is being named.
definition: A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically
editor note: 2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive. g denotes r =def r is a portion of reality there is some c that is a concretization of g every c that is a concretization of g specifically denotes r
term editor: person:Alan Ruttenberg
definition source: Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan
imported from: iao.owl

is quality measurement of
type: ObjectProperty
sub property of: is about
definition: m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q
editor note: 8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later
editor note: From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important] This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it "measuring" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail. Werner suggests a solution based on "Magnitudes" a proposal for which we are awaiting details. -- From the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009] unit of measure is a quality, e.g. the length of a ruler. [We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label] [Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory] a represents b means either a denotes b or a describes describe: a describes b means a is about b and a allows an inference of at least one quality of b We have had a long discussion about denotes versus describes.
editor note: From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully. a is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality.
editor note: From the second meeting on IAO: An attempt at defining assay using Barry's "reliability" wording assay: process and has_input some material entity and has_output some information content entity and which is such that instances of this process type reliably generate outputs that describes the input.
editor note: This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it "measuring" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail. Werner suggests a solution based on "Magnitudes" a proposal for which we are awaiting details.
term editor: Alan Ruttenberg
imported from: iao.owl

denoted by
type: ObjectProperty
definition: inverse of the relation 'denotes'
term editor: Person: Jie Zheng, Chris Stoeckert, Mike Conlon
term tracker item: https://github.com/information-artifact-ontology/IAO/issues/206
imported from: iao.owl

has coordinate unit label
type: ObjectProperty
sub property of: has part
imported from: iao.owl
comment: relating a cartesian spatial coordinate datum to a unit label that together with the values represent a point

is duration of
type: ObjectProperty
sub property of: is about
has curation status: IAO_0000120
definition: relates a process to a time-measurement-datum that represents the duration of the process
term editor: Person:Alan Ruttenberg
imported from: iao.owl

is quality measured as
type: ObjectProperty
has curation status: IAO_0000120
definition: inverse of the relation of is quality measurement of
editor note: 2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship
term editor: Person:Alan Ruttenberg
imported from: iao.owl

provides_service_consumer_with
type: ObjectProperty
sub property of: has part
editor preferred term: provides_service_consumer_with
example of usage: The provides_service_consumer_with relation links the service to its primary process it provides for the consumer (as opposed to secondary processual parts of a service process such as payment or documentation). For example, a 'DNA sequencing service' provides_service_consumer_with 'DNA sequencing' as the essential process performed by the provider for the client.
has curation status: IAO_0000123
definition: A relation between a service and the primary processual part of the service that is performed by the provider for the consumer.
imported from: obi.owl

is_supported_by_data
type: ObjectProperty
editor preferred term: is_supported_by_data
example of usage: The relation between the conclusion "Gene tpbA is involved in EPS production" and the data items produced using two sets of organisms, one being a tpbA knockout, the other being tpbA wildtype tested in polysacharide production assays and analyzed using an ANOVA.
has curation status: IAO_0000122
definition: The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process
term editor: OBI
definition source: OBI
definition source: Philly 2011 workshop
imported from: obi.owl

has_specified_input
type: ObjectProperty
equivalent property:
  inverse of: is_specified_input_of
sub property of: has participant
editor preferred term: has_specified_input
example of usage: see is_input_of example_of_usage
has curation status: IAO_0000122
definition: The inverse property of is_specified_input_of
editor note: 8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works.
term editor: PERSON: Alan Ruttenberg
term editor: PERSON: Bjoern Peters
term editor: PERSON: Larry Hunter
term editor: PERSON: Melanie Coutot
imported from: obi.owl

is_specified_input_of
type: ObjectProperty
sub property of: participates in
editor preferred term: is_specified_input_of
example of usage: some Autologous EBV(Epstein-Barr virus)-transformed B-LCL (B lymphocyte cell line) is_input_for instance of Chromum Release Assay described at https://wiki.cbil.upenn.edu/obiwiki/index.php/Chromium_Release_assay
has curation status: IAO_0000122
definition: A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.
term editor: Alan Ruttenberg
term editor: PERSON:Bjoern Peters
imported from: obi.owl

has_specified_output
type: ObjectProperty
equivalent property:
  inverse of: is_specified_output_of
sub property of: has participant
editor preferred term: has_specified_output
has curation status: IAO_0000122
definition: The inverse property of is_specified_output_of
term editor: PERSON: Alan Ruttenberg
term editor: PERSON: Bjoern Peters
term editor: PERSON: Larry Hunter
term editor: PERSON: Melanie Courtot
imported from: obi.owl

is_manufactured_by
type: ObjectProperty
editor preferred term: is_manufactured_by
example of usage: http://www.affymetrix.com/products/arrays/specific/hgu133.affx is_manufactered_by http://www.affymetrix.com/ (if we decide to use these URIs for the actual entities)
has curation status: IAO_0000123
definition: c is_manufactured_by o means that there was a process p in which c was built in which a person, or set of people or machines did the work(bore the "Manufacturer Role", and those people/and or machines were members or of directed by the organization to do this.
term editor: Alan Ruttenberg
term editor: Liju Fan
alternative label: has_make
alternative label: has_manufacturer
imported from: obi.owl

is_specified_output_of
type: ObjectProperty
sub property of: participates in
editor preferred term: is_specified_output_of
has curation status: IAO_0000122
definition: A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.
term editor: Alan Ruttenberg
term editor: PERSON:Bjoern Peters
imported from: obi.owl

achieves_planned_objective
type: ObjectProperty
editor preferred term: achieves_planned_objective
example of usage: A cell sorting process achieves the objective specification 'material separation objective'
has curation status: IAO_0000120
definition: This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process.
term editor: BP, AR, PPPB branch
definition source: PPPB branch derived
curator note: modified according to email thread from 1/23/09 in accordince with DT and PPPB branch
imported from: obi.owl

has grain
type: ObjectProperty
sub property of: has part
editor preferred term: has grain
has curation status: IAO_0000120
definition: the relation of the cells in the finger of the skin to the finger, in which an indeterminate number of grains are parts of the whole by virtue of being grains in a collective that is part of the whole, and in which removing one granular part does not nec- essarily damage or diminish the whole. Ontological Whether there is a fixed, or nearly fixed number of parts - e.g. fingers of the hand, chambers of the heart, or wheels of a car - such that there can be a notion of a single one being missing, or whether, by contrast, the number of parts is indeterminate - e.g., cells in the skin of the hand, red cells in blood, or rubber molecules in the tread of the tire of the wheel of the car.
editor note: Discussion in Karslruhe with, among others, Alan Rector, Stefan Schulz, Marijke Keet, Melanie Courtot, and Alan Ruttenberg. Definition take from the definition of granular parthood in the cited paper. Needs work to put into standard form
term editor: PERSON: Alan Ruttenberg
definition source: PAPER: Granularity, scale and collectivity: When size does and does not matter, Alan Rector, Jeremy Rogers, Thomas Bittner, Journal of Biomedical Informatics 39 (2006) 333-349
imported from: obi.owl

provisions
type: ObjectProperty
editor preferred term: provisions
has curation status: IAO_0000123
definition: A relation between an organisation or person and a material entity, where the organization or person provides or supplies the material entity for others to use
editor note: 5/11/2020: A prior definition contained reference to transfer of ownership. ("A relation between an organisation or person and a material entity who owned or has license to the material entity and there was a legal transfer of ownership or licensing of the material entity to the current owner"). This was left out as it was hard to read and it was unclear if/how that transfer restricts the relationship.
term editor: GROUP: Relations branch
alternative label: supplies
imported from: obi.owl

has_supplier
type: ObjectProperty
editor preferred term: has_supplier
has curation status: IAO_0000120
definition: A relation between a material entity and an organisation or person who owned or has license to the material entity and there was a legal transfer of ownership or licensing of the material entity to the current owner.
term editor: PERSON: Alan Rutternberg
term editor: PERSON: Cristian Cocos
term editor: PERSON: Frank Gibson
term editor: PERSON: Melanie Courtot
imported from: obi.owl

objective_achieved_by
type: ObjectProperty
editor preferred term: objective_achieved_by
has curation status: IAO_0000122
definition: This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process.
term editor: OBI
definition source: OBI
imported from: obi.owl

is member of organization
type: ObjectProperty
editor preferred term: is member of organization
has curation status: IAO_0000120
definition: Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization.
editor note: 2009/10/01 Alan Ruttenberg. Barry prefers generic is-member-of. Question of what the range should be. For now organization. Is organization a population? Would the same relation be used to record members of a population
editor note: JZ: Discussed on May 7, 2012 OBI dev call. Bjoern points out that we need to allow for organizations to be members of organizations. And agreed by the other OBI developers. So, human and organization were specified in 'Domains'. The textual definition was updated based on it.
term editor: Person:Alan Ruttenberg
term editor: Person:Helen Parkinson
definition source: Person:Alan Ruttenberg
definition source: Person:Helen Parkinson
curator note: 2009/09/28 Alan Ruttenberg. Fucoidan-use-case
imported from: obi.owl

has disposition to bind
type: ObjectProperty
editor preferred term: has disposition to bind
has curation status: IAO_0000123
definition: A relationship between two material entitites that each have disposition to form a complex with the other.
editor note: This is a shortcut relation, and should expand to say that the two material entities have dispositions, point to the process in which they from a complex that realizes those dispositions, and points to the complex in which the two entities are 'bound to' each other
definition source: IEDB
imported from: obi.owl

has organization member
type: ObjectProperty
editor preferred term: has organization member
has curation status: IAO_0000123
definition: Relating an organization to a legal person or organization.
editor note: See tracker: https://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178
term editor: Person: Jie Zheng
imported from: obi.owl

specifies value of
type: ObjectProperty
sub property of: is about
editor preferred term: specifies value of
has curation status: IAO_0000123
definition: A relation between a value specification and an entity which the specification is about.
imported from: obi.owl

has value specification
type: ObjectProperty
sub property of: has part
editor preferred term: has value specification
has curation status: IAO_0000120
definition: A relation between an information content entity and a value specification that specifies its value.
term editor: PERSON: James A. Overton
definition source: OBI
imported from: obi.owl

characteristic of
type: ObjectProperty
sub property of: characteristic of part of
definition: a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence.
imported from: ro.owl

has characteristic
type: ObjectProperty
definition: Inverse of characteristic_of
imported from: ro.owl

participates in
type: ObjectProperty
definition: a relation between a continuant and a process, in which the continuant is somehow involved in the process
imported from: ro.owl

has participant
type: ObjectProperty
definition: a relation between a process and a continuant, in which the continuant is somehow involved in the process
imported from: ro.owl

is concretized as
type: ObjectProperty
definition: A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants.
imported from: ro.owl

concretizes
type: ObjectProperty
definition: A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant.
imported from: ro.owl

function of
type: ObjectProperty
sub property of: characteristic of
definition: a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence
imported from: ro.owl

quality of
type: ObjectProperty
sub property of: characteristic of
definition: A relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence.

role of
type: ObjectProperty
sub property of: characteristic of
definition: a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence
imported from: ro.owl

has function
type: ObjectProperty
sub property of: has characteristic
definition: a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence
imported from: ro.owl

has quality
type: ObjectProperty
sub property of: has characteristic
definition: a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence
imported from: ro.owl

has role
type: ObjectProperty
sub property of: has characteristic
definition: a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence
imported from: ro.owl

derives from
type: ObjectProperty
definition: a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity
imported from: ro.owl

derives into
type: ObjectProperty
definition: a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity
imported from: ro.owl

location of
type: ObjectProperty
definition: a relation between two independent continuants, the location and the target, in which the target is entirely within the location
imported from: ro.owl

located in
type: ObjectProperty
definition: a relation between two independent continuants, the target and the location, in which the target is entirely within the location
imported from: ro.owl

before or simultaneous with
type: ObjectProperty
sub property of: temporally related to
imported from: ro.owl

before
type: ObjectProperty
sub property of: before or simultaneous with
imported from: ro.owl

immediately preceded by
type: ObjectProperty
sub property of: precedes
imported from: ro.owl

starts during
type: ObjectProperty
sub property of: temporally related to
imported from: ro.owl

happens during
type: ObjectProperty
sub property of: starts during
sub property of: ends during
imported from: ro.owl

ends during
type: ObjectProperty
sub property of: temporally related to
imported from: ro.owl

overlaps
type: ObjectProperty
sub property of: mereotopologically related to
definition: x overlaps y if and only if there exists some z such that x has part z and z part of y
imported from: ro.owl

has component
type: ObjectProperty
sub property of: has part
definition: w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type.
imported from: ro.owl

capable of
type: ObjectProperty
sub property of: capable of part of
definition: A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process.
imported from: ro.owl

capable of part of
type: ObjectProperty
sub property of: functionally related to
sub property of: causal agent in process
definition: c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p.
imported from: ro.owl

temporally related to
type: ObjectProperty
imported from: ro.owl

starts
type: ObjectProperty
sub property of: part of
sub property of: temporally related to
definition: inverse of starts with
imported from: ro.owl

ends
type: ObjectProperty
sub property of: part of
sub property of: temporally related to
definition: inverse of ends with
imported from: ro.owl

has active ingredient
type: ObjectProperty
sub property of: has part
definition: A relationship that holds between a substance and a chemical entity, if the chemical entity is part of the substance, and the chemical entity forms the biologically active component of the substance.
alternative label: has active pharmaceutical ingredient
alternative label: has active substance
imported from: ro.owl

active ingredient in
type: ObjectProperty
sub property of: part of
definition: inverse of has active ingredient
imported from: ro.owl

characteristic of part of
type: ObjectProperty
sub property of: depends on
definition: q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w.
imported from: ro.owl

mereotopologically related to
type: ObjectProperty
definition: A mereological relationship or a topological relationship
imported from: ro.owl

functionally related to
type: ObjectProperty
definition: A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities.
imported from: ro.owl

has member
type: ObjectProperty
sub property of: has part
definition: has member is a mereological relation between a collection and an item.
imported from: ro.owl

causally related to
type: ObjectProperty
definition: relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.
imported from: ro.owl

causally upstream of or within
type: ObjectProperty
sub property of: causal relation between processes
definition: p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q.
alternative label: affects
imported from: ro.owl

causal agent in process
type: ObjectProperty
sub property of: causal relation between material entity and a process
definition: A relationship between a material entity and a process where the material entity has some causal role that influences the process
imported from: ro.owl

causal relation between processes
type: ObjectProperty
sub property of: causally related to
definition: p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q.
imported from: ro.owl

depends on
type: ObjectProperty
imported from: ro.owl

causal relation between material entity and a process
type: ObjectProperty
sub property of: causally related to
definition: A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity.
imported from: ro.owl

is substance that treats
type: ObjectProperty
sub property of: causally related to
definition: c is a substance that treats d if c is a material entity (such as a small molecule or compound) and d is a pathological process, phenotype or disease, and c is capable of some activity that negative regulates or decreases the magnitude of d.
imported from: ro.owl

has numerator
type: ObjectProperty
definition: the relationship between a fraction and the number above the line
imported from: stato.owl

has denominator
type: ObjectProperty
definition: the relationship between a fraction and the number below the line (or divisor)
imported from: stato.owl

has measurement value
type: DatatypeProperty
imported from: iao.owl

has x coordinate value
type: DatatypeProperty
imported from: iao.owl

has specified numeric value
type: DatatypeProperty
sub property of: has specified value
editor preferred term: has specified numeric value
has curation status: IAO_0000120
definition: A relation between a value specification and a number that quantifies it.
editor note: A range of 'real' might be better than 'float'. For now we follow 'has measurement value' until we can consider technical issues with SPARQL queries and reasoning.
term editor: PERSON: James A. Overton
definition source: OBI
imported from: obi.owl

has specified value
type: DatatypeProperty
editor preferred term: has specified value
has curation status: IAO_0000123
definition: A relation between a value specification and a literal.
editor note: This is not an RDF/OWL object property. It is intended to link a value found in e.g. a database column of 'M' (the literal) to an instance of a value specification class, which can then be linked to indicate that this is about the biological gender of a human subject.
definition source: OBI
imported from: obi.owl

Vibrio cholerae serotype Inaba
type: Class
subclass of: NCBITaxon_127906

Vibrio cholerae serotype Ogawa
type: Class
subclass of: NCBITaxon_127906

Shigella flexneri, serovar 3c
type: Class
subclass of: NCBITaxon 623

Shigella flexneri, serovar 4b
type: Class
subclass of: NCBITaxon 623

Tree
type: Class
subclass of: NCBITaxon 2759
alternative label: Tree (organism)
imported from: SNOMEDCT

Migrant
type: Class
subclass of: NCBITaxon 9606

Acute pulmonary edema
type: Class
subclass of: HP_0100598

clade name
type: Class
subclass of: IAO_0020000
definition: A taxonomy identifier that denotes a group of organisms or groups of organisms based on common ancestors.
imported from: apollo sv.owl

mortality rate
type: Class
subclass of: OBI_0001554
definition: A rate measurement datum that specifies the percentage of organisms within a population that have died over a given time interval.
imported from: apollo sv.owl

employment status data item
type: Class
subclass of: employment information
VEuPathDB alternative label: Employment status
definition: A data item that denotes some context in which an individual realizes some employee role if he or she is a member of the labor force, or the context in which he or she is not a member of the labor force according to certain prespecified conditions.
imported from: apollo sv.owl

methicillin-resistant Staphylococcus aureus
type: Class
subclass of: OMP_0000274
VEuPathDB alternative label: Methicillin resistant Staphylococcus aureus
definition: Any strain of Staphylococcus aureus that has tested resistant (R) to at least one of methicillin, oxacillin or cefoxitin by standard susceptibility testing methods.
alternative label: MRSA
imported from: aro.owl

entity
type: Class
subclass of: Thing
BFO OWL specification label: entity
BFO CLIF specification label: Entity
example of usage: Julius Caesar
example of usage: Verdi’s Requiem
example of usage: the Second World War
example of usage: your body mass index
editor note: BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81
editor note: Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf
elucidation: An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])

Axiom
annotated source: entity
annotated property: editor note
annotated target: Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000004
comment: per discussion with Barry Smith

Axiom
annotated source: entity
annotated property: elucidation
annotated target: An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/001-001

continuant
type: Class
subclass of: entity
disjoint with: occurrent
BFO OWL specification label: continuant
BFO CLIF specification label: Continuant
editor note: BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240
editor note: Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants
elucidation: A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])
has associated axiom(nl): if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])
has associated axiom(nl): if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])
has associated axiom(nl): if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])
has associated axiom(fol): (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002]
has associated axiom(fol): (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001]
has associated axiom(fol): (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002]
has associated axiom(fol): (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002]

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/009-002

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/011-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/009-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/126-001

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/008-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/011-002

Axiom
annotated source: continuant
annotated property: editor note
annotated target: Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000007

Axiom
annotated source: continuant
annotated property: elucidation
annotated target: A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/008-002

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/126-001

occurrent
type: Class
subclass of: entity
BFO OWL specification label: occurrent
BFO CLIF specification label: Occurrent
editor note: BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region
editor note: BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players.
editor note: Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process.
editor note: Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame.
elucidation: An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])
has associated axiom(nl): Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])
has associated axiom(nl): b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])
has associated axiom(fol): (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001]
has associated axiom(fol): (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001]

Axiom
annotated source: occurrent
annotated property: editor note
annotated target: Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000006
comment: per discussion with Barry Smith

Axiom
annotated source: occurrent
annotated property: editor note
annotated target: Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000012

Axiom
annotated source: occurrent
annotated property: elucidation
annotated target: An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/077-002

Axiom
annotated source: occurrent
annotated property: has associated axiom(nl)
annotated target: Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/108-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(nl)
annotated target: b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/079-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/108-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/079-001

independent continuant
type: Class
subclass of: continuant
disjoint with: specifically dependent continuant
disjoint with: generically dependent continuant
BFO OWL specification label: ic
BFO CLIF specification label: IndependentContinuant
example of usage: a chair
example of usage: a heart
example of usage: a leg
example of usage: a molecule
example of usage: a spatial region
example of usage: an atom
example of usage: an orchestra.
example of usage: an organism
example of usage: the bottom right portion of a human torso
example of usage: the interior of your mouth
definition: b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])
has associated axiom(nl): For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])
has associated axiom(nl): For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])
has associated axiom(fol): (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001]
has associated axiom(fol): (forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002]
has associated axiom(fol): (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002]

Axiom
annotated source: independent continuant
annotated property: definition
annotated target: b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/017-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(nl)
annotated target: For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/134-001

Axiom
annotated source: independent continuant
annotated property: has associated axiom(nl)
annotated target: For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/018-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/134-001

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/018-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/017-002

spatial region
type: Class
subclass of: immaterial entity
disjoint with: site
disjoint with: continuant fiat boundary
BFO OWL specification label: s-region
BFO CLIF specification label: SpatialRegion
editor note: BFO 2 Reference: Spatial regions do not participate in processes.
editor note: Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional.
elucidation: A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])
has associated axiom(nl): All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])
has associated axiom(fol): (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001]
has associated axiom(fol): (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001]

Axiom
annotated source: spatial region
annotated property: editor note
annotated target: Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000002
comment: per discussion with Barry Smith

Axiom
annotated source: spatial region
annotated property: elucidation
annotated target: A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/035-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(nl)
annotated target: All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/036-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/036-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/035-001

temporal region
type: Class
subclass of: occurrent
disjoint with: spatiotemporal region
disjoint with: process
disjoint with: process boundary
BFO OWL specification label: t-region
BFO CLIF specification label: TemporalRegion
editor note: Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional
elucidation: A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])
has associated axiom(nl): All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])
has associated axiom(nl): Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])
has associated axiom(fol): (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002]
has associated axiom(fol): (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001]
has associated axiom(fol): (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001]

Axiom
annotated source: temporal region
annotated property: editor note
annotated target: Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000003
comment: per discussion with Barry Smith

Axiom
annotated source: temporal region
annotated property: elucidation
annotated target: A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/100-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(nl)
annotated target: All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/101-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(nl)
annotated target: Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/119-002

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/119-002

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/101-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/100-001

two-dimensional spatial region
type: Class
subclass of: spatial region
disjoint with: three-dimensional spatial region
BFO OWL specification label: 2d-s-region
BFO CLIF specification label: TwoDimensionalSpatialRegion
example of usage: an infinitely thin plane in space.
example of usage: the surface of a sphere-shaped part of space
elucidation: A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])
has associated axiom(fol): (forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001]

Axiom
annotated source: two-dimensional spatial region
annotated property: elucidation
annotated target: A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/039-001

Axiom
annotated source: two-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/039-001

spatiotemporal region
type: Class
subclass of: occurrent
BFO OWL specification label: st-region
BFO CLIF specification label: SpatiotemporalRegion
example of usage: the spatiotemporal region occupied by a human life
example of usage: the spatiotemporal region occupied by a process of cellular meiosis.
example of usage: the spatiotemporal region occupied by the development of a cancer tumor
elucidation: A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])
has associated axiom(nl): All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])
has associated axiom(nl): Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])
has associated axiom(nl): Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])
has associated axiom(nl): Every spatiotemporal region occupies_spatiotemporal_region itself.
has associated axiom(nl): Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])
has associated axiom(fol): (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002]
has associated axiom(fol): (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001]
has associated axiom(fol): (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001]
has associated axiom(fol): (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001]
has associated axiom(fol): (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001]

Axiom
annotated source: spatiotemporal region
annotated property: elucidation
annotated target: A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/095-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/096-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/099-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/098-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/107-002

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/107-002

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/099-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/096-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/095-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/098-001

process
type: Class
subclass of: occurrent
BFO OWL specification label: process
BFO CLIF specification label: Process
VEuPathDB alternative label: Observation type
example of usage: a process of cell-division, \ a beating of the heart
example of usage: a process of meiosis
example of usage: a process of sleeping
example of usage: the course of a disease
example of usage: the flight of a bird
example of usage: the life of an organism
example of usage: your process of aging.
definition: p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])
editor note: BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)
has associated axiom(fol): (iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003]

Axiom
annotated source: process
annotated property: definition
annotated target: p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/083-003

Axiom
annotated source: process
annotated property: has associated axiom(fol)
annotated target: (iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/083-003

disposition
type: Class
subclass of: realizable entity
disjoint with: role
BFO OWL specification label: disposition
BFO CLIF specification label: Disposition
example of usage: an atom of element X has the disposition to decay to an atom of element Y
example of usage: certain people have a predisposition to colon cancer
example of usage: children are innately disposed to categorize objects in certain ways.
example of usage: the cell wall is disposed to filter chemicals in endocytosis and exocytosis
editor note: BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type.
elucidation: b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])
has associated axiom(nl): If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])
has associated axiom(fol): (forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002]
has associated axiom(fol): (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002]

Axiom
annotated source: disposition
annotated property: elucidation
annotated target: b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/062-002

Axiom
annotated source: disposition
annotated property: has associated axiom(nl)
annotated target: If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/063-002

Axiom
annotated source: disposition
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/063-002

Axiom
annotated source: disposition
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/062-002

realizable entity
type: Class
subclass of: specifically dependent continuant
disjoint with: quality
BFO OWL specification label: realizable
BFO CLIF specification label: RealizableEntity
example of usage: the disposition of this piece of metal to conduct electricity.
example of usage: the disposition of your blood to coagulate
example of usage: the function of your reproductive organs
example of usage: the role of being a doctor
example of usage: the role of this boundary to delineate where Utah and Colorado meet
elucidation: To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])
has associated axiom(nl): All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])
has associated axiom(fol): (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002]
has associated axiom(fol): (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002]

Axiom
annotated source: realizable entity
annotated property: elucidation
annotated target: To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/058-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(nl)
annotated target: All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/060-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/060-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/058-002

zero-dimensional spatial region
type: Class
subclass of: spatial region
disjoint with: three-dimensional spatial region
BFO OWL specification label: 0d-s-region
BFO CLIF specification label: ZeroDimensionalSpatialRegion
elucidation: A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])
has associated axiom(fol): (forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001]

Axiom
annotated source: zero-dimensional spatial region
annotated property: elucidation
annotated target: A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/037-001

Axiom
annotated source: zero-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/037-001

quality
type: Class
subclass of: specifically dependent continuant
BFO OWL specification label: quality
BFO CLIF specification label: Quality
example of usage: the ambient temperature of this portion of air
example of usage: the color of a tomato
example of usage: the length of the circumference of your waist
example of usage: the mass of this piece of gold.
example of usage: the shape of your nose
example of usage: the shape of your nostril
elucidation: a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])
has associated axiom(nl): If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])
has associated axiom(fol): (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001]
has associated axiom(fol): (forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001]

Axiom
annotated source: quality
annotated property: elucidation
annotated target: a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/055-001

Axiom
annotated source: quality
annotated property: has associated axiom(nl)
annotated target: If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/105-001

Axiom
annotated source: quality
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/055-001

Axiom
annotated source: quality
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/105-001

specifically dependent continuant
type: Class
subclass of: continuant
disjoint with: generically dependent continuant
BFO OWL specification label: sdc
BFO CLIF specification label: SpecificallyDependentContinuant
example of usage: Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key
example of usage: of one-sided specifically dependent continuants: the mass of this tomato
example of usage: of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates.
example of usage: the disposition of this fish to decay
example of usage: the function of this heart: to pump blood
example of usage: the mutual dependence of proton donors and acceptors in chemical reactions [79
example of usage: the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction
example of usage: the pink color of a medium rare piece of grilled filet mignon at its center
example of usage: the role of being a doctor
example of usage: the shape of this hole.
example of usage: the smell of this portion of mozzarella
definition: b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])
editor note: Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc.
has associated axiom(fol): (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003]

Axiom
annotated source: specifically dependent continuant
annotated property: definition
annotated target: b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/050-003

Axiom
annotated source: specifically dependent continuant
annotated property: editor note
annotated target: Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000005
comment: per discussion with Barry Smith

Axiom
annotated source: specifically dependent continuant
annotated property: has associated axiom(fol)
annotated target: (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/050-003

role
type: Class
subclass of: realizable entity
BFO OWL specification label: role
BFO CLIF specification label: Role
example of usage: John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married.
example of usage: the priest role
example of usage: the role of a boundary to demarcate two neighboring administrative territories
example of usage: the role of a building in serving as a military target
example of usage: the role of a stone in marking a property boundary
example of usage: the role of subject in a clinical trial
example of usage: the student role
editor note: BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives.
elucidation: b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])
has associated axiom(fol): (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001]

Axiom
annotated source: role
annotated property: elucidation
annotated target: b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/061-001

Axiom
annotated source: role
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/061-001

fiat object part
type: Class
subclass of: material entity
BFO OWL specification label: fiat-object-part
BFO CLIF specification label: FiatObjectPart
example of usage: or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29
example of usage: the FMA:regional parts of an intact human body.
example of usage: the Western hemisphere of the Earth
example of usage: the division of the brain into regions
example of usage: the division of the planet into hemispheres
example of usage: the dorsal and ventral surfaces of the body
example of usage: the upper and lower lobes of the left lung
editor note: BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions
elucidation: b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])
has associated axiom(fol): (forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004]

Axiom
annotated source: fiat object part
annotated property: elucidation
annotated target: b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/027-004

Axiom
annotated source: fiat object part
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/027-004

one-dimensional spatial region
type: Class
subclass of: spatial region
disjoint with: three-dimensional spatial region
BFO OWL specification label: 1d-s-region
BFO CLIF specification label: OneDimensionalSpatialRegion
example of usage: an edge of a cube-shaped portion of space.
elucidation: A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])
has associated axiom(fol): (forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001]

Axiom
annotated source: one-dimensional spatial region
annotated property: elucidation
annotated target: A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/038-001

Axiom
annotated source: one-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/038-001

object aggregate
type: Class
subclass of: material entity
BFO OWL specification label: object-aggregate
BFO CLIF specification label: ObjectAggregate
example of usage: a collection of cells in a blood biobank.
example of usage: a swarm of bees is an aggregate of members who are linked together through natural bonds
example of usage: a symphony orchestra
example of usage: an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)
example of usage: defined by fiat: the aggregate of members of an organization
example of usage: defined through physical attachment: the aggregate of atoms in a lump of granite
example of usage: defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container
example of usage: defined via attributive delimitations such as: the patients in this hospital
example of usage: the aggregate of bearings in a constant velocity axle joint
example of usage: the aggregate of blood cells in your body
example of usage: the nitrogen atoms in the atmosphere
example of usage: the restaurants in Palo Alto
example of usage: your collection of Meissen ceramic plates.
editor note: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
editor note: BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee).
definition source: ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158.
elucidation: b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])
has associated axiom(fol): (forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004]

Axiom
annotated source: object aggregate
annotated property: editor note
annotated target: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000011

Axiom
annotated source: object aggregate
annotated property: editor note
annotated target: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000301

Axiom
annotated source: object aggregate
annotated property: definition source
annotated target: ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000300

Axiom
annotated source: object aggregate
annotated property: elucidation
annotated target: b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/025-004

Axiom
annotated source: object aggregate
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/025-004

three-dimensional spatial region
type: Class
subclass of: spatial region
BFO OWL specification label: 3d-s-region
BFO CLIF specification label: ThreeDimensionalSpatialRegion
example of usage: a cube-shaped region of space
example of usage: a sphere-shaped region of space,
elucidation: A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])
has associated axiom(fol): (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001]

Axiom
annotated source: three-dimensional spatial region
annotated property: elucidation
annotated target: A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/040-001

Axiom
annotated source: three-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/040-001

site
type: Class
subclass of: immaterial entity
BFO OWL specification label: site
BFO CLIF specification label: Site
example of usage: Manhattan Canyon)
example of usage: a hole in the interior of a portion of cheese
example of usage: a rabbit hole
example of usage: an air traffic control region defined in the airspace above an airport
example of usage: the Grand Canyon
example of usage: the Piazza San Marco
example of usage: the cockpit of an aircraft
example of usage: the hold of a ship
example of usage: the interior of a kangaroo pouch
example of usage: the interior of the trunk of your car
example of usage: the interior of your bedroom
example of usage: the interior of your office
example of usage: the interior of your refrigerator
example of usage: the lumen of your gut
example of usage: your left nostril (a fiat part – the opening – of your left nasal cavity)
elucidation: b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002])
has associated axiom(fol): (forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002]

Axiom
annotated source: site
annotated property: elucidation
annotated target: b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/034-002

Axiom
annotated source: site
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/034-002

object
type: Class
subclass of: material entity
BFO OWL specification label: object
BFO CLIF specification label: Object
example of usage: atom
example of usage: cell
example of usage: cells and organisms
example of usage: engineered artifacts
example of usage: grain of sand
example of usage: molecule
example of usage: organelle
example of usage: organism
example of usage: planet
example of usage: solid portions of matter
example of usage: star
editor note: BFO 2 Reference: BFO rests on the presupposition that at multiple micro-, meso- and macroscopic scales reality exhibits certain stable, spatially separated or separable material units, combined or combinable into aggregates of various sorts (for example organisms into what are called ‘populations’). Such units play a central role in almost all domains of natural science from particle physics to cosmology. Many scientific laws govern the units in question, employing general terms (such as ‘molecule’ or ‘planet’) referring to the types and subtypes of units, and also to the types and subtypes of the processes through which such units develop and interact. The division of reality into such natural units is at the heart of biological science, as also is the fact that these units may form higher-level units (as cells form multicellular organisms) and that they may also form aggregates of units, for example as cells form portions of tissue and organs form families, herds, breeds, species, and so on. At the same time, the division of certain portions of reality into engineered units (manufactured artifacts) is the basis of modern industrial technology, which rests on the distributed mass production of engineered parts through division of labor and on their assembly into larger, compound units such as cars and laptops. The division of portions of reality into units is one starting point for the phenomenon of counting.
editor note: BFO 2 Reference: Each object is such that there are entities of which we can assert unproblematically that they lie in its interior, and other entities of which we can assert unproblematically that they lie in its exterior. This may not be so for entities lying at or near the boundary between the interior and exterior. This means that two objects – for example the two cells depicted in Figure 3 – may be such that there are material entities crossing their boundaries which belong determinately to neither cell. Something similar obtains in certain cases of conjoined twins (see below).
editor note: BFO 2 Reference: To say that b is causally unified means: b is a material entity which is such that its material parts are tied together in such a way that, in environments typical for entities of the type in question,if c, a continuant part of b that is in the interior of b at t, is larger than a certain threshold size (which will be determined differently from case to case, depending on factors such as porosity of external cover) and is moved in space to be at t at a location on the exterior of the spatial region that had been occupied by b at t, then either b’s other parts will be moved in coordinated fashion or b will be damaged (be affected, for example, by breakage or tearing) in the interval between t and t.causal changes in one part of b can have consequences for other parts of b without the mediation of any entity that lies on the exterior of b. Material entities with no proper material parts would satisfy these conditions trivially. Candidate examples of types of causal unity for material entities of more complex sorts are as follows (this is not intended to be an exhaustive list):CU1: Causal unity via physical coveringHere the parts in the interior of the unified entity are combined together causally through a common membrane or other physical covering\. The latter points outwards toward and may serve a protective function in relation to what lies on the exterior of the entity [13, 47
editor note: BFO 2 Reference: an object is a maximal causally unified material entity
editor note: BFO 2 Reference: ‘objects’ are sometimes referred to as ‘grains’ [74
elucidation: b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])

Axiom
annotated source: object
annotated property: elucidation
annotated target: b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/024-001

generically dependent continuant
type: Class
subclass of: continuant
BFO OWL specification label: gdc
BFO CLIF specification label: GenericallyDependentContinuant
example of usage: The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity.
example of usage: the pdf file on your laptop, the pdf file that is a copy thereof on my laptop
example of usage: the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule.
definition: b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])
has associated axiom(fol): (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001]

Axiom
annotated source: generically dependent continuant
annotated property: definition
annotated target: b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/074-001

Axiom
annotated source: generically dependent continuant
annotated property: has associated axiom(fol)
annotated target: (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/074-001

function
type: Class
subclass of: disposition
BFO OWL specification label: function
BFO CLIF specification label: Function
example of usage: the function of a hammer to drive in nails
example of usage: the function of a heart pacemaker to regulate the beating of a heart through electricity
example of usage: the function of amylase in saliva to break down starch into sugar
editor note: BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc.
elucidation: A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])
has associated axiom(fol): (forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001]

Axiom
annotated source: function
annotated property: elucidation
annotated target: A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/064-001

Axiom
annotated source: function
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/064-001

process boundary
type: Class
subclass of: occurrent
BFO OWL specification label: p-boundary
BFO CLIF specification label: ProcessBoundary
example of usage: the boundary between the 2nd and 3rd year of your life.
definition: p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001])
has associated axiom(nl): Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002])
has associated axiom(fol): (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002]
has associated axiom(fol): (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001]

Axiom
annotated source: process boundary
annotated property: definition
annotated target: p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/084-001

Axiom
annotated source: process boundary
annotated property: has associated axiom(nl)
annotated target: Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/085-002

Axiom
annotated source: process boundary
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/085-002

Axiom
annotated source: process boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/084-001

one-dimensional temporal region
type: Class
subclass of: temporal region
disjoint with: zero-dimensional temporal region
BFO OWL specification label: 1d-t-region
BFO CLIF specification label: OneDimensionalTemporalRegion
example of usage: the temporal region during which a process occurs.
editor note: BFO 2 Reference: A temporal interval is a special kind of one-dimensional temporal region, namely one that is self-connected (is without gaps or breaks).
elucidation: A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001])
has associated axiom(fol): (forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001]

Axiom
annotated source: one-dimensional temporal region
annotated property: elucidation
annotated target: A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/103-001

Axiom
annotated source: one-dimensional temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/103-001

material entity
type: Class
subclass of: independent continuant
disjoint with: immaterial entity
BFO OWL specification label: material
BFO CLIF specification label: MaterialEntity
example of usage: a flame
example of usage: a forest fire
example of usage: a human being
example of usage: a hurricane
example of usage: a photon
example of usage: a puff of smoke
example of usage: a sea wave
example of usage: a tornado
example of usage: an aggregate of human beings.
example of usage: an energy wave
example of usage: an epidemic
example of usage: the undetached arm of a human being
editor note: BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60
editor note: BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity.
editor note: BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here.
elucidation: A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])
has associated axiom(nl): Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
has associated axiom(nl): every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])
has associated axiom(fol): (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002]
has associated axiom(fol): (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002]
has associated axiom(fol): (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002]

Axiom
annotated source: material entity
annotated property: has associated axiom(nl)
annotated target: every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/021-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/019-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/021-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/020-002

Axiom
annotated source: material entity
annotated property: elucidation
annotated target: A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/019-002

Axiom
annotated source: material entity
annotated property: has associated axiom(nl)
annotated target: Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/020-002

continuant fiat boundary
type: Class
subclass of: immaterial entity
BFO OWL specification label: cf-boundary
BFO CLIF specification label: ContinuantFiatBoundary
definition: b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])
editor note: BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions.
editor note: BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29
editor note: Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions.
has associated axiom(nl): Every continuant fiat boundary is located at some spatial region at every time at which it exists
has associated axiom(fol): (iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001]

Axiom
annotated source: continuant fiat boundary
annotated property: definition
annotated target: b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/029-001

Axiom
annotated source: continuant fiat boundary
annotated property: editor note
annotated target: Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000008

Axiom
annotated source: continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/029-001

immaterial entity
type: Class
subclass of: independent continuant
BFO OWL specification label: immaterial
BFO CLIF specification label: ImmaterialEntity
editor note: BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10

one-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
disjoint with: two-dimensional continuant fiat boundary
disjoint with: zero-dimensional continuant fiat boundary
BFO OWL specification label: 1d-cf-boundary
BFO CLIF specification label: OneDimensionalContinuantFiatBoundary
example of usage: The Equator
example of usage: all geopolitical boundaries
example of usage: all lines of latitude and longitude
example of usage: the line separating the outer surface of the mucosa of the lower lip from the outer surface of the skin of the chin.
example of usage: the median sulcus of your tongue
elucidation: a one-dimensional continuant fiat boundary is a continuous fiat line whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [032-001])
has associated axiom(fol): (iff (OneDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (OneDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [032-001]

Axiom
annotated source: one-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a one-dimensional continuant fiat boundary is a continuous fiat line whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [032-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/032-001

Axiom
annotated source: one-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (OneDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (OneDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [032-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/032-001

process profile
type: Class
subclass of: process
disjoint with: history
BFO OWL specification label: process-profile
BFO CLIF specification label: ProcessProfile
example of usage: On a somewhat higher level of complexity are what we shall call rate process profiles, which are the targets of selective abstraction focused not on determinate quality magnitudes plotted over time, but rather on certain ratios between these magnitudes and elapsed times. A speed process profile, for example, is represented by a graph plotting against time the ratio of distance covered per unit of time. Since rates may change, and since such changes, too, may have rates of change, we have to deal here with a hierarchy of process profile universals at successive levels
example of usage: One important sub-family of rate process profiles is illustrated by the beat or frequency profiles of cyclical processes, illustrated by the 60 beats per minute beating process of John’s heart, or the 120 beats per minute drumming process involved in one of John’s performances in a rock band, and so on. Each such process includes what we shall call a beat process profile instance as part, a subtype of rate process profile in which the salient ratio is not distance covered but rather number of beat cycles per unit of time. Each beat process profile instance instantiates the determinable universal beat process profile. But it also instantiates multiple more specialized universals at lower levels of generality, selected from rate process profilebeat process profileregular beat process profile3 bpm beat process profile4 bpm beat process profileirregular beat process profileincreasing beat process profileand so on.In the case of a regular beat process profile, a rate can be assigned in the simplest possible fashion by dividing the number of cycles by the length of the temporal region occupied by the beating process profile as a whole. Irregular process profiles of this sort, for example as identified in the clinic, or in the readings on an aircraft instrument panel, are often of diagnostic significance.
example of usage: The simplest type of process profiles are what we shall call ‘quality process profiles’, which are the process profiles which serve as the foci of the sort of selective abstraction that is involved when measurements are made of changes in single qualities, as illustrated, for example, by process profiles of mass, temperature, aortic pressure, and so on.
definition: b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002])
elucidation: b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])
has associated axiom(fol): (forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005]
has associated axiom(fol): (iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002]

Axiom
annotated source: process profile
annotated property: definition
annotated target: b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/093-002

Axiom
annotated source: process profile
annotated property: elucidation
annotated target: b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/094-005

Axiom
annotated source: process profile
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/094-005

Axiom
annotated source: process profile
annotated property: has associated axiom(fol)
annotated target: (iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/093-002

relational quality
type: Class
subclass of: quality
BFO OWL specification label: r-quality
BFO CLIF specification label: RelationalQuality
example of usage: John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married.
example of usage: a marriage bond, an instance of requited love, an obligation between one person and another.
definition: b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])
has associated axiom(fol): (iff (RelationalQuality a) (exists (b c t) (and (IndependentContinuant b) (IndependentContinuant c) (qualityOfAt a b t) (qualityOfAt a c t)))) // axiom label in BFO2 CLIF: [057-001]

Axiom
annotated source: relational quality
annotated property: definition
annotated target: b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/057-001

Axiom
annotated source: relational quality
annotated property: has associated axiom(fol)
annotated target: (iff (RelationalQuality a) (exists (b c t) (and (IndependentContinuant b) (IndependentContinuant c) (qualityOfAt a b t) (qualityOfAt a c t)))) // axiom label in BFO2 CLIF: [057-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/057-001

two-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
BFO OWL specification label: 2d-cf-boundary
BFO CLIF specification label: TwoDimensionalContinuantFiatBoundary
elucidation: a two-dimensional continuant fiat boundary (surface) is a self-connected fiat surface whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [033-001])
has associated axiom(fol): (iff (TwoDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (TwoDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [033-001]

Axiom
annotated source: two-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a two-dimensional continuant fiat boundary (surface) is a self-connected fiat surface whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [033-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/033-001

Axiom
annotated source: two-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (TwoDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (TwoDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [033-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/033-001

zero-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
BFO OWL specification label: 0d-cf-boundary
BFO CLIF specification label: ZeroDimensionalContinuantFiatBoundary
example of usage: the geographic North Pole
example of usage: the point of origin of some spatial coordinate system.
example of usage: the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet
editor note: zero dimension continuant fiat boundaries are not spatial points. Considering the example 'the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet' : There are many frames in which that point is zooming through many points in space. Whereas, no matter what the frame, the quadripoint is always in the same relation to the boundaries of Colorado, Utah, New Mexico, and Arizona.
elucidation: a zero-dimensional continuant fiat boundary is a fiat point whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [031-001])
has associated axiom(fol): (iff (ZeroDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (ZeroDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [031-001]

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: editor note
annotated target: zero dimension continuant fiat boundaries are not spatial points. Considering the example 'the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet' : There are many frames in which that point is zooming through many points in space. Whereas, no matter what the frame, the quadripoint is always in the same relation to the boundaries of Colorado, Utah, New Mexico, and Arizona.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000001
comment: requested by Melanie Courtot

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a zero-dimensional continuant fiat boundary is a fiat point whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [031-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/031-001

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ZeroDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (ZeroDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [031-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/031-001

zero-dimensional temporal region
type: Class
subclass of: temporal region
BFO OWL specification label: 0d-t-region
BFO CLIF specification label: ZeroDimensionalTemporalRegion
example of usage: a temporal region that is occupied by a process boundary
example of usage: right now
example of usage: the moment at which a child is born
example of usage: the moment at which a finger is detached in an industrial accident
example of usage: the moment of death.
alternative label: temporal instant.
elucidation: A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001])
has associated axiom(fol): (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001]

Axiom
annotated source: zero-dimensional temporal region
annotated property: elucidation
annotated target: A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/102-001

Axiom
annotated source: zero-dimensional temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/102-001

history
type: Class
subclass of: process
BFO OWL specification label: history
BFO CLIF specification label: History
elucidation: A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])

Axiom
annotated source: history
annotated property: elucidation
annotated target: A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/138-001

liver cell line
type: Class
subclass of: cultured cell
imported from: bto.owl

fibroblast cell line
type: Class
subclass of: cultured cell
alternative label: FCL
imported from: bto.owl

nalidixic acid
type: Class
subclass of: quinolines
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: A monocarboxylic acid comprising 1,8-naphthyridin-4-one substituted by carboxylic acid, ethyl and methyl groups at positions 3, 1, and 7, respectively. An orally administered antibacterial, it is used in the treatment of lower urinary-tract infections due to Gram-negative bacteria, including the majority of E. coli, Enterobacter, Klebsiella, and Proteus species.
alternative label: 1-ethyl-7-methyl-4-oxo-1,4-dihydro-1,8-naphthyridine-3-carboxylic acid
alternative label: NALIDIXIC ACID
alternative label: Nalidixic acid
imported from: chebi.owl

voriconazole
type: Class
subclass of: triazoles
subclass of: Restriction
  on property: has role
  some values from: antifungal drug
VEuPathDB alternative label: Voriconazole
definition: A triazole-based antifungal agent used for the treatment of esophageal candidiasis, invasive pulmonary aspergillosis, and serious fungal infections caused by Scedosporium apiospermum and Fusarium spp. It is an inhibitor of cytochrome P450 2C9 (CYP2C9) and CYP3A4.
alternative label: (2R,3S)-2-(2,4-difluorophenyl)-3-(5-fluoropyrimidin-4-yl)-1-(1H-1,2,4-triazol-1-yl)butan-2-ol
alternative label: voriconazole
imported from: chebi.owl

ciprofloxacin
type: Class
subclass of: quinolines
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: A quinolone that is quinolin-4(1H)-one bearing cyclopropyl, carboxylic acid, fluoro and piperazin-1-yl substituents at positions 1, 3, 6 and 7, respectively.
alternative label: 1-cyclopropyl-6-fluoro-4-oxo-7-(piperazin-1-yl)-1,4-dihydroquinoline-3-carboxylic acid
alternative label: Ciprofloxacin
alternative label: ciprofloxacin
imported from: chebi.owl

chemokine ligand 10
type: Class
subclass of: PR_000000001
imported from: chebi.owl

lumefantrine
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: antimalarial
definition: A member of the class of fluorenes that is 9-(p-chlorobenzylidene)-9H-fluorene which is substitutec by chlorine at positions 2 and 7, and by a 2-(dibutylamino)-1-hydroxyethyl group at position 4. An antimalarial drug used in combination with artemether for the treatment of multi-drug resistant strains of falciparum malaria.
alternative label: 2-(dibutylamino)-1-[(9Z)-2,7-dichloro-9-(4-chlorobenzylidene)-9H-fluoren-4-yl]ethanol
imported from: chebi.owl

hexadecanoic acid
type: Class
subclass of: fatty acid
definition: A straight-chain, sixteen-carbon, saturated long-chain fatty acid.
alternative label: hexadecanoic acid
imported from: chebi.owl

L-dopa
type: Class
subclass of: aromatic compound
definition: An optically active form of dopa having L-configuration. Used to treat the stiffness, tremors, spasms, and poor muscle control of Parkinson's disease
alternative label: (2S)-2-amino-3-(3,4-dihydroxyphenyl)propanoic acid
alternative label: L-DOPA
alternative label: L-Dopa
alternative label: L-dopa
imported from: chebi.owl

arachidonic acid
type: Class
subclass of: fatty acid
definition: A long-chain fatty acid that is a C20, polyunsaturated fatty acid having four (Z)-double bonds at positions 5, 8, 11 and 14.
alternative label: (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoic acid
alternative label: ARACHIDONIC ACID
alternative label: Arachidonic acid
imported from: chebi.owl

quinine
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: antimalarial
definition: A cinchona alkaloid that is cinchonidine in which the hydrogen at the 6-position of the quinoline ring is substituted by methoxy.
alternative label: (9R)-6'-methoxy-8alpha-cinchonan-9-ol
alternative label: Quinine
alternative label: quinine
imported from: chebi.owl

DDT
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A chlorophenylethane that is 1,1,1-trichloro-2,2-diphenylethane substituted by additional chloro substituents at positions 4 of the phenyl substituents. It is a commonly used organochlorine insecticide.
alternative label: 1-chloro-4-[2,2,2-trichloro-1-(4-chlorophenyl)ethyl]benzene
alternative label: DDT
imported from: chebi.owl

aztreonam
type: Class
subclass of: beta-lactam
VEuPathDB alternative label: Aztreonam
definition: A synthetic monocyclic beta-lactam antibiotic (monobactam), used primarily to treat infections caused by Gram-negative bacteria. It inhibits mucopeptide synthesis in the bacterial cell wall, thereby blocking peptidoglycan crosslinking.
alternative label: (2S,3S)-3-{(2Z)-2-(2-ammonio-1,3-thiazol-4-yl)-2-[(2-carboxypropan-2-yloxy)imino]acetamido}-2-methyl-4-oxoazetidine-1-sulfonate
imported from: chebi.owl

oleic acid
type: Class
subclass of: fatty acid
definition: An octadec-9-enoic acid in which the double bond at C-9 has Z (cis) stereochemistry.
alternative label: (9Z)-octadec-9-enoic acid
alternative label: OLEIC ACID
alternative label: Oleic acid
imported from: chebi.owl

urea
type: Class
subclass of: molecular entity
definition: A carbonyl group with two C-bound amine groups. The commercially available fertilizer has an analysis of 46-0-0 (N-P2O5-K2O).
alternative label: UREA
alternative label: Urea
alternative label: urea
imported from: chebi.owl

hydrogen peroxide
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: antimicrobial agent
VEuPathDB alternative label: Hydrogen peroxide (H2O2)
definition: An inorganic peroxide consisting of two hydroxy groups joined by a covalent oxygen-oxygen single bond.
alternative label: HYDROGEN PEROXIDE
alternative label: Hydrogen peroxide
alternative label: bis(hydridooxygen)(O--O)
alternative label: dihydrogen peroxide
alternative label: dihydrogen(peroxide)
alternative label: dioxidane
alternative label: hydrogen peroxide
imported from: chebi.owl

carbon dioxide
type: Class
subclass of: molecular entity
definition: A one-carbon compound with formula CO2 in which the carbon is attached to each oxygen atom by a double bond. A colourless, odourless gas under normal conditions, it is produced during respiration by all animals, fungi and microorganisms that depend directly or indirectly on living or decaying plants for food.
alternative label: CARBON DIOXIDE
alternative label: Carbon dioxide
alternative label: carbon dioxide
alternative label: dioxidocarbon
alternative label: methanedione
imported from: chebi.owl

carbohydrate
type: Class
subclass of: molecular entity
definition: Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates.
alternative label: carbohydrate
alternative label: carbohydrates
imported from: chebi.owl

peptide
type: Class
subclass of: macromolecule
definition: Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc.
alternative label: Peptide
alternative label: peptides
imported from: chebi.owl

chlorthion
type: Class
subclass of: phosphate
definition: An organic thiophosphate that is O,O-dimethyl O-phenyl phosphorothioate substituted by a chloro group at position 3 and a nitro group at position 4. It is a potent cholinesterase inhibitor and used as an insecticide for the control of a wide range of insects.
alternative label: O-(3-chloro-4-nitrophenyl) O,O-dimethyl phosphorothioate
imported from: chebi.owl

creatinine
type: Class
subclass of: lactam
definition: A lactam obtained by formal cyclocondensation of creatine. It is a metabolite of creatine.
alternative label: 2-imino-1-methylimidazolidin-4-one
alternative label: Creatinine
alternative label: creatinine
imported from: chebi.owl

bilirubin IXalpha
type: Class
subclass of: molecular entity
definition: A member of the class of biladienes that is a linear tetrapyrrole with the dipyrrole units being of both exovinyl and endovinyl type. A product of heme degradation, it is produced in the reticuloendothelial system by the reduction of biliverdin and transported to the liver as a complex with serum albumin.
alternative label: 3,18-diethenyl-2,7,13,17-tetramethyl-1,19-dioxo-1,10,19,22,23,24-hexahydro-21H-biline-8,12-dipropanoic acid
alternative label: bilirubin
imported from: chebi.owl

deoxyribonucleic acid
type: Class
subclass of: nucleic acid
definition: High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms.
alternative label: Deoxyribonucleic acid
alternative label: deoxyribonucleic acids
imported from: chebi.owl

penicillin
type: Class
subclass of: beta-lactam
subclass of: Restriction
  on property: has role
  some values from: antimicrobial agent
definition: Any member of the group of substituted penams containing two methyl substituents at position 2, a carboxylate substituent at position 3 and a carboxamido group at position 6.
alternative label: Penicillin
alternative label: penicillins
imported from: chebi.owl

linoleic acid
type: Class
subclass of: fatty acid
definition: An octadecadienoic acid in which the two double bonds are at positions 9 and 12 and have Z (cis) stereochemistry.
alternative label: (9Z,12Z)-octadeca-9,12-dienoic acid
alternative label: LINOLEIC ACID
alternative label: Linoleic acid
imported from: chebi.owl

hydrogencarbonate
type: Class
subclass of: ion
definition: The carbon oxoanion resulting from the removal of a proton from carbonic acid.
alternative label: Hydrogencarbonate
alternative label: hydrogen(trioxidocarbonate)(1-)
alternative label: hydrogencarbonate
alternative label: hydrogencarbonate(1-)
alternative label: hydrogentrioxocarbonate(1-)
alternative label: hydrogentrioxocarbonate(IV)
alternative label: hydroxidodioxidocarbonate(1-)
imported from: chebi.owl

chloramphenicol
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: An organochlorine compound that is dichloro-substituted acetamide containing a nitrobenzene ring, an amide bond and two alcohol functions.
alternative label: 2,2-dichloro-N-[(1R,2R)-2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl]acetamide
alternative label: CHLORAMPHENICOL
alternative label: Chloramphenicol
alternative label: chloramphenicol
imported from: chebi.owl

gentamycin
type: Class
subclass of: glycoside
subclass of: Restriction
  on property: has role
  some values from: antimicrobial agent
definition: Any of a group of aminoglycoside antibiotics produced by fermentation of some Micromonospora spp.
alternative label: 4,6-diamino-3-[3-deoxy-4-C-methyl-3-(methylamino)pentopyranosyloxy]-2-hydroxycyclohexyl 2-amino-2,3,4,6,7-pentadeoxy-6-(methylamino)heptopyranoside
imported from: chebi.owl

dihydrogen
type: Class
subclass of: molecular entity
definition: An elemental molecule consisting of two hydrogens joined by a single bond.
alternative label: dihydrogen
imported from: chebi.owl

artemether
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: antimalarial
definition: An artemisinin derivative that is artemisinin in which the lactone has been converted to the corresponding lactol methyl ether. It is used in combination with lumefantrine as an antimalarial for the treatment of multi-drug resistant strains of falciparum malaria.
alternative label: (3R,5aS,6R,8aS,9R,10S,12R,12aR)-10-methoxy-3,6,9-trimethyldecahydro-3,12-epoxypyrano[4,3-j][1,2]benzodioxepine
imported from: chebi.owl

cefotaxime
type: Class
subclass of: cephalosporin
definition: A cephalosporin compound having acetoxymethyl and [2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetyl]amino side groups.
alternative label: 3-(acetoxymethyl)-7beta-{[(2Z)-2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetyl]amino}-3,4-didehydrocepham-4-carboxylic acid
imported from: chebi.owl

benzoic acids
type: Class
subclass of: aromatic compound
VEuPathDB alternative label: Compound benzoic acid
definition: Any aromatic carboxylic acid that consists of benzene in which at least a single hydrogen has been substituted by a carboxy group.
imported from: chebi.owl

phytogenic insecticide
type: Class
subclass of: insecticide
definition: An insecticide compound naturally occurring in plants.
imported from: chebi.owl

cephalosporin
type: Class
subclass of: beta-lactam
definition: A class of beta-lactam antibiotics differing from the penicillins in having a 6-membered, rather than a 5-membered, side ring. Although cephalosporins are among the most commonly used antibiotics in the treatment of routine infections, and their use is increasing over time, they can cause a range of hypersensitivity reactions, from mild, delayed-onset cutaneous reactions to life-threatening anaphylaxis in patients with immunoglobulin E (IgE)-mediated allergy.
alternative label: Cephalosporin
imported from: chebi.owl

molecular entity
type: Class
subclass of: chemical entity
definition: Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity.
alternative label: molecular entity
imported from: chebi.owl

drug
type: Class
subclass of: role
VEuPathDB alternative label: Compound
definition: Any substance which when absorbed into a living organism may modify one or more of its functions. The term is generally accepted for a substance taken for a therapeutic purpose, but is also commonly used for abused substances.
imported from: chebi.owl

icosenoic acid
type: Class
subclass of: fatty acid
definition: An icosanoid comprising icosanoic acid having one C=C bond at any position.
imported from: chebi.owl

fungicide
type: Class
subclass of: antifungal agent
definition: A substance used to destroy fungal pests.
imported from: chebi.owl

glycoside
type: Class
subclass of: molecular entity
definition: A glycosyl compound resulting from the attachment of a glycosyl group to a non-acyl group RO-, RS-, RSe-, etc. The bond between the glycosyl group and the non-acyl group is called a glycosidic bond. By extension, the terms N-glycosides and C-glycosides are used as class names for glycosylamines and for compounds having a glycosyl group attached to a hydrocarbyl group respectively. These terms are misnomers and should not be used. The preferred terms are glycosylamines and C-glycosyl compounds, respectively.
alternative label: glycosides
imported from: chebi.owl

chemical entity
type: Class
subclass of: material entity
definition: A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances.
alternative label: chemical entity
imported from: chebi.owl

insecticide
type: Class
subclass of: pesticide
definition: Strictly, a substance intended to kill members of the class Insecta. In common usage, any substance used for preventing, destroying, repelling or controlling insects.
imported from: chebi.owl

ion
type: Class
subclass of: molecular entity
definition: A molecular entity having a net electric charge.
alternative label: Ion
alternative label: ion
imported from: chebi.owl

juvenile hormone mimic
type: Class
subclass of: insecticide
imported from: chebi.owl

lactam
type: Class
subclass of: molecular entity
definition: Cyclic amides of amino carboxylic acids, having a 1-azacycloalkan-2-one structure, or analogues having unsaturation or heteroatoms replacing one or more carbon atoms of the ring.
alternative label: lactam
alternative label: lactams
imported from: chebi.owl

macrolide
type: Class
subclass of: molecular entity
definition: A macrocyclic lactone with a ring of twelve or more members derived from a polyketide.
alternative label: macrolide
alternative label: macrolides
imported from: chebi.owl

albuterol
type: Class
subclass of: molecular entity
VEuPathDB alternative label: Sulbutamol type
definition: A member of the class of phenylethanolamines that is 4-(2-amino-1-hydroxyethyl)-2-(hydroxymethyl)phenol having a tert-butyl group attached to the nirogen atom. It acts as a beta-adrenergic agonist used in the treatment of asthma and chronic obstructive pulmonary disease (COPD).
alternative label: 4-[2-(tert-butylamino)-1-hydroxyethyl]-2-(hydroxymethyl)phenol
alternative label: Albuterol
imported from: chebi.owl

neonicotinoid insectide
type: Class
subclass of: insecticide
definition: A class of neuro-active insecticides that act at the nicotinic acetylcholine receptor.
imported from: chebi.owl

pesticide
type: Class
subclass of: role
definition: Strictly, a substance intended to kill pests. In common usage, any substance used for controlling, preventing, or destroying animal, microbiological or plant pests.
alternative label: pesticide
imported from: chebi.owl

phosphate
type: Class
subclass of: molecular entity
definition: Salts and esters of phosphoric and oligophosphoric acids and their chalcogen analogues. In inorganic chemistry, the term is also used to describe anionic coordination entities with phosphorus as central atom.
alternative label: phosphates
imported from: chebi.owl

pyrethroid insecticide
type: Class
subclass of: insecticide
imported from: chebi.owl

quinolines
type: Class
subclass of: aromatic compound
definition: A class of aromatic heterocyclic compounds each of which contains a benzene ring ortho fused to carbons 2 and 3 of a pyridine ring.
imported from: chebi.owl

amodiaquine
type: Class
subclass of: quinolines
subclass of: Restriction
  on property: has role
  some values from: antimalarial
definition: A quinoline having a chloro group at the 7-position and an aryl amino group at the 4-position.
alternative label: 4-[(7-chloroquinolin-4-yl)amino]-2-[(diethylamino)methyl]phenol
alternative label: Amodiaquine
imported from: chebi.owl

amoxicillin
type: Class
subclass of: penicillin
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: A penicillin in which the substituent at position 6 of the penam ring is a 2-amino-2-(4-hydroxyphenyl)acetamido group.
alternative label: 6beta-[(2R)-2-amino-2-(4-hydroxyphenyl)acetamido]-2,2-dimethylpenam-3alpha-carboxylic acid
alternative label: Amoxicillin
imported from: chebi.owl

amphotericin B
type: Class
subclass of: macrolide
subclass of: Restriction
  on property: has role
  some values from: antifungal drug
VEuPathDB alternative label: Amphotericin B
definition: A macrolide antibiotic used to treat potentially life-threatening fungal infections.
alternative label: (1R,3S,5R,6R,9R,11R,15S,16R,17R,18S,19E,21E,23E,25E,27E,29E,31E,33R,35S,36R,37S)-33-[(3-amino-3,6-dideoxy-beta-D-mannopyranosyl)oxy]-1,3,5,6,9,11,17,37-octahydroxy-15,16,18-trimethyl-13-oxo-14,39-dioxabicyclo[33.3.1]nonatriaconta-19,21,23,25,27,29,31-heptaene-36-carboxylic acid
imported from: chebi.owl

uric acid
type: Class
subclass of: molecular entity
definition: An oxopurine that is the final oxidation product of purine metabolism.
imported from: chebi.owl

vitamin D
type: Class
subclass of: molecular entity
definition: Any member of a group of fat-soluble hydroxy seco-steroids that exhibit biological activity against vitamin D deficiency. Vitamin D can be obtained from sun exposure, food and supplements and is biologically inactive and converted into the biologically active calcitriol via double hydroxylation in the body.
imported from: chebi.owl

alpha-linolenic acid
type: Class
subclass of: fatty acid
definition: A linolenic acid with cis-double bonds at positions 9, 12 and 15. Shown to have an antithrombotic effect.
alternative label: (9Z,12Z,15Z)-octadeca-9,12,15-trienoic acid
alternative label: ALPHA-LINOLENIC ACID
alternative label: alpha-Linolenic acid
alternative label: alpha-linolenic acid
imported from: chebi.owl

elaidic acid
type: Class
subclass of: fatty acid
definition: A 9-octadecenoic acid and the trans-isomer of oleic acid.
alternative label: (9E)-octadec-9-enoic acid
alternative label: Elaidic acid
imported from: chebi.owl

vancomycin
type: Class
subclass of: peptide
definition: A complex glycopeptide from Streptomyces orientalis. It inhibits a specific step in the synthesis of the peptidoglycan layer in the Gram-positive bacteria Staphylococcus aureus and Clostridium difficile.
alternative label: (3S,6R,7R,11R,23S,26S,30aS,36R,38aR)-44-[2-O-(3-amino-2,3,6-trideoxy-3-C-methyl-alpha-L-lyxo-hexopyranosyl)-beta-D-glucopyranosyloxy]-3-(carbamoylmethyl)-10,19-dichloro-2,3,4,5,6,7,23,25,26,36,37,38,38a-tetradecahydro-7,22,28,30,32-pentahydroxy-6-(N-methyl-D-leucyl)-2,5,24,38,39-pentaoxo-1H,22H-23,36-(epiminomethano)-8,11:18,21-dietheno-13,16:31,35-di(metheno)[1,6,9]oxadiazacyclohexadecino[4,5-m][10,2,16]benzoxadiazacyclotetracosine-26-carboxylic acid
alternative label: VANCOMYCIN
alternative label: Vancomycin
imported from: chebi.owl

acrylamide
type: Class
subclass of: molecular entity
definition: A member of the class of acrylamides that results from the formal condensation of acrylic acid with ammonia.
alternative label: Acrylamide
alternative label: acrylamide
alternative label: prop-2-enamide
imported from: chebi.owl

gamma-linolenic acid
type: Class
subclass of: fatty acid
definition: A C18, omega-6 acid fatty acid comprising a linolenic acid having cis- double bonds at positions 6, 9 and 12.
alternative label: (6Z,9Z,12Z)-octadeca-6,9,12-trienoic acid
alternative label: gamma-Linolenic acid
imported from: chebi.owl

palmitoleic acid
type: Class
subclass of: fatty acid
definition: A hexadec-9-enoic acid in which the double bond at position C-9 has cis configuration.
alternative label: (9Z)-hexadec-9-enoic acid
alternative label: PALMITOLEIC ACID
alternative label: Palmitoleic acid
imported from: chebi.owl

icosanoic acid
type: Class
subclass of: fatty acid
definition: A C20 striaght-chain saturated fatty acid which forms a minor constituent of peanut (L. arachis) and corn oils. Used as an organic thin film in the production of liquid crystals for a wide variety of technical applications.
alternative label: icosanoic acid
imported from: chebi.owl

octadecanoic acid
type: Class
subclass of: fatty acid
definition: A C18 straight-chain saturated fatty acid component of many animal and vegetable lipids. As well as in the diet, it is used in hardening soaps, softening plastics and in making cosmetics, candles and plastics.
alternative label: Octadecanoic acid
alternative label: octadecanoic acid
imported from: chebi.owl

tobramycin
type: Class
subclass of: glycoside
VEuPathDB alternative label: Tobramycin
definition: A amino cyclitol glycoside that is kanamycin B lacking the 3-hydroxy substituent from the 2,6-diaminoglucose ring.
alternative label: (1S,2S,3R,4S,6R)-4,6-diamino-3-(2,6-diamino-2,3,6-trideoxy-alpha-D-ribo-hexopyranosyloxy)-2-hydroxycyclohexyl 3-amino-3-deoxy-alpha-D-glucopyranoside
alternative label: Tobramycin
imported from: chebi.owl

tetracosanoic acid
type: Class
subclass of: fatty acid
definition: A C24 straight-chain saturated fatty acid.
alternative label: Tetracosanoic acid
alternative label: tetracosanoic acid
imported from: chebi.owl

tetradecanoic acid
type: Class
subclass of: fatty acid
definition: A straight-chain, fourteen-carbon, long-chain saturated fatty acid mostly found in milk fat.
alternative label: Tetradecanoic acid
alternative label: myristic acid
imported from: chebi.owl

docosanoic acid
type: Class
subclass of: fatty acid
definition: A straight-chain, C22, long-chain saturated fatty acid.
alternative label: Docosanoic acid
alternative label: docosanoic acid
imported from: chebi.owl

ampicillin
type: Class
subclass of: penicillin
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: A penicillin in which the substituent at position 6 of the penam ring is a 2-amino-2-phenylacetamido group.
alternative label: 6beta-[(2R)-2-amino-2-phenylacetamido]-2,2-dimethylpenam-3alpha-carboxylic acid
alternative label: Ampicillin
imported from: chebi.owl

ceftriaxone
type: Class
subclass of: beta-lactam
definition: A third-generation cephalosporin compound having 2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetylamino and [(2-methyl-5,6-dioxo-1,2,5,6-tetrahydro-1,2,4-triazin-3-yl)sulfanyl]methyl side-groups.
alternative label: 7beta-{[(2Z)-2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetyl]amino}-3-{[(2-methyl-5,6-dioxo-1,2,5,6-tetrahydro-1,2,4-triazin-3-yl)sulfanyl]methyl}-3,4-didehydrocepham-4-carboxylic acid
imported from: chebi.owl

azithromycin
type: Class
subclass of: macrolide
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
VEuPathDB alternative label: Azithromycin
definition: A macrolide antibiotic useful for the treatment of bacterial infections.
alternative label: (2R,3S,4R,5R,8R,10R,11R,12S,13S,14R)-2-ethyl-3,4,10-trihydroxy-3,5,6,8,10,12,14-heptamethyl-15-oxo-11-{[3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranosyl]oxy}-1-oxa-6-azacyclopentadecan-13-yl 2,6-dideoxy-3-C-methyl-3-O-methyl-alpha-L-ribo-hexopyranoside
imported from: chebi.owl

mannitol
type: Class
subclass of: carbohydrate
definition: A hexitol produced by a variety of organisms including bacteria, fungi, lichens and plants.
alternative label: mannitol
imported from: chebi.owl

photon
type: Class
subclass of: material entity
definition: Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force.
alternative label: photon
imported from: chebi.owl

dodecanoic acid
type: Class
subclass of: fatty acid
definition: A straight-chain, twelve-carbon medium-chain saturated fatty acid with strong bactericidal properties; the main fatty acid in coconut oil and palm kernel oil.
alternative label: Dodecanoic acid
alternative label: dodecanoic acid
imported from: chebi.owl

decanoic acid
type: Class
subclass of: fatty acid
definition: A C10, straight-chain saturated fatty acid.
alternative label: DECANOIC ACID
alternative label: Decanoic acid
alternative label: decanoic acid
imported from: chebi.owl

bifenthrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A carboxylic ester obtained by formal condensation of cis-3-(2-chloro-3,3,3-trifluoroprop-1-enyl)-2,2-dimethylcyclopropanecarboxylic acid and [(2-methyl-1,1'-biphenyl)-3-yl]methanol.
alternative label: (2-methyl-[1,1'-biphenyl]-3-yl)methyl rel-(1R,3R)-3-[(1Z)-2-chloro-3,3,3-trifluoroprop-1-en-1-yl]-2,2-dimethylcyclopropanecarboxylate
alternative label: Bifenthrin
imported from: chebi.owl

gamma-hexachlorocyclohexane
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: fungicide
subclass of: Restriction
  on property: has role
  some values from: antibacterial agent
alternative label: (1r,2R,3S,4r,5R,6S)-1,2,3,4,5,6-hexachlorocyclohexane
alternative label: gamma-Hexachlorocyclohexane
alternative label: gamma-hexachlorocyclohexane
imported from: chebi.owl

atom
type: Class
subclass of: chemical entity
definition: A chemical entity constituting the smallest component of an element having the chemical properties of the element.
alternative label: atom
imported from: chebi.owl

antimicrobial agent
type: Class
subclass of: role
definition: A substance that kills or slows the growth of microorganisms, including bacteria, viruses, fungi and protozoans.
imported from: chebi.owl

antibacterial agent
type: Class
subclass of: antimicrobial agent
definition: A substance (or active part thereof) that kills or slows the growth of bacteria.
imported from: chebi.owl

aromatic compound
type: Class
subclass of: molecular entity
definition: A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character.
alternative label: aromatic compounds
alternative label: aromatic molecular entity
imported from: chebi.owl

nucleic acid
type: Class
subclass of: macromolecule
definition: A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid.
alternative label: nucleic acids
imported from: chebi.owl

ribonucleic acid
type: Class
subclass of: nucleic acid
definition: High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins.
alternative label: ribonucleic acid
alternative label: ribonucleic acids
imported from: chebi.owl

amino-acid residue
type: Class
subclass of: material entity
definition: When two or more amino acids combine to form a peptide, the elements of water are removed, and what remains of each amino acid is called an amino-acid residue.
alternative label: amino-acid residue
imported from: chebi.owl

macromolecule
type: Class
subclass of: molecular entity
definition: A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.
alternative label: macromolecule
imported from: chebi.owl

carbaryl
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: carbamate insecticide
definition: A carbamate ester obtained by the formal condensation of 1-naphthol with methylcarbamic acid.
alternative label: Carbaryl
alternative label: carbaryl
alternative label: naphthalen-1-yl methylcarbamate
imported from: chebi.owl

oct-1-en-3-ol
type: Class
subclass of: fatty acid
definition: An alkenyl alcohol with a structure based on a C8 unbranched chain with the hydroxy group at C-2 and unsaturation at C-1-C-2. It is a major volatile compound present in many mushrooms and fungi.
alternative label: oct-1-en-3-ol
imported from: chebi.owl

bendiocarb
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: carbamate insecticide
alternative label: 2,2-dimethyl-1,3-benzodioxol-4-yl methylcarbamate
alternative label: Bendiocarb
imported from: chebi.owl

chlorpyrifos
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is O,O-diethyl hydrogen phosphorothioate in which the hydrogen of the hydroxy group has been replaced by a 3,5,6-trichloropyridin-2-yl group.
alternative label: Chlorpyrifos
alternative label: O,O-diethyl O-(3,5,6-trichloropyridin-2-yl) phosphorothioate
alternative label: chlorpyrifos
imported from: chebi.owl

chlorpyrifos-methyl
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is O,O-dimethyl hydrogen phosphorothioate in which the hydrogen of the hydroxy group has been replaced by a 3,5,6-trichloropyridin-2-yl group.
alternative label: Chlorpyrifos-methyl
alternative label: O,O-dimethyl O-(3,5,6-trichloropyridin-2-yl) phosphorothioate
imported from: chebi.owl

dichlorvos
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
subclass of: Restriction
  on property: has role
  some values from: antibacterial agent
subclass of: Restriction
  on property: has role
  some values from: antifungal agent
definition: An alkenyl phosphate that is the 2,2-dichloroethenyl ester of dimethyl phosphate.
alternative label: 2,2-dichloroethenyl dimethyl phosphate
alternative label: Dichlorvos
imported from: chebi.owl

dieldrin
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organochlorine compound resulting from the epoxidation of the double bond of aldrin. It is the active metabolite of the proinsecticde aldrin.
alternative label: Dieldrin
alternative label: rel-(1R,2S,3S,6R,7R,8S,9S,11R)-3,4,5,6,13,13-hexachloro-10-oxapentacyclo[6.3.1.1(3,6).0(2,7).0(9,11)]tridec-4-ene
imported from: chebi.owl

diflubenzuron
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insect sterilant
definition: A benzoylurea insecticide that is urea in which a hydrogen attached to one of the nitrogens is replaced by a 4-chlorophenyl group, and a hydrogen attached to the other nitrogen is replaced bgy a 2,6-difluorobenzoyl group.
alternative label: Diflubenzuron
alternative label: N-[(4-chlorophenyl)carbamoyl]-2,6-difluorobenzamide
imported from: chebi.owl

dimethoate
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A monocarboxylic acid amide that is N-methylacetamide in which one of the hydrogens of the methyl group attached to the carbonyl moiety is replaced by a (dimethoxyphosphorothioyl)sulfanediyl group.
alternative label: Dimethoate
alternative label: O,O-dimethyl S-[2-(methylamino)-2-oxoethyl] phosphorodithioate
imported from: chebi.owl

fenitrothion
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is O,O-dimethyl O-phenyl phosphorothioate substituted by a methyl group at position 3 and a nitro group at position 4.
alternative label: Fenitrothion
alternative label: O,O-dimethyl O-(3-methyl-4-nitrophenyl)phosphorothioate
imported from: chebi.owl

fenthion
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is O,O-dimethyl hydrogen phosphorothioate in which the hydrogen atom of the hydroxy group is replaced by a 3-methyl-4-(methylsulfanyl)phenyl group. It exhibits acaricidal and insecticidal activities.
alternative label: Fenthion
alternative label: O,O-dimethyl O-[3-methyl-4-(methylsulfanyl)phenyl] phosphorothioate
imported from: chebi.owl

methoprene
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: juvenile hormone mimic
alternative label: Methoprene
alternative label: propan-2-yl (2E,4E)-11-methoxy-3,7,11-trimethyldodeca-2,4-dienoate
imported from: chebi.owl

paraquat
type: Class
subclass of: ion
VEuPathDB alternative label: Paraquat
definition: An organic cation that consists of 4,4'-bipyridine bearing two N-methyl substituents loctated at the 1- and 1'-positions.
alternative label: 1,1'-dimethyl-[4,4'-bipyridin]-1,1'-diium
alternative label: Paraquat
imported from: chebi.owl

permethrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A cyclopropanecarboxylate ester in which the esterifying alcohol is 3-phenoxybenzyl alcohol and the cyclopropane ring is substituted with a 2,2-dichlorovinyl group and with gem-dimethyl groups.
alternative label: 3-phenoxybenzyl 3-(2,2-dichloroethenyl)-2,2-dimethylcyclopropanecarboxylate
alternative label: Permethrin
imported from: chebi.owl

phenothrin
type: Class
subclass of: molecular entity
alternative label: 3-phenoxybenzyl 2,2-dimethyl-3-(2-methylprop-1-en-1-yl)cyclopropanecarboxylate
alternative label: Phenothrin
imported from: chebi.owl

phenthoate
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is ethyl mandelate in which the hydroxy group has been replaced by a (dimethoxyphosphorothioyl)sulfanediyl group.
alternative label: Phenthoate
alternative label: ethyl [(dimethoxyphosphorothioyl)sulfanyl](phenyl)acetate
imported from: chebi.owl

propoxur
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: carbamate insecticide
definition: A carbamate ester that is phenyl methylcarbamate substituted at position 2 by a propan-2-yloxy group.
alternative label: 2-(propan-2-yloxy)phenyl methylcarbamate
alternative label: Propoxur
alternative label: propoxur
imported from: chebi.owl

cefpodoxime
type: Class
subclass of: cephalosporin
VEuPathDB alternative label: Cefpodoxime
definition: A third-generation cephalosporin antibiotic with methoxymethyl and (2Z)-2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetamino substituents at positions 3 and 7, respectively, of the cephem skeleton. Given by mouth as its proxetil ester prodrug, it is used to treat acute otitis media, pharyngitis, and sinusitis.
alternative label: 7beta-[(2Z)-2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetamido]-3-(methoxymethyl)-3,4-didehydrocepham-4-carboxylic acid
imported from: chebi.owl

hemoglobin
type: Class
subclass of: PR_000000001
alternative label: hemoglobin
imported from: chebi.owl

steroid
type: Class
subclass of: molecular entity
VEuPathDB alternative label: Steroid type
definition: Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene.
alternative label: Steroid
alternative label: steroids
imported from: chebi.owl

fatty acid
type: Class
subclass of: molecular entity
definition: Any aliphatic monocarboxylic acid derived from or contained in esterified form in an animal or vegetable fat, oil or wax. Natural fatty acids commonly have a chain of 4 to 28 carbons (usually unbranched and even-numbered), which may be saturated or unsaturated. By extension, the term is sometimes used to embrace all acyclic aliphatic carboxylic acids.
alternative label: Fatty acid
alternative label: fatty acids
imported from: chebi.owl

cephradine
type: Class
subclass of: beta-lactam
VEuPathDB alternative label: Cephradine
definition: A first-generation cephalosporin antibiotic with a methyl substituent at position 3, and a (2R)-2-amino-2-cyclohexa-1,4-dien-1-ylacetamido substituent at position 7, of the cephem skeleton.
alternative label: 7beta-[(2R)-2-(cyclohexa-1,4-dienyl)-2-phenylacetamido]-3-methyl-3,4-didehydrocepham-4-carboxylic acid
alternative label: Cephradine
imported from: chebi.owl

beta-lactam
type: Class
subclass of: lactam
definition: A lactam in which the amide bond is contained within a four-membered ring, which includes the amide nitrogen and the carbonyl carbon.
alternative label: beta-Lactam
imported from: chebi.owl

antifungal agent
type: Class
subclass of: antimicrobial agent
definition: An antimicrobial agent that destroys fungi by suppressing their ability to grow or reproduce.
imported from: chebi.owl

triazoles
type: Class
subclass of: azole
VEuPathDB alternative label: Triazoles
definition: An azole in which the five-membered heterocyclic aromatic skeleton contains three N atoms and two C atoms.
imported from: chebi.owl

phosphate ion
type: Class
subclass of: ion
definition: A phosphorus oxoanion that is the conjugate base of phosphoric acid.
imported from: chebi.owl

docosahexaenoic acid
type: Class
subclass of: fatty acid
definition: Any C22 polyunsaturated fatty acid containing six double bonds.
alternative label: docosahexaenoic acid
imported from: chebi.owl

icosapentaenoic acid
type: Class
subclass of: fatty acid
definition: Any straight-chain, C20 polyunsaturated fatty acid having five C=C double bonds.
alternative label: icosapentaenoic acid
imported from: chebi.owl

antibacterial drug
type: Class
subclass of: drug
definition: A drug used to treat or prevent bacterial infections.
imported from: chebi.owl

chloroquine
type: Class
subclass of: quinolines
subclass of: Restriction
  on property: has role
  some values from: antimalarial
VEuPathDB alternative label: Chloroquine
definition: An aminoquinoline that is quinoline which is substituted at position 4 by a [5-(diethylamino)pentan-2-yl]amino group at at position 7 by chlorine. It is used for the treatment of malaria, hepatic amoebiasis, lupus erythematosus, light-sensitive skin eruptions, and rheumatoid arthritis.
alternative label: Chloroquine
alternative label: N(4)-(7-chloroquinolin-4-yl)-N(1),N(1)-diethylpentane-1,4-diamine
imported from: chebi.owl

co-trimoxazole
type: Class
subclass of: chemical substance
subclass of: Restriction
  on property: has role
  some values from: antimicrobial agent
subclass of: Restriction
  on property: has role
  some values from: antibacterial drug
definition: A two-component mixture comprising trimethoprim and sulfamethoxazole.
alternative label: 4-amino-N-(5-methyl-1,2-oxazol-3-yl)benzenesulfonamide - 5-(3,4,5-trimethoxybenzyl)pyrimidine-2,4-diamine (1:1)
imported from: chebi.owl

colistin
type: Class
subclass of: peptide
VEuPathDB alternative label: Colistin
definition: A multi-component mixture comprising mostly of colistin A (R = Me) and B (R = H), with small amounts of colistin C and other polymyxins, produced by certain strains of Bacillus polymyxa var. colistinus. An antibiotic, it is used as its sulfate salt (for oral or topical use) or as the sodium salt of the N-methylsulfonic acid derivative (the injectable form) in the treatment of severe Gram-negative infections, partiularly those due to Pseudomonas aeruginosa.
alternative label: Colistin
imported from: chebi.owl

antimalarial
type: Class
subclass of: drug
definition: A drug used in the treatment of malaria. Antimalarials are usually classified on the basis of their action against Plasmodia at different stages in their life cycle in the human.
imported from: chebi.owl

carbamate insecticide
type: Class
subclass of: insecticide
definition: Derivatives of carbamic acid with insecticidal properties of general formula ROC(=O)NR(1)R(2), where ROH is an alcohol, oxime, or phenol and R(1) is hydrogen or methyl. Like organophosphate insecticides, they are cholinesterase inhibitors, but carbamate insecticides differ in action from the organophosphates in that the inhibitory effect on cholinesterase is generally brief.
imported from: chebi.owl

carbosulfan
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: carbamate insecticide
alternative label: 2,2-dimethyl-2,3-dihydro-1-benzofuran-7-yl [(dibutylamino)sulfanyl](methyl)carbamate
imported from: chebi.owl

famphur
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
alternative label: O-[4-(dimethylsulfamoyl)phenyl] O,O-dimethyl phosphorothioate
imported from: chebi.owl

fenamiphos
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
alternative label: ethyl 3-methyl-4-(methylsulfanyl)phenyl N-(propan-2-yl)phosphoramidate
alternative label: fenamiphos
imported from: chebi.owl

pirimiphos-methyl
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic thiophosphate that is O,O-dimethyl O-pyrimidin-4-yl phosphorothioate substituted by a methyl group at position 6 and a diethylamino group at position 2.
alternative label: O-[2-(diethylamino)-6-methylpyrimidin-4-yl] O,O-dimethyl phosphorothioate
imported from: chebi.owl

profenofos
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
alternative label: O-(4-bromo-2-chlorophenyl) O-ethyl S-propyl phosphorothioate
imported from: chebi.owl

temephos
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: An organic sulfide that is diphenyl sulfide in which the hydrogen at the para position of each of the phenyl groups has been replaced by a (dimethoxyphosphorothioyl)oxy group.
alternative label: O,O,O',O'-tetramethyl O,O'-(sulfanediyldibenzene-4,1-diyl) bis(phosphorothioate)
alternative label: temephos
imported from: chebi.owl

pyrethrins
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: phytogenic insecticide
definition: The active insecticidal constituents of Chrysanthemum cinerariifolium flowers.
alternative label: pyrethrins
imported from: chebi.owl

pyrethroid ester insecticide
type: Class
subclass of: pyrethroid insecticide
imported from: chebi.owl

clothianidin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: neonicotinoid insectide
definition: An N-nitro compound consisting of 2-nitroguanidine having a (2-chloro-1,3-thiazol-5-yl)methyl group at position 1 and a methyl group at position 3.
alternative label: 1-[(2-chloro-1,3-thiazol-5-yl)methyl]-3-methyl-2-nitroguanidine
imported from: chebi.owl

spinosad
type: Class
subclass of: chemical substance
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A two-component mixture comprising spinosyn A and spinosyn D in a ratio of approximately 5:1. Obtained from the fermentation of the naturally occurring soil dwelling bacterium Saccharopolyspora spinosa, it is used for the topical treatment of head lice.
alternative label: Spinosad
imported from: chebi.owl

pyriproxyfen
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: juvenile hormone mimic
definition: An aromatic ether that consists of propylene glycol having a 2-pyridyl group at the O-1 position and a 4-phenoxyphenyl group at the O-3 position.
alternative label: 2-[1-methyl-2-(4-phenoxyphenoxy)ethoxy]pyridine
alternative label: Pyriproxyfen
imported from: chebi.owl

beta-cyfluthrin
type: Class
subclass of: chemical substance
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A diastereoisomeric mixture comprising the enantiomeric pair (1R)-cis-(alphaS)- and (1S)-cis-(alphaR)-cyfluthrin in ratio 1:2 with the enantiomeric pair (1R)-trans-(alphaS)- and (1S)-trans-(alphaR)-cyfluthrin.
imported from: chebi.owl

lambda-cyhalothrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: Reaction product comprising equal quantities of CHEBI:39323 and CHEBI:39327.
imported from: chebi.owl

alpha-cypermethrin
type: Class
subclass of: racemate
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A racemate comprising equimolar amounts of (1R)-cis-(alphaS)- and (1S)-cis-(alphaR)-cypermethrin.
alternative label: alpha-Cypermethrin
imported from: chebi.owl

beta-cypermethrin
type: Class
subclass of: chemical substance
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A diastereoisomeric mixture comprising the enantiomeric pair (1R)-cis-(alphaS)- and (1S)-cis-(alphaR)-cypermethrin in ratio approximately 2:3 with the enantiomeric pair (1S)-trans-(alphaR)- and (1R)-trans-(alphaS)-cypermethrin.
alternative label: beta-Cypermethrin
imported from: chebi.owl

chlorfenapyr
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A member of the class of pyrroles that is 4-bromo-1H-pyrrole-3-carbonitrile which is substituted at positions 1, 2 and 5 by ethoxymethyl, p-chlorophenyl and trifluoromethyl groups, respectively. A proinsecticide used for termite control and crop protection against several insects and mite pests.
alternative label: 4-bromo-2-(4-chlorophenyl)-1-(ethoxymethyl)-5-(trifluoromethyl)-1H-pyrrole-3-carbonitrile
alternative label: Chlorfenapyr
imported from: chebi.owl

etofenprox
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ether insecticide
definition: An aromatic ether that is the 3-phenoxybenzyl ether of 2-(4-ethoxyphenyl)-2-methylpropan-1-ol.
alternative label: 1-{[2-(4-ethoxyphenyl)-2-methylpropoxy]methyl}-3-phenoxybenzene
imported from: chebi.owl

pyrethroid ether insecticide
type: Class
subclass of: pyrethroid insecticide
imported from: chebi.owl

tetramethrin
type: Class
subclass of: molecular entity
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
alternative label: (1,3-dioxo-1,3,4,5,6,7-hexahydro-2H-isoindol-2-yl)methyl 2,2-dimethyl-3-(2-methylprop-1-en-1-yl)cyclopropanecarboxylate
imported from: chebi.owl

cyfluthrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ether insecticide
definition: A carboxylic ester obtained by formal condensation between 3-(2,2-dichloroethenyl)-2,2-dimethylcyclopropanecarboxylic acid and (4-fluoro-3-phenoxyphenyl)(hydroxy)acetonitrile.
alternative label: Cyfluthrin
alternative label: cyano(4-fluoro-3-phenoxyphenyl)methyl 3-(2,2-dichloroethenyl)-2,2-dimethylcyclopropanecarboxylate
imported from: chebi.owl

cyhalothrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A carboxylic ester obtained by formal condensation between 3-(2-chloro-3,3,3-trifluoroprop-1-en-1-yl)-2,2-dimethylcyclopropanecarboxylic acid and cyano(3-phenoxyphenyl)methanol.
alternative label: Cyhalothrin
alternative label: cyano(3-phenoxyphenyl)methyl 3-[(1Z)-2-chloro-3,3,3-trifluoroprop-1-en-1-yl]-2,2-dimethylcyclopropanecarboxylate
imported from: chebi.owl

cypermethrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A carboxylic ester resulting from the formal condensation between 3-(2,2-dichlorovinyl)-2,2-dimethylcyclopropanecarboxylic acid and the alcoholic hydroxy group of hydroxy(3-phenoxyphenyl)acetonitrile.
alternative label: Cypermethrin
alternative label: cyano(3-phenoxyphenyl)methyl 3-(2,2-dichloroethenyl)-2,2-dimethylcyclopropanecarboxylate
imported from: chebi.owl

(S)-lactic acid
type: Class
subclass of: molecular entity
definition: An optically active form of lactic acid having (S)-configuration.
alternative label: (2S)-2-hydroxypropanoic acid
imported from: chebi.owl

deltamethrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
definition: A cyclopropanecarboxylate ester obtained by formal condensation between 3-(2,2-dibromovinyl)-2,2-dimethylcyclopropanecarboxylic acid and cyano(3-phenoxyphenyl)methanol. It is the active insecticide of the proinsecticide tralomethrin.
alternative label: (S)-cyano(3-phenoxyphenyl)methyl (1R,3R)-3-(2,2-dibromoethenyl)-2,2-dimethylcyclopropanecarboxylate
alternative label: Deltamethrin
imported from: chebi.owl

(15Z)-tetracosenoic acid
type: Class
subclass of: fatty acid
definition: A tetracosenoic acid having a cis-double bond at position 15.
alternative label: (15Z)-Tetracosenoic acid
alternative label: (15Z)-tetracos-15-enoic acid
imported from: chebi.owl

fluconazole
type: Class
subclass of: triazoles
subclass of: Restriction
  on property: has role
  some values from: antifungal drug
VEuPathDB alternative label: Fluconazole
definition: A member of the class of triazoles that is propan-2-ol substituted at position 1 and 3 by 1H-1,2,4-triazol-1-yl groups and at position 2 by a 2,4-difluorophenyl group. It is an antifungal drug used for the treatment of mucosal candidiasis and for systemic infections including systemic candidiasis, coccidioidomycosis, and cryptococcosis.
alternative label: 2-(2,4-difluorophenyl)-1,3-bis-(1H-1,2,4-triazol-1-yl)propan-2-ol
alternative label: fluconazole
imported from: chebi.owl

solvent
type: Class
subclass of: role
definition: A liquid that can dissolve other substances (solutes) without any change in their chemical composition.
imported from: chebi.owl

caspofungin
type: Class
subclass of: peptide
VEuPathDB alternative label: Caspofungin
definition: A semisynthetic cyclic hexapeptide echinocandin antibiotic which exerts its effect by inhibiting the synthesis of 1,3-beta-D-glucan, an integral component of the fungal cell wall.
alternative label: (10R,12S)-N-{(2R,6S,9S,11R,12S,14aS,15S,20S,23S,25aS)-12-[(2-aminoethyl)amino]-20-[(1R)-3-amino-1-hydroxypropyl]-23-[(1S,2S)-1,2-dihydroxy-2-(4-hydroxyphenyl)ethyl]-2,11,15-trihydroxy-6-[(1R)-1-hydroxyethyl]-5,8,14,19,22,25-hexaoxotetracosahydro-1H-dipyrrolo[2,1-c:2',1'-l][1,4,7,10,13,16]hexaazacyclohenicosin-9-yl}-10,12-dimethyltetradecanamide
alternative label: Caspofungin
imported from: chebi.owl

ergometrine
type: Class
subclass of: molecular entity
definition: A monocarboxylic acid amide that is lysergamide in which one of the hydrogens attached to the amide nitrogen is substituted by a 1-hydroxypropan-2-yl group (S-configuration). An ergot alkaloid that has a particularly powerful action on the uterus, its maleate (and formerly tartrate) salt is used in the active management of the third stage of labour, and to prevent or treat postpartum of postabortal haemorrhage caused by uterine atony: by maintaining uterine contraction and tone, blood vessels in the uterine wall are compressed and blood flow reduced.
alternative label: Ergometrine
alternative label: N-[(2S)-1-hydroxypropan-2-yl]-6-methyl-9,10-didehydroergoline-8beta-carboxamide
imported from: chebi.owl

erythromycin
type: Class
subclass of: macrolide
subclass of: Restriction
  on property: has role
  some values from: antimicrobial agent
definition: Any of several wide-spectrum macrolide antibiotics obtained from actinomycete Saccharopolyspora erythraea (formerly known as Streptomyces erythraeus).
imported from: chebi.owl

cloxacillin
type: Class
subclass of: penicillin
definition: A semisynthetic penicillin antibiotic carrying a 3-(2-chlorophenyl)-5-methylisoxazole-4-carboxamido group at position 6.
alternative label: 2,2-dimethyl-6beta-({[5-methyl-3-(2-chlorophenyl)isoxazol-4-yl]carbonyl}amino)penam-3alpha-carboxylic acid
alternative label: CLOXACILLIN
alternative label: Cloxacillin
imported from: chebi.owl

retinol
type: Class
subclass of: molecular entity
definition: A retinoid consisting of 3,7-dimethylnona-2,4,6,8-tetraen-1-ol substituted at position 9 by a 2,6,6-trimethylcyclohex-1-en-1-yl group (geometry of the four exocyclic double bonds is not specified).
alternative label: 3,7-dimethyl-9-(2,6,6-trimethylcyclohex-1-en-1-yl)nona-2,4,6,8-tetraen-1-ol
alternative label: retinol
imported from: chebi.owl

fipronil
type: Class
subclass of: racemate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A racemate comprising equimolar amounts of (R)- and (S)-fipronil.
alternative label: Fipronil
alternative label: rac-5-amino-1-[2,6-dichloro-4-(trifluoromethyl)phenyl]-4-[(trifluoromethyl)sulfinyl]-1H-pyrazole-3-carbonitrile
imported from: chebi.owl

pivmecillinam
type: Class
subclass of: penicillin
definition: A penicillanic acid ester that is the [(2,2-dimethylpropanoyl)oxy]methyl ester and prodrug of mecillinam.
alternative label: [(2,2-dimethylpropanoyl)oxy]methyl 6beta-[(azepan-1-ylmethylidene)amino]-2,2-dimethylpenam-3alpha-carboxylate
imported from: chebi.owl

all-cis-icosa-8,11,14-trienoic acid
type: Class
subclass of: fatty acid
definition: An icosatrienoic acid having three cis double bonds at positions 8, 11 and 14.
alternative label: (8Z,11Z,14Z)-icosa-8,11,14-trienoic acid
imported from: chebi.owl

(7Z,10Z,13Z,16Z,19Z)-docosapentaenoic acid
type: Class
subclass of: fatty acid
definition: The all-cis-isomer of a C22 polyunsaturated fatty acid having five double bonds in the 7-, 10-, 13-, 16- and 19-positions.
alternative label: (7Z,10Z,13Z,16Z,19Z)-docosa-7,10,13,16,19-pentaenoic acid
imported from: chebi.owl

anidulafungin
type: Class
subclass of: peptide
VEuPathDB alternative label: Anidulafungin
definition: A semisynthetic echinocandin anti-fungal drug. It is active against Aspergillus and Candida species and is used for the treatment of invasive candidiasis.
alternative label: N-{(2R,6S,9S,11R,12R,14aS,15S,16S,20S,23S,25aS)-23-[(1S,2S)-1,2-dihydroxy-2-(4-hydroxyphenyl)ethyl]-2,11,12,15-tetrahydroxy-6,20-bis[(1R)-1-hydroxyethyl]-16-methyl-5,8,14,19,22,25-hexaoxotetracosahydro-1H-dipyrrolo[2,1-c:2',1'-l][1,4,7,10,13,16]hexaazacyclohenicosin-9-yl}-4''-(pentyloxy)-1,1':4',1''-terphenyl-4-carboxamide
imported from: chebi.owl

hydroxychloroquine
type: Class
subclass of: quinolines
subclass of: Restriction
  on property: has role
  some values from: antimalarial
definition: An aminoquinoline that is chloroquine in which one of the N-ethyl groups is hydroxylated at position 2. An antimalarial with properties similar to chloroquine that acts against erythrocytic forms of malarial parasites, it is mainly used as the sulfate salt for the treatment of lupus erythematosus, rheumatoid arthritis, and light-sensitive skin eruptions.
alternative label: 2-[{4-[(7-chloroquinolin-4-yl)amino]pentyl}(ethyl)amino]ethanol
imported from: chebi.owl

imidacloprid
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: neonicotinoid insectide
definition: An imidazolidine that is N-nitroimidazolidin-2-imine bearing a (6-chloro-3-pyridinyl)methyl substituent at position 1.
alternative label: 1-[(6-chloropyridin-3-yl)methyl]-N-nitroimidazolidin-2-imine
alternative label: Imidacloprid
imported from: chebi.owl

palmitelaidic acid
type: Class
subclass of: fatty acid
definition: A straight-chain, monounsaturated, 16-carbon fatty acid with a trans-double bond at position C-9; the trans-isomer of palmitoleic acid and predominant trans-16:1 isomer in cheeses from goat and ewe milk. Major dietary sources are partly hydrogenated vegetable oils.
alternative label: (9E)-hexadec-9-enoic acid
imported from: chebi.owl

chemical substance
type: Class
subclass of: chemical entity
definition: A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types.
imported from: chebi.owl

micafungin
type: Class
subclass of: peptide
VEuPathDB alternative label: Micafungin
definition: A cyclic hexapeptide echinocandin antibiotic which exerts its effect by inhibiting the synthesis of 1,3-beta-D-glucan, an integral component of the fungal cell wall. It is used as the sodium salt for the treatment of invasive candidiasis, and of aspergillosis in patients who are intolerant of other therapy.
alternative label: 5-[(1S,2S)-2-{(2R,6S,9S,11R,12R,14aS,15S,16S,20S,23S,25aS)-20-[(1R)-3-amino-1-hydroxy-3-oxopropyl]-2,11,12,15-tetrahydroxy-6-[(1R)-1-hydroxyethyl]-16-methyl-5,8,14,19,22,25-hexaoxo-9-[(4-{5-[4-(pentyloxy)phenyl]isoxazol-3-yl}benzoyl)amino]tetracosahydro-1H-dipyrrolo[2,1-c:2',1'-l][1,4,7,10,13,16]hexaazacyclohenicosin-23-yl}-1,2-dihydroxyethyl]-2-hydroxyphenyl hydrogen sulfate
alternative label: 5.1:6-anhydro{(4R,5R)-4,5-dihydroxy-N(2)-(4-{5-[4-(pentyloxy)phenyl]isoxazol-3-yl}benzoyl)-L-ornithyl-L-threonyl-(4R)-4-hydroxy-L-prolyl-(4S)-4-hydroxy-4-[4-hydroxy-3-(sulfooxy)phenyl]-L-threonyl-(3R)-3-hydroxy-L-glutaminyl-(3S,4S)-3-hydroxy-4-methyl-L-proline}
imported from: chebi.owl

itraconazole
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: antifungal drug
VEuPathDB alternative label: Itraconazole
definition: An N-arylpiperazine that is cis-ketoconazole in which the imidazol-1-yl group is replaced by a 1,2,4-triazol-1-yl group and in which the actyl group attached to the piperazine moiety is replaced by a p-[(+-)1-sec-butyl-5-oxo-1,5-dihydro-4H-1,2,4-triazol-4-yl]phenyl group. A potent P-glycoprotein and CYP3A4 inhibitor, it is used as an antifungal drug for the treatment of various fungal infections, including aspergillosis, blastomycosis, candidiasis, chromoblastomycosis, coccidioidomycosis, cryptococcosis, histoplasmosis, and sporotrichosis.
alternative label: 2-(butan-2-yl)-4-{4-[4-(4-{[(2R,4S)-2-(2,4-dichlorophenyl)-2-(1H-1,2,4-triazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy}phenyl)piperazin-1-yl]phenyl}-2,4-dihydro-3H-1,2,4-triazol-3-one
alternative label: Itraconazole
alternative label: itraconazole
imported from: chebi.owl

racemate
type: Class
subclass of: chemical substance
definition: A racemate is an equimolar mixture of a pair of enantiomers.
imported from: chebi.owl

docosatetraenoic acid
type: Class
subclass of: fatty acid
definition: Any straight-chain, C22 fatty acid having four C=C double bonds.
imported from: chebi.owl

lactulose
type: Class
subclass of: carbohydrate
definition: A synthetic galactosylfructose disaccharide used in the treatment of constipation and hepatic encephalopathy.
alternative label: 4-O-beta-D-galactopyranosyl-beta-D-fructofuranose
alternative label: Lactulose
imported from: chebi.owl

mefloquine
type: Class
subclass of: racemate
subclass of: Restriction
  on property: has role
  some values from: antimalarial
VEuPathDB alternative label: Mefloquine
definition: A racemate composed of (+)-(11R,2'S)- and (-)-(11S,2'R)-enantiomers of mefloquine. An antimalarial agent which acts as a blood schizonticide; its mechanism of action is unknown.
alternative label: rac--(R)-[2,8-bis(trifluoromethyl)quinolin-4-yl][(2S)-piperidin-2-yl]methanol
imported from: chebi.owl

posaconazole
type: Class
subclass of: triazoles
subclass of: Restriction
  on property: has role
  some values from: antifungal drug
VEuPathDB alternative label: Posaconazole
definition: An N-arylpiperazine that consists of piperazine carrying two 4-substituted phenyl groups at positions 1 and 4. A triazole antifungal drug.
alternative label: 2,5-anhydro-1,3,4-trideoxy-2-(2,4-difluorophenyl)-4-({4-[4-(4-{1-[(2S,3S)-2-hydroxypentan-3-yl]-5-oxo-1,5-dihydro-4H-1,2,4-triazol-4-yl}phenyl)piperazin-1-yl]phenoxy}methyl)-1-(1H-1,2,4-triazol-1-yl)-D-threo-pentitol
alternative label: posaconazole
imported from: chebi.owl

(4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoic acid
type: Class
subclass of: fatty acid
definition: The all-cis-isomer of a C22 polyunsaturated fatty acid having five double bonds in the 4-, 7-, 10-, 13- and 16-positions. It is a member of n-6 PUFA and a product of linoleic acid metabolism.
alternative label: (4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoic acid
imported from: chebi.owl

malaoxon
type: Class
subclass of: racemate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A racemate comprising equimolar amounts of (R) and (S)-malaoxon. It is the active insecticide of the proinsecticide malathion.
alternative label: rac-diethyl 2-[(dimethoxyphosphoryl)thio]succinate
imported from: chebi.owl

malathion
type: Class
subclass of: racemate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A racemate comprising equimolar amounts of (R) and (S)-malathion. It is a broad spectrum organophosphate proinsecticide used to control a wide range of pests including Coleoptera, Diptera, fruit flies, mosquitos and spider mites.
alternative label: Malathion
alternative label: rac-diethyl 2-[(dimethoxyphosphorothioyl)thio]succinate
imported from: chebi.owl

insect sterilant
type: Class
subclass of: insecticide
definition: A chemosterilant intended to sterilize insects.
imported from: chebi.owl

methoxychlor
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: insecticide
alternative label: 1,1'-(2,2,2-trichloroethane-1,1-diyl)bis(4-methoxybenzene)
alternative label: Methoxychlor
imported from: chebi.owl

azole
type: Class
subclass of: molecular entity
definition: Any monocyclic heteroarene consisting of a five-membered ring containing nitrogen. Azoles can also contain one or more other non-carbon atoms, such as nitrogen, sulfur or oxygen.
imported from: chebi.owl

trichlorfon
type: Class
subclass of: phosphate
subclass of: Restriction
  on property: has role
  some values from: insecticide
definition: A phosphonic ester that is dimethyl phosphonate in which the hydrogen atom attched to the phosphorous is substituted by a 2,2,2-trichloro-1-hydroxyethyl group.
alternative label: Trichlorfon
alternative label: dimethyl (2,2,2-trichloro-1-hydroxyethyl)phosphonate
imported from: chebi.owl

metronidazole
type: Class
subclass of: azole
definition: A member of the class of imidazoles substituted at C-1, -2 and -5 with 2-hydroxyethyl, nitro and methyl groups respectively. It has activity against anaerobic bacteria and protozoa, and has a radiosensitising effect on hypoxic tumour cells. It may be given by mouth in tablets, or as the benzoate in an oral suspension. The hydrochloride salt can be used in intravenous infusions. Metronidazole is a prodrug and is selective for anaerobic bacteria due to their ability to intracellularly reduce the nitro group of metronidazole to give nitroso-containing intermediates. These can covalently bind to DNA, disrupting its helical structure, inducing DNA strand breaks and inhibiting bacterial nucleic acid synthesis, ultimately resulting in bacterial cell death.
alternative label: 2-(2-methyl-5-nitro-1H-imidazol-1-yl)ethanol
imported from: chebi.owl

icosadienoic acid
type: Class
subclass of: fatty acid
definition: A 20-carbon, polyunsaturated fatty acid having two double bonds at unspecified positions.
imported from: chebi.owl

linoelaidic acid
type: Class
subclass of: fatty acid
definition: An octadecadienoic acid containing two E (trans) double bonds at positions 9 and 12.
alternative label: (9E,12E)-octadeca-9,12-dienoic acid
imported from: chebi.owl

Chlorphoxim
type: Class
subclass of: phosphate
imported from: chebi.owl

primaquine
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: antimalarial
VEuPathDB alternative label: Primaquine
definition: An N-substituted diamine that is pentane-1,4-diamine substituted by a 6-methoxyquinolin-8-yl group at the N(4) position. It is a drug used in the treatment of malaria and Pneumocystis pneumonia.
alternative label: N(4)-(6-methoxyquinolin-8-yl)pentane-1,4-diamine
imported from: chebi.owl

antifungal drug
type: Class
subclass of: drug
definition: Any antifungal agent used to prevent or treat fungal infections in humans or animals.
imported from: chebi.owl

(R)-salbutamol
type: Class
subclass of: albuterol
alternative label: 4-[(1R)-2-(tert-butylamino)-1-hydroxyethyl]-2-(hydroxymethyl)phenol
imported from: chebi.owl

ranitidine
type: Class
subclass of: molecular entity
VEuPathDB alternative label: Ranitidine type
definition: A member of the class of furans used to treat peptic ulcer disease (PUD) and gastroesophageal reflux disease.
alternative label: (E)-N-{2-[({5-[(dimethylamino)methyl]-2-furyl}methyl)sulfanyl]ethyl}-N'-methyl-2-nitroethene-1,1-diamine
imported from: chebi.owl

resmethrin
type: Class
subclass of: aromatic compound
subclass of: Restriction
  on property: has role
  some values from: pyrethroid ester insecticide
alternative label: (5-benzylfuran-3-yl)methyl 2,2-dimethyl-3-(2-methylprop-1-en-1-yl)cyclopropanecarboxylate
alternative label: Resmethrin
imported from: chebi.owl

ketotifen
type: Class
subclass of: molecular entity
VEuPathDB alternative label: Ketotifen
definition: An organic heterotricyclic compound that is 4,9-dihydro-10H-benzo[4,5]cyclohepta[1,2-b]thiophen-10-one which is substituted at position 4 by a 1-methylpiperidin-4-ylidene group. A blocker of histamine H1 receptors with a stabilising action on mast cells, it is used (usually as its hydrogen fumarate salt) for the treatment of asthma, where it may take several weeks to exert its full effect.
alternative label: 4-(1-methylpiperidin-4-ylidene)-4,9-dihydro-10H-benzo[4,5]cyclohepta[1,2-b]thiophen-10-one
imported from: chebi.owl

negative COVID-19 diagnosis conclusion
type: Class
subclass of: OGMS_0000073
definition: The representation of a negative conclusion of a diagnostic process for the COVID-19 coronavirus disease.
alternative label: negative COVID-19 diagnosis
imported from: cido.owl

cell
type: Class
subclass of: UBERON_0000061
definition: A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.
imported from: cl.owl

native cell
type: Class
subclass of: cell
definition: A cell that is found in a natural setting, which includes multicellular organism cells 'in vivo' (i.e. part of an organism), and unicellular organisms 'in environment' (i.e. part of a natural environment).
imported from: cl.owl

cultured cell
type: Class
subclass of: cell in vitro
definition: A cell in vitro that is or has been maintained or propagated as part of a cell culture.
imported from: cl.owl

granulocyte
type: Class
subclass of: leukocyte
definition: A leukocyte with abundant granules in the cytoplasm.
imported from: cl.owl

erythrocyte
type: Class
subclass of: native cell
definition: A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen.
imported from: cl.owl

macrophage
type: Class
subclass of: leukocyte
definition: A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells.
imported from: cl.owl

monocyte
type: Class
subclass of: leukocyte
definition: Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells.
imported from: cl.owl

leukocyte
type: Class
subclass of: native cell
definition: An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue.
imported from: cl.owl

basophil
type: Class
subclass of: granulocyte
definition: Any of the immature or mature forms of a granular leukocyte that in its mature form has an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse, bluish-black granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation. A basophil is CD123-positive, CD193-positive, CD203c-positive, and FceRIa-positive.
imported from: cl.owl

neutrophil
type: Class
subclass of: granulocyte
definition: Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes.
imported from: cl.owl

cell in vitro
type: Class
subclass of: cell
definition: A cell that is maintained or propagated in a controlled artificial environment for use in an investigation.
imported from: cl.owl

diastolic blood pressure
type: Class
subclass of: IAO_0000032
definition: The minimum arterial pressure within the cardiac cycle, usually at the point at which the heart is in a state of relaxation and expansion. This is the time when the ventricles fill with blood.
imported from: cmo.owl

body morphological measurement
type: Class
subclass of: IAO_0000109
definition: Measurement of the structure or forms of the entire body or parts of the body of an organism.
imported from: cmo.owl

blood hemoglobin level
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Hemoglobin
definition: The amount of hemoglobin in a specific volume of blood, expressed as grams per deciliter of whole blood in humans.
imported from: cmo.owl

white blood cell count
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: White blood cells
definition: The number of white blood cells in a specified volume of blood.
imported from: cmo.owl

body mass index (BMI)
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: BMI
definition: A measurement relating body weight to height in an organism; typically calculated as the weight of an individual divided by the height of that individual squared. For quadrupeds, the square of body height is often replaced by the square of body length.
imported from: cmo.owl

forced expiratory volume
type: Class
subclass of: IAO_0000109
definition: Fraction of forced vital capacity that is exhaled in a specific number of seconds.
imported from: cmo.owl

respiration rate
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Respiratory rate
definition: The number of breaths taken by an organism per unit of time.
imported from: cmo.owl

partial pressure of blood oxygen (Po2)
type: Class
subclass of: IAO_0000032
definition: The force per unit area attributable to the oxygen, the chemical element with atomic number 8 which is the essential agent in the respiration of plants and animals, dissolved in a specified volume of blood, defined as the force per unit area exerted by oxygen in a mixture of gases in equilibrium with such a sample of blood at the same temperature.
imported from: cmo.owl

urine protein level
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Urine protein
imported from: cmo.owl

disease of metabolism
type: Class
subclass of: disease
definition: A disease that involving errors in metabolic processes of building or degradation of molecules.
imported from: doid.owl

bacterial sepsis
type: Class
subclass of: bacterial infectious disease
definition: A bacterial infectious disease has_material_basis_in Bacteria.
imported from: doid.owl

chikungunya
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results_in infection located_in joint, has_material_basis_in Chikungunya virus, which is transmitted_by Aedes mosquito bite. The infection has_symptom fever, has_symptom arthralgia, and has_symptom maculopapular rash.
imported from: doid.owl

disease by infectious agent
type: Class
subclass of: disease
definition: A disease that is the consequence of the presence of pathogenic microbial agents, including pathogenic viruses, pathogenic bacteria, fungi, protozoa, multicellular parasites, and aberrant proteins known as prions.
imported from: doid.owl

cutaneous mycosis
type: Class
subclass of: fungal infectious disease
definition: A fungal infectious disease that results_in infection of the keratinized layers located_in skin, located_in hair or located_in nail, which extends deeper into the epidermis, has_material_basis_in Fungi and results_in_formation_of skin lesions.
imported from: doid.owl

sensory system disease
type: Class
subclass of: nervous system disease
definition: A nervous system disease which is located in a part of the nervous system responsible for processing sensory information that consists of sensory receptors, neural pathways, and parts of the brain involved in sensory perception. Commonly recognized sensory systems are those for vision, hearing, somatic sensation (touch), taste and olfaction (smell).
imported from: doid.owl

lower respiratory tract disease
type: Class
subclass of: respiratory system disease
definition: A respiratory system disease which involves the lower respiratory tract.
imported from: doid.owl

penicilliosis
type: Class
subclass of: opportunistic mycosis
definition: An opportunistic mycosis that has_material_basis_in Penicillium marneffei, results_in systemic infection and has_symptom fever, has_symptom anemia, has_symptom weight loss, has_symptom lymphadenopathy, has_symptom hepatosplenomegaly, has_symptom respiratory signs, and has_symptom skin lesions.
imported from: doid.owl

primary bacterial infectious disease
type: Class
subclass of: bacterial infectious disease
definition: A bacterial infectious disease that results_in infection by bacteria as a result of their presence or activity within the normal, healthy host, and their intrinsic virulence is, in part, a necessary consequence of their need to reproduce and spread.
imported from: doid.owl

exanthem
type: Class
subclass of: skin disease
VEuPathDB alternative label: Rash
definition: A skin disease that is characterized by a rash that results from a variety of causes including bacteria, viruses, toxins, drugs and autoimmune disorders.
imported from: doid.owl

extrapulmonary tuberculosis
type: Class
subclass of: tuberculosis
definition: A tuberculosis that occurs at body sites other than the lung.
imported from: doid.owl

autoimmune disease of musculoskeletal system
type: Class
subclass of: musculoskeletal system disease
subclass of: immune system disease
definition: An autoimmune disease that is the abnormal functioning of the immune system that causes your immune system to produce antibodies or T cells against cells and/or tissues in the musculoskeletal system.
imported from: doid.owl

autoimmune disease of skin and connective tissue
type: Class
subclass of: autoimmune disease of musculoskeletal system
subclass of: skin disease
subclass of: connective tissue disease
definition: An autoimmune disease that is the abnormal functioning of the immune system that causes your immune system to produce antibodies or T cells against cells and/or tissues in the skin and connective tissue.
imported from: doid.owl

angular cheilitis
type: Class
subclass of: lip disease
definition: A cheilitis characterized by inflammation of one or both of the corners of the mouth.
imported from: doid.owl

inguinal hernia
type: Class
subclass of: intestinal disease
definition: An intestinal disease characterized by a protrusion of abdominal cavity contests through the inguinal canal.
imported from: doid.owl

mastoiditis
type: Class
subclass of: bone inflammation disease
subclass of: middle ear disease
definition: A middle ear disease characterized by an inflammation of the mucosal lining of the mastoid antrum and the mastoid air cell system inside the mastoid process.
imported from: doid.owl

dental abscess
type: Class
subclass of: tooth disease
definition: A tooth disease characterized by a localized collection of pus associated with a tooth.
imported from: doid.owl

bone disease
type: Class
subclass of: connective tissue disease
definition: A connective tissue disease that affects the structure or development of bone or causes an impairment of normal bone function.
imported from: doid.owl

physical disorder
type: Class
subclass of: disease
definition: A disease that has_material_basis_in a genetic abnormality, error with embryonic development, infection or compromised intrauterine environment.
imported from: doid.owl

neural tube defect
type: Class
subclass of: physical disorder
definition: A physical disorder characterized by incomplete closure of the neural tube.
imported from: doid.owl

pemphigoid
type: Class
subclass of: autoimmune disease of skin and connective tissue
subclass of: dermatitis
definition: An autoimmune disease of skin and connective tissue that is characterized by subepidermal blistering especially in the lower abdomen, groin, and flexor surfaces of the extremities, creating tense blisters that do not break easily.
imported from: doid.owl

sensorineural hearing loss
type: Class
subclass of: auditory system disease
definition: An inner ear disease that is characterized by hearing loss resulting from damage to the cochlea, auditory nerve and/or brainstem.
imported from: doid.owl

osteomyelitis
type: Class
subclass of: bacterial infectious disease
subclass of: fungal infectious disease
subclass of: bone inflammation disease
definition: A bone inflammation disease that has_material_basis_in infection located_in bone or located_in bone marrow.
imported from: doid.owl

mumps
type: Class
subclass of: salivary gland disease
subclass of: herpangina
definition: A viral infectious disease that results in inflammation located in salivary gland, has_material_basis_in Mumps rubulavirus, which is transmitted by droplet spread of saliva or mucus from the mouth, nose, or throat of an infected person, or transmitted by contaminated fomites. The infection has symptom fever, has symptom headache, has symptom muscle aches, has symptom tiredness, has symptom loss of appetite, has symptom swollen and tender salivary glands under the ears or jaw on one or both sides of the face.
imported from: doid.owl

parotitis
type: Class
subclass of: salivary gland disease
definition: A parotid disease characterized by the inflammation of one or both parotid glands.
imported from: doid.owl

bacterial infectious disease
type: Class
subclass of: disease by infectious agent
definition: A disease by infectious agent that results_in infection, has_material_basis_in Bacteria.
imported from: doid.owl

tonsillitis
type: Class
subclass of: upper respiratory tract disease
definition: An upper respiratory tract disease which is characterized by inflammation of the tonsils resulting from bacterial (Group A streptococcus) and viral (Epstein-Barr virus, adenovirus) infections. Symptoms include a severe sore throat, painful or difficult swallowing, coughing, headache, myalgia, fever and chills.
imported from: doid.owl

common cold
type: Class
subclass of: upper respiratory tract disease
definition: An upper respiratory tract disease which involves inflammation of the mucous membranes of the nose, throat, eyes, and eustachian tubes with watery then purulent discharge. This is an acute contagious disease caused by rhinoviruses, human parainfluenza viruses, human respiratory syncytial virus, influenza viruses, adenoviruses, enteroviruses, or metapneumovirus.
imported from: doid.owl

kidney failure
type: Class
subclass of: urinary system disease
VEuPathDB alternative label: Renal failure
definition: A kidney disease characterized by the failure of the kidneys to adequately filter waste products from the blood.
imported from: doid.owl

otitis media
type: Class
subclass of: middle ear disease
definition: A otitis which involves inflammation of the middle ear.
imported from: doid.owl

salivary gland disease
type: Class
subclass of: mouth disease
definition: A mouth disease located_in the salivary gland.
imported from: doid.owl

herpangina
type: Class
subclass of: mouth disease
subclass of: viral infectious disease
definition: A viral infectious disease that results in infection located in mouth, has_material_basis_in Human coxsackievirus A16, Human enterovirus 71, group B coxsackievirus, or echoviruses, which are transmitted by ingestion of food contaminated with feces, transmitted by contact with pharyngeal secretions, or transmitted by droplet spread of oronasal secretions. The infection has symptom fever, has symptom sore throat, and has symptom lesions in the back area of the mouth, particularly the soft palate or tonsillar pillars.
imported from: doid.owl

tooth disease
type: Class
subclass of: mouth disease
definition: A mouth disease located_in the teeth.
imported from: doid.owl

sickle cell anemia
type: Class
subclass of: genetic disease
subclass of: hematopoietic system disease
definition: A blood protein disease that is characterized by low number of red blood cells, repeated infections, and periodic episodes of pain, resulting from atypical hemoglobin molecules called hemoglobin S, which can distort red blood cells into a sickle, or crescent, shape.
imported from: doid.owl

fetal erythroblastosis
type: Class
subclass of: anemia
imported from: doid.owl

meconium aspiration syndrome
type: Class
subclass of: lung disease
definition: A lung disease that is characterized by a newborn breathing in a mixture of meconium and amniotic fluid into the lungs around the time of delivery.
imported from: doid.owl

respiratory failure
type: Class
subclass of: lung disease
definition: A lung disease characterized by inadequate gas exchange by the respiratory system.
imported from: doid.owl

tetanus
type: Class
subclass of: primary bacterial infectious disease
definition: A primary bacterial infectious disease that results in prolonged contraction of skeletal muscle fibers, has_material_basis_in Clostridium tetani, which produces tetanospasmin, a neurotoxin, which is carried to the brain and spinal cord, where it binds irreversibly to receptors inhibiting neurotransmission. Damaged upper motor neurons cannot control reflex responses to afferent sensory stimuli.
imported from: doid.owl

pneumocystosis
type: Class
subclass of: opportunistic mycosis
subclass of: lung disease
definition: An opportunistic mycosis that is located in lungs, but can also occur in eyes, ears, skin, thyroid, pituitary, palate, parathyroid, esophagus, pleura, heart, liver, spleen, small intestine, adrenals, kidneys, bone marrow, and lymph nodes, has_material_basis_in Pneumocystis jirovecii that effects interstitial and alveolar tissues and has symptom nonproductive cough, has symptom shortness of breath, and has symptom fever.
imported from: doid.owl

adult respiratory distress syndrome
type: Class
subclass of: respiratory failure
VEuPathDB alternative label: Acute respiratory distress syndrome
definition: A respiratory failure that results from diffuse injury to the endothelium of the lung (as in sepsis, chest trauma, massive blood transfusion, aspiration of the gastric contents, or pneumonia) and is characterized by pulmonary edema with an abnormally high amount of protein in the edematous fluid and by difficult rapid breathing and hypoxemia.
imported from: doid.owl

bronchial disease
type: Class
subclass of: lower respiratory tract disease
definition: A lower respiratory tract disease that affects the airways leading into the lungs, which is caused due to inflammation of the bronchi and bronchioles, infection, or blockage.
imported from: doid.owl

protein-energy malnutrition
type: Class
subclass of: nutritional deficiency disease
definition: A nutritional deficiency disease that is characterized by inadequate dietary protein and calories, which can have profound systemic effects including decreased metabolism, altered tissue distribution, compromised immunity, and impaired growth, and has_material_basis_in dietary deprivation.
imported from: doid.owl

dengue disease
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results in infection, has_material_basis_in Dengue virus [NCBITaxon:12637] with four serotypes (Dengue virus 1, 2, 3 and 4), which are transmitted by Aedes mosquito bite. The infection has symptom fever, has symptom severe headache, has symptom severe pain behind the eyes, has symptom joint pain, has symptom muscle and bone pain, has symptom rash, and has symptom mild bleeding.
imported from: doid.owl

neutropenia
type: Class
subclass of: hematopoietic system disease
imported from: doid.owl

marasmus
type: Class
subclass of: protein-energy malnutrition
VEuPathDB alternative label: Marasmus
definition: A protein-energy malnutrition that is characterized by severe caloric deprivation, has_symptom emaciation, decreased height and weight gain, and decreased metabolism with hypothermia, bradycardia, and constipation, and has_material_basis_in severe caloric deprivation.
imported from: doid.owl

malaria
type: Class
subclass of: parasitic protozoa infectious disease
VEuPathDB alternative label: Malaria
definition: A parasitic protozoa infectious disease characterized as a vector-borne infectious disease caused by the presence of protozoan parasites of the genus Plasmodium in the red blood cells, transmitted from an infected to an uninfected individual by the bite of anopheline mosquitoes, and characterized by periodic attacks of chills and fever that coincide with mass destruction of blood cells and the release of toxic substances by the parasite at the end of each reproductive cycle.
imported from: doid.owl

dysentery
type: Class
subclass of: intestinal disease
definition: An intestinal infectious disease that involves inflammation of the intestines, especially colon, due to chemical irritants, bacteria, protozoa, or parasitic worms, which results in severe diarrhea with passage of mucus and blood.
imported from: doid.owl

respiratory syncytial virus infectious disease
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results_in infection located_in upper respiratory tract or located_in lower respiratory tract, has_material_basis_in Human respiratory syncytial virus, which is transmitted_by droplet spread of nasal secretions from an infected person while coughing or sneezing, or transmitted_by contaminated fomites. The infection has_symptom runny nose, has_symptom fever, has_symptom cough, has_symptom wheezing, and has_symptom respiratory distress.
imported from: doid.owl

rectal disease
type: Class
subclass of: intestinal disease
imported from: doid.owl

cardiovascular system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity which occurs in the blood, heart, blood vessels or the lymphatic system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells or lymph to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis.
imported from: doid.owl

paronychia
type: Class
subclass of: nail disease
definition: A nail disease characterized by often-tender bacterial or fungal hand infection or foot infection due to either bacteria or fungus (Candida albicans) where the nail and skin meet at the side or the base of a finger or toe nail. The infection can start suddenly (acute paronychia) or gradually (chronic paronychia). Puss is usually present, along with gradual thickening and browning discoloration of the nail plate.
imported from: doid.owl

acute cystitis
type: Class
subclass of: urinary system disease
definition: A cystitis characterized by a sudden onset or severe symptoms.
imported from: doid.owl

diarrhea
type: Class
subclass of: gastrointestinal system disease
VEuPathDB alternative label: Diarrheal disease
definition: A gastrointestinal system disease described as the condition of having frequent loose or liquid bowel movements. Acute diarrhea is a common cause of death in developing countries and the second most common cause of infant deaths worldwide. The loss of fluids through diarrhea can cause severe dehydration which is one cause of death in diarrhea sufferers. Along with water, sufferers also lose dangerous amounts of important salts, electrolytes, and other nutrients. There are at least four types of diarrhea: secretory diarrhea, osmotic diarrhea, motility-related diarrhea, and inflammatory diarrhea.
imported from: doid.owl

typhoid fever
type: Class
subclass of: primary bacterial infectious disease
definition: A primary bacterial infectious disease that is a communicable systemic illness, has_material_basis_in Salmonella enterica subsp enterica serovar Typhi, which is transmitted_by ingestion of food or water contaminated with the feces of an infected person. The infection has_symptom fever, has_symptom diarrhea, has_symptom prostration, has_symptom headache, has_symptom splenomegaly, has_symptom liver enlargement, has_symptom eruption of rose-colored spots, and has_symptom leukopenia.
imported from: doid.owl

scrub typhus
type: Class
subclass of: primary bacterial infectious disease
definition: A typhus that has_material_basis_in Orientia tsutsugamushi, which is transmitted by trombiculid mites (Leptotrombidium deliense). The infection has symptom fever, has symptom headache, has symptom muscle pain, has symptom cough, has symptom maculopapular rash, has symptom eschar, has symptom splenomegaly and has symptom lymphadenopathy.
imported from: doid.owl

kwashiorkor
type: Class
subclass of: protein-energy malnutrition
VEuPathDB alternative label: Kwashiorkor
definition: A protein-energy malnutrition that is characterized by severe lack of protein and edema or anasarca, has_symptom swelling, gastrointestinal upset, dehydration, thin dry skin, and cough, and has_material_basis_in severe deficit of protein, resulting in lack of albumin causing decreased oncotic pressure in the vasculature and increased activation of the renin-angiotensin axis and antidiuretic hormone.
imported from: doid.owl

schistosomiasis
type: Class
subclass of: parasitic helminthiasis infectious disease
VEuPathDB alternative label: Schistosomiasis
definition: A parasitic helminthiasis infectious disease that involves infection of the intestine, urinary tract, skin, liver and spleen caused by multiple species of the trematode fluke of the genus Schistosoma. The symptoms include fever, chills, nausea, abdominal pain, diarrhea, malaise, myalgia, liver and spleen enlargement, rash and hematuria.
imported from: doid.owl

parasitic infectious disease
type: Class
subclass of: disease by infectious agent
definition: A disease by infectious agent that is carried out by a parasite which by definition is a pathogen that simultaneously injures and derives sustenance from its host.
imported from: doid.owl

cerebral malaria
type: Class
subclass of: malaria
VEuPathDB alternative label: Cerebral
definition: A malaria that involves neurologic damage resulting from blockage of the blood vessels, caused due to the infection of the red blood cells by Plasmodium species.
imported from: doid.owl

glossitis
type: Class
subclass of: mouth disease
imported from: doid.owl

cholera
type: Class
subclass of: primary bacterial infectious disease
definition: A primary bacterial infectious disease that is described as an acute, diarrheal illness caused by infection of the intestine with the bacterium Vibrio cholerae, which is characterized by profuse watery diarrhea, vomiting, leg cramps, circulatory collapse and shock.
imported from: doid.owl

candidiasis
type: Class
subclass of: opportunistic mycosis
definition: An opportunistic mycosis that involves fungal infection of the mouth, throat, skin, scalp, vagina, fingers, nails, bronchi, lungs, heart and brain by Candida species, of which Candida albicans is the most common. Systemic Candida infections are usually confined to severely immunocompromised persons.
imported from: doid.owl

pleural disease
type: Class
subclass of: lower respiratory tract disease
definition: A thoracic disease which may involve inflammation of pleura, collection of air within the pleural cavity, abnormal collection of pleural fluid, abnormal growths on the pleura (pleural tumor) and pleural plaques. The main causes of pleural diseases including pleural effusions are congestive heart failure, malignancy, parapneumonic infections and pulmonary embolism.
imported from: doid.owl

urticaria
type: Class
subclass of: skin disease
definition: A skin disease characterized by skin rash notable for pale red, raised and itchy bumps, located_in the upper dermis.
imported from: doid.owl

fungal infectious disease
type: Class
subclass of: disease by infectious agent
definition: A disease by infectious agent that results_in infection, has_material_basis_in Fungi, which pass the resistance barriers of the human or animal body.
imported from: doid.owl

respiratory system disease
type: Class
subclass of: disease of anatomical entity
VEuPathDB alternative label: Respiratory condition
definition: A disease of anatomical entity that located_in the respiratory system which extends from the nasal sinuses to the diaphragm.
imported from: doid.owl

integumentary system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity that is located_in the integumentary system comprising the skin and its appendages.
imported from: doid.owl

lymphadenitis
type: Class
subclass of: lymphatic system disease
definition: A lymph node disease that is characterized by an acute or chronic inflammation of one or more lymph nodes.
imported from: doid.owl

pneumothorax
type: Class
subclass of: pleural disease
definition: A pleural disease that is characterized as an abnormal collection of air in the pleural space between the lung and the chest wall.
imported from: doid.owl

congenital heart disease
type: Class
subclass of: physical disorder
subclass of: cardiovascular system disease
imported from: doid.owl

musculoskeletal system disease
type: Class
subclass of: disease of anatomical entity
VEuPathDB alternative label: Musculoskeletal condition
definition: A disease of anatomical entity that occurs in the muscular and/or skeletal system.
imported from: doid.owl

urinary system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity that is located_in kidney, ureter, bladder and urethra.
imported from: doid.owl

epilepsy
type: Class
subclass of: brain disease
definition: A brain disease that is characterized by the occurrance of at least two unprovoked seizures resulting from a persistent epileptogenic abnormality of the brain that is able to spontaneously generate paroxysmal activity and typically manifested by sudden brief episodes of altered or diminished consciousness, involuntary movements, or convulsions.
imported from: doid.owl

viral hepatitis
type: Class
subclass of: liver disease
subclass of: viral infectious disease
definition: A hepatitis that involves viral infection causing inflammation of the liver.
imported from: doid.owl

cerebral palsy
type: Class
subclass of: brain disease
definition: A brain disease that is caused by damage to the motor control centers of the developing brain during pregnancy, during childbirth or after birth, which affects muscle movement and balance.
imported from: doid.owl

chronic mucocutaneous candidiasis
type: Class
subclass of: candidiasis
subclass of: skin disease
subclass of: nail disease
definition: A candidiasis that refers to a heterogeneous group of disorders characterized by recurrent or persistent superficial fungal infections located_in skin, located_in mucous membrane, or located_in nail due to T-cell defects, has-agent Candida species and has_symptom scaling of skin lesions, has_symptom thickening of nails, has_symptom swollen periungal tissue, and has_symptom scarring of the scalp.
imported from: doid.owl

dental caries
type: Class
subclass of: tooth disease
definition: A teeth hard tissue disease that is characterized by damage to a tooth that can happen when decay-causing bacteria in your mouth make acids that attack the tooth’s surface, or enamel.
imported from: doid.owl

carbuncle
type: Class
subclass of: pyoderma
imported from: doid.owl

pharyngitis
type: Class
subclass of: upper respiratory tract disease
definition: An upper respiratory tract disease involving inflammation of the throat or pharynx resulting from bacterial, viral, fungal infections or irritants like pollutants or chemical substances and smoking. The infection is often referred to as sore throat. The symptoms include pain during swallowing, enlarged tonsils coated with a white discharge, runny nose, cough and slight fever.
imported from: doid.owl

leptospirosis
type: Class
subclass of: primary bacterial infectious disease
definition: A primary bacterial infectious disease that involves systemic infection, has_material_basis_in Leptospira, which is transmitted by contact with water, food, or soil containing urine from the infected animals. The infection has symptom jaundice, has symptom chills, has symptom fever, has symptom muscle pain, and has symptom hepatomegaly.
imported from: doid.owl

gastroenteritis
type: Class
subclass of: gastrointestinal system disease
definition: A gastrointestinal system infectious disease that involves inflammation of the lining of the stomach and small and large intestines, which is caused by viruses, bacteria, or parasites. Chemicals and drugs also cause gastroenteritis. The symptoms include diarrhea, loss of appetite, nausea, vomiting, cramps, and discomfort in the abdomen.
imported from: doid.owl

anemia
type: Class
subclass of: hematopoietic system disease
VEuPathDB alternative label: Anemia
definition: A hematopoietic system disease that is characterized by a decrease in the normal number of red blood cells.
imported from: doid.owl

opportunistic mycosis
type: Class
subclass of: fungal infectious disease
definition: A systemic mycosis that results_in fungal infection located_in human body of immunocompromised individuals, has_material_basis_in Fungi. The organisms invade via the respiratory tract, alimentary tract, or intravascular devices.
imported from: doid.owl

dermatitis
type: Class
subclass of: skin disease
definition: A skin disease characterized by itchy, erythematous, vesicular, weeping and crusting patches of skin.
imported from: doid.owl

auditory system disease
type: Class
subclass of: sensory system disease
definition: A sensory system disease that is characterized by auditory dysfunction located_in the auditory system.
imported from: doid.owl

parasitic protozoa infectious disease
type: Class
subclass of: parasitic infectious disease
definition: A parasitic infectious disease that is caused by parasitic protozoa which are microorganisms classified as unicellular eukaryotes.
imported from: doid.owl

endocrine system disease
type: Class
subclass of: disease of anatomical entity
VEuPathDB alternative label: Endocrine condition
definition: A disease of anatomical entity that is located_in endocrine glands which secretes a type of hormone directly into the bloodstream to regulate the body.
imported from: doid.owl

asthma
type: Class
subclass of: bronchial disease
definition: A bronchial disease that is characterized by chronic inflammation and narrowing of the airways, which is caused by a combination of environmental and genetic factors. The disease has_symptom recurring periods of wheezing (a whistling sound while breathing), has_symptom chest tightness, has_symptom shortness of breath, has_symptom mucus production and has_symptom coughing.
imported from: doid.owl

immune system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity that is located_in the immune system.
imported from: doid.owl

bronchiolitis
type: Class
subclass of: bronchial disease
subclass of: lung disease
definition: A lung disease that is an inflammation of the bronchioles, the smallest air passages of the lungs. It is caused by viruses and bacteria. The disease has_symptom cough, has_symptom wheezing, has_symptom shortness of breath, has_symptom fever, has_symptom nasal flaring in infants and has_symptom bluish skin due to lack of oxygen.
imported from: doid.owl

pulmonary tuberculosis
type: Class
subclass of: tuberculosis
subclass of: lung disease
definition: A tuberculosis that is a contagious disease located_in lungs. The infection has_symptom fever, has_symptom cough, has_symptom difficulty in breathing, has_symptom inflammatory infiltrations, has_symptom formation of tubercles, has_symptom caseation, has_symptom pleural effusion, and has_symptom fibrosis.
imported from: doid.owl

gingivitis
type: Class
subclass of: periodontal disease
imported from: doid.owl

anus disease
type: Class
subclass of: rectal disease
definition: A rectal disease located_in the anus.
imported from: doid.owl

central nervous system disease
type: Class
subclass of: nervous system disease
definition: A nervous system disease that affects either the spinal cord (myelopathy) or brain (encephalopathy) of the central nervous system.
imported from: doid.owl

bone inflammation disease
type: Class
subclass of: bone disease
definition: A bone disease that results_in inflammation of the located_in bone.
imported from: doid.owl

periodontal disease
type: Class
subclass of: mouth disease
definition: A mouth disease that is relating to or affecting the structures surrounding and supporting the teeth.
imported from: doid.owl

cellulitis
type: Class
subclass of: skin disease
subclass of: connective tissue disease
definition: A skin disease where there is a diffuse infection of connective tissue with severe inflammation of dermal and subcutaneous layers of the skin. Cellulitis can be caused by normal skin flora or by exogenous bacteria, and often occurs where the skin has previously been broken: cracks in the skin, cuts, blisters, burns, insect bites, surgical wounds, or sites of intravenous catheter insertion.
imported from: doid.owl

skin disease
type: Class
subclass of: integumentary system disease
VEuPathDB alternative label: Skin condition
definition: An integumentary system disease that is located_in skin.
imported from: doid.owl

pleural empyema
type: Class
subclass of: pleural disease
definition: A soft tissue infectious disease that involves accumulation of pus in the pleural cavity as a result of infection within the lung (pneumonia) or a lung abscess spreading into the space. The symptoms include cough, fever, chest pain, sweating and shortness of breath.
imported from: doid.owl

tuberculosis
type: Class
subclass of: primary bacterial infectious disease
VEuPathDB alternative label: Tuberculosis
definition: A primary bacterial infectious disease that is located_in lungs, located_in lymph nodes, located_in pericardium, located_in brain, located_in pleura or located_in gastrointestinal tract, has_material_basis_in Mycobacterium tuberculosis, which is transmitted_by droplets released into the air when an infected person coughs or sneezes.
imported from: doid.owl

disease
type: Class
subclass of: disposition
VEuPathDB alternative label: Disease
definition: A disease is a disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.
imported from: doid.owl

mouth disease
type: Class
subclass of: gastrointestinal system disease
definition: A gastrointestinal system disease that is located_in the mouth.
imported from: doid.owl

liver disease
type: Class
subclass of: gastrointestinal system disease
imported from: doid.owl

nail disease
type: Class
subclass of: integumentary system disease
definition: An integumentary system disease that is located_in nail.
imported from: doid.owl

pyoderma
type: Class
subclass of: dermatitis
definition: A dermatitis that is characterized by a pyogenic infection causing the formation of pus.
imported from: doid.owl

tinea capitis
type: Class
subclass of: cutaneous mycosis
definition: A dermatophytosis that results_in contagious fungal infection located_in scalp, located_in hair of head, located_in eyebrow or located_in eyelash, has_material_basis_in Ascomycota fungi that belong to a group called dermatophytes and has_symptom itching of the scalp, has_symptom pus filled lesions on the scalp, and has_symptom patches of hair loss, sometimes with a 'black dot' pattern.
imported from: doid.owl

folliculitis
type: Class
subclass of: dermatitis
imported from: doid.owl

allergic rhinitis
type: Class
subclass of: immune system disease
subclass of: rhinitis
definition: A rhinitis that is an allergic inflammation and irritation of the nasal airways involving sneezing, runny nose, nasal congestion, itching and tearing of the eyes caused by exposure to an allergen such as pollen, dust, mold, animal dander and droppings of cockroaches or house dust mites.
imported from: doid.owl

rhinitis
type: Class
subclass of: upper respiratory tract disease
VEuPathDB alternative label: Runny nose or nasal congestion
definition: A upper respiratory infectious disease which involves irritation and inflammation of the mucous membrane of the nose due to viruses, bacteria or irritants. The inflammation results in generation of excessive amounts of mucus leading to runny nose, as well as nasal congestion and post-nasal drip.
imported from: doid.owl

pancreatitis
type: Class
subclass of: endocrine system disease
definition: A pancreas disease that is characterized by inflammation of the pancreas.
imported from: doid.owl

middle ear disease
type: Class
subclass of: auditory system disease
imported from: doid.owl

nutritional deficiency disease
type: Class
subclass of: disease of metabolism
definition: A nutrition disease that is characterized by deficiency of a nutritional element, such as a vitamin, mineral, carbohydrate, protein, fat, or general energy content.
imported from: doid.owl

human immunodeficiency virus infectious disease
type: Class
subclass of: viral infectious disease
VEuPathDB alternative label: HIV
definition: A viral infectious disease that results in destruction of immune system, leading to life-threatening opportunistic infections and cancers, has_material_basis_in Human immunodeficiency virus 1 or has_material_basis_in Human immunodeficiency virus 2, which are transmitted by sexual contact, transmitted by transfer of blood, semen, vaginal fluid, pre-ejaculate, or breast milk, transmitted by congenital method, and transmitted by contaminated needles. The virus infects helper T cells (CD4+ T cells) which are directly or indirectly destroyed, macrophages, and dendritic cells. The infection has symptom diarrhea, has symptom fatigue, has symptom fever, has symptom vaginal yeast infection, has symptom headache, has symptom mouth sores, has symptom muscle aches, has symptom sore throat, and has symptom swollen lymph glands.
imported from: doid.owl

intestinal disease
type: Class
subclass of: gastrointestinal system disease
definition: A gastrointestinal system disease that is located_in the intestine.
imported from: doid.owl

dental pulp disease
type: Class
subclass of: tooth disease
subclass of: connective tissue disease
definition: A tooth disease located_in dental pulp.
imported from: doid.owl

pneumonia
type: Class
subclass of: lung disease
definition: A lung disease that involves lung parenchyma or alveolar inflammation and abnormal alveolar filling with fluid (consolidation and exudation). It results from a variety of causes including infection with bacteria, viruses, fungi or parasites, and chemical or physical injury to the lungs. It is accompanied by fever, chills, cough, and difficulty in breathing.
imported from: doid.owl

eye disease
type: Class
subclass of: sensory system disease
definition: An eye and adnexa disease that is located_in the eye.
imported from: doid.owl

bronchitis
type: Class
subclass of: bronchial disease
definition: A bronchial disease that is an inflammation of the bronchial tubes. It is caused by bacteria and viruses. The disease has_symptom cough with mucus, has_symptom shortness of breath, has_symptom low fever and has_symptom chest tightness.
imported from: doid.owl

conjunctivitis
type: Class
subclass of: eye disease
definition: A conjunctival disease characterized by an inflammation of the conjunctiva, the outermost layer of the eye and the inner surface of the eyelids.
imported from: doid.owl

reactive arthritis
type: Class
subclass of: autoimmune disease of musculoskeletal system
subclass of: arthritis
definition: An arthritis that is an autoimmune disease which develops due to an infection located elsewhere in the body.
imported from: doid.owl

genetic disease
type: Class
subclass of: disease
definition: A disease that has_material_basis_in genetic variations in the human genome.
imported from: doid.owl

acquired immunodeficiency syndrome
type: Class
subclass of: human immunodeficiency virus infectious disease
VEuPathDB alternative label: AIDS
definition: A Human immunodeficiency virus infectious disease that results_in reduction in the numbers of CD4-bearing helper T cells below 200 per microliter of blood or 14% of all lymphocytes thereby rendering the subject highly vulnerable to life-threatening infections and cancers, has_material_basis_in Human immunodeficiency virus 1 or has_material_basis_in Human immunodeficiency virus 2, which are transmitted_by sexual contact, transmitted_by transfer of blood, semen, vaginal fluid, pre-ejaculate, or breast milk, transmitted_by congenital method, and transmitted_by contaminated needles. Opportunistic infections are common in people with AIDS.
imported from: doid.owl

connective tissue disease
type: Class
subclass of: musculoskeletal system disease
definition: A musculoskeletal system disease that affects tissues such as skin, tendons, and cartilage.
imported from: doid.owl

inherited metabolic disorder
type: Class
subclass of: disease of metabolism
subclass of: genetic disease
definition: A disease of metabolism that is characterized by enzyme deficiency or accumulation of enzymes or toxins which interfere with normal function due to inherited enzyme abnormality.
imported from: doid.owl

disease of anatomical entity
type: Class
subclass of: disease
definition: A disease that manifests in a defined anatomical structure.
imported from: doid.owl

hematopoietic system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity that has_material_basis_in hematopoietic cells.
imported from: doid.owl

lymphatic system disease
type: Class
subclass of: immune system disease
definition: An immune system disease that is located_in the lymphatic system.
imported from: doid.owl

peptic ulcer disease
type: Class
subclass of: gastrointestinal system disease
imported from: doid.owl

gastrointestinal system disease
type: Class
subclass of: disease of anatomical entity
definition: A disease of anatomical entity that is located_in the gastrointestinal tract.
imported from: doid.owl

septic arthritis
type: Class
subclass of: arthritis
definition: An arthritis that involves infection by a pathogen located_in joint.
imported from: doid.owl

periodontitis
type: Class
subclass of: periodontal disease
imported from: doid.owl

scabies
type: Class
subclass of: parasitic infectious disease
definition: A mite infestation that is a contagious ectoparasite skin infection caused by human itch mite Sarcoptes scabiei type hominis, which burrows into the upper layer of the skin but never below the stratum corneum causing severe itching and a rash found on the hands, folds of the wrist, elbow or knee, penis, breast, and shoulder blades.
imported from: doid.owl

polycythemia
type: Class
subclass of: hematopoietic system disease
definition: A bone marrow disease characterized by an increased number of red blood cells in the bloodstream resulting in thicker blood and reduced blood flow.
imported from: doid.owl

arthritis
type: Class
subclass of: bone inflammation disease
definition: A bone inflammation disease that involves a response to irritation or injury, characterized by joint pain, swelling, stiffness located_in joint.
imported from: doid.owl

lung disease
type: Class
subclass of: lower respiratory tract disease
definition: A lower respiratory tract disease in which the function of the lungs is adversely affected by narrowing or blockage of the airways resulting in poor air flow, a loss of elasticity in the lungs that produces a decrease in the total volume of air that the lungs are able to hold, and clotting, scarring, or inflammation of the blood vessels that affect the ability of the lungs to take up oxygen and to release carbon dioxide.
imported from: doid.owl

impetigo
type: Class
subclass of: pyoderma
definition: A pyoderma consisting of three forms of skin lesions having either a thick, adherent, recurrent, dirty yellow crust with an erythematous margin (common or superficial impetigo) or lessions which are superficial, thin-walled, and bullous as found in bullous impetigo. The lesions in bullous (staphylococcal) impetigo, which are always caused by S aureus, are superficial, thin-walled, and bullous.
imported from: doid.owl

bullous pemphigoid
type: Class
subclass of: pemphigoid
definition: A pemphigoid that is characterized by large blisters.
imported from: doid.owl

herpes zoster
type: Class
subclass of: nervous system disease
subclass of: viral infectious disease
definition: A viral infectious disease that results_in infection located_in nerve fiber, has_material_basis_in Human herpesvirus 3, which reactivates after appearing as chickenpox in childhood. The virus is transmitted_by direct contact with the rash, which can develop into chickenpox in newly-infected individuals. The infection has_symptom rash which is followed by blisters, has_symptom headache, has_symptom fever, has_symptom malaise, has_symptom itching, has_symptom burning pain, and has_symptom paresthesia.
imported from: doid.owl

herpes simplex
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results_in_formation_of lesions, located_in mouth, located_in face, located_in genitalia, or located_in hands, has_material_basis_in Human herpesvirus 1 or has_material_basis_in Human herpesvirus 2, which are transmitted_by direct contact with an active lesion or body fluid of an infected person.
imported from: doid.owl

measles
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results_in infection located_in skin, has_material_basis_in Measles virus, which is transmitted_by contact with oronasal secretions, or semen of an infected person. The infection has_symptom fever, has_symptom cough, has_symptom coryza, has_symptom conjunctivitis, and has_symptom maculopapular, erythematous rash.
imported from: doid.owl

nervous system disease
type: Class
subclass of: disease of anatomical entity
VEuPathDB alternative label: Neurological condition
definition: A disease of anatomical entity that is located_in the central nervous system or located_in the peripheral nervous system.
imported from: doid.owl

chickenpox
type: Class
subclass of: viral infectious disease
definition: A viral infectious disease that results_in infection located_in skin, has_material_basis_in Human herpesvirus 3, which is transmitted_by direct contact with secretions from the rash, or transmitted_by droplet spread of respiratory secretions. The infection has_symptom anorexia, has_symptom myalgia, has_symptom nausea, has_symptom fever, has_symptom headache, has_symptom sore throat, and has_symptom blisters.
imported from: doid.owl

viral exanthem
type: Class
subclass of: exanthem
subclass of: viral infectious disease
imported from: doid.owl

perinatal necrotizing enterocolitis
type: Class
subclass of: gastrointestinal system disease
imported from: doid.owl

pyomyositis
type: Class
subclass of: musculoskeletal system disease
imported from: doid.owl

parasitic helminthiasis infectious disease
type: Class
subclass of: parasitic infectious disease
definition: A parasitic infectious disease that occurs when part of the body is infested with parasitic worms such as cestodes, nematodes and trematodes.
imported from: doid.owl

leishmaniasis
type: Class
subclass of: parasitic protozoa infectious disease
definition: A parasitic protozoa infectious disease that involves infection caused by protozoan parasite of the genus Leishmania, which is transmitted by the bite of sand fly (subfamily Phlebotominae).
imported from: doid.owl

cutaneous leishmaniasis
type: Class
subclass of: skin disease
subclass of: leishmaniasis
definition: A leishmaniasis that involves skin infection caused by Leishmania species, resulting in one or more cutaneous lesions.
imported from: doid.owl

visceral leishmaniasis
type: Class
subclass of: bone disease
subclass of: liver disease
subclass of: lymphatic system disease
subclass of: leishmaniasis
definition: A leishmaniasis that is the most severe form of the disease caused by protozoan parasites of the Leishmania genus, resulting in the infection of the internal organs such as liver, spleen and bone marrow. The symptoms include fever, weight loss, and an enlarged spleen and liver.
imported from: doid.owl

amebiasis
type: Class
subclass of: parasitic protozoa infectious disease
definition: A parasitic protozoa infectious disease that involves infection caused by the amoeba Entamoeba histolytica. Amebic invasion of the intestinal lining causes dysentery, colitis or diarrhea. The infection can also spread through the blood to the liver and, rarely, to the lungs, brain or other organs.
imported from: doid.owl

lip disease
type: Class
subclass of: mouth disease
definition: A mouth disease located_in the lip.
imported from: doid.owl

rectal prolapse
type: Class
subclass of: rectal disease
imported from: doid.owl

viral infectious disease
type: Class
subclass of: disease by infectious agent
definition: A disease by infectious agent that results in infection, has_material_basis_in Viruses.
imported from: doid.owl

brain disease
type: Class
subclass of: central nervous system disease
definition: A central nervous system disease that is located_in the brain.
imported from: doid.owl

keratoconjunctivitis
type: Class
subclass of: eye disease
imported from: doid.owl

otitis externa
type: Class
subclass of: auditory system disease
definition: An external ear disease that involves inflammation of the outer ear and ear canal. It can be caused by active bacterial or fungal infections.
imported from: doid.owl

meningitis
type: Class
subclass of: central nervous system disease
definition: A central nervous system disease that is characterized by an inflammation of the pia-arachnoid meninges. It can be caused by growth of bacteria, fungi, or parasites within the subarachnoid space or by the growth of bacteria or viruses within the meningeal or ependymal cells.
imported from: doid.owl

aphthous stomatitis
type: Class
subclass of: lip disease
definition: A stomatitis characterized by the repeated formation of benign and non-contagious mouth ulcers.
imported from: doid.owl

ophthalmia neonatorum
type: Class
subclass of: bacterial conjunctivitis
definition: A bacterial conjuctivitis that is characterized by pain and tenderness in the eyeball and conjuctival discharge.
imported from: doid.owl

bacterial conjunctivitis
type: Class
subclass of: bacterial infectious disease
subclass of: conjunctivitis
imported from: doid.owl

upper respiratory tract disease
type: Class
subclass of: respiratory system disease
definition: A respiratory system disease which involves the upper respiratory tract.
imported from: doid.owl

hordeolum
type: Class
subclass of: bacterial infectious disease
subclass of: skin disease
definition: An eyelid disease that is characterized by an infection of the sebaceous glands at the base of the eyelashes. Styes are generally caused by a Staphylococcus aureus bacterial infection.
imported from: doid.owl

hypoglycemia
type: Class
subclass of: inherited metabolic disorder
VEuPathDB alternative label: Hypoglycemia
definition: A glucose metabolism disease that is characterized by abnormally low levels of blood glucose.
imported from: doid.owl

clinical drug role
type: Class
subclass of: role
definition: the role of a material entity to prevent, diagnose, treat, or study disease and/or its effects
imported from: dron.owl

drug product
type: Class
subclass of: OBI_0000047
definition: a material entity (1) containing at least one scattered molecular aggregate as part that is the bearer of an active ingredient role and (2) that is itself the bearer of a clinical drug role
imported from: dron.owl

drug cream
type: Class
subclass of: drug product
definition: a portion of cream that is the bearer of a clinical drug role
imported from: dron.owl

drug lotion
type: Class
subclass of: drug product
definition: a portion of lotion that is the bearer of a drug role
imported from: dron.owl

drug solution
type: Class
subclass of: drug product
definition: a portion of solution that is the bearer of a clinical drug role
imported from: dron.owl

drug suspension
type: Class
subclass of: drug product
definition: a portion of suspension that is the bearer of a clinical drug role
imported from: dron.owl

drug tablet
type: Class
subclass of: drug product
definition: a solid object typically of discoid, spheroid, or elliptic-cylindrical shape or approximations thereof, that bears a clinical drug role.
imported from: dron.owl

drug capsule
type: Class
subclass of: drug product
definition: an object that is the bearer of a drug role and is comprised of a solid shell of elliptical-cylindrical shape and another object contained in the shell that has a scattered molecular aggregate as a proper part
imported from: dron.owl

amoxicillin suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Amoxicillin syrup
alternative label: amoxicillin syrup
imported from: dron.owl

Folic acid tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Folic acid tablet
imported from: dron.owl

Clotrimazole skin cream
type: Class
subclass of: drug cream
VEuPathDB alternative label: Clotrimazole cream
imported from: dron.owl

Nystatin suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Nystatin suspension
alternative label: Nystatin oral drop
imported from: dron.owl

Gentamicin solution
type: Class
subclass of: drug solution
imported from: dron.owl

Gentamicin injectable solution
type: Class
subclass of: Gentamicin solution
VEuPathDB alternative label: Gentamicin injection
imported from: dron.owl

Dexamethasone injection
type: Class
subclass of: drug solution
VEuPathDB alternative label: Dexamethasone injection
imported from: dron.owl

Chloramphenicol solution for otic and ophthalmic administration
type: Class
subclass of: drug solution
VEuPathDB alternative label: Chloramphenicol eye drops
alternative label: Chloramphenicol eye/ear drop
imported from: dron.owl

Ceftriaxone injectable solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Ceftriaxone injection
imported from: dron.owl

Metronidazole solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Metronidazole syrup
imported from: dron.owl

prednisolone tablet
type: Class
subclass of: drug tablet
subclass of: drug capsule
VEuPathDB alternative label: Prednisolone tablet
imported from: dron.owl

salbutamol suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Salbutamol syrup
alternative label: salbutamol syrup
imported from: dron.owl

Dornase Alfa
type: Class
subclass of: OBI_0000047
VEuPathDB alternative label: Dornase
imported from: dron.owl

Sodium Chloride Nasal Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Norsol nasal drops
imported from: dron.owl

Acetaminophen Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Paracetamol syrup
imported from: dron.owl

Ascorbic Acid Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Ceevit
imported from: dron.owl

Ibuprofen Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Ibruprofen syrup
imported from: dron.owl

Ambroxol Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Ambrox drops
imported from: dron.owl

Azithromycin Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Azithromycin syrup
imported from: dron.owl

Cefixime Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Cefixime suspension
imported from: dron.owl

Cetirizine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Cetirizine alatrol
imported from: dron.owl

Chloroquine Injectable Solution
type: Class
subclass of: drug solution
imported from: dron.owl

Chloroquine Oral Tablet
type: Class
subclass of: drug tablet
imported from: dron.owl

Chlorpheniramine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Chlorpheniramine maleate syrup
imported from: dron.owl

Ciprofloxacin Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Ciprofloxacin syrup
imported from: dron.owl

Clotrimazole Topical Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Clotrimazole ear drops
imported from: dron.owl

Diazepam Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Diazepam tablet
imported from: dron.owl

Dicyclomine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Dicycloverine hydrochloride
imported from: dron.owl

Domperidone Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Omidon syrup
imported from: dron.owl

Glycerin Rectal Suppository
type: Class
subclass of: drug product
VEuPathDB alternative label: Glycerine suppository
imported from: dron.owl

Hydroxyzine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Hydroxyzine hydrochloride syrup
imported from: dron.owl

Mebendazole Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Mebendazole syrup
imported from: dron.owl

Naproxen Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Naproxen syrup
imported from: dron.owl

Nitrazepam Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Nitrazepam tablet
imported from: dron.owl

Ondansetron Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Ondansetron syrup
imported from: dron.owl

Oxycodone Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Oxicone
imported from: dron.owl

Vitamin K 1 Injectable Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Konakion injection (vitamin K)
imported from: dron.owl

Potassium Chloride Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Potassium syrup (Electro K)
imported from: dron.owl

Riboflavin Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Riboflavin tablet
imported from: dron.owl

Simethicone Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Flacol drops
imported from: dron.owl

Theophylline Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Theophylline
imported from: dron.owl

Povidone Topical Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Povidone ointment
imported from: dron.owl

xylometazoline Nasal Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Xylometazoline drop
imported from: dron.owl

Tobramycin Ophthalmic Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Tobramycin eye drops
imported from: dron.owl

Ketoconazole Medicated Shampoo
type: Class
subclass of: drug product
VEuPathDB alternative label: Ketoconazole shampoo
imported from: dron.owl

Betamethasone Topical Cream
type: Class
subclass of: drug cream
VEuPathDB alternative label: Betson cream
imported from: dron.owl

Calamine Topical Lotion
type: Class
subclass of: drug lotion
VEuPathDB alternative label: Calamine lotion
imported from: dron.owl

Miconazole Topical Cream
type: Class
subclass of: drug cream
imported from: dron.owl

Permethrin Topical Cream
type: Class
subclass of: drug cream
VEuPathDB alternative label: Permethrin cream
imported from: dron.owl

Silver Sulfadiazine Topical Cream
type: Class
subclass of: drug cream
VEuPathDB alternative label: Silver sulfadiazine (Burnsil)
imported from: dron.owl

Lactulose Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Lactulose syrup
imported from: dron.owl

amlexanox Oral Paste
type: Class
subclass of: drug product
VEuPathDB alternative label: Amlexanox (Apsol gel)
imported from: dron.owl

montelukast Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Montelukast
imported from: dron.owl

nitazoxanide Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Nitazoxanide syrup
imported from: dron.owl

Ranitidine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Ranitidine syrup
imported from: dron.owl

Miconazole Oral Gel
type: Class
subclass of: drug product
VEuPathDB alternative label: Miconazole oral gel
imported from: dron.owl

Tetracycline Topical Lotion
type: Class
subclass of: drug lotion
VEuPathDB alternative label: Tetrasol
imported from: dron.owl

moxifloxacin Ophthalmic Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Moxifloxacin eye drops
imported from: dron.owl

artesunate Injectable Solution
type: Class
subclass of: drug solution
imported from: dron.owl

Gentamicin Sulfate (USP) / Hydrocortisone Topical Ointment
type: Class
subclass of: drug product
VEuPathDB alternative label: Gentin ointment
imported from: dron.owl

Erythromycin Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Erythromycin syrup
imported from: dron.owl

desloratadine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Desloratadine syrup
imported from: dron.owl

Amoxicillin / Clavulanate Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Moxclav syrup
imported from: dron.owl

Mefenamate Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Mefenamic acid
imported from: dron.owl

fexofenadine Oral Suspension
type: Class
subclass of: drug suspension
VEuPathDB alternative label: Fexofenadine
imported from: dron.owl

Floxacillin Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Flucloxacillin syrup
imported from: dron.owl

Acyclovir Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Acyclovir syrup
imported from: dron.owl

Fluconazole Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Fluconazole syrup
imported from: dron.owl

Guaifenesin / Pseudoephedrine / Triprolidine Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Aquaphen syrup
imported from: dron.owl

Sulfamethoxazole / Trimethoprim Oral Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Cotrimoxazole syrup
imported from: dron.owl

artemether / lumefantrine Oral Tablet
type: Class
subclass of: drug tablet
imported from: dron.owl

Ciprofloxacin Otic Solution
type: Class
subclass of: drug solution
VEuPathDB alternative label: Cipro ear drops
imported from: dron.owl

Benzoate / Salicylic Acid Topical Cream
type: Class
subclass of: drug cream
imported from: dron.owl

Zinc Sulfate 20 MG Oral Tablet
type: Class
subclass of: drug tablet
VEuPathDB alternative label: Baby zinc tablet
imported from: dron.owl

Gentamicin Otic Solution
type: Class
subclass of: Gentamicin solution
VEuPathDB alternative label: Gentamicin ear drops
imported from: dron.owl

data use permission
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Data access level
definition: A data item that is used to indicate consent permissions for datasets and/or materials, and relates to the purposes for which datasets and/or material might be removed, stored or used.
alternative label: consent code
imported from: duo.owl

exposure to pyrethroid insecticide
type: Class
subclass of: process
VEuPathDB alternative label: Pyrethroid insecticide exposure
definition: An exposure to pyrethroid insecticide.
imported from: ecto.owl

administrative region
type: Class
subclass of: site
imported from: envo.owl

first-order administrative region
type: Class
subclass of: administrative region
definition: A primary administrative division of a country, such as a state in the United States.
imported from: envo.owl

second-order administrative region
type: Class
subclass of: administrative region
definition: A subdivision of a first-order administrative division.
imported from: envo.owl

third-order administrative region
type: Class
subclass of: administrative region
definition: A subdivision of a second-order administrative division.
imported from: envo.owl

fourth-order administrative region
type: Class
subclass of: administrative region
definition: A subdivision of a third-order administrative division.
imported from: envo.owl

national geopolitical entity
type: Class
subclass of: administrative region
VEuPathDB alternative label: Country
definition: A political association with effective dominion over a geographic area.
imported from: envo.owl

canal
type: Class
subclass of: watercourse
definition: Artificial watercourse with no flow or a controlled flow used for navigation, drainage or irrigation.
imported from: envo.owl
comment: This class refers to the water contained in a canal channel, and not the channel itself.

sea
type: Class
subclass of: marine water body
definition: A large expanse of saline water usually connected with an ocean.
imported from: envo.owl

lake
type: Class
subclass of: lentic water body
definition: A body of water or other liquid of considerable size contained in a depression on a landmass.
imported from: envo.owl

river
type: Class
subclass of: stream
definition: A stream which, through permanent or seasonal flow processes, moves from elevated land towards lower elevations through a definite channel and empties either into a sea, lake, or another river or ends on land as bed seepage and evapotranspiration exceed water supply.
imported from: envo.owl
comment: "There are no official definitions for the generic term river as applied to geographic features, although in some countries or communities a stream is defined by its size. Many names for small rivers are specific to geographic location; examples are "run" in some parts of the United States, "burn" in Scotland and northeast England, and "beck" in northern England. Sometimes a river is defined as being larger than a creek, but not always: the language is vague."

stream
type: Class
subclass of: watercourse
definition: A watercourse which is linear and flows across the solid portion of a planetary surface.
imported from: envo.owl

reservoir
type: Class
subclass of: artificial lake
definition: An artificial body of water, often contained by a dam, constructed for the purpose of water storage.
imported from: envo.owl

spring
type: Class
subclass of: astronomical body part
definition: A surface landform which provides an egress for groundwater or steam to flow out of the ground.
imported from: envo.owl
comment: Springs are typically where an aquifer surface meets the ground surface or where there is a fissure.

watercourse
type: Class
subclass of: water body
definition: A flowing body of water.
imported from: envo.owl

pond
type: Class
subclass of: lentic water body
definition: A body of water, usually of smaller size than a lake.
imported from: envo.owl

marsh
type: Class
subclass of: wetland ecosystem
definition: A wetland ecosystem which includes communities of grasses, rushes, reeds, typhas, sedges, and other herbaceous plants (possibly with low-growing woody plants).
imported from: envo.owl

hot spring
type: Class
subclass of: spring
definition: A spring through which groundwater, heated by geothermal energy, flows.
imported from: envo.owl

fishpond
type: Class
subclass of: lentic water body
definition: A pond or lake used for the artificial culture of fish.
imported from: envo.owl

populated place
type: Class
subclass of: environmental zone
definition: Place or area with clustered or scattered buildings and a permanent human population.
imported from: envo.owl

water body
type: Class
subclass of: astronomical body part
definition: An accumulation of water of varying size.
imported from: envo.owl
comment: https://en.wikipedia.org/wiki/ The term body of water most often refers to large accumulations of water, such as oceans, seas, and lakes, but it includes smaller pools of water such as ponds, wetlands, or more rarely, puddles. A body of water does not have to be still or contained; Rivers, streams, canals, and other geographical features where water moves from one place to another are also considered bodies of water.

cave
type: Class
subclass of: astronomical body part
definition: Naturally formed, subterranean open area or chamber.
imported from: envo.owl

human construction
type: Class
subclass of: material entity
definition: A construction that has been assembled by deliberate human effort.
imported from: envo.owl

building
type: Class
subclass of: human construction
definition: A permanent walled and roofed construction.
imported from: envo.owl

farm
type: Class
subclass of: environmental zone
definition: An area of land which is used for the cultivation of crops or grazing of livestock, including any agricultural constructions therein.
imported from: envo.owl

mountain
type: Class
subclass of: elevated landform
definition: A landform that extends above the surrounding terrain in a limited area.
imported from: envo.owl

island
type: Class
subclass of: planetary landmass
definition: Area of dry or relatively dry land surrounded by water or low wetland.
imported from: envo.owl

forested area
type: Class
subclass of: environmental zone
definition: An area with a high density of trees. A small forest may be called a wood.
imported from: envo.owl

elevated landform
type: Class
subclass of: astronomical body part
VEuPathDB alternative label: Elevation
definition: A landform elevated above the surrounding area.
imported from: envo.owl

plateau
type: Class
subclass of: elevated landform
definition: An elevated and comparatively level expanse of land.
imported from: envo.owl

swamp ecosystem
type: Class
subclass of: wetland ecosystem
definition: A wetland ecosystem in which land mass is permanently inundated by shallow bodies of water, generally with a substantial number of hummocks, or dry-land protrusions.
imported from: envo.owl

rice field
type: Class
subclass of: ecosystem
definition: A paddy field for the cultivation of rice.
imported from: envo.owl

stalagmite
type: Class
subclass of: astronomical body part
definition: A speleothem projecting vertically upwards from a cave floor and formed by precipitation from drips.
imported from: envo.owl

artificial lake
type: Class
subclass of: lake
subclass of: human construction
definition: A lake purposefully constructed.
imported from: envo.owl

biome
type: Class
subclass of: ecosystem
VEuPathDB alternative label: Environment (biome)
definition: A biome is an ecosystem to which resident ecological communities have evolved adaptations.
imported from: envo.owl

drinking water reservoir
type: Class
subclass of: reservoir
definition: A reservoir constructed for the purpose of providing drinking water.
imported from: envo.owl

shoreline
type: Class
subclass of: astronomical body part
definition: A two-dimensional continuant fiat boundary which is located between a landmass and a water body.
imported from: envo.owl
comment: 1) this term is usually used for larger water bodies like lakes and oceans, 2) that the actual spatial extent of a shoreline, and the sharpness of its boundaries, is often arbitrarily or operationally defined, and 3) this term is for the physical shoreline, not the one- or two-dimensional representation of shorelines.

submerged bed
type: Class
subclass of: solid surface layer
subclass of: surface of an astronomical body
VEuPathDB alternative label: Bed
definition: The portion of the ground surface which lies below water.
imported from: envo.owl

city
type: Class
subclass of: populated place
VEuPathDB alternative label: City, village, or region
definition: Incorporated populated place.
imported from: envo.owl

rock
type: Class
subclass of: environmental material
definition: A rock is a naturally occurring solid aggregate of one or more minerals or mineraloids.
imported from: envo.owl
comment: From https://en.wikipedia.org/wiki/ [A mineral] is different from a rock, which can be an aggregate of minerals or non-minerals and does not have a specific chemical composition. The exact definition of a mineral is under debate, especially with respect to the requirement a valid species be abiogenic, and to a lesser extent with regards to it having an ordered atomic structure.

soil
type: Class
subclass of: environmental material
definition: An environmental material which is primarily composed of minerals, varying proportions of sand, silt, and clay, organic material such as humus, interstitial gases, liquids, and a broad range of resident micro- and macroorganisms.
imported from: envo.owl
comment: 'In engineering terms, soil is referred to as regolith, or loose rock material that lies above the 'solid geology'. Soil is commonly referred to as "earth" or "dirt"; technically, the term "dirt" should be restricted to displaced soil.' https://en.wikipedia.org/wiki/Soil " The upper limit of soil is the boundary between soil and air, shallow water, live plants, or plant materials that have not begun to decompose. Areas are not considered to have soil if the surface is permanently covered by water too deep (typically more than 2.5 meters) for the growth of rooted plants. The lower boundary that separates soil from the nonsoil underneath is most difficult to define. Soil consists of horizons near the Earth's surface that, in contrast to the underlying parent material, have been altered by the interactions of climate, relief, and living organisms over time. Commonly, soil grades at its lower boundary to hard rock or to earthy materials virtually devoid of animals, roots, or other marks of biological activity. For purposes of classification, the lower boundary of soil is arbitrarily set at 200 cm." Soil taxonomy, 2nd Ed., quoted in http://www.nrcs.usda.gov/wps/portal/nrcs/detail/soils/edu/?cid=nrcs142p2_054280

marine water body
type: Class
subclass of: lentic water body
definition: A significant accumulation of water which is part of a marine biome.
imported from: envo.owl
comment: Ideas like "significant" are fuzzy and need to be modelled more accurately. The definition is a candidate for review.

waste water
type: Class
subclass of: liquid water
subclass of: waste material
definition: Water that has been adversely affected in quality by anthropogenic influence.
imported from: envo.owl

fecal material
type: Class
subclass of: excreta material
definition: An excreta material which is composed primarily of feces, an excreta consisting of waste products expelled from an animal's digestive tract through the anus (or cloaca) during defecation.
imported from: envo.owl
comment: ENVO bodily fluid classes differ from UBERON's treatment of bodily fluids. UBERON refers to the substance itself ("S"). We assert that UBERON's classes are the primary compositional component of the terms in ENVO ("S material"). Use of the ENVO terms is typically recommended when you wish to indicate that there may be other materials intermixed with S.
comment: This is distinct from classes such as http://purl.obolibrary.org/obo/UBERON_0001988 in that it refers to the environmental material composed primarily of feces rather than 'just' feces.

liquid water
type: Class
subclass of: environmental material
definition: An environmental material primarily composed of dihydrogen oxide in its liquid form.
imported from: envo.owl

sediment
type: Class
subclass of: environmental material
definition: Sediment is an environmental substance comprised of any particulate matter that can be transported by fluid flow and which eventually is deposited as a layer of solid particles on the bedor bottom of a body of water or other liquid.
imported from: envo.owl
comment: It is recommended to use a combination of sediment terms to describe a more specific sediment type.

dust
type: Class
subclass of: environmental material
definition: Particulate environmental material with diameters less than 500 micrometers.
imported from: envo.owl
comment: Dust occurs in and may be deposited from the atmosphere.

saline water
type: Class
subclass of: liquid water
definition: Water which contains a significant concentration of dissolved salts.
imported from: envo.owl
comment: The threshold salt concentration for classifying water as saline varies, but typically begins at about 1,000 to 3,000 parts salt per million parts water or 0.1–0.3% salt by weight.

fresh water
type: Class
subclass of: liquid water
definition: Water which has a low concentration of dissolved solutes, particularly that of sodium chloride.
imported from: envo.owl
comment: The lower bound of solute concentration required for water to be considered freshwater is variable, but is always less than that of seawater, and often cited as less than 1 gram of solutes per 1 litre of water.

sewage
type: Class
subclass of: waste water
definition: Wastewater that is contaminated with feces or urine,
imported from: envo.owl

biofilm
type: Class
subclass of: material entity
definition: A complex aggregation of microorganisms marked by the excretion of a protective and adhesive matrix; usually adhering to a substratum.
imported from: envo.owl

wood
type: Class
subclass of: organic material
imported from: envo.owl

surface water
type: Class
subclass of: liquid water
definition: Water that is found on the surface of an astronomical object.
imported from: envo.owl

wastewater treatment plant
type: Class
subclass of: building
imported from: envo.owl

sludge
type: Class
subclass of: anthropogenic environmental material
definition: The residual semi-solid material left from domestic or industrial processes, or wastewater treatment processes.
imported from: envo.owl

beach sand
type: Class
subclass of: sand
imported from: envo.owl

compost
type: Class
subclass of: manure
definition: Manure which has been derived from the aerobically decomposed remnants of organic materials.
imported from: envo.owl

pond water
type: Class
subclass of: fresh water
imported from: envo.owl

forest soil
type: Class
subclass of: soil
definition: A portion of soil which is found in a forested area.
imported from: envo.owl

waste material
type: Class
subclass of: environmental material
definition: A material which is not the desired output of a process and which is typically the input of a process which removes it from its producer (e.g. a disposal process).
imported from: envo.owl

hay
type: Class
subclass of: agricultural environmental material
definition: Hay is grass, legumes or other herbaceous plants that have been cut, dried, and stored for use as animal fodder, particularly for grazing livestock such as cattle, horses, goats, and sheep.
imported from: envo.owl

drinking water
type: Class
subclass of: fresh water
VEuPathDB alternative label: Drinking water source
definition: Drinking water is water which may be consumed by humans with no adverse effects on their health.
imported from: envo.owl

manufactured product
type: Class
subclass of: OBI_0000047
definition: A material entity that has been processed by humans or their technology in any way, including intermediate products as well as final products.
imported from: envo.owl

tap water
type: Class
subclass of: fresh water
imported from: envo.owl

bore hole water
type: Class
subclass of: liquid water
imported from: envo.owl

farm soil
type: Class
subclass of: soil
definition: A portion of soil which is part of a cropland or a rangeland biome.
imported from: envo.owl

grassland soil
type: Class
subclass of: soil
definition: A portion of soil which is found in a grassland.
imported from: envo.owl

orchard soil
type: Class
subclass of: farm soil
definition: Soil in which trees from an orchard grow.
imported from: envo.owl

pasture soil
type: Class
subclass of: soil
definition: Soil which is found in a pasture and in which vegetation, such as the grass used for the grazing of ungulates, grows.
imported from: envo.owl

rhizosphere
type: Class
subclass of: environmental zone
definition: The narrow region of soil that is directly influenced by root secretions and associated soil microorganisms.
imported from: envo.owl

environmental material
type: Class
subclass of: fiat object part
VEuPathDB alternative label: Environment (material)
definition: A portion of environmental material is a fiat object part which forms the medium or part of the medium of an environmental system.
imported from: envo.owl
comment: Everything under this parent must be a mass noun. All subclasses are to be understood as being composed primarily of the named entity, rather than restricted to that entity. For example, "ENVO:water" is to be understood as "environmental material composed primarly of some CHEBI:water". This class is currently being aligned to the Basic Formal Ontology. Following this alignment, its definition and the definitions of its subclasses will be revised.

surface layer
type: Class
subclass of: layer
definition: A layer of some material entity which is adjacent to one or more of its external boundaries and directly interacts with its immediate surroundings.
imported from: envo.owl
comment: This class is distinct from a geometric surface, which is two-dimensional. The idea of "uppermost" may be problematic. Further, the definition of layer (the superclass of surface in rev 133) references surface. This may be another issue. Perhaps this can be made into an inferred class using 'bounding layer of' some material entity, note that 'bounding layer' implies containment, which may not be valid here.

aerosol
type: Class
subclass of: environmental material
definition: Airborne solid particles (also called dust or particulate matter (PM)) or liquid droplets.
imported from: envo.owl
comment: Should connect to PATO as "quality of an aerosol"

anthropogenic environmental material
type: Class
subclass of: environmental material
definition: Anthropogenic material in or on which organisms may live.
imported from: envo.owl

agricultural environmental material
type: Class
subclass of: anthropogenic environmental material
imported from: envo.owl
comment: This is quite odd and it probably should be obsoleted. Any material that is a participant in an agricultural process can be seen as an agricultural material.

mud
type: Class
subclass of: environmental material
definition: An environmental material which is a liquid or semi-liquid mixture of water and some combination of soil, silt, and clay particles.
imported from: envo.owl

water well
type: Class
subclass of: astronomical body part
definition: A well which provides access to groundwater held in an aquifer.
imported from: envo.owl

sand
type: Class
subclass of: environmental material
definition: Particulate environmental material which is composed primarily of particles of sand with only minor proportions of other substances.
imported from: envo.owl
comment: This definition is intentionally ambiguous to support the multiple thresholds set by different authorities. Some authorities consider as sands soil material that contains 85% or more sand; the percentage of silt plus 1.5 times the percentage of clay does not exceed 15. coarse sand (sable grossier) 25% or more very coarse and coarse sand, and less than 50% any other one grade of sand.

organic material
type: Class
subclass of: environmental material
definition: Environmental material derived from living organisms and composed primarily of one or more biomacromolecules.
imported from: envo.owl

environmental system
type: Class
subclass of: material entity
definition: A system which has the disposition to environ one or more material entities.
imported from: envo.owl

layer
type: Class
subclass of: material entity
definition: A layer is a quantity of some material which is spatially continuous, has comparable thickness, and usually covers some surface.
imported from: envo.owl
comment: Preliminary definition.

environmental zone
type: Class
subclass of: site
definition: A site which has its extent determined by the presence or influence of one or more components of an environmental system or the processes occurring therein.
imported from: envo.owl
comment: Formerly, this class was an experimental class and a subclass of "environmental feature". It is now aligned to BFO. The class was not obsoleted as the core semantics maintained their stability through its transition.

building part
type: Class
subclass of: human construction
definition: A building part is a construction which is part of a building.
imported from: envo.owl
comment: Not recommended for annotation. This class is likely to be made into an inferred class as its subclasses are distributed among more meaningful superclasses (i.e. ceiling is_a surface layer). See for example, "building floor". The boundaries between building parts may be bona fide or fiat.

room
type: Class
subclass of: human construction
definition: A building part which is separated from other building parts by one or more interior walls and, optionally, outdoor areas by one or more exterior walls.
imported from: envo.owl

concrete
type: Class
subclass of: anthropogenic environmental material
definition: Concrete is a composite material composed of an aggregate bonded together with a fluid cement which hardens over time.
imported from: envo.owl
comment: Missing the class for "aggregate" - tricky to define what it is, exactly. Again, seems more like some sort of material/disposition hybrid.

masonry cement
type: Class
subclass of: anthropogenic environmental material
definition: Masonry cement is a substance used in construction that has the disposition to set and harden and thus may be used to bind materials together.
imported from: envo.owl
comment: "Cement" refers more to a disposition than a specific material.

exterior wall
type: Class
subclass of: human construction
definition: An exterior wall is a building wall which separates the interior of a building from the buildings surrounding environment.
imported from: envo.owl

building roof
type: Class
subclass of: building part
definition: A roof is the covering on the uppermost part of a building which provides protection from animals and weather, notably rain, but also heat, wind and sunlight. A roof is also the framing or structure which supports the covering
imported from: envo.owl
comment: This class is meant to represent roofs which are parts of buildings, rather than a roofs of cave and other natural formations.

thatch
type: Class
subclass of: agricultural environmental material
definition: Thatch is material composed of dry vegetation such as straw, water reed, sedge (Cladium mariscus), rushes, or heather.
imported from: envo.owl
comment: Some sort of logical definition towards: composed_primarily_of some ((straw or 'water reed' or rushes or sedge or heather) and has_quality dry) should be considered, where "rushes", "sedge", etc are represented as materials rather than some sort of taxon.

brick
type: Class
subclass of: manufactured product
definition: A brick is a masonry unit which is composed of kneaded clay-bearing soil, expanded clay aggregate, sand and lime, or concrete material, fire-hardened or air-dried.
imported from: envo.owl
comment: Generally used to refer to the masonry unit rather than a material.

thatched building roof
type: Class
subclass of: building roof
definition: A thatched building roof is a building roof that is built by thatching (or out of thatch).
imported from: envo.owl

tile
type: Class
subclass of: manufactured product
definition: A tile is a manufactured piece of hard-wearing material such as ceramic, stone, metal, or even glass, generally used for covering roofs, floors, walls, showers, or other objects such as tabletops. Alternatively, tile can sometimes refer to similar units made from lightweight materials such as perlite, wood, and mineral wool, typically used for wall and ceiling applications.
imported from: envo.owl

toilet fixture
type: Class
subclass of: manufactured product
definition: A fixture which is used primarily for the collection and, in some cases, disposal of human urine and feces.
imported from: envo.owl
comment: "disposal" may not be the most precise way to describe fill-in latrines. Note that no assertion is made on whether these fixtures are in- or outdoors.

pit latrine
type: Class
subclass of: toilet fixture
definition: A pit latrine is a latrine which is constructed by digging a hole in the ground.
imported from: envo.owl
comment: This class refers to human latrines. Note that some pit latrines can use pour-flush mechanisms. "Infectious diarrhea resulted in about 0.7 million deaths in children under five years old in 2011 and 250 million lost school days.[4][5] Pit latrines are the lowest cost method of separating feces from people.[3]" - https://en.wikipedia.org/wiki/Pit_latrine

flush toilet fixture
type: Class
subclass of: toilet fixture
definition: A toilet fixture which uses water to flush liquid and solid excreta into a sewage containment or processing facility through a drainpipe.
imported from: envo.owl

ventilated improved pit latrine
type: Class
subclass of: pit latrine
definition: A ventilated improved pit latrine is a pit latrine which includes a vent pipe fitted to the pit with a flyscreen covering the pipe's outlet. Air currents moving across the outlet of the vent pipe create a vaccum which draws odors out of the latrine's superstructure.
imported from: envo.owl

covered pit latrine
type: Class
subclass of: building
definition: A covered pit latrine is a building which comprises a pit latrine sheltered by an outhouse.
imported from: envo.owl

covered pit latrine with slab floor
type: Class
subclass of: covered pit latrine
definition: A covered pit latrine with slab is a building which comprises a pit latrine with a slab floor sheltered by an outhouse.
imported from: envo.owl

composting toilet
type: Class
subclass of: toilet fixture
definition: A composting toilet fixture is a dry toilet fixture in which managed, aerobic decomposition converts human excreta into organic matter suitable for the fertilisation or amendment of soils.
imported from: envo.owl

charcoal
type: Class
subclass of: organic material
definition: Charcoal is a light, black residue, consisting of carbon and any remaining ash, obtained by removing water and other volatile constituents from animal and vegetation substances. Charcoal is usually produced by slow pyrolysis, the heating of wood or other substances in the absence of oxygen.
imported from: envo.owl

flat-wick lamp
type: Class
subclass of: OBI_0400065
definition: A flat-wick lamp is a simple type of paraffin lamp, which burns paraffin drawn up through a wick by capillary action.
imported from: envo.owl

paraffin lantern
type: Class
subclass of: manufactured product
subclass of: OBI_0400065
definition: A paraffin lantern is a lantern which houses a parrafin lamp in a structure of soldered or crimped-together sheet metal stampings and glass or other translucent material.
imported from: envo.owl

electric lamp
type: Class
subclass of: OBI_0400065
definition: An electric lamp is a lamp which produces light from electricity.
imported from: envo.owl

battery-powered electric lamp
type: Class
subclass of: electric lamp
definition: A battery-powered electric lamp is an electric lamp which draws its power from a device composed of two or more electrochemical cells that convert stored chemical energy into electrical energy.
imported from: envo.owl

candle
type: Class
subclass of: OBI_0400065
definition: A candle is a lamp composed of a wax within which an ignitable wick is embedded.
imported from: envo.owl

radio device
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Radio
definition: A device capable of receiving and/or transmitting information encoded in electromagnetic radiation through wave modulation.
imported from: envo.owl

cassette player
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Cassette player
definition: A cassette deck is a device capable of playing and recording audio compact cassettes.
imported from: envo.owl

television set
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Television
definition: A television set is a device that combines a tuner, display, and loudspeakers for the purpose of converting digital or analog information signals into moving images and sound.
imported from: envo.owl

telephone
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Telephone (mobile or non-mobile)
definition: A telephone is a telecommunications device which converts sound into electronic signals suitable for transmission via cables or other transmission media, and reconverts such signals into sound waves.
imported from: envo.owl

mobile phone
type: Class
subclass of: telephone
VEuPathDB alternative label: Mobile phone
definition: A mobile phone is a telephone which transmits sound information to a mobile phone network via radio transmissions.
imported from: envo.owl

landline telephone
type: Class
subclass of: telephone
VEuPathDB alternative label: Landline phone
definition: A landline telephone is a telephone which is connected to a telephone network with wires through which electronic signals are carried.
imported from: envo.owl

refrigerator
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Refrigerator
definition: A refrigerator is a device which consists of a thermally insulated compartment and a mechanical, chemical, or electronic heat pump that transfers heat from the inside of the fridge to its external environment such that the inside of the fridge is cooled to a temperature below the ambient temperature of the room
imported from: envo.owl

table
type: Class
subclass of: piece of furniture
VEuPathDB alternative label: Table
definition: A table is a form of furniture with a flat horizontal upper surface used to support objects, for storage, show, and/or manipulation.
imported from: envo.owl

chair
type: Class
subclass of: piece of furniture
VEuPathDB alternative label: Chair
definition: A chair is a piece of furniture with a raised surface commonly used to seat a single person.
imported from: envo.owl
comment: This class, along with benches, stools, and the like, can be grouped under "seating furniture" or similar. However, this is probably better as an inferred class using some sort of BFO:function in the subclass annotation.

piece of furniture
type: Class
subclass of: manufactured product
definition: A piece of furniture is a movable object intended to support various human activities such as seating (e.g., chairs, stools and sofas) and sleeping (e.g., beds).
imported from: envo.owl
comment: The assumption is that furniture is manufactured, which is arguable. Further, according to Black's Law Dictionary (http://thelawdictionary.org/furniture/) many classes can be subclasses of 'piece of furntiure': "This term includes that which furnishes, or with which anything is furnished or supplied; whatever must be supplied to a house, a room, or the like, to make it habitable, convenient, or agreeable; goods, vessels, utensils, and other appendages necessary or convenient for housekeeping; whatever is added to the interior of a house or apartment, for use or convenience. Bell v. Holding, 27 Ind. 173.The term “furniture” embraces everything about the house that has been usually enjoyed there, including plate, linen, china, and pictures. 1 Endicott v. Endicott, 41N. J. Eq. 96, 3 Atl. 157.The word “furniture” made use of in the disposition of the law. or in the conventions or acts of persons, comprehends only such furniture as is intended for use and ornament of apartments, but not libraries which happen to be there, nor plate. Civ.Code La. art. 477." However, this would eventually be absurd and limit other groupings. Perhaps some sort of 'furnishing' BFO:function would be a better way to handle this.

sofa
type: Class
subclass of: piece of furniture
VEuPathDB alternative label: Sofa
definition: A sofa is a bench which is partially or entirely upholstered, and often fitted with springs and tailored cushions.
imported from: envo.owl

cabinet
type: Class
subclass of: piece of furniture
VEuPathDB alternative label: Cabinet
definition: A cabinet is a roughly cuboidal piece of furniture which is used to store miscellaneous items in compartments accessible through doors or drawers.
imported from: envo.owl

cupboard
type: Class
subclass of: cabinet
VEuPathDB alternative label: Cupboard
definition: A cupboard is a cabinet which is used indoors to store household objects such as food, crockery, textiles and liquor, and to protect them from dust and dirt
imported from: envo.owl

clock
type: Class
subclass of: manufactured product
VEuPathDB alternative label: Clock
definition: A clock is an instrument which may indicate, keep, and/or co-ordinate time.
imported from: envo.owl

pressure lamp
type: Class
subclass of: OBI_0400065
definition: A pressure lamp is a portable paraffin or oil lamp in which fuel is forced up into the mantle or burner by air pressure in the reservoir, which can be increased by pumping with a plunger.
imported from: envo.owl

freshwater spring
type: Class
subclass of: spring
definition: A spring through which fresh water flows.
imported from: envo.owl

river water
type: Class
subclass of: liquid water
imported from: envo.owl

rainwater
type: Class
subclass of: fresh water
definition: Rainwater is liquid water which has precipitated in the form of droplets through the condensation of atmospheric water vapour.
imported from: envo.owl

motor vehicle
type: Class
subclass of: vehicle
definition: A motor vehicle is a vehicle which is propelled by an engine or motor and that does not operate on rails.
imported from: envo.owl
comment: Subclasses will be added by inference.

water truck
type: Class
subclass of: motor vehicle
definition: A water truck is a truck which transports water.
imported from: envo.owl

vehicle
type: Class
subclass of: manufactured product
definition: A vehicle is a mobile machine which transports people or cargo.
imported from: envo.owl

bicycle
type: Class
subclass of: vehicle
VEuPathDB alternative label: Bicycle
definition: A bicycle is a human-powered, pedal-driven, single-track vehicle, having two wheels attached to a frame, one behind the other.
imported from: envo.owl

motorcycle
type: Class
subclass of: motor vehicle
VEuPathDB alternative label: Motorcycle or scooter
definition: A motorcycle is a two- or three-wheeled motor vehicle.
imported from: envo.owl

lentic water body
type: Class
subclass of: water body
definition: A lentic water body is a water body in which the accumulated water, in its totality, has very little to no directed flow.
imported from: envo.owl

planetary landmass
type: Class
subclass of: land
definition: A landmass which is part of a planet.
imported from: envo.owl

habitat
type: Class
subclass of: material entity
VEuPathDB alternative label: Habitat
definition: An environmental system which can sustain and allow the growth of an ecological population.
imported from: envo.owl
comment: A habitat's specificity to an ecological population differentiates it from other environment classes.

human dwelling
type: Class
subclass of: building
VEuPathDB alternative label: Dwelling type
definition: A self-contained constructed feature used by one or more households as a home, such as a house, apartment, mobile home, houseboat or other 'substantial' structure. A dwelling typically includes nearby outbuildings, sheds etc. within the curtilage of the property, excluding any 'open fields beyond'. It has significance in relation to search and seizure, conveyancing of real property, burglary, trespass, and land use planning.
imported from: envo.owl

village
type: Class
subclass of: populated place
VEuPathDB alternative label: Village
definition: A village is a clustered human settlement or community, larger than a hamlet but smaller than a town, with a population ranging from a few hundred to a few thousand. Though often located in rural areas, the term urban village is also applied to certain urban neighbourhoods. Villages are normally permanent, with fixed dwellings; however, transient villages can occur. Further, the dwellings of a village are fairly close to one another, not scattered broadly over the landscape, as a dispersed settlement.
imported from: envo.owl

astronomical body part
type: Class
subclass of: fiat object part
definition: A material part of an astronomical body.
imported from: envo.owl

eaves
type: Class
subclass of: building part
VEuPathDB alternative label: Eaves
definition: A part of a building roof which overhangs the face of a wall and, normally, projects beyond the side of a building.
imported from: envo.owl
comment: The primary function of the eaves is to keep rain water off the walls and to prevent the ingress of water at the junction where the roof meets the wall. The secondary function is to control solar penetration; the eaves overhang can be designed to adjust the building's solar heat gain to suit the local climate, the latitude and orientation of the building, refer to passive solar building design. The eaves overhang may also shelter openings to ventilate the roof space.

animal-associated environment
type: Class
subclass of: ecosystem
definition: An environmental system determined by an animal.
alternative label: Animal
imported from: envo.owl

metallic material
type: Class
subclass of: environmental material
definition: A material which is composed primarily of one or more pure metals and which shows their properties.
imported from: envo.owl
comment: While this class allows for some degree of contamination by non-metal substances, the material represented should show at least some of the typical features of a pure metal: hardness (except for liquid metals), opacity, lustre, malleability, fusibility, ductile and good electrical and thermal conductivity.

weather
type: Class
subclass of: continuant
VEuPathDB alternative label: Weather
definition: Environmental variability which inheres in an astronomical body part or in outer space.
imported from: envo.owl
comment: This class refers to all weather, including atmospheric and space weather. Please use a subclass for more specificity.

ecosystem
type: Class
subclass of: environmental system
definition: An environmental system which includes both living and non-living components.
imported from: envo.owl

poultry manure
type: Class
subclass of: manure
definition: Manure which is composed primarily of the feces of poultry.
imported from: envo.owl

wetland ecosystem
type: Class
subclass of: ecosystem
definition: A terrestrial ecosystem which is inundated or saturated by surface or ground water at a frequency and duration sufficient to support, and that under normal circumstances does support, a prevalence of vegetation typically adapted for life in saturated soil conditions.
imported from: envo.owl

waste disposal process
type: Class
subclass of: OBI_0000011
VEuPathDB alternative label: Garbage disposal
definition: A process during which materials deemed to be waste are transported away from a site.
imported from: envo.owl

solid surface layer
type: Class
subclass of: surface layer
definition: A surface layer which is composed primarily of solid environmental material.
imported from: envo.owl

surface of an astronomical body
type: Class
subclass of: surface layer
definition: A surface layer where the solid or liquid material of an astronomical body comes into contact with an atmosphere or outer space.
imported from: envo.owl
comment: a useful class: this can be used to define sub-terrestrial and sub-marine entities

land
type: Class
subclass of: solid surface layer
subclass of: surface of an astronomical body
definition: A surface layer of an astronomical body which is primarily composed of solid material and is not covered by oceans or other bodies of water.
imported from: envo.owl

excreta material
type: Class
subclass of: waste material
subclass of: organic material
definition: A bodily fluid material which is composed primarily of excreta, bodily fluids consisting of matter which contains the waste products of biological processes, including urine or feces, discharged from an organism's body.
imported from: envo.owl
comment: ENVO bodily fluid classes differ from UBERON's treatment of bodily fluids. UBERON refers to the substance itself ("S"). We assert that UBERON's classes are the primary compositional component of the terms in ENVO ("S material"). Use of the ENVO terms is typically recommended when you wish to indicate that there may be other materials intermixed with S.

manure
type: Class
subclass of: environmental material
definition: An environmental material consisting of organic matter from plants and/or animals that is used in agriculture as fertilizer.
imported from: envo.owl
comment: Most manure consists of animal feces; other sources include compost and green manure.

building material
type: Class
equivalent class: Class
  intersection of: material entity
  intersection of: Restriction
    on property: has role
    some values from: building material role
subclass of: material entity
VEuPathDB alternative label: Building material
definition: A material entity used to build a dwelling or part of a dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete dwelling
type: Class
subclass of: ObsoleteClass
definition: A material entity for accommodation, such as a building, part of a building, caravan, houseboat or other mobile home. A tent is not normally considered to be substantial.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
definition source: http://en.wikipedia.org/wiki/Dwelling
has obsolescence reason: IAO_0000228
term replaced by: human dwelling
deprecated: true

roof material
type: Class
equivalent class: Class
  intersection of: building material
  intersection of: Restriction
    on property: has role
    some values from: roof material role
subclass of: building material
VEuPathDB alternative label: Roof material
definition: A building material used in the construction of a roof.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete roof
type: Class
subclass of: ObsoleteClass
has obsolescence reason: IAO_0000228
term replaced by: building roof
deprecated: true

floor material
type: Class
equivalent class: Class
  intersection of: building material
  intersection of: Restriction
    on property: has role
    some values from: floor material role
subclass of: building material
VEuPathDB alternative label: Floor material
definition: A building material used in the construction of a floor
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

wall material
type: Class
equivalent class: Class
  intersection of: building material
  intersection of: Restriction
    on property: has role
    some values from: wall material role
subclass of: building material
VEuPathDB alternative label: Wall material
definition: A building material used in the construction of a wall.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete wall brick
type: Class
subclass of: ObsoleteClass
definition: A processed material shaped a small rectangular block typically made of clay mixed with sand and fired in a kiln or baked by the sun, used in building wall construction.
definition source: http://www.thefreedictionary.com/brick
deprecated: true

obsolete traditional house
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete modern house
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

numerical household wealth index
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Household wealth index, numerical
definition: A data item of a household's cumulative living standard represented in a numerical datum. The wealth index is calculated using easy-to-collect data on a household's ownership of selected assets, such as televisions and bicycles; materials used for housing construction; and types of water access and sanitation facilities.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
definition source: http://dhsprogram.com/topics/Wealth-Index.cfm

obsolete eaves
type: Class
subclass of: ObsoleteClass
definition: A processed material that is the bottom edge of a roof. The primary function of the eaves is to keep rain water off the walls and to prevent the ingress of water at the junction where the roof meets the wall. The secondary function is to control solar penetration; the eaves overhang can be designed to adjust the building's solar heat gain to suit the local climate, the latitude and orientation of the building, refer to passive solar building design. The eaves overhang may also shelter openings to ventilate the roof space.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
definition source: http://en.wikipedia.org/wiki/Eaves
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/88
term replaced by: eaves
deprecated: true

obsolete open eaves
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete closed eaves
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

air brick
type: Class
subclass of: OBI_0000047
VEuPathDB alternative label: Air bricks
definition: A brick with holes which is embedded in a wall to allow ventilation through it.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
definition source: http://en.wiktionary.org/wiki/air_brick

number of residents in a dwelling
type: Class
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Persons living in house count
definition: A scalar measurements datum of resident in a dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete household having electricity information
type: Class
subclass of: ObsoleteClass
definition: An information content entity to indicate whether a household has electricity in a dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
deprecated: true

cooking fuel material
type: Class
subclass of: material entity
VEuPathDB alternative label: Cooking fuel
definition: A material entity that consists of fuel mainly used for cooking.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete lighting material
type: Class
subclass of: ObsoleteClass
definition: A material entity that consists of an energy source for lighting.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0400065
deprecated: true

number of rooms for sleeping in a dwelling
type: Class
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Sleeping rooms in dwelling count
definition: number of rooms in a dwelling that are used for sleeping.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: number of bedrooms in a dwelling
definition source: PRISM
definition source: Penn Group

land area measurement datum
type: Class
subclass of: IAO_0000032
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
subclass of: Restriction
  on property: is quality measurement of
  some values from: PATO_0001323
VEuPathDB alternative label: Acres
definition: A scalar measurement datum of land such as land owned by a household.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
definition source: Person: Chris Stoeckert

number of meals per day
type: Class
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Meals per day
definition: A scalar measurement datum of meals per day in a household
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

number of days per week eating meat
type: Class
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Meat meals per week
definition: A scalar measurement datum of days eating meat in a week in a household
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

frequency of not satisfying food needs
type: Class
subclass of: OBI_0000938
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Food problems per week
definition: A categorical measurement datum that specifies how frequently the food needs of a household were not met.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete distance to health facility
type: Class
subclass of: ObsoleteClass
definition: A length measurement datum of the distance from a dwelling to the nearest health facility.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
definition source: Person: Chris Stoeckert
deprecated: true

obsolete date of birth
type: Class
subclass of: ObsoleteClass
definition source: ICEMR protein array
has obsolescence reason: IAO_0000228
term replaced by: EFO_0004950
deprecated: true

glucose 6 phosphate dehydrogenase genotype
type: Class
subclass of: OBI_0001305
VEuPathDB alternative label: G6PD genotype
definition: A genotype information which is about the presence of certain genetic variants of glucose-6-phosphate dehydrogenase.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

alpha thalassemia genotype
type: Class
subclass of: OBI_0001305
VEuPathDB alternative label: Alpha-thalassemia genotype
definition: A genotype information which is about the presence and degree of alpha-thalassemia, a form of thalassemia involving the number of functional HBA1 and HBA2 genes.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

sickle hemoglobin genotype
type: Class
subclass of: OBI_0001305
VEuPathDB alternative label: HbS genotype
definition: A genotype information which is about the presence of sickle-cell hemoglobin (HbS), an abnormal form of hemoglobin which is the oxygen-carrying protein within the red blood cells.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

diagnosis of parasitic infectious disease
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: parasitic infectious disease
VEuPathDB alternative label: Malaria-related diagnosis
definition: A diagnosis that is an assertion that a patient has a parasitic infectious disease.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete presence of bacteria in the blood
type: Class
subclass of: ObsoleteClass
definition: A phenotypic abnormality of the presence of bacteria in the blood.
editor note: not in use; will replace w/Bacteremia from HP if equivalent term needed
definition source: http://en.wikipedia.org/wiki/Bacteremia
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/70
deprecated: true

obsolete diagnosis of uncomplicated malaria
type: Class
subclass of: ObsoleteClass
definition: A diagnosis of malaria without evidence of complicated malaria.
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Grant Dorsey
definition source: PRISM
deprecated: true

obsolete presence of virus in the blood
type: Class
subclass of: ObsoleteClass
definition: A phenotypic abnormality of the presence of a virus in the blood. It is a medical condition where viruses enter the bloodstream and hence have access to the rest of the body.
editor note: not in use; will replace w/Viremia from HP if equivalent term needed
definition source: http://en.wikipedia.org/wiki/Viremia
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/70
deprecated: true

diagnosis of complicated malaria
type: Class
subclass of: diagnosis of malaria
VEuPathDB alternative label: Complicated malaria
definition: A diagnosis of malaria with the presence of any danger signs including inability to sit up or stand, vomiting everything, unable to breastfeed or drink and lethargy or meeting criteria for severe malaria.
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Grant Dorsey

obsolete diagnosis of complicated malaria with high parasite density
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM observation, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete diagnoses of complicated malaria with danger signs
type: Class
subclass of: ObsoleteClass
definition: A diagnosis of complicated malaria with signs and symptoms, such as inability to sit up or stand, vomiting everything, unable to breastfeed or drink, lethargy, which are not listed as WHO criteria used to diagnose severe malaria.
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Grant Dorsey
definition source: PRISM
deprecated: true

diagnosis of severe malaria
type: Class
subclass of: diagnosis of complicated malaria
VEuPathDB alternative label: Severe malaria
definition: A diagnosis of complicated malaria based on WHO criteria that include the presence of parasite infections, most commonly P.falciparum, and any one or more of symptoms/signs of serious organ failures or abnormalities, including cerebral malaria, severe anemia, generalized convulsions, hypoglycemia, respiratory distress, fluid and electrolyte disturbances, acute renal failure, ARDS, circulatory collapse, abnormal bleeding, and Jaundice.
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Grant Dorsey

obsolete severe malaria
type: Class
subclass of: ObsoleteClass
definition: a malaria characterized by serious organ failures or abnormalities including cerebral malaria, severe anemia, generalized convulsions, hypoglycemia, respiratory distress, fluid and electrolyte disturbances, acute renal failure, ARDS, circulatory collapse, abnormal bleeding, and jaundice.
term editor: Person: John Judkins
definition source: Centers for Disease Control and Prevention
deprecated: true

severe malaria symptom or sign information
type: Class
subclass of: symptom or sign information
definition: Symptom or sign information that is used for the diagnosis of severe malaria based on World Health Organization (WHO) criteria.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete hemoglobin level
type: Class
subclass of: ObsoleteClass
definition: A scalar measurement datum about the level of hemoglobin in the blood.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/200
term replaced by: blood hemoglobin level
deprecated: true

blood smear reading as positive or negative
type: Class
subclass of: OBI_0000938
subclass of: Restriction
  on property: is_specified_output_of
  some values from: OGMS_0000056
VEuPathDB alternative label: Plasmodium asexual stages, by microscopy
definition: A categorical measurement datum that indicates the presence of asexual parasites in blood cells by microscopy using a value of positive or negative.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: asexual parasites present by microscopy
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group

obsolete clinical visit
type: Class
subclass of: ObsoleteClass
definition: A planned process in which a patient is seen by a medical practitioner.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/56
term replaced by: OGMS_0000097
deprecated: true

obsolete routine clinical visit
type: Class
subclass of: ObsoleteClass
definition: A clinical visit that is primarily for a regular examination.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
deprecated: true

human participant under investigation
type: Class
equivalent class: Class
  intersection of: NCBITaxon 9606
  intersection of: Restriction
    on property: has role
    some values from: OBI_0000097
subclass of: participant under investigation
subclass of: NCBITaxon 9606
definition: a human being who bears a participant under investigation role
term editor: Person: John Judkins
alternative label: human study subject
definition source: EuPathDB

obsolete dwelling ventilation
type: Class
subclass of: ObsoleteClass
definition: A material entity whichis part of a dwelling for providing fresh air to the dwelling.
definition source: PRISM
deprecated: true

subcounty of Uganda
type: Class
subclass of: fourth-order administrative region
subclass of: Restriction
  on property: part of
  has value: GAZ_00001102
VEuPathDB alternative label: Sub-county in Uganda
definition: A fourth-order administrative region of Uganda.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: VEuPathDB

obsolete CDC light trap assay
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete medication role
type: Class
subclass of: ObsoleteClass
definition: A role borne by some material entity which can be delivered/administrated into some organisms and the role is realized during clinical treatment process aiming to treat symptoms, signs or diagnosed disease.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OGMS_0000148
deprecated: true

obsolete medication material
type: Class
subclass of: ObsoleteClass
example of usage: blood used in transfusion for replacement blood lost during surgery or due to a serious injury.
example of usage: quinine used in malaria medication
definition: A material entity that is bearer of a medication role.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBIB_0000029
deprecated: true

malaria medication
type: Class
subclass of: OBIB_0000029
VEuPathDB alternative label: Antimalarial medication
definition: A medication material intended to prevent or treat malaria.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group

non-malaria medication
type: Class
subclass of: OBIB_0000029
VEuPathDB alternative label: Non-malaria medication
definition: A medication material intended to prevent or treat a disease other than malaria.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group

obsolete quinine drug product
type: Class
subclass of: ObsoleteClass
definition: A drug product that has the chemical ingredient quinine and has antipyretic (fever-reducing), antimalarial, analgesic (painkilling), and anti-inflammatory properties.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: quinine
definition source: PRISM
deprecated: true

obsolete artemether-lumefantrine drug product
type: Class
subclass of: ObsoleteClass
definition: A drug product that is the of combination artemether/lumefantrine (trade names Coartem and Riamet, Falcynate-LF). It is generally used for the treatment of acute uncomplicated Plasmodium falciparum malaria.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: artemether-lumefantrine
alternative label: coartem
definition source: PRISM
definition source: http://en.wikipedia.org/wiki/Artemether/lumefantrine
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/162
term replaced by: artemether / lumefantrine Oral Tablet
deprecated: true

obsolete clinical characteristics
type: Class
subclass of: ObsoleteClass
definition: A dependent continuant which is either disease or phenotypic abnormality.
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/72
deprecated: true

household information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
definition: An information content entity is about household.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

obsolete diagnosis of uncomplicated malaria in the 1st trimester of pregnancy
type: Class
subclass of: ObsoleteClass
definition: A diagnosis of uncomplicated malaria that occurs with the first trimester of pregnancy.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete diagnosis of asymptomatic microscopic parasitemia
type: Class
subclass of: ObsoleteClass
definition: A diagnosis based on presence of asexual parasites by microscopy in the absence of subjective fever or documented elevated temperature
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

diagnosis of symptomatic malaria
type: Class
subclass of: diagnosis of malaria
VEuPathDB alternative label: Malaria diagnosis
definition: A diagnosis of malaria based on positive blood smear with subjective fever or elevated temperature resulting in antimalarial treatment.
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Penn Group

date of clinical visit
type: Class
subclass of: information on observation details
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
VEuPathDB alternative label: Visit date
definition: A time measurement datum that specifies the date of a clinical visit.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

asexual parasite density by microscope
type: Class
subclass of: Plasmodium in blood by microscopy assay datum
subclass of: Restriction
  on property: is_specified_output_of
  some values from: OGMS_0000056
VEuPathDB alternative label: Plasmodium asexual stages, by microscopy result
definition: A scalar measurement datum that is the output of a microscopy assay on a specimen and is expressed as a ratio of asexual parasites to either the quantity of specimen or number of leukocytes within it.
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete dwelling information
type: Class
subclass of: ObsoleteClass
definition: An information content entity about dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
deprecated: true

household identifier
type: Class
subclass of: IAO_0000028
subclass of: Restriction
  on property: denotes
  some values from: PCO_0000024
VEuPathDB alternative label: Household ID
definition: A symbol that denotes a specific household.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

human study subject identifier
type: Class
subclass of: OBI_0003071
subclass of: Restriction
  on property: denotes
  some values from: human participant under investigation
VEuPathDB alternative label: Participant ID
definition: A symbol that denotes a specific human participant under investigation.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group

study participant information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Participant
definition: An information content entity which is about features of a human participant under investigation.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group

febrile
type: Class
subclass of: HP_0000118
VEuPathDB alternative label: Febrile
definition: elevated temperature or subjective fever
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group

obsolete ventilation function
type: Class
subclass of: ObsoleteClass
definition: A function to provide fresh air to a closed space.
deprecated: true

obsolete dwelling facility
type: Class
subclass of: ObsoleteClass
definition: A material entity in a dwelling that is designed, built, installed, selected, etc., to serve a specific function affording a convenience or service to people who are living in the dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
deprecated: true

subjective fever
type: Class
subclass of: HP_0000118
VEuPathDB alternative label: Subjective fever
definition: A phenotypic abnormality of a subjective fever as reported by the study participant or their parent/guardian
term editor: Person: Jie Zheng, Chris Stoeckert, Grant Dorsey
definition source: Grant Dorsey
definition source: PRISM

obsolete elevated temperature
type: Class
subclass of: ObsoleteClass
definition: a febrile quality of an abnormally high temperature
term editor: Person: John Judkins
definition source: EuPathDB
deprecated: true

obsolete temperature measurement datum
type: Class
subclass of: ObsoleteClass
definition: A scalar measurement datum that is about temperature.
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003079
deprecated: true

obsolete dwelling ventilation function
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR, no longer used
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/166
comment: A ventilation function to provide fresh air to a dwelling.
deprecated: true

participant under investigation
type: Class
equivalent class: Class
  intersection of: OBI_0100026
  intersection of: Restriction
    on property: has role
    some values from: OBI_0000097
subclass of: OBI_0100026
definition: an organism that is the bearer of a partipant under investigation role
term editor: Person: John Judkins
alternative label: study subject
definition source: EuPathDB

building material role
type: Class
subclass of: role
definition: A role that inheres in a material entity that is realized in a building process in which the material entity will become part of a structure with a roof and walls standing more or less permanently in one place.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
scheduled for obsoletion on or after: yes

roof material role
type: Class
subclass of: building material role
definition: A building material role that inheres in a material entity that is realized in a building process in which the material entity will become part of a roof.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
scheduled for obsoletion on or after: yes

wall material role
type: Class
subclass of: building material role
definition: A building material role that inheres in a material entity that is realized in a building process in which the material entity will become part of a wall.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
scheduled for obsoletion on or after: yes

floor material role
type: Class
subclass of: building material role
definition: A building material role that inheres in a material entity that is realized in a building process in which the material entity will become part of a floor.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: Penn Group
scheduled for obsoletion on or after: yes

obsolete dwelling facility role
type: Class
subclass of: ObsoleteClass
definition: A role that inheres in a material entity that is realized in a process that provides a convenience or service to people who are living in a dwelling.
scheduled for obsoletion on or after: yes
deprecated: true

obsolete organismal body temperature measurement datum
type: Class
subclass of: ObsoleteClass
definition: A temperature measurement datum that is about an organism.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003073
deprecated: true

obsolete floor brick
type: Class
subclass of: ObsoleteClass
definition: A processed material shaped a small rectangular block typically made of clay mixed with sand and fired in a kiln or baked by the sun, used in building floor construction.
definition source: http://www.thefreedictionary.com/brick
deprecated: true

obsolete age since birth at time of visit
type: Class
subclass of: ObsoleteClass
definition: An age since birth measurement datum at the time of a clinical visit.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003076
deprecated: true

average asexual parasite density of a participant with asymptomatic microscopic parasitemia
type: Class
subclass of: OBI_0000679
definition: An average value of asexual parasites counted per microliter of blood (i.e. malaria parasite density) across mulitiple clinical visits of a participant who was diagnosed with asymptomatic microscopic parasitemia.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average asexual parasite density of a participant with malaria
type: Class
subclass of: OBI_0000679
definition: An average value of asexual parasites counted per microliter of blood (i.e. malaria parasite density) across mulitiple clinical visits of a participant who was diagnosed with malaria.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of female Anopheles per night
type: Class
subclass of: OBI_0000679
definition: An average value of female Anopheles mosquitoes collected across multiple collections (e.g. from one or more households on a number of nights).
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of female Anopheles tested for sporozoite
type: Class
subclass of: OBI_0000679
definition: An average value of Anopheles mosquitoes tested for sporozoites across multiple collections (e.g. from a given household across CDC light trap collections) in a given period.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of sporozoite-positive female Anopheles
type: Class
subclass of: OBI_0000679
definition: An average value of sporozoite positive female Anopheles mosquitoes across multiple collections (e.g. from a given household over a number of nights of collections).
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average percent of female Anopheles with Plasmodium sporozoites
type: Class
subclass of: OBI_0000679
definition: An average percentage value of female Anopheles mosquitoes tested as sporozoites-positive in all female mosquitoes tested for sporozoites across multiple collections.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete age since birth at time of enrollment
type: Class
subclass of: ObsoleteClass
definition: An age since birth measurement datum at the time of subject enrollment.
term editor: Person: Jie Zheng
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003075
deprecated: true

number of clinical visits
type: Class
subclass of: information on observation details
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
VEuPathDB alternative label: Total antenatal care visits
definition: A data item of the total number of clinical visits by a participant in an investigation.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of clinical visits resulting in a malaria diagnosis
type: Class
subclass of: information on observation details
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
definition: A data item of the number of clinical visits during which the participant was diagnosed with malaria
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of clinical visits resulting in an asymptomatic microscopic parasitemia diagnosis
type: Class
subclass of: information on observation details
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
VEuPathDB alternative label: Total visits with microscopic parasitemia
definition: A data item of the number of clinical visits during which the participant was diagnosed with asymptomatic microscopic parasitemia.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete number of non-routine clinical visits
type: Class
subclass of: ObsoleteClass
definition: A data item of the total number of clinical visits which were not sheduled routine visits.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete number of routine clinical visits
type: Class
subclass of: ObsoleteClass
definition: A data item of the total number of clinical visits which were not sheduled routine visits.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete sample available information
type: Class
subclass of: ObsoleteClass
definition: An information content entity that is about the type of sample/specimen collected during a clinical visit.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: PRISM
deprecated: true

obsolete blood specimen on filter paper
type: Class
subclass of: ObsoleteClass
definition: A blood specimen that is located on a filter paper.
term editor: Chris Stoeckert
term editor: Jie Zheng
alternative label: Filter paper sample
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003055
deprecated: true

peripheral blood mononuclear cell specimen
type: Class
subclass of: OBI_0000953
VEuPathDB alternative label: Peripheral blood mononuclear cell sample
definition: A processed specimen that is extracted from whole blood using gradient centrifugation that separates the blood into a layer of peripheral blood mononuclear cell under the top layer of plasma. It contains lymphocytes, monocytes or macrophages that are critical components in the immune system.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: PBMC specimen
definition source: http://en.wikipedia.org/wiki/Peripheral_blood_mononuclear_cell

obsolete red blood cell specimen
type: Class
subclass of: ObsoleteClass
definition: A processed specimen consisting of red blood cells isolated from whole blood by centrifugation.
term editor: Person: Jie Zheng, Chris Stoeckert
alternative label: RBC specimen
alternative label: erythrocyte specimen
definition source: http://www.ruf.rice.edu/~bioslabs/studies/sds-page/gellab1.html
has obsolescence reason: IAO_0000228
term replaced by: OBI_2000016
deprecated: true

obsolete average number of Plasmodium parasite-positive female Anopheles
type: Class
subclass of: ObsoleteClass
definition: An average value for female Anopheles mosquitoes tested positive for carrying Plasmodium parasites across multiple collections (e.g. from a given household across CDC light trap collections) in a given period.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete average number of female Anopheles tested for Plasmodium parasite
type: Class
subclass of: ObsoleteClass
definition: An average value for female Anopheles mosquitoes tested for carrying Plasmodium parasites across multiple collections (e.g. from a given household across CDC light trap collections) in a given period.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete average percent of Plasmodium parasite-positive female Anopheles
type: Class
subclass of: ObsoleteClass
definition: An average percentage value for female Anopheles mosquitoes carrying Plasmodium parasites in all female mosquitoes tested for carrying Plasmodium parasites across multiple collections.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

number of Anopheles collections
type: Class
subclass of: STATO_0000047
definition: A count of Anopheles mosquitoes collections performed (e.g. from a given household) in a given period.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

sum number of female Anopheles in a collection
type: Class
subclass of: OBCS_0000170
VEuPathDB alternative label: Female Anopheles count
definition: A sum value for all species of female Anopheles mosquitoes in a given collections.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

sum number of female Anopheles funestus in a collection
type: Class
subclass of: OBCS_0000170
VEuPathDB alternative label: Female Anopheles funestus count
definition: A sum value for all female Anopheles funestus mosquitoes in a given collections.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

sum number of female Anopheles gambiae in a collection
type: Class
subclass of: OBCS_0000170
VEuPathDB alternative label: Female Anopheles gambiae count
definition: A sum value for all female Anopheles gambiae mosquitoes in a given collections.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of observation of study participant
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is duration of
  some values from: Class
    intersection of: OBI_0000471
    intersection of: Restriction
      on property: has participant
      some values from: participant under investigation
VEuPathDB alternative label: Observation period
definition: A time datum for the duration of a patients participation in an investigation.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of clinical visits per year
type: Class
subclass of: OBI_0000679
definition: An average value for the number of clinical visits of a patient based on calendar years
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of clinical visits with asymptomatic microscopic parasitemia diagnosis per year
type: Class
subclass of: OBI_0000679
definition: An average value for the number of clinical visits of a patient with asymptomatic microscopic parasitemia based on calendar years.
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of clinical visits with malaria diagnosis per year
type: Class
subclass of: OBI_0000679
definition: An average value for the number of clinical visits of a patient with malaria based on calendar years
term editor: Person: Jie Zheng, Chris Stoeckert, Shon cade, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete routine clinical visit date
type: Class
subclass of: ObsoleteClass
definition: A clinical visit date that specifies the date/time period of a routine clinical visit.
term editor: Person: Jie Zheng
definition source: PRISM
definition source: Penn Group
deprecated: true

categorical household wealth index
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Household wealth index, categorical
definition: A data item about a household's cumulative living standard represented in a categorical datum. The wealth index is calculated using data on a household's ownership of selected assets, such as televisions and bicycles; materials used for housing construction; and types of water access and sanitation facilities.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: http://dhsprogram.com/topics/Wealth-Index.cfm

household asset information
type: Class
subclass of: household information
VEuPathDB alternative label: Assets
definition: An information content entity about items that a household owns such as a car, funiture, etc.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete antimalarial therapy given outside the study since last seen information
type: Class
subclass of: ObsoleteClass
definition: An information content entity indicating whether a person was given antimalarial therapy outside the study since last seen as part of the study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete cause of participant death
type: Class
subclass of: ObsoleteClass
definition: An information content entity indicating the cause of death for a participant in the study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete clinical visit when sick
type: Class
subclass of: ObsoleteClass
definition: A clinical visit occuring because of a sickness.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete covered pit latrine without slab
type: Class
subclass of: ObsoleteClass
definition: A covered pit latrine that does not have a latrine slab.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

date of death
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Death date
definition: A time measurement datum specifying the date of death
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

date of participant first enrolled in a study
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Enrollment date
definition: A time measurement datum that specified the date of participant first enrolled in a study
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

date of participant last seen in a study
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Last date observed
definition: A time measurement datum that specified the date of participant last seen in a study
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete days since a clinical visit with a malaria diagnosis
type: Class
subclass of: ObsoleteClass
definition: A time measurement datum measuring the number of days since a clinical visit took place which resulted in a malaria diagnosis.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

duration of abdominal pain
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Abdominal pain duration
definition: A time measurement datum that measures the duration of having abdominal pain.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of anorexia
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Anorexia duration
definition: A time measurement datum that measures the duration of having anorexia.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of cough
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Cough duration
definition: A time measurement datum that measures the duration of having a cough.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of diarrhea
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Diarrhea duration
definition: A time measurement datum that measures the duration of having diarrhea.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of fatigue
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Fatigue duration
definition: A time measurement datum that measures the duration of having fatigue.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of headache
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Headache duration
definition: A time measurement datum that measures the duration of having a headache.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of jaundice
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Jaundice duration
definition: A time measurement datum that measures the duration of having jaundice.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of joint pains
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Joint pains duration
definition: A time measurement datum that measures the duration of having joint pains.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of muscle aches
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Muscle aches duration
definition: A time measurement datum that measures the duration of having muscle aches.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of seizures
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Seizures duration
definition: A time measurement datum that measures the duration of having seizures.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of subjective fever
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Subjective fever duration
definition: A time measurement datum that measures the duration of having subjective fever.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

duration of vomiting
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Vomiting duration
definition: A time measurement datum that measures the duration of having vomiting.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

indicator of household having animal-drawn cart
type: Class
subclass of: household asset information
VEuPathDB alternative label: Animal-drawn cart
definition: A household asset information indicating whether a member of a household has or owns an animal-drawn cart.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

indicator of household having bank account
type: Class
subclass of: household asset information
VEuPathDB alternative label: Bank account
definition: A household asset information indicating whether a member of a household has a bank account.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete household bed asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a bed.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household bicycle asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a member of a household has or owns a bicycle.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

indicator of household having boat without a motor
type: Class
subclass of: household asset information
VEuPathDB alternative label: Boat without a motor
definition: A household asset information indicating whether a member of a household has or owns a boat without a motor.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

indicator of household having car
type: Class
subclass of: household asset information
VEuPathDB alternative label: Car or truck
definition: A household asset information indicating whether a member of a household has or owns a car or truck.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete household cassette player asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a cassette player.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household chair asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a chair.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household clock asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a clock.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household cupboard asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a cupboard.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household electricity asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has electricity in their dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household fixed phone asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a land line or fixed location phone.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household mobile phone asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a mobile phone.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

indicator of household having motorboat
type: Class
subclass of: household asset information
VEuPathDB alternative label: Boat with a motor
definition: A household asset information indicating whether a member of a household has or owns a boat with a motor.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete household motorcycle or scooter asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a member of a household has or owns a motorcycle or motor scooter.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household radio asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a radio.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household refrigerator asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a refrigerator.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household sofa asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a sofa.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household table asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a table.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete household television asset
type: Class
subclass of: ObsoleteClass
definition: A household asset information indicating whether a household has a television.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

indicator of household having watch
type: Class
subclass of: household asset information
VEuPathDB alternative label: Watch
definition: A household asset information indicating whether a member of a household has or owns a watch.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete incident of malaria episode information
type: Class
subclass of: ObsoleteClass
definition: An information content entity indicating whether a malaria episode occurred
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete location of clinical visit
type: Class
subclass of: ObsoleteClass
definition: A material entity where a clinical visit took place.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OMRSE_00000102
deprecated: true

obsolete location of death
type: Class
subclass of: ObsoleteClass
definition: A material entity where a death occurred.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/119
term replaced by: location of death
deprecated: true

obsolete medical care outside the study clinic since last seen information
type: Class
subclass of: ObsoleteClass
definition: An information content entity indicating whether medical care occurred outside the study clinic since last seen as part of the study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

duration of study participation from enrollment to current visit
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time since enrollment
definition: A time measurement datum of the interval from participant enrollment in a study until the current visit.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

number of fed female Anopheles funestus in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Bloodfed Anopheles funestus count
definition: A measurement datum of the number of female Anopheles funestus with a recent blood meal in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of fed female Anopheles gambiae in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Bloodfed Anopheles gambiae count
definition: A measurement datum of the number of female Anopheles gambiae with a recent blood meal in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of female Anopheles dissected for parity in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Anopheles dissected for parity count
definition: A measurement datum of the number of female Anopheles dissected for parity in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of female null parous Anopheles in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Anopheles nulliparous count
definition: A measurement datum of the number of female Anopheles that have never layed eggs in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of female parous Anopheles in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Anopheles parous count
definition: A measurement datum of the number of female Anopheles that have layed eggs before or are pregnant in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of gravid or semi-gravid Anopheles funestus in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Gravid Anopheles funestus count
definition: A measurement datum of the number of gravid or semi-gravid female Anopheles funestus in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of gravid or semi-gravid female Anopheles gambiae in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Gravid Anopheles gambiae count
definition: A measurement datum of the number of gravid or semi-gravid female Anopheles gambiae in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete number of insecticide treated mosquito net(s) per person
type: Class
subclass of: ObsoleteClass
definition: An average value for the number of insecticide treated mosquito net(s) per person.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

number of non-gambiae or funestus female Anopheles species in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Other female Anopheles species count
definition: A measurement datum of the number of female Anopheles that are not gambiae nor funestus in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of sleeping places in dwelling with a household
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Sleeping places count
definition: A data item of the number of sleeping spaces in a dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of unassessable Anopheles funestus in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Unable to assess Anopheles funestus count
definition: A measurement datum of the number of Anopheles funestus that could not be accessed in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of unassessable Anopheles gambiae in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Unable to assess Anopheles gambiae count
definition: A measurement datum of the number of Anopheles gambiae that could not be assessed in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of unfed female Anopheles funestus in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Unfed Anopheles funestus count
definition: A measurement datum of the number of female Anopheles funestus without a recent blood meal in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

number of unfed female Anopheles gambiae in a collection
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Unfed Anopheles gambiae count
definition: A measurement datum of the number of female Anopheles gambiae without a recent blood meal in a given collection
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete plasma sample lost information
type: Class
subclass of: ObsoleteClass
definition: An information content entity that indicates whether a plasma sample is lost or not.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

presence of Plasmodium gametocyte in blood by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: OPL_0000267
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Plasmodium gametocytes in blood by microscopy assay datum
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium gametocytes, by microscopy
definition: A Plasmodium gametocytes in blood by microscopy assay datum that specifies whether gametocytes were detected.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM

reason for participant withdrawal
type: Class
subclass of: study participant information
VEuPathDB alternative label: Reason for withdrawal
definition: An information content entity indicating the reason why a participant withdrew from a study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

obsolete redraw of a symptom after clinical visit information
type: Class
subclass of: ObsoleteClass
definition: An information content entity that indicates whether a redraw of a symptom occurred after a clinical visit.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete routine clinical visit for T-cell study
type: Class
subclass of: ObsoleteClass
definition: A routine clinical visit in which a blood specimen was collected for a T-cell study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete routine clinical visit with finger prick
type: Class
subclass of: ObsoleteClass
definition: A routine clinical visit in which a blood specimen was collected by finger prick and sent for lab testing (e.g., blood smear, hemoglobin level measurement).
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete routine clinical visit with venipuncture
type: Class
subclass of: ObsoleteClass
definition: A routine clinical visit in which a blood specimen was collected using venipuncture and sent for lab testing (e.g., blood smear, hemoglobin level measurement).
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete routine clinical visit without any routine assessment done
type: Class
subclass of: ObsoleteClass
definition: A routine clinical visit in which no routine assessment was done during the visit.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete screened air brick
type: Class
subclass of: ObsoleteClass
definition: An air brick with a screen that can prevent some insects get in the dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

severe anemia
type: Class
subclass of: anemia
VEuPathDB alternative label: Severe anemia
definition: An anemia with hemoglobin levels less than 5 gm/dL.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: ICEMR protein array
definition source: PRISM
definition source: Penn Group

slept in an insecticide treated net last night information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: ITN last night
definition: An information content entity indicating whether a person slept in an insecticide treated net the previous night.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

sum number of female Anopheles examined for sporozoites in a collection
type: Class
subclass of: OBCS_0000170
VEuPathDB alternative label: Anopheles tested for sporozoites count
definition: A sum value for all female Anopheles examined for sporozoites in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

sum number of female Anopheles with Plasmodium sporozoites in a collection
type: Class
subclass of: OBCS_0000170
VEuPathDB alternative label: Sporozoite-pos Anopheles count
definition: A sum value for all female Anopheles with Plasmodium sporozoites in a given collection.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group

indicator of enrollment timing
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0600004
VEuPathDB alternative label: Timing of enrollment
definition: An information content entity indicating whether enrollment of a human study subject occurred at the beginning of a study or during the study.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey, John Judkins
definition source: PRISM
definition source: Penn Group

obsolete uncovered pit latrine with slab
type: Class
subclass of: ObsoleteClass
definition: A pit latrine that is not sheltered by an outhouse but has a latrine slab.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete uncovered pit latrine without slab
type: Class
subclass of: ObsoleteClass
definition: A pit latrine that is not sheltered by an outhouse and does not have a latrine slab.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete unscreened air brick
type: Class
subclass of: ObsoleteClass
definition: An air brick without a screen to prevent insects from enetering the dwelling.
term editor: Person: Jie Zheng, Chris Stoeckert, David Roos, Grant Dorsey
definition source: PRISM
definition source: Penn Group
deprecated: true

obsolete Muscle aches
type: Class
subclass of: ObsoleteClass
definition: Pain perceived to originate in the muscle.
definition source: PRISM
has obsolescence reason: IAO_0000228
term replaced by: HP_0003326
deprecated: true

obsolete solar light source
type: Class
subclass of: ObsoleteClass
definition: A light source that light is produced from solar energy.
term editor: Person: Jie Zheng, Chris Stoeckert
has obsolescence reason: IAO_0000228
term replaced by: OBI_0002902
deprecated: true

obsolete drinking water from open public well
type: Class
subclass of: ObsoleteClass
definition: drinking water that is obtained from a publicly accessible water well without a constructed barrier built around it to limit movement of waste or runoff into it
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete drinking water from open well in yard
type: Class
subclass of: ObsoleteClass
definition: drinking water that is obtained from a water well with a constructed barrier built around it to limit movement of waste or runoff into the well and the well is located in the yard of a dwelling
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

drinking water from pipe into dwelling
type: Class
subclass of: drinking water
VEuPathDB alternative label: Piped into dwelling
definition: drinking water accessed through a plumbing fixture located inside a human dwelling
term editor: Person: John Judkins
definition source: EuPathDB

drinking water from pipe into yard
type: Class
subclass of: drinking water
VEuPathDB alternative label: Piped into yard
definition: drinking water obtained through a plumbing fixture located in the yard of a human dwelling
term editor: Person: John Judkins
definition source: EuPathDB

obsolete drinking water from protected public well
type: Class
subclass of: ObsoleteClass
editor note: was ClinEpi household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete drinking water from freshwater spring
type: Class
subclass of: ObsoleteClass
editor note: from ClinEpi household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete drinking water from protected well in yard
type: Class
subclass of: ObsoleteClass
editor note: ClinEpi household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete drinking water from unprotected freshwater spring
type: Class
subclass of: ObsoleteClass
definition: drinking water that is obtained from a freshwater spring without a constructed barrier built around it that would limit movement of waste or runoff into it
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete drinking water from water truck
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM household, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete ATCC number
type: Class
subclass of: ObsoleteClass
definition: A centrally registered identifier symbol assigned by the American Type Culture Collection (ATCC).
deprecated: true

parasite clearance half life
type: Class
subclass of: OBI_0001171
VEuPathDB alternative label: Parasite clearance half life
definition: half life datum (t 1/2) for cleaning parasite
alternative label: clearance half life
definition source: EuPathDB

parasite clearance rate
type: Class
subclass of: OBI_0001554
VEuPathDB alternative label: Parasite clearance rate
definition: a rate measurement datum that represents the number of parasite organisms removed from the bearer of a host role by means of the biological processes of the bearer of the host role
term editor: Person: John Judkins
alternative label: clearance rate
definition source: EuPathDB

duration of parasite clearance
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Parasite clearance time
definition: a time measurement datum that is the result of measuring the time it takes for the biological processes of the bearer of a host role to remove parasite organisms within it, until such time as the organisms cannot be detected
term editor: Person: John Judkins
alternative label: clearance time
definition source: EuPathDB

obsolete symptomatic episode
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete chloroquine resistant
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete pyrimethamine and chloroquine resistant
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete pyrimethamine, mefloquine and chloroquine resistant
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete pyrimethamine resistant, chloroquine sensitive
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete record of unknown information
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR prism, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete pyrimethamine,chloroquine, and mefloquine resistant
type: Class
subclass of: ObsoleteClass
has obsolescence reason: IAO_0000103
deprecated: true

obsolete sodium antimony gluconate resistant
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: not responsive to SAG therapy
has obsolescence reason: IAO_0000103
deprecated: true

obsolete sodium antimony gluconate sensitive
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
alternative label: Sensitive to SAG
has obsolescence reason: IAO_0000103
deprecated: true

obsolete no malaria parasite infection diagnosis
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM observation, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

haplogroup
type: Class
subclass of: OBI_0000181
VEuPathDB alternative label: Haplogroup
definition: A population of people who share a common ancestor on the patrilineal or matrilineal line.

time parasitemia started
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: process boundary
    intersection of: Restriction
      on property: starts
      some values from: Restriction
        on property: realizes
        some values from: parasitic infectious disease
VEuPathDB alternative label: Parasitemia start time
definition: a time measurement datum that represents the beginning of the first process in which a parasitemia is realized
term editor: Person: John Judkins
definition source: EuPathDB

treatment outcome information
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000090
VEuPathDB alternative label: Treatment outcome
definition: an information content entity that describes the success, failure, or indeterminacy of a treatment
term editor: Person: John Judkins
alternative label: treatment outcome
definition source: EuPathDB

obsolete early treatment failure
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: ETF
has obsolescence reason: IAO_0000103
deprecated: true

obsolete late clinical failure
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: LCF
has obsolescence reason: IAO_0000103
deprecated: true

obsolete late failure
type: Class
subclass of: ObsoleteClass
editor note: Shannon Takala Harrison: Also not sure about LF, it could either be late failure or lost to follow-up.
editor note: Term need for annotation NIH-10K experiment, treatment outcome
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: LF
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lost to follow-up
type: Class
subclass of: ObsoleteClass
editor note: Shannon Takala Harrison: LOSS probably also means the patient was lost to follow-up.
editor note: Term need for annotation NIH-10K experiment, treatment outcome
editor note: no longer used
alternative label: LOSS
has obsolescence reason: IAO_0000103
deprecated: true

obsolete late parasitological failure
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: LPF
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Late Treatment Failure
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: LTF
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unknown outcome
type: Class
subclass of: ObsoleteClass
editor note: Shannon Takala Harrison: Not sure what NULL means; it could also indicate lost to follow-up.
editor note: Term need for annotation NIH-10K experiment, treatment outcome
editor note: was EuPathDB/PlasmoDB term, no longer used
alternative label: NULL
has obsolescence reason: IAO_0000103
deprecated: true

obsolete have a subsequent P. vivax infection
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR Amazonia, no longer used
alternative label: VIVAX
has obsolescence reason: IAO_0000103
deprecated: true

obsolete withdrew from the study
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
alternative label: WTH
has obsolescence reason: IAO_0000103
deprecated: true

obsolete summary information about a dwelling
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

information on dwelling facilities
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Dwelling facilities
definition: an information content entity that is about a process in which a human being occupying a dwelling participates. It either specifies the bearer of the function that is realized in the process, or it specifies that the process does not occur in the dwelling or its yard.
term editor: Person: John Judkins
definition source: EuPathDB

information on dwelling physical characteristics
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Restriction
    on property: part of
    some values from: human dwelling
VEuPathDB alternative label: Dwelling characteristics
definition: a information content entity that is about a part of a dwelling
term editor: Person: John Judkins
definition source: EuPathDB

socioeconomic factor
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
VEuPathDB alternative label: Socioeconomic factors
definition: an information content entity that is about a household and is an estimator of capabilities of household members to participate in processes that maintain their health, social status, and economic freedom
term editor: Person: John Judkins
definition source: EuPathDB

aggregated clinical visit information
type: Class
subclass of: IAO_0000030
definition: a data item that is about an investigation and is the specified output of a data transformation that has only clinical visit data as input
term editor: Person: John Judkins
definition source: EuPathDB

human genotype information
type: Class
equivalent class: Class
  intersection of: OBI_0001305
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: SO_0001027
      intersection of: Restriction
        on property: is concretized as
        some values from: Restriction
subclass of: OBI_0001305
VEuPathDB alternative label: Participant genotype
definition: a genotype information that is about the genetic material of a human being
term editor: Person: John Judkins
definition source: EuPathDB

information on participant study details
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: SO_0001027
      intersection of: Restriction
        on property: is concretized as
        some values from: NCBITaxon 9606
subclass of: IAO_0000030
VEuPathDB alternative label: Participant study details
definition: an information content entity that is about a part of a study design execution that is part of an investigation under which a human being is a participant
term editor: Person: John Judkins
definition source: EuPathDB

hospitalization information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Restriction
    on property: part of
    some values from: Class
      intersection of: OGMS_0000097
      intersection of: Restriction
        on property: occurs in
        some values from: OMRSE_00000063
VEuPathDB alternative label: Hospitalization
definition: an information content entity that is about a part of a health care encounter that occurs in a hospital facility
term editor: Person: John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

symptom or sign information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Signs and symptoms
definition: an information content entity that is about a sign or symptom of a patient
editor note: This should stay consistent w/OGMS's definitions, so this definition may need to be changed if OGMS changes their definitions of sign and symptom to information content entities.
term editor: Person: John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

information on observation details
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: OGMS_0000097
subclass of: health care information
VEuPathDB alternative label: Observation details
definition: an information content entity that is about a clinical visit
term editor: Person: John Judkins
definition source: EuPathDB

clinical visit type information
type: Class
subclass of: information on observation details
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
definition: an information content entity that specifies whether a clinical visit is scheduled or unscheduled
term editor: Person: John Judkins
definition source: EuPathDB

aggregated entomological data item
type: Class
subclass of: IAO_0000027
definition: an entomological data item that results from either (a) counting insect collections from multiple catches of live specimens or (b) an averaging data transformation that has single catch entomological measurement data as input
term editor: Person: John Judkins
alternative label: aggregated entomological measurement data
definition source: EuPathDB

obsolete single catch entomological measurement datum
type: Class
subclass of: ObsoleteClass
definition: an entomological data item that is the specified output of an assay that has a collection of insect specimens as specified input; this collection is the specified output of exactly one catch of live specimens
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete scheduled clinical visit
type: Class
subclass of: ObsoleteClass
definition: a clinical visit that realizes the concretization of a protocol specifying the time of the visit
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete unscheduled clinical visit
type: Class
subclass of: ObsoleteClass
definition: a clinical visit that occurs at a time that is not mentioned in a protocol that directs the time of the visit
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete malaria severity and basis information
type: Class
subclass of: ObsoleteClass
definition: an information content entity that is about a malaria diagnosis and describes the severity of the disease or the basis for the diagnosis
term editor: Person: John Judkins
definition source: EuPathDB
deprecated: true

diagnosis of disease other than malaria
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: Class
    intersection of: disease
    intersection of: Class
      complement of: malaria
VEuPathDB alternative label: Other diagnosis
definition: A diagnosis that is an assertion that a patient, who is the subject of a diagnostic process, has a disease other than malaria.
term editor: Person: John Judkins
definition source: VEuPathDB

hospital admission information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: denotes
  some values from: Class
    intersection of: OMRSE_00000063
    intersection of: Restriction
      on property: contains process
      some values from: Class
        intersection of: OGMS_0000097
        intersection of: Restriction
VEuPathDB alternative label: Admitting hospital
definition: an information content entity that is about a participant under investigation and specifies the hospital admitting the participant
term editor: Person: John Judkins
definition source: EuPathDB

date of hospital admission
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Hospital admission date
definition: a time measurement datum that is about a human being who bears a patient role and specifies the date of the patient's admission to a hospital
term editor: Person: John Judkins
definition source: EuPathDB

date of hospital discharge
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Hospital discharge date
definition: a time measurement datum that is about a human being who bears a patient role and specifies the date of the patient's discharge from a hospital
term editor: Person: John Judkins
definition source: EuPathDB

diagnosis at patient discharge
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: part of
  some values from: Restriction
    on property: is_specified_output_of
    some values from: OMRSE_00000126
VEuPathDB alternative label: Diagnosis at discharge
definition: A diagnosis that is documented during the patient discharge process.
term editor: Person: John Judkins
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/357

Anopheles funestus related information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Anopheles funestus results
definition: an information content entity that is about a collection of Anopheles funestus
term editor: Person: John Judkins
definition source: EuPathDB

Anopheles gambiae sensu lato related information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Anopheles gambiae sensu lato results
definition: an information content entity that is about a collection of Anopheles gambiae sensu lato
term editor: Person: John Judkins
definition source: EuPathDB, Wikipedia 'Sensu' entry

mosquito parity information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: PATO_0040028
    intersection of: Restriction
      on property: characteristic of
      some values from: NCBITaxon_41827
VEuPathDB alternative label: Anopheles parity
definition: an information content entity that is about a number of mosquitos that have given birth
term editor: Person: John Judkins
definition source: EuPathDB

sporozoite testing information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Sporozoite testing
definition: an entomological data item that is the specified output of an analyte assay to determine whether a sporozoite is present in any insect in a collection of insects
term editor: Person: John Judkins
definition source: EuPathDB

aggregated sporozoite testing information
type: Class
subclass of: IAO_0000030
definition: a data item that is the specified output of a data transformation that has only sporozoite testing information as input
term editor: Person: John Judkins
definition source: EuPathDB

obsolete entomological data item
type: Class
subclass of: ObsoleteClass
definition: a data item that is about a collection of insects
term editor: Person: John Judkins
alternative label: entomological measurement data
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003077
deprecated: true

obsolete clinical visit information
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR PRISM, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete easting coordinate measurement datum
type: Class
subclass of: ObsoleteClass
definition: One dimensional cartesian spatial coordinate datum refers to eastward-measured distance (or the x-coordinate). The terms easting and northing are geographic Cartesian coordinates for a point. Easting and northing coordinates are commonly measured in meters from a horizontal datum.
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003066
deprecated: true

obsolete northing coordinate measurement datum
type: Class
subclass of: ObsoleteClass
definition: One dimensional cartesian spatial coordinate datum refers to the northward-measured distance (or the y-coordinate). The terms easting and northing are geographic Cartesian coordinates for a point. Easting and northing coordinates are commonly measured in meters from a horizontal datum.
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003067
deprecated: true

human waste disposal in a household
type: Class
subclass of: information on disposal of human excreta material
VEuPathDB alternative label: Human waste facilities
definition: A human waste disposal in a household.

number of non-scheduled visits
type: Class
subclass of: STATO_0000047
definition: A count of the total number of non-scheduled clinical visits in an investigation.

number of scheduled visits
type: Class
subclass of: STATO_0000047
definition: A count of the total number of scheduled clinical visits in an investigation.

information on malaria diagnosis and parasite status
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: diagnosis of malaria
    intersection of: Restriction
      on property: is_specified_output_of
      some values from: Class
        intersection of: OGMS_0000104
        intersection of: Restriction
VEuPathDB alternative label: Malaria diagnosis and parasite status
definition: An information content entity that is about malaria diagnosis and parasite status testing by blood smear or LAMP.
editor note: Values for this class: Symptomatic malaria Blood smear positive, no malaria Blood smear negative, LAMP positive Blood smear negative, LAMP negative Blood smear negative, LAMP not done Blood smear indicated but not done Blood smear not indicated
term editor: Person: Jie Zheng, Grant Dorsey, John Judkins

obsolete dwelling animal information
type: Class
subclass of: ObsoleteClass
definition: A dwelling information about animal living in a human dwelling.
deprecated: true

obsolete human traveling information
type: Class
subclass of: ObsoleteClass
definition: An information content entity that is about human traveling.
editor note: replaced with OMRSE:00000142
has obsolescence reason: IAO_0000228
term replaced by: OMRSE_00000142
deprecated: true

vector control intervention information
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Household vector intervention
definition: An information content entity that is about vector control intervention towards interruption of transmission of infectious diseases.

employment information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: OMRSE_00000146
subclass of: IAO_0000030
VEuPathDB alternative label: Employment
definition: An information content entity that is about employment.

domesticated animal in a human dwelling
type: Class
subclass of: OBI_0100026
VEuPathDB alternative label: Animals on property
definition: An organism that raised by people and lives in a human dwelling.

information on when bed net last treated
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Personal bednet treatment
definition: An information content entity that is about when the bed net is last treated.

obsolete educational level information
type: Class
subclass of: ObsoleteClass
definition: An information content entity that is about the highest level of schooling that a person has reached.
has obsolescence reason: IAO_0000228
term replaced by: OMRSE_00002045
deprecated: true

number of infections with P. vivax in lifetime
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Lifetime Plasmodium vivax infections count
definition: A count of the total times of a person who infected with P. vivax in his lifetime.
term editor: Person: Chris Stoeckert, Jie Zheng

number of infections with P. vivax in the last year
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Plasmodium vivax infections last year count
definition: A count of the total times of a person who infected with P. vivax last year.
term editor: Person: Chris Stoeckert, Jie Zheng

number of infections with P. falciparum in lifetime
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Lifetime Plasmodium falciparum infections count
definition: A count of the total times of a person who infected with P. falciparum in his lifetime.
term editor: Person: Chris Stoeckert, Jie Zheng

number of infections with P. falciparum in the last year
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Plasmodium falciparum infections last year count
definition: A count of the total times of a person who infected with P. falciparum last year.
term editor: Person: Chris Stoeckert, Jie Zheng

days per week at primary occupation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time spent in occupation every week
definition: A measurement datum of days per week spent in one's primary occupation.

days per week at secondary occupation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time spent in occupation 2 every week
definition: A measurement datum of days per week spent in one's secondary occupation.

obsolete job role
type: Class
subclass of: ObsoleteClass
definition: A human social role realized in a process that often performed in exchange for payment. Many people have multiple job roles, such as those of parent, homemaker, and employee.
definition source: https://en.wikipedia.org/wiki/Job
deprecated: true

obsolete economic activity
type: Class
subclass of: ObsoleteClass
definition: A planned process that a person participates in exchange for payment. The job role born by the person is realized in the process.
deprecated: true

obsolete primary economic activity
type: Class
subclass of: ObsoleteClass
definition: An economic activity that a person is involved in primarily.
deprecated: true

secondary occupation
type: Class
subclass of: occupation
VEuPathDB alternative label: Occupation 2
definition: An occupation that a person is not involved in primarily.
term editor: Person: John Judkins
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/289

obsolete primary economic activity description
type: Class
subclass of: ObsoleteClass
definition: A textual entity that describes a person's primary economic activity.
deprecated: true

obsolete secondary economic activity description
type: Class
subclass of: ObsoleteClass
definition: A textual entity that describes a person's secondary economic activity.
deprecated: true

secondary economic activity in last month
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Additional job in the past month
definition: An information content entity about secondary economic activity a person participates in the last month.

occupation
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Restriction
    on property: realizes
    some values from: REO_0000699
VEuPathDB alternative label: Occupation
definition: An information content entity that is about an activity that realizes a social role and is often performed for payment.

primary economic activity pay period
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Occupation payment frequency
definition: A time measurement datum about the pay period of primary economic activity.

secondary economic activity pay period
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Occupation 2 payment frequency
definition: A time measurement datum about the pay period of secondary economic activity.

indicator of whether person received payment from primary economic activity
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Receive payment for occupation
definition: An information content entity about whether a person received payment from primary economic activity.
term editor: Jie Zheng
term editor: Chris Stoeckert
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether person received payment from secondary economic activity
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Receive payment for occupation 2
definition: An information content entity about whether a person received payment from secondary economic activity.
term editor: Jie Zheng
term editor: Chris Stoeckert
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

salary of primary economic activity
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Occupation salary
definition: A data item of salary of primary job.

salary of secondary economic activity
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Occupation 2 salary
definition: A data item of salary of other job.

hours per day at primary occupation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time spent in occupation every day
definition: A measurement datum of hours in one's primary occupation per day spent in that occupation.

hours per day at secondary occupation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time spent in occupation 2 every day
definition: A measurement datum of hours in one's secondary occupation per day spent in that occupation.

obsolete garbage disposal
type: Class
subclass of: ObsoleteClass
definition: An environmental feature for disposing garbage.
has obsolescence reason: IAO_0000228
term replaced by: waste disposal process
deprecated: true

obsolete community name
type: Class
subclass of: ObsoleteClass
definition: A textual entity about community where a person is living.
deprecated: true

obsolete study location name
type: Class
subclass of: ObsoleteClass
definition: A textual entity about community where a study taken place.
deprecated: true

obsolete first line malaria medication
type: Class
subclass of: ObsoleteClass
definition: A malaria medication that is generally taken for initial treatment of malaria.
deprecated: true

obsolete second line malaria medication
type: Class
subclass of: ObsoleteClass
definition: "A malaria medication that is given when first-line medication doesn't work, or stops working."
deprecated: true

obsolete information of whether malaria medication is given
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

marital status
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OMRSE_00000001
VEuPathDB alternative label: Marital status
definition: a categorical value specification that is about a human being and specifies whether that human being is joined to another human being in marriage
term editor: Person: John Judkins
definition source: EuPathDB, BFO's 'relational quality' examples

indicator of whether person plans to move
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Plan to move
definition: a categorical value specification that specifies whether a human being plans to change within two years the dwelling which that human being occupies
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

relationship to head of household
type: Class
subclass of: household information
VEuPathDB alternative label: Relationship to household head
definition: An information content entity that specifies the relationship between a person and the head of their household.
term editor: Person: John Judkins, Chris Stoeckert
definition source: EuPathDB

duration of residence in dwelling
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is duration of
  all values from: Restriction
    on property: realizes
    some values from: OMRSE_00000075
VEuPathDB alternative label: Time living in dwelling
definition: a time measurement datum that represents the time a human being resides in a human dwelling
term editor: Person: John Judkins
definition source: EuPathDB

duration of residence in community
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time living in settlement
definition: A time measurement datum of the time interval that a human being has lived in a geographic location where the inhabitants share a common trait.
term editor: Person: John Judkins
definition source: EuPathDB

number of common areas in a dwelling
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Common room count
definition: a count of the number of instances of a site, within a human dwelling and its yard, to which any resident of the dwelling has access
term editor: Person: John Judkins
definition source: EuPathDB

covered area measured in square meter
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Covered area
definition: a scalar measurement datum that has the square meter as its measurement label and is the result of a measurement of area that is covered by a roof
term editor: Person: John Judkins
definition source: EuPathDB

information on kitchen location
type: Class
subclass of: information on dwelling physical characteristics
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Kitchen location
definition: An information content entity about where the kitchen is located inside or outside of a dwelling.

area measurement datum
type: Class
subclass of: IAO_0000032
definition: A scalar measurement datum that is the result of a measurement of area.
term editor: Person: John Judkins
definition source: EuPathDB

information on whether occupant owns or pays rent on dwelling
type: Class
subclass of: socioeconomic factor
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Home ownership
definition: a categorical value specification that is about a dwelling and specifies whether (a) it is owned by an occupant of the dwelling or (b) a rental agreement exists such that an occupant has an obligation to pay rent to someone who does not occupy the dwelling
term editor: Person: John Judkins
definition source: EuPathDB

obsolete days of travel
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete information of whether ship is taken during a trip
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete information on place visited during a trip
type: Class
subclass of: ObsoleteClass
definition: an information content entity that is about a geographic location in which part of a journey occurs
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

information on travel in the last month
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Traveled in last month
definition: An information content entity about travel to any place more than 10 km away from where a person lives.

information on travel before malaria
type: Class
subclass of: OMRSE_00000142
definition: an information content entity that is about a patient diagnosed with malaria and describes geographic locations the patient visited
term editor: Person: John Judkins
definition source: EuPathDB
scheduled for obsoletion on or after: yes

bed net material
type: Class
subclass of: OBI_0000047
VEuPathDB alternative label: Bednet material
definition: A material entity that is used to make bed net.

date of last fumigation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Last fumigation date
definition: a time measurement datum that is about a human dwelling and specifies the most recent date on which the dwelling was fumigated, i.e. filled with pesticide
term editor: Person: John Judkins
definition source: EuPathDB

information on organization responsible for treating bed nets
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0000245
VEuPathDB alternative label: Bednet treater
definition: an information content entity that specifies the organization that administers insecticide to a collection of bed nets
term editor: Person: John Judkins
definition source: EuPathDB

information on contact with malaria
type: Class
subclass of: OGMS_0000015
VEuPathDB alternative label: Contact with malaria
definition: An information content entity that specifies whether a human participant under investigation is a contact for malaria, based on the partipant's association with sites in which malaria infections are known to occur.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete information on participant status at visit
type: Class
subclass of: ObsoleteClass
definition: an information content entity that is about a human participant under investigation and specifies whether the person is present for a scheduled clinical visit
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete information of whether address has changed
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

number of livestock
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Livestock count
definition: a count of the number of instances of a domesticated animal that is raised in an agricultural setting to produce labor and commodities
term editor: Person: John Judkins
definition source: Wikipedia

number of pets
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Pet or other animal count
definition: a count of the number of instances of a domesticated animal that is kept for pleasure rather than utility
term editor: Person: John Judkins
definition source: EuPathDB

obsolete bed net treatment information
type: Class
subclass of: ObsoleteClass
editor note: was in ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

number of insecticide-treated bed nets treated less than 6 months ago
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: ITN bednet count, treated <6 months ago
definition: a count of the number of instances of a bed net to which insecticide was applied in the past six months
term editor: Person: John Judkins
definition source: EuPathDB

number of insecticide-treated bed nets treated more than 6 months ago
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: ITN bednet count, treated >6 months ago
definition: a count of the number of instances of a bed net to which insecticide was applied before the previous six months
term editor: Person: John Judkins
definition source: EuPathDB

number of long last insecticide-treated bed nets
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Long-lasting ITN bednet count
definition: a count of the number of instances of bed net to which long last insecticide is administered
term editor: Person: John Judkins
definition source: EuPathDB

number of untreated bed net
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Untreated bednet count
definition: a count of the number of instances of a bed net to which insecticide has not been applied
term editor: Person: John Judkins
definition source: EuPathDB

obsolete blood pressure measurement datum
type: Class
subclass of: ObsoleteClass
editor note: no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete proximity to case dwelling datum
type: Class
subclass of: ObsoleteClass
definition: A categorical measurement datum about proximity to case dwelling.
deprecated: true

obsolete information of whether a census form filled at enrollment
type: Class
subclass of: ObsoleteClass
editor note: no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete clinic organization
type: Class
subclass of: ObsoleteClass
definition: an organization that administrates a medical care center that provides healthcare services on an outpatient basis
term editor: Person: John Judkins
has obsolescence reason: IAO_0000103
deprecated: true

obsolete clinic location
type: Class
subclass of: ObsoleteClass
definition: A geographic location where the clinic is located.
deprecated: true

district of India
type: Class
subclass of: second-order administrative region
VEuPathDB alternative label: District
definition: A second-order administrative region of India.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete division number
type: Class
subclass of: ObsoleteClass
definition: A textual entity about a 'division' or 'ward' being a sub-division of a city.
deprecated: true

indicator of whether participant taking antimalarial drugs as advised
type: Class
subclass of: treatment information
VEuPathDB alternative label: Took antimalarial medication as advised
definition: a categorical value specification that specifies whether a patient complies with a dose specification that specifies the dose of malaria medication to self-administer
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant taking antimalarial drugs in last 2 weeks
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Took antimalarial medication
definition: an information content entity that specifies whether a participant under investigation self-administered antimalarial drugs in the past 2 weeks
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

information on existing illness
type: Class
subclass of: study participant information
subclass of: Restriction
  on property: mentions
  some values from: Class
    intersection of: disease
    intersection of: Restriction
      on property: characteristic of
      some values from: human participant under investigation
VEuPathDB alternative label: Type of existing illness
definition: an information content entity that is about a human participant under investigation that has a disease and specifies the disease
term editor: Person: John Judkins
definition source: EuPathDB

indicator of whether participant having existing illness
type: Class
subclass of: study participant information
VEuPathDB alternative label: Existing illness
definition: an information content entity that is about a human participant under investigation and specifies whether the participant has a disease
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

fever treatment provider information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Restriction
    on property: has role
    some values from: Class
      intersection of: OMRSE_00000012
      intersection of: Restriction
        on property: realized in
        some values from: Class
VEuPathDB alternative label: Fever treatment location
definition: a categorical value specification that is about a health care provider role that is realized in a treatment to alleviate symptoms of a fever. It either specifies whether this role is borne by a hospital or clinic, private practice, or the patient, or it specifies that this information is missing.
term editor: Person: John Judkins
definition source: EuPathDB

duration of being febrile
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Fever duration
definition: A time measurement datum that measures the duration of having febrile.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

obsolete information of whether a person is family head
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete hospital registration number
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR Amazonia, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

indicator of whether person is sick now
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Ill now
definition: an information content entity that specifies whether a human being is manifesting a disease
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indoor residents information
type: Class
subclass of: household information
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Animals indoors
definition: "An information content entity is about who are indoor residents, such as only human, or human and animals."

frequency of larvicide in use
type: Class
subclass of: IAO_0000109
VEuPathDB alternative label: Larvicide frequency
definition: a measurement datum that approximates the temporal interval between applications of larvicide at the same site
term editor: Person: John Judkins
definition source: EuPathDB

obsolete information on where malaria diagnosed in last 12 months
type: Class
subclass of: ObsoleteClass
definition: an information content entity that specifies any locations in which a diagnostic process has occurred in the past twelve months that resulted in a diagnosis of malaria
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

obsolete number of asexual parasite
type: Class
subclass of: ObsoleteClass
definition: a count of the number of instances of a parasite in a life cycle stage in which reproduction is asexual
term editor: Person: John Judkins
definition source: EuPathDB, Centers for Disease Control and Prevention
deprecated: true

obsolete number of sexual parasite
type: Class
subclass of: ObsoleteClass
editor note: was ICEMR, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

parasite species information
type: Class
subclass of: presence of organism in specimen
subclass of: OBI_0003064
subclass of: Restriction
  on property: is_specified_output_of
  some values from: Class
    intersection of: OBI_0003498
    intersection of: Restriction
      on property: realizes
      some values from: Class
        intersection of: OBI_0000067
        intersection of: Restriction
VEuPathDB alternative label: Plasmodium species, by microscopy
definition: A data item of which parasite species detected in a blood specimen.

birth country name
type: Class
subclass of: OBI_0001627
VEuPathDB alternative label: Nationality
definition: A country name denote where a person was born.

information on malaria parasite infection diagnosis past year
type: Class
subclass of: IAO_0000030
subclass of: Class
  intersection of: Restriction
    on property: is about
    some values from: OGMS_0000073
  intersection of: Restriction
    on property: mentions
    some values from: malaria
VEuPathDB alternative label: Plasmodium species in last year
definition: an information content entity that is part of a diagnosis of malaria, resulting from a diagnostic process that occurred within the past year, and specifies the species of the infectious agent causing the malaria
term editor: Person: John Judkins
definition source: EuPathDB

number of malaria diagnosis past year
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Malaria diagnoses in the past year count
definition: A count of malaria diagnosis past year.

duration since last diagnosis of malaria
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time since last malaria diagnosis
definition: A time measurement datum of the time since the most recent diagnosis of malaria.

indicator of whether participant treated antimalarial drugs last year
type: Class
subclass of: treatment information
VEuPathDB alternative label: Treated with antimalarials
definition: An information content entity about whether antimalarial drug treated last year
term editor: Jie Zheng
term editor: Chris Stoeckert
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

date antimalarial drug used
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Antimalarial treatment date
definition: A time measurement datum about when the antimalarial drug used last year

information on antimalarial drug used last year
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: mentions
  some values from: Restriction
    on property: has active ingredient
    all values from: Restriction
      on property: has role
      some values from: antimalarial
VEuPathDB alternative label: Antimalarial treatment
definition: An information content entity about what antimalarial drug used last year

information on who treated malaria last year
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: mentions
  some values from: Restriction
    on property: has role
    some values from: Class
      intersection of: OMRSE_00000012
      intersection of: Restriction
        on property: realized in
        some values from: OGMS_0000090
VEuPathDB alternative label: Where treated
definition: An information about who treated malaria last year

specimen used for DNA PCR
type: Class
subclass of: OBI_0100051
VEuPathDB alternative label: PCR DNA sample source
definition: A specimen that is used for DNA extraction and following PCR assay.

obsolete parasite species identification by PCR assay
type: Class
subclass of: ObsoleteClass
definition: An organism identification assay that identifies the species of parasites by PCR.
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003044
deprecated: true

obsolete primary health center name
type: Class
subclass of: ObsoleteClass
definition: A textual entity that denotes the public health clinic/hospital that the human subject normally uses (for non malaria illness).
deprecated: true

poverty line
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Poverty line
definition: A data item of income level issued annually by the Department of Health and Human Services. Federal poverty levels are used to determine your eligibility for certain programs and benefits.

obsolete information that there is no illness
type: Class
subclass of: ObsoleteClass
definition: An information that specifies a person has no illness.
deprecated: true

obsolete falcivax rapid diagnostic test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that can quickly establishing the diagnosis of P. falciparum or P. vivax malaria infection by detecting the antigens in a person's blood.
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003041
deprecated: true

obsolete optimal-IT rapid diagnostic test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that is a rapid, sensitive malaria test that is able to differentiate between P. falciparum and other malaria parasites.
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003042
deprecated: true

personal mosquito repellent
type: Class
subclass of: material entity
VEuPathDB alternative label: Personal mosquito repellent
definition: A material entity that a person uses to deter mosquitoes from approaching or settling.

resident status information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OMRSE_00000001
VEuPathDB alternative label: Resident status
definition: "An information content entity about a person's resident status, permanent or temporary."

information on mosquito repellent sprayed in last 12 months
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Sprayed in the last 12 months
definition: An information content entity about repellent sprayed in last 12 months in a dwelling.

state name of birth
type: Class
subclass of: IAO_0000300
VEuPathDB alternative label: State of birth
definition: A text entity denotes to a state where a person was born.

take fever suppressant information
type: Class
subclass of: treatment information
VEuPathDB alternative label: On fever suppressant
definition: An information content entity that is about whether a person take fever suppressant.

taluk of India
type: Class
subclass of: third-order administrative region
VEuPathDB alternative label: Taluk in India
definition: A third-order administrative region of India.
term editor: Person: John Judkins
definition source: VEuPathDB

visited country name
type: Class
subclass of: OBI_0001627
VEuPathDB alternative label: Country visited
definition: A country name denote a geographic location that a person has visited.

visited district name
type: Class
subclass of: IAO_0000300
VEuPathDB alternative label: District visited
definition: A text entity denotes to a district that a person has visited.

visited state name
type: Class
subclass of: IAO_0000300
VEuPathDB alternative label: State visited
definition: A text entity denotes to a state that a person has visited.

visited taluk name
type: Class
subclass of: IAO_0000300
VEuPathDB alternative label: Taluk visited
definition: A taluk name denote a geographic location that a person has visited.

visited village name
type: Class
subclass of: region of Mali
VEuPathDB alternative label: Village visited
definition: A village name denote a geographic location that a person has visited.

traveled information in last 14 days
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Traveled in last 2 weeks
definition: An information content entity about whether a person travelled in last 14 days.

indicator of health care source
type: Class
subclass of: health care information
VEuPathDB alternative label: Typical healthcare
example of usage: public, private, or community funded health care
definition: Health care information that specifies the source of funding for a health care process.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/441
contributor: Sheena Tomko

region of Mali
type: Class
subclass of: first-order administrative region
definition: A first-order administrative region of Mali.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete location zone number
type: Class
subclass of: ObsoleteClass
definition: A text entity of a zone number denotes to a geographic location.
deprecated: true

obsolete average mapping coverage
type: Class
subclass of: ObsoleteClass
has obsolescence reason: IAO_0000228
term replaced by: GENEPIO_0000092
deprecated: true

obsolete proportion mapped reads
type: Class
subclass of: ObsoleteClass
definition: a data item that is about a sequencing assay and is the ratio of the count of mapped reads to the total count of reads
term editor: John Judkins
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003056
deprecated: true

obsolete number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete average read length
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded non unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded non unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded non unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete unstranded non unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand non unique unstranded unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand non unique unstranded unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand non unique unstranded unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete first strand non unique unstranded unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand unique unstranded non unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand unique unstranded non unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand unique unstranded non unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand unique unstranded non unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand non unique first strand unique average mapping coverage
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand non unique first strand unique proportion mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand non unique first strand unique number mapped reads
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete second strand non unique first strand unique average read length
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain 12C
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29444.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain L26
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29445.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete diagnosis of asymptomatic parasitemia
type: Class
subclass of: ObsoleteClass
definition: A diagnosis based on parasites detected by microscopy (parasite density > 0) or LAMP assay (LAMP result is positive) in the absence of febrile (subjective fever and temperature>=38).
deprecated: true

obsolete diagnosis of submicroscopic parasitemia
type: Class
subclass of: ObsoleteClass
definition: A diagnosis based on presence of parasites by LAMP assay when microscopy result was negative in the absence of subjective fever or documented elevated temperature.
term editor: Person: Grant Dorsey, Jie Zheng
deprecated: true

number of clinical visits resulting in an asymptomatic parasitemia diagnosis
type: Class
subclass of: information on observation details
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000097
definition: A data item of the number of clinical visits during which the participant was diagnosed with asymptomatic parasitemia.
term editor: Person: Jie Zheng, Shon cade, Grant Dorsey

presence of Plasmodium in blood by loop-mediated isothermal amplification
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002688
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033308
VEuPathDB alternative label: Plasmodium, by LAMP
definition: A eukaryota in blood datum that specifies whether Plasmodium was detected by loop-mediated isothermal amplification.
term editor: Person: Jie Zheng, Grant Dorsey, John Judkins
definition source: PRISM

obsolete information on blood smear not performed
type: Class
subclass of: ObsoleteClass
definition: An information content entity is about blood smear not performed.
term editor: Person: Jie Zheng, Grant Dorsey
definition source: PRISM
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/37
deprecated: true

obsolete negative blood smear and negative LAMP
type: Class
subclass of: ObsoleteClass
definition: A presence of parasite that indicates that no parasite was detected in a specimen, either by loop-mediated isothermal amplification or blood smear.
term editor: Person: Jie Zheng, Grant Dorsey, John Judkins
definition source: PRISM
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/414
deprecated: true

information on negative blood smear and LAMP not done
type: Class
subclass of: IAO_0000030
definition: An information content entity is about parasite status with negative blood smear and LAMP test is not performed.
term editor: Person: Jie Zheng, Grant Dorsey
definition source: PRISM
definition source: Penn Group

average number of clinical visits with asymptomatic parasitemia diagnosis per year
type: Class
subclass of: OBI_0000679
definition: An average value for the number of clinical visits of a patient with asymptomatic parasitemia based on calendar years.
term editor: Person: Jie Zheng, Shon cade, Grant Dorsey

number of courses of antibiotics given
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Courses of antibiotics
definition: A count of the number of courses of antibiotics received by the human or animal.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome

family identifier
type: Class
subclass of: IAO_0000028
VEuPathDB alternative label: Family ID
definition: A symbol that denotes a specific family, rather than the physical home in which they live.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome

dwelling identifier
type: Class
subclass of: IAO_0000028
subclass of: Restriction
  on property: denotes
  all values from: human dwelling
VEuPathDB alternative label: Dwelling ID
definition: A symbol denotes a physical structure/home/dwelling, rather than the human inhabitants.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome

obsolete information on whether hive treated with tetracyline
type: Class
subclass of: ObsoleteClass
definition: An information content entity that idicates whether the hive was treated with tetracyline to prevent infection with the bacterial pathogen Paenibacillus larvae.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome
has obsolescence reason: IAO_0000103
deprecated: true

obsolete information on whether specimen from mother or child
type: Class
subclass of: ObsoleteClass
definition: An information indicates that samples from child or from the mother, or both.
definition source: Person: Daniel Beiting, Jie Zheng
definition source: microbiome
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/194
term replaced by: indicator of whether specimen from mother or child
deprecated: true

number of courses of antibiotics received by mom prior to delivery
type: Class
subclass of: number of courses of antibiotics given
VEuPathDB alternative label: Mom's courses of delivery antibiotics
definition: A number of courses of antibiotics given to a mother during delivery.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome

obsolete 16S rRNA gene region for sequencing
type: Class
subclass of: ObsoleteClass
definition: A region of the 16S rRNA gene that was PCR amplified and sequenced.
term editor: Person: Daniel Beiting, Jie Zheng
definition source: microbiome
has obsolescence reason: IAO_0000228
term replaced by: SO_0001000
deprecated: true

lab host
type: Class
subclass of: host organism
VEuPathDB alternative label: Lab host
definition: An organism that realizes host role in laboratory.

obsolete bronchial wash specimen
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete bronchoalveolar lavage fluid specimen
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lung aspirate specimen
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lung lesion specimen
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lung mold bronch specimen
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lung nodule specimen
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete TGH specimen
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete TGH mold iso specimen
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete number of contigs
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete number of genes called
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete number of bases
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete lesion on arm specimen
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete common name of organism
type: Class
subclass of: ObsoleteClass
definition: A textual entity refers to a taxon or organism that is based on the normal language of everyday life; this kind of name is often contrasted with the scientific name for the same organism, which is Latinized.
definition source: https://en.wikipedia.org/wiki/Common_name
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003074
deprecated: true

information on availability of molecular data
type: Class
subclass of: specimen information
subclass of: Restriction
  on property: is about
  some values from: OBI_0100051
definition: An information content entity specify any molecular data associated with specimen source is available.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on original or follow up specimen collection
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Collection type
definition: An information content entity indicates whether the specimen collection is original collection or follow up collection from same study subject.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on informed consent for data collection and usage
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Data consent
definition: An information content entity specifies whether study subject signed informed consent for data collection and usage.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

obsolete electrolyte disturbances
type: Class
subclass of: ObsoleteClass
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
has obsolescence reason: IAO_0000228
term replaced by: HP_0003111
deprecated: true

obsolete Candida albicans strain P37005
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29447.aspx
has obsolescence reason: IAO_0000103
deprecated: true

presence of Plasmodium falciparum
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: P. falciparum
definition: A categorical measurement datum that indicates whether Plasmodium falciparum were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of gametocyte
type: Class
subclass of: presence of organism in specimen
VEuPathDB alternative label: Plasmodium gametocytes
definition: A categorical measurement datum that indicates whether gametocyte were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of Plasmodium knowlesi
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: P. knowlesi
definition: A categorical measurement datum that indicates whether Plasmodium knowlesi were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of Plasmodium malariae
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: P. malariae
definition: A categorical measurement datum that indicates whether Plasmodium malariae were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of Plasmodium ovale
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: P. ovale
definition: A categorical measurement datum that indicates whether Plasmodium ovale were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of parasite
type: Class
subclass of: presence of organism in specimen
subclass of: Restriction
  on property: is about
  some values from: OPL_0000232
VEuPathDB alternative label: Presence of parasite species
definition: A categorical measurement datum that indicates whether parasite were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

presence of Plasmodium vivax
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: P. vivax
definition: A categorical measurement datum that indicates whether Plasmodium vivax were present in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

duration of study participation from first to current specimen collection
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Follow up day
definition: A time measurement datum measuring the time interval from the first specimen collection to the current specimen collection from the same study subject.
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: ICEMR protein array

gametocyte density by microscope
type: Class
subclass of: IAO_0000032
definition: A scalar measurement datum that is about gametocyte density measured using microscopy.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

gametocyte density by RT-PCR
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Plasmodium gametocytes, by RT-PCR result
definition: A scalar measurement datum that is about gametocyte density measured by RT-PCR.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

obsolete gametocyte detection assay
type: Class
subclass of: ObsoleteClass
definition: An assay that detects parasite gametocyte in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003036
deprecated: true

gametocyte detection protocol
type: Class
subclass of: OBI_0000272
subclass of: Restriction
  on property: executed by
  some values from: OBI_0003036
VEuPathDB alternative label: Plasmodium gametocytes detection method
definition: A protocol that specifies how to measure the density of parasite gametocyte.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

location where GPS coordinates were taken
type: Class
subclass of: site
VEuPathDB alternative label: GPS location
definition: a site in which a global positioning system receiver produces a data item specifying the location of the site
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on availabilty of host genetics data
type: Class
subclass of: information on availability of molecular data
VEuPathDB alternative label: Host genetics
definition: An information content entity specify any host genetics data associated with specimen source is available.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on availability of immune response data
type: Class
subclass of: information on availability of molecular data
VEuPathDB alternative label: Immune responses
definition: An information content entity specify any immune response data associated with specimen source is available.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on availability of parasite genetics data
type: Class
subclass of: information on availability of molecular data
VEuPathDB alternative label: Parasite genetics
definition: An information content entity specify any parasite genetics data associated with specimen source is available.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

information on availability of other molecular data
type: Class
subclass of: information on availability of molecular data
VEuPathDB alternative label: Other molecular
definition: An information content entity specify any molecular data other than host genetics, parasite genetics, and immune response, associated with specimen source is available.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

IRB number
type: Class
subclass of: IAO_0000577
VEuPathDB alternative label: IRB number
definition: A centrally registered identifier symbol assigned to a research project by Institutional Review Board (IRB). The IRB is a committee established to review and approve applications for research projects involving human subjects. The primary purpose of the IRB is to protect the rights and welfare of the human subjects.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

parasite density by PCR
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Plasmodium, by PCR result
definition: A scalar measurement datum that is about parasite density measured by PCR.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

Plasmodium in blood by microscopy assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003263
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
subclass of: OBI_0003263
VEuPathDB alternative label: Plasmodium, by microscopy result
definition: A eukaryota in blood datum that is the output of a microscopy assay and is used to determine the presence of Plasmodium in the specimen.
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: ICEMR protein array

obsolete parasite detection assay
type: Class
subclass of: ObsoleteClass
definition: An assay that detects parasite in a specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003038
deprecated: true

obsolete parasite detection by PCR assay
type: Class
subclass of: ObsoleteClass
definition: An assay that detects parasite in a specimen using PCR.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003045
deprecated: true

presence of asexual parasite by PCR
type: Class
subclass of: presence of organism in specimen
VEuPathDB alternative label: Plasmodium asexual stages, by PCR
definition: A categorical measurement datum that indicates whether asexual parasite were present in a specimen using PCR.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

rapid diagnosis test result as positive or negative
type: Class
subclass of: OBI_0000938
VEuPathDB alternative label: RDT results
definition: A categorical measurement datum that is the result of rapid diagnosis test using a value of positive or negative.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

location of specimen collection
type: Class
subclass of: site
VEuPathDB alternative label: location of specimen collection
definition: The site where specimen collection taken place.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

ICEMR organization
type: Class
subclass of: OBI_0000245
VEuPathDB alternative label: ICEMR
definition: a research organization that is located in an area where malaria is endemic and is one of many centers established by the National institute of Allergy and Infectious Diseases with the following aims: to design and conduct multidisciplinary research on the epidemiology, transmission, and pathogenesis of malaria in its specific region, to design and conduct special projects to capitalize on new opportunities and emerging public health needs, and to build clinical research capacity and improve malaria control and prevention
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: ICEMR protein array
definition source: National Institute of Allergy and Infectious Diseases

obsolete organismal body temperature measurement assay
type: Class
subclass of: ObsoleteClass
definition: An assay that detects body temperature of an organism.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003080
deprecated: true

obsolete malaria rapid diagnosis test
type: Class
subclass of: ObsoleteClass
definition: An assay that is quick and easy in the diagnosis of malaria by detecting evidence of malaria parasites (antigens) in human blood.
term editor: Person: Jie Zheng, Chris Stoeckert
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003037
deprecated: true

Plasmodium falciparum gametocyte density by microscope
type: Class
subclass of: gametocyte density by microscope
VEuPathDB alternative label: Plasmodium falciparum gametocytes, by microscopy result
definition: gametocyte density by microscope that is the output of an assay that realizes a measurand role that inheres in Plasmodium falciparum
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

Plasmodium vivax gametocyte density by microscope
type: Class
subclass of: gametocyte density by microscope
VEuPathDB alternative label: Plasmodium vivax gametocytes, by microscopy result
definition: gametocyte density by microscope that is the output of an assay that realizes a measurand role that inheres in Plasmodium vivax
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

Plasmodium vivax gametocyte density by RT-PCR
type: Class
subclass of: gametocyte density by RT-PCR
VEuPathDB alternative label: Plasmodium vivax gametocytes, by RT-PCR result
definition: A gametocyte density by RT-PCR that is about Plasmodium vivax.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

Plasmodium vivax parasite density by PCR
type: Class
subclass of: parasite density by PCR
VEuPathDB alternative label: Plasmodium vivax asexual stages, by PCR result
definition: parasite density by PCR that is the output of an assay that realizes a measurand role that inheres in Plasmodium vivax
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

Plasmodium falciparum parasite density by microscope
type: Class
subclass of: Plasmodium in blood by microscopy assay datum
VEuPathDB alternative label: Plasmodium falciparum asexual stages, by microscopy result
definition: parasite density by microscope that is the output of an assay that realizes a measurand role that inheres in Plasmodium falciparum
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

Plasmodium vivax parasite density by microscope
type: Class
subclass of: Plasmodium in blood by microscopy assay datum
VEuPathDB alternative label: Plasmodium vivax asexual stages, by microscopy result
definition: parasite density by microscope that is the output of an assay that realizes a measurand role that inheres in Plasmodium vivax
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

Plasmodium falciparum parasite density by PCR
type: Class
subclass of: parasite density by PCR
VEuPathDB alternative label: Plasmodium falciparum asexual stages, by PCR result
definition: parasite density by PCR that is the output of an assay that realizes a measurand role that inheres in Plasmodium falciparum
term editor: Person: Jie Zheng, Chris Stoeckert, John Judkins
definition source: EuPathDB
definition source: ICEMR protein array

information on informed consent for future use of specimen
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Future use consent
definition: An information content entity specifies whether study subject signed informed consent for future use of specimen.
term editor: Person: Jie Zheng, Chris Stoeckert
definition source: ICEMR protein array

obsolete Candida albicans strain 19F
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29449.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P78048
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29434.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P37037
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29450.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P37039
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29451.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain SC5314
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P57072
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29435.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P76055
type: Class
subclass of: ObsoleteClass
editor note: was in EuPath/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29441.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P76067
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29442.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P57055
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29439.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P78042
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29443.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P34048
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29436.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P87
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29453.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain GC75
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29452.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P75016
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29438.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P75063
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29440.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P94015
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29446.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P60002
type: Class
subclass of: ObsoleteClass
editor note: was in EuPathDB/PlasmoDB, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29448.aspx
has obsolescence reason: IAO_0000103
deprecated: true

obsolete Candida albicans strain P75010
type: Class
subclass of: ObsoleteClass
editor note: was EuPathDB/PlasmoDB term, no longer used
definition source: https://www.beiresources.org/Catalog/Fungi/NR-29437.aspx
has obsolescence reason: IAO_0000103
deprecated: true

parasite organism genotype information
type: Class
equivalent class: Class
  intersection of: OBI_0001305
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: SO_0001027
      intersection of: Restriction
        on property: is concretized as
        some values from: Restriction
subclass of: OBI_0001305
VEuPathDB alternative label: Parasite genotype
definition: A genotype information of parasite organism.

obsolete genetic clade of organism
type: Class
subclass of: ObsoleteClass
has obsolescence reason: IAO_0000228
term replaced by: clade name
deprecated: true

virulence score (LDt50)
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: PATO_0002146
VEuPathDB alternative label: Virulence Score (LDt50)
definition: a data item that is about some virulence and is the count of infectious agents that kill half of a collection of human beings infected with the agents
term editor: Person: John Judkins
definition source: Wikipedia: LD50

virulence score (slope)
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: PATO_0002146
VEuPathDB alternative label: Virulence Score (slope)
definition: a data item that is about some virulence and is the proportion of the number of human beings with a disease (caused by the bearer of the virulence) that die of the disease
term editor: Person: John Judkins

BEI repository identifier
type: Class
subclass of: IAO_0000577
VEuPathDB alternative label: Repository ID
definition: A centrally registered identifier symbol assigned by the BEI Resources (https://www.beiresources.org/) to cultures and reagents for microbiology and infectious diseases research.

vertical distance below a surface measurement datum
type: Class
subclass of: IAO_0000032
subclass of: Restriction
  on property: is about
  some values from: PATO_0000122
VEuPathDB alternative label: Depth
definition: A measurement datum of vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectivly.

age since birth in days
type: Class
subclass of: OBI_0001169
definition: An age since birth measurement datum measured in days.
alternative label: age in days

indicator of whether child exposed to antibiotics
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Antibiotic exposure
definition: An information content entity about whether child exposed to antibiotics.
term editor: Jie Zheng
term editor: Chris Stoeckert
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

baby delivery
type: Class
subclass of: OGMS_0000097
subclass of: Restriction
  on property: has part
  some values from: GO_0007567
VEuPathDB alternative label: Delivery mode
definition: a health care encounter in which a health care provider assists a mother in the birth of a child
term editor: Person: John Judkins
alternative label: baby's delivery
definition source: EuPathDB

antibiotics
type: Class
equivalent class: Class
  intersection of: OBIB_0000029
  intersection of: Restriction
    on property: has role
    some values from: antimicrobial agent
subclass of: OBIB_0000029
VEuPathDB alternative label: Antibiotics
definition: A medication material that is used in the treatment and prevention of bacterial infections. It may either kill or inhibit the growth of bacteria.
definition source: https://en.wikipedia.org/wiki/Antibiotics

indicator of whether bee colony treated with tetracycline
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Bee colony tetracycline
definition: An information content entity about whether bee colony treated with tetracycline.
term editor: Jie Zheng
term editor: Chris Stoeckert
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

child's diet
type: Class
subclass of: ONS_1000001
definition: main source of nutrition for a child

child's diet by month
type: Class
subclass of: ONS_1000001
VEuPathDB alternative label: Child's diet (by month)
definition: main source of nutrition for a child for each month

drug usage information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0600007
VEuPathDB alternative label: Drug usage
definition: An information content entity about any drug used by a participant under investigation and the frequency of usage.

environment information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: Class
      union of: environmental material
      union of: environmental system
subclass of: IAO_0000030
VEuPathDB alternative label: Environment information
definition: An information content entity about environmental material, environmental feature, environmental system, etc.

indicator of whether a family moved
type: Class
subclass of: household information
VEuPathDB alternative label: Family move
definition: household information that specifies whether the household relocated during its time under investigation
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

host information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    all values from: host organism
subclass of: IAO_0000030
definition: an information content entity that is about the bearer of a host role
term editor: Person: John Judkins
definition source: EuPathDB

host's diet
type: Class
subclass of: ONS_1000001
definition: the diet of an animal that is the bearer of a host role
editor note: type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types
term editor: Person: John Judkins
definition source: EuPathDB

host organism
type: Class
equivalent class: Class
  intersection of: OBI_0100026
  intersection of: Restriction
    on property: has role
    some values from: OBI_0000725
subclass of: OBI_0100026
definition: An organism that has host role
scheduled for obsoletion on or after: yes

indicator of whether bee larvae treated with tetracycline
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Bee larval tetracycline
definition: a categorical value specification that is about a collection of bee larvae and specifies whether tetracycline was administered to the larvae
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

host mass measurement datum at specimen collection
type: Class
subclass of: IAO_0000414
subclass of: Restriction
  on property: is about
  some values from: host organism
VEuPathDB alternative label: Host total mass
definition: mass measurement datum is about a host that measured at specimen collection process

indicator of whether specimen from mother or child
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Mother or child
definition: An information content entity which indicates that samples are from the child or from the mother, or both.
term editor: Jie Zheng
definition source: Daniel Beiting, Jie Zheng
definition source: microbiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/194

number of child occupants in a dwelling
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Child occupants
definition: a count that is about a dwelling and is also the result of counting the instances of a child that occupies the dwelling
term editor: Person: John Judkins
definition source: EuPathDB

information on disposal of human excreta material
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Waste disposal
definition: An information content entity about disposal of human excreta material.
term editor: Person: John Judkins
alternative label: Waste disposal

percent adult occupants in a dwelling
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Percent adult occupants
definition: a ratio that is about a dwelling, is expressed as a percent, has a count of adult occupants of the dwelling as the numerator, and has a count of all occupants of the dwelling as the denominator
term editor: Person: John Judkins
definition source: EuPathDB

percent male occupants in a dwelling
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: human dwelling
VEuPathDB alternative label: Percent male occupants
definition: a ratio that is about a dwelling, is expressed as a percent, has a count of male occupants of the dwelling as the numerator, and has a count of all occupants of the dwelling as the denominator
term editor: Person: John Judkins
definition source: EuPathDB

indicator of whether antibiotics given to mother of participant
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: part of
  some values from: OGMS_0000015
VEuPathDB alternative label: Prenatal antibiotics (yes/no)
definition: a categorical value specification that specifies whether a mother received an antimicrobial agent
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

information on class of antibiotics given to mom
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: mentions
  some values from: Restriction
    on property: active ingredient in
    some values from: antibiotics
VEuPathDB alternative label: Prenatal antibotics (by class)
definition: an information content entity that is about an antimicrobial agent given to a mother and specifies the agent by chemical compound
term editor: Person: John Judkins
definition source: EuPathDB

information on trimester antibiotics given to mom
type: Class
subclass of: treatment information
VEuPathDB alternative label: Prenatal antibotics (by trimester)
definition: an information content entity that specifies the trimester of a pregnancy for which a mother receives an antimicrobial agent
term editor: Person: John Judkins
definition source: EuPathDB

environmental pets or farm animals information
type: Class
subclass of: environment information
subclass of: Restriction
  on property: is about
  some values from: animal-associated environment
VEuPathDB alternative label: Presence of pets or farm animals
definition: An information content entity about presence of pets or farm animals in the environment of subject, if yes the animals should be specified; can include multiple animals present.

obsolete sequencing protocol
type: Class
subclass of: ObsoleteClass
definition: a protocol that, when concretized, is realized in an assay that uses chemical or biological means to infer the sequence of a biomaterial
term editor: Person: John Judkins
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003069
deprecated: true

sequencing batch information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0600047
VEuPathDB alternative label: Sequencing batch
definition: An information content entity about In which batch were samples sequenced together.

summary information of investigation
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0000066
definition: an information content entity that is about an investigation and has as parts only the most significant information content entities that result from the investigation
term editor: Person: John Judkins
definition source: EuPathDB

obsolete participant identifier
type: Class
subclass of: ObsoleteClass
definition: a symbol that denotes the bearer of a participant under investigation role
term editor: Person: John Judkins
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003071
deprecated: true

information on weight loss in last three months
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: HP_0001824
VEuPathDB alternative label: Weight loss in last three months
definition: an information content entity that is about weight loss occurring in a three-month period
term editor: Person: John Judkins
definition source: EuPathDB

obsolete specimen collection protocol
type: Class
subclass of: ObsoleteClass
definition: a protocol such that, if it is concretized and its concretization is realized, its concretization is realized in a planned process that has as its objective collecting a specimen
term editor: Person: John Judkins
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003070
deprecated: true

specimen information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: Restriction
      on property: has characteristic
      some values from: OBI_0000112
subclass of: IAO_0000030
VEuPathDB alternative label: Sample
definition: an information content entity about the bearer of a specimen role
term editor: Person: John Judkins
definition source: EuPathDB

skin symptom or sign information
type: Class
subclass of: symptom or sign information
subclass of: Restriction
  on property: is about
  some values from: UBERON_0000014
VEuPathDB alternative label: Skin phenotype
definition: symptom or sign information that results from an examination of either the skin of the patient or a process in which the skin participates
term editor: Person: John Judkins
definition source: EuPathDB

specimen source information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0000659
VEuPathDB alternative label: Sample source
definition: an information content entity that is about a specimen collection process
term editor: Person: John Judkins
definition source: EuPathDB

information specifying human or animal
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: NCBITaxon_33154
definition: an information content entity that specifies whether an animal is also human
term editor: Person: John Judkins
definition source: EuPathDB

obsolete specimen collection time post infection
type: Class
subclass of: ObsoleteClass
definition: a specimen collection time measurement datum that is the measure of a time when specimens are collected after an infection starts
term editor: Person: John Judkins
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003084
deprecated: true

ear thickness
type: Class
subclass of: skin symptom or sign information
VEuPathDB alternative label: Ear thickness
definition: skin symptom or sign information that is about the thickness of the ear of the patient
term editor: Person: John Judkins
definition source: EuPathDB

transepidermal water loss
type: Class
subclass of: skin symptom or sign information
definition: skin symptom or sign information that specifies the rate at which water passes through the epidermis of the patient into the air
term editor: Person: John Judkins
definition source: EuPathDB

obsolete site of ear swabbed
type: Class
subclass of: ObsoleteClass
editor note: was microbiomeDB, no longer used
has obsolescence reason: IAO_0000103
deprecated: true

skin type swabbed
type: Class
subclass of: specimen information
VEuPathDB alternative label: Skin type swabbed
definition: a categorical measurement datum that is about the skin of a human being and specifies whether the skin is either dry, moist, or sebaceous
term editor: Person: John Judkins
definition source: EuPathDB

skin pathology score
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is about
  some values from: HP_0000951
definition: a categorical value specification that is about a portion of skin that has a disorder hypothesized to be clinically significant. It specifies the degree to which a portion of skin is clinically abnormal.
term editor: Person: John Judkins
definition source: EuPathDB

number of treatments
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Number of treatments
definition: a count of the number of instances of a treatment
term editor: Person: John Judkins
definition source: EuPathDB

degree of skin thickening
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is about
  some values from: HP_0001072
definition: skin symptom or sign information that is about increased thickness of the skin
term editor: Person: John Judkins
definition source: EuPathDB

lesion size
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: Class
    intersection of: PATO_0001323
    intersection of: Restriction
      on property: characteristic of
      some values from: Class
        intersection of: UBERON_0000014
        intersection of: Restriction
VEuPathDB alternative label: Lesion size
definition: skin symptom or sign information that specifies the size of a disorder on the skin of a patient
term editor: Person: John Judkins
definition source: EuPathDB

axillary lesion score before treatment
type: Class
subclass of: axillary lesion score
definition: skin symptom or sign information that is about a lesion on the axilla of a patient and specifies the extent of damage to the tissue before a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

axillary lesion score during treatment
type: Class
subclass of: axillary lesion score
definition: skin symptom or sign information that is about a lesion on the axilla of a patient and specifies the extent of damage to the tissue during a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

axillary lesion score after treatment
type: Class
subclass of: axillary lesion score
definition: skin symptom or sign information that is about a lesion on the axilla of a patient and specifies the extent of damage to the tissue that remains after a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

groin lesion score before treatment
type: Class
subclass of: groin lesion score
definition: skin symptom or sign information that is about a lesion on the groin of a patient and specifies the extent of damage to the tissue before a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

groin lesion score during treatment
type: Class
subclass of: groin lesion score
definition: skin symptom or sign information that is about a lesion on the groin of a patient and specifies the extent of damage to the tissue during a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

groin lesion score after treatment
type: Class
subclass of: groin lesion score
definition: skin symptom or sign information that is about a lesion on the groin of a patient and specifies the extent of damage to the tissue that remains after a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

pinna lesion score before treatment
type: Class
subclass of: pinna lesion score
definition: skin symptom or sign information that is about a lesion on a pinna of a patient and specifies the extent of damage to the tissue before a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

pinna lesion score during treatment
type: Class
subclass of: pinna lesion score
definition: skin symptom or sign information that is about a lesion on a pinna of a patient and specifies the extent of damage to the tissue during a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

pinna lesion score after treatment
type: Class
subclass of: pinna lesion score
definition: skin symptom or sign information that is about a lesion on a pinna of a patient and specifies the extent of damage to the tissue that remains after a treatment to alleviate the lesion
term editor: Person: John Judkins
definition source: EuPathDB

information on whether skin lesion cured after treatment
type: Class
subclass of: treatment outcome information
definition: treatment outcome information that specifies whether the treatment of a skin lesion was successful
term editor: Person: John Judkins
definition source: EuPathDB

skin lesion duration
type: Class
subclass of: skin symptom or sign information
VEuPathDB alternative label: Skin lesion duration
definition: a time measurement datum that represents the time interval between the first appearance of a skin lesion and the time it is swabbed for specimen collection
term editor: Person: John Judkins
definition source: EuPathDB

degree of skin redness
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: HP_0010783
definition: a categorical value specification that specifies the degree of erythema
term editor: Person: John Judkins
definition source: EuPathDB
definition source: NCIT & HP ontologies, EuPathDB

degree of skin inflammation
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: Class
    intersection of: PATO_0001323
    intersection of: Restriction
      on property: characteristic of
      some values from: Class
        intersection of: UBERON_0000014
        intersection of: Restriction
definition: skin symptom or sign information that specifies the area of a part of a patient's skin that participates in an inflammation process
term editor: Person: John Judkins
definition source: EuPathDB

corneometry
type: Class
subclass of: skin symptom or sign information
definition: a measurement datum that is a measurement of the hydration of the outer epidermis
term editor: Person: John Judkins
definition source: Pubmed 2459872 & https://academic.oup.com/jn/article/134/8/2110S/4688890

degree of hairloss
type: Class
subclass of: symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: HP_0001596
definition: an information content entity that specifies the degree to which alopecia has been realized in a patient
term editor: Person: John Judkins
definition source: EuPathDB

information on whether affected by atopic dermatitis
type: Class
subclass of: skin symptom or sign information
definition: a skin symptom or sign information that specifies whether the patient has atopic dermatitis
term editor: Person: John Judkins
definition source: EuPathDB

diagnosis at hospital admission
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: part of
  some values from: Restriction
    on property: is_specified_output_of
    some values from: OMRSE_00000201
VEuPathDB alternative label: Diagnosis at hospitalization
definition: A diagnosis that is documented during the hospital admission process.
term editor: Person: John Judkins
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/357

study group
type: Class
subclass of: OBI_0000181
VEuPathDB alternative label: Study group
definition: a population that is the bearer of a study group role
term editor: Person: John Judkins
definition source: EuPathDB

animal cage number for experiment
type: Class
subclass of: IAO_0000028
subclass of: Restriction
  on property: denotes
  some values from: OBI_0400171
VEuPathDB alternative label: Animal cage num in experiment
definition: a symbol that denotes a cage that has the function to keep an animal that is the bearer of a participant under investigation role
term editor: Person: John Judkins
definition source: EuPathDB

obsolete mouse cage number
type: Class
subclass of: ObsoleteClass
definition: a symbol that denotes a cage that has the function to keep a mouse that is the bearer of a participant under investigation role
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

BMI-for-age z-score
type: Class
subclass of: STATO_0000104
VEuPathDB alternative label: BMI-for-age z-score
definition: A z-score of the divergence of an experimental BMI measurement from the average BMI value for an organism of the same age.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

household hygiene information
type: Class
subclass of: household information
VEuPathDB alternative label: Household hygiene
definition: Household information that specifies a planned process with the objective to maintain health and prevent the spread of disease.
editor note: This IRI was previously mistakenly assigned to 'antimalarial'.
term editor: Person: John Judkins
definition source: https://www.afro.who.int/health-topics/hygiene

information on disposal of child excreta material
type: Class
subclass of: information on disposal of human excreta material
VEuPathDB alternative label: Child waste disposal
definition: An information content entity about disposal of excreta material produced by a child.
term editor: Person: John Judkins
alternative label: Child waste disposal
definition source: EuPathDB

obsolete feces microbiology assay
type: Class
subclass of: ObsoleteClass
definition: Assay that subjects a feces specimen to a test for microorganisms.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
alternative label: stool test for microorganisms
definition source: GEMS
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003039
deprecated: true

information on household water
type: Class
subclass of: household information
VEuPathDB alternative label: Household water
definition: An information content entity that is about the water usage of a household.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete propagation
type: Class
subclass of: ObsoleteClass
definition: A biological process that breeds a plant or animal by natural processes from the parent stock.
editor note: Term added for annotation of a Crypto SNP dataset but the term is not used.
term editor: Person: Jie Zheng
deprecated: true

cluster of differentiation 36 genotype
type: Class
subclass of: OBI_0001305
VEuPathDB alternative label: CD36 genotype
definition: A genotype information which is about cluster of differentiation 36 (CD36) gene, which encodes an integral membrane protein in many cell types and a member of the scavenger receptor family that imports fatty acids into cells (Canton et al., 2013). CD36 is also an endothelial receptor for binding of erythrocytes infected with P. falciparum.
editor note: Grant Dorsey: The human CD36 antigen is an integral membrane protein in many cell types and a member of the scavenger receptor family that imports fatty acids into cells (Canton et al., 2013). CD36 is also an endothelial receptor for binding of erythrocytes infected with P. falciparum; this cytoadhesion is believed to be an important feature of the virulence of falciparum malaria, due both to its prevention of clearance of infected erythrocytes by the spleen and to local effects of cytoadhering parasites (Newbold et al., 1999). Importantly, expression of CD36 is low in the brain, even in the setting of cerebral malaria (Silamut et al., 1999), suggesting that binding to CD36 is most relevant in non-cerebral forms of severe malaria. CD36 is also believed to be an important macrophage pattern recognition receptor that mediates innate recognition and clearance of infected erythrocytes (Cabrera et al., 2014). Considering our current understanding, CD36 expression might be seen to contribute to malaria severity, by mediating cytoadherence, or to help control malaria, via immune effects. Results with murine malaria models have been complex; mice with decreased CD36-mediated cytoadherence had decreased growth of P. berghei (Fonager et al., 2012), but CD36-deficient mice had increased risk of fatal P. chabaudi malaria (Patel et al., 2007). Considering human populations, many CD36 polymorphisms, including nonsense mutations that prevent production of the molecule, are common, particularly in African populations (Aitman et al., 2000). However, attempts to identify associations between common polymorphisms and malaria risk have led to inconsistent results, with evidence for enhancement of(Aitman et al., 2000; Omi et al., 2002), no effect (Fry et al., 2009), or protection from (Das et al., 2009; Omi et al., 2003; Pain et al., 2001; Sinha et al., 2008) severe malaria with different polymorphisms. CD3T188G is a polymophism on the human CD36 gene.

information on process
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: process
VEuPathDB alternative label: Observation
definition: An information content entity is about a process.

obsolete environmental history
type: Class
subclass of: ObsoleteClass
definition: A planned process that an organism exposed to that are not one of the variables under study.
editor note: not used
definition source: MO_55 EnvironmentalHistory
has obsolescence reason: IAO_0000103
deprecated: true

malaria treatment
type: Class
subclass of: OGMS_0000090
definition: A treatment to alleviate the signs and symptoms associated with malaria.

time to onset
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: process boundary
    intersection of: Restriction
      on property: starts
      some values from: OGMS_0000063
VEuPathDB alternative label: Time to onset
definition: A time measurement datum of duration of an individual acquires, develops, or first experiences a condition or symptoms of a disease or disorder.

date of DNA extraction
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: OBI_0666667
VEuPathDB alternative label: DNA extraction date
definition: A time measurement datum that specifies when the DNA was extracted

iPCR datum
type: Class
subclass of: IAO_0000109
VEuPathDB alternative label: iPCR result
definition: The measurement datum generated by Inverse polymerase chain reaction (Inverse PCR).

duration of observation period
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: End of observation period
definition: A time measurement datum of duration of the observation at the end of an observation period.

time to first malaria diagnosis
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: diagnosis of malaria
VEuPathDB alternative label: Time to first malaria diagnosed
definition: A time measurement datum of a person first diagnosed as malaria

time to reinfection
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time to reinfection
definition: A time measurement datum of the duration for reinfection.

gp60 genotype
type: Class
subclass of: OBI_0001305
VEuPathDB alternative label: GP60 genotype
definition: A genotype information about 60 kDa glycoprotein (gp60) gene.

specimen collection time in year
type: Class
subclass of: OBI_0001619
VEuPathDB alternative label: Collection year
definition: A specimen collection time measurement datum in year.

information on blood smear result
type: Class
subclass of: specimen information
subclass of: Restriction
  on property: is about
  some values from: OBI_0000655
VEuPathDB alternative label: Blood smear summary
definition: An information content entity of multiple blood smear results during an observation period.

obsolete pathogen organism
type: Class
subclass of: ObsoleteClass
definition: An organism that has pathogen role.
deprecated: true

parasite phenotype
type: Class
subclass of: quality
subclass of: Restriction
  on property: characteristic of
  some values from: OPL_0000232
VEuPathDB alternative label: Parasite phenotype
definition: A quality inheres in parasite organism.

fungal organism genotype information
type: Class
equivalent class: Class
  intersection of: OBI_0001305
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: SO_0001027
      intersection of: Restriction
        on property: is concretized as
        some values from: Restriction
subclass of: OBI_0001305
VEuPathDB alternative label: Fungal genotype
definition: A genotype information of fungus.

fungal strain
type: Class
equivalent class: Class
  intersection of: NCBITaxon 4751
  intersection of: OBI_0001185
subclass of: NCBITaxon 4751
subclass of: OBI_0001185
VEuPathDB alternative label: Fungal strain
definition: A Fungus that is bred to have some uniform behavioral, morphological, physiological, or genetic characteristics with similarly bred Fungus

obsolete Candida albicans strain
type: Class
subclass of: ObsoleteClass
definition: A Candida albicans that is bred to have some uniform behavioral, morphological, physiological, or genetic characteristics with similarly bred Candida albicans
deprecated: true

parasite strain
type: Class
equivalent class: Class
  intersection of: OBI_0001185
  intersection of: OPL_0000232
subclass of: OBI_0001185
subclass of: OPL_0000232
VEuPathDB alternative label: Parasite strain
definition: A parasite that is bred to have some uniform behavioral, morphological, physiological, or genetic characteristics with similarly bred parasite organisms

presence of organism in specimen
type: Class
subclass of: specimen information
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: OBI_0100051
subclass of: Restriction
  on property: has value specification
  some values from: Restriction
    on property: has specified numeric value
    all values from: boolean
definition: A data item that indicates whether some organism is present in a specimen.
editor note: "Present" in this definition means 'located in' or 'part of' the specimen.

World Health Organization core health indicator subdomain
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: WHO indicator subdomain
definition: An information content entity that is about some quality, risk, or access to health care that inheres in a human being and is deemed clinically significant by the World Health Organization, which uses this entity to categorize each of their individual core health indicators, based on the type of quality, risk, or access.
term editor: Person: John Judkins
definition source: WHO 2018 Global Reference List of 100 Core Health Indicators

household repeated measure
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Household observations
definition: An information content entity that is about data collected at the household level on multiple occasions.

groin lesion score
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: Class
    intersection of: PATO_0040025
    intersection of: Restriction
      on property: characteristic of
      some values from: UBERON_0008337
definition: Skin symptom or sign information that is about a lesion on the groin of a patient and specifies the extent of damage to the tissue.
definition source: VEuPathDB
scheduled for obsoletion on or after: yes

axillary lesion score
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: Class
    intersection of: PATO_0040025
    intersection of: Restriction
      on property: characteristic of
      some values from: UBERON_0009472
definition: Skin symptom or sign information that is about a lesion on an axilla of a patient and specifies the extent of damage to the tissue.
definition source: VEuPathDB
scheduled for obsoletion on or after: yes

pinna lesion score
type: Class
subclass of: skin symptom or sign information
subclass of: Restriction
  on property: is quality measurement of
  some values from: Class
    intersection of: PATO_0040025
    intersection of: Restriction
      on property: characteristic of
      some values from: UBERON_0001757
definition: Skin symptom or sign information that is about a lesion on a pinna of a patient and specifies the extent of damage to the tissue.
definition source: VEuPathDB
scheduled for obsoletion on or after: yes

obsolete blood meal source role
type: Class
subclass of: ObsoleteClass
example of usage: A mosquito feeds on a human whereby the human acquires the blood host role for the mosquito blood meal.
definition: A role borne by an organism that is gained during a process in which another organism ingests blood as food from the organism.
has obsolescence reason: IAO_0000228
term replaced by: OBI_0002996
deprecated: true

lethal insecticide time 50
type: Class
subclass of: IAO_0000416
definition: A time measurement datum that is about the duration of exposure to an insecticide that results in the death of 50% of a population of insects.
term editor: Person: John Judkins
alternative label: LT50
definition source: VBcv:0000732
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/77

finding of death from COVID-19
type: Class
subclass of: OGMS_0000014
definition: A clinical finding of a death that has been confirmed to be likely caused by COVID-19.
alternative label: death confirmed likely from COVID
definition source: VEuPathDB

treatment information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: OGMS_0000090
subclass of: IAO_0000030
definition: An information content entity that is about a treatment.

information on whether assay performed
type: Class
subclass of: IAO_0000030
definition: An information content entity identifying an assay and specifying whether it was performed.

obsolete sporozoite detection assay
type: Class
subclass of: ObsoleteClass
definition: An assay that detects parasite organisms in a specimen that are in the sporozoite stage.
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

study cluster information
type: Class
subclass of: IAO_0000030
definition: An information content entity about the groups of participants that are randomized to receive an intervention in a trial.
definition source: VEuPathDB

presence of organism in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003244
definition: A blood microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in cerebrospinal fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003253
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003253
definition: A cerebrospinal fluid microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in endotracheal aspirate
type: Class
equivalent class: Class
  intersection of: OBI_0003255
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003255
definition: A endotracheal tube aspirate microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003246
definition: A feces microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003251
definition: A induced sputum microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003256
definition: A lung microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003257
definition: A nasopharyngeal or oropharyngeal swab microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003258
definition: A pleural fluid microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in umbilical cord blood
type: Class
equivalent class: Class
  intersection of: OBI_0003260
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
subclass of: OBI_0003260
definition: A umbilical cord blood microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of organism in urine
type: Class
equivalent class: Class
  intersection of: OBI_0003248
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: OBI_0003248
definition: A urine microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

16S rRNA sequencing assay targeting V1-V2 region
type: Class
subclass of: OBI_0002763
definition: A 16S rRNA sequencing assay in which primers target the V1-V2 portion of the 16s gene.
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

16S rRNA sequencing assay targeting V1-V3 region
type: Class
subclass of: OBI_0002763
definition: 16S rRNA sequencing assay in which primers target the V1-V3 portion of the 16s gene
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

16S rRNA sequencing assay targeting V2 region
type: Class
subclass of: OBI_0002763
definition: 16S rRNA sequencing assay in which primers target the V2 portion of the 16s gene
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

16S rRNA sequencing assay targeting V3-V4 region
type: Class
subclass of: OBI_0002763
definition: 16S rRNA sequencing assay in which primers target the V3-V4 portion of the 16s gene
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

16S rRNA sequencing assay targeting V3-V5 region
type: Class
subclass of: OBI_0002763
definition: 16S rRNA sequencing assay in which primers target the V3-V5 portion of the 16s gene
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

16S rRNA sequencing assay targeting V4 region
type: Class
subclass of: OBI_0002763
definition: 16S rRNA sequencing assay in which primers target the V4 portion of the 16s gene
term editor: Person: John Judkins, Wojtek Bażant
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/284
ontology term requester: MicrobiomeDB

presence of organism in placental blood
type: Class
equivalent class: Class
  intersection of: OBI_0003382
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
subclass of: OBI_0003382
definition: A placental blood microbiology datum that indicates whether some organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

eukaryote detection and abundance analysis using CORRAL software
type: Class
subclass of: OBI_0200000
definition: A data transformation that uses data from a whole metagenome sequencing assay and CORRAL (for Clustering Of Related Reference ALignments) software to specify taxa of Eukaryota in a specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: https://www.biorxiv.org/content/10.1101/2022.03.09.483664v1
contributor: Ann Sizemore Blevins

health care information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: OGMS_0000096
subclass of: IAO_0000030
definition: An information content entity that is about a health care process.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/441
contributor: Jie Zheng

maternal participant under investigation
type: Class
subclass of: participant under investigation
definition: A participant under investigation that is the female biological parent of a participant under investigation.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: http://purl.obolibrary.org/obo/GSSO_001986
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548

maternal specimen collection process
type: Class
subclass of: OBI_0600005
definition: A collecting specimen from organism in which the organism is a maternal participant under investigation.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548

offspring participant under investigation
type: Class
subclass of: participant under investigation
definition: A participant under investigation that is an offspring of a participant under investigation.
definition source: http://purl.obolibrary.org/obo/NCIT_C42708
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548

offspring specimen collection process
type: Class
subclass of: OBI_0600005
definition: A collecting specimen from organism in which the organism is an offspring participant under investigation.

maternal urine microbiology datum
type: Class
equivalent class: Class
  intersection of: IAO_0000027
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: EUPATH_0038027
subclass of: OBI_0003248
definition: A data item that is the specified output of a maternal urine microbiology assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548

maternal urine specimen
type: Class
equivalent class: Class
  intersection of: OBI_0000651
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: maternal specimen collection process
subclass of: OBI_0000651
definition: A urine specimen that is the specified output of a maternal specimen collection process.
term editor: John Judkins ORCID:0000-0001-6595-0902
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548

maternal saliva specimen
type: Class
equivalent class: Class
  intersection of: OBI_0002507
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: maternal specimen collection process
subclass of: OBI_0002507
definition: A saliva specimen that is the specified output of a maternal specimen collection process.
term editor: John Judkins ORCID:0000-0001-6595-0902

maternal feces specimen
type: Class
equivalent class: Class
  intersection of: OBI_0002503
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: maternal specimen collection process
subclass of: OBI_0002503
definition: A feces specimen that is the specified output of a maternal specimen collection process.
term editor: John Judkins ORCID:0000-0001-6595-0902

maternal feces assay
type: Class
equivalent class: Class
  intersection of: OBI_0003237
  intersection of: Restriction
    on property: realizes
    some values from: Class
      intersection of: OBI_0000067
      intersection of: Restriction
        on property: role of
        some values from: EUPATH_0036014
  intersection of: Restriction
    on property: has_specified_input
    some values from: Class
      intersection of: EUPATH_0036014
      intersection of: Restriction
        on property: has role
        some values from: OBI_0000067
subclass of: EUPATH_0036022
subclass of: OBI_0003237
definition: A feces assay that has a maternal feces specimen as evaluant.

date of 60-day follow-up
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Observation date
definition: a time measurement datum specifying the date of a clinical visit scheduled for sixty days after a treatment
alternative label: Date of observation
definition source: EuPathDB

parasitized erythrocyte count to total erythrocyte count ratio
type: Class
subclass of: EFO_0005528
definition: A parasitemia measurement in which the number of parasitized erythrocytes is divided by the number of all erythrocytes in a specified sample of blood, and the result presented as a ratio, fraction, quotient or percentage.
term editor: Jie Zheng https://orcid.org/0000-0002-2999-0103
alternative label: percentage parasitemia
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/416
ontology term requester: VEuPathDB Genomics
contributor: Christian Stoeckert https://orcid.org/0000-0002-5714-991X
contributor: John Judkins https://orcid.org/0000-0001-6595-0902

metagenome pathway and function analysis
type: Class
subclass of: OBI_0200000
VEuPathDB alternative label: Metagenome pathway and function analysis
definition: A data transformation of metagenome input sequence data involving mapping to genes with full Enzyme Commision (EC) number enzyme classifications and calculation of pathways.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

4th level EC metagenome abundance data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: metagenome pathway and function analysis
VEuPathDB alternative label: 4th level EC metagenome abundance data
definition: A data item that is the output of a metagenome pathway and function analysis for the number of copies of genes annotated at the finest (4th level) EC classification.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

metagenome enzyme pathway abundance data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: metagenome pathway and function analysis
VEuPathDB alternative label: Metagenome enzyme pathway abundance data
definition: A data item that is the output of a metagenome pathway and function analysis for the number of copies of a pathway defined by EC classifications.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

metagenome enzyme pathway coverage data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: metagenome pathway and function analysis
VEuPathDB alternative label: Metagenome enzyme pathway coverage data
definition: A data item that is the output of a metagenome pathway and function analysis for gene coverage in a pathway defined by EC classifications.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative taxonomic abundance analysis
type: Class
subclass of: OBI_0200000
VEuPathDB alternative label: Relative taxonomic abundance analysis
definition: A data transformation of input sequence data to obtain the fraction of relative abundance of organisms.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of kingdom data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Kingdom
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of kingdom.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of phylum data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Phylum
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of phylum.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of class data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Class
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of class.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of order data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Order
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of order.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of family data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Family
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of family.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of genus data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Genus
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of genus.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

relative abundance of species data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: relative taxonomic abundance analysis
VEuPathDB alternative label: Species
definition: A data item that is the output of a relative taxonomic abundance analysis for organisms grouped at the level of species.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

alpha diversity taxonomic analysis
type: Class
subclass of: OBI_0200000
VEuPathDB alternative label: Alpha diversity taxonomic analysis
definition: A data transformation of input sequence data to obtain a mean species diversity.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

Shannon-indexed alpha diversity data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: alpha diversity taxonomic analysis
VEuPathDB alternative label: Shannon-indexed alpha diversity data
definition: A data item that is the output of an alpha diversity taxonomic analysis based on the Shannon index of diversity.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

inverse Simpson-indexed alpha diversity data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: alpha diversity taxonomic analysis
VEuPathDB alternative label: inverse Simpson-indexed alpha diversity data
definition: A data item that is the output of an alpha diversity taxonomic analysis based on the inverse Simpson index of diversity.
term editor: Person: John Judkins
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/208

plant taxon detected by sequence match
type: Class
subclass of: taxon detected by sequence match
VEuPathDB alternative label: Plant taxon detected by sequence match
definition: A taxon detected by sequence match that indicates whether a plant taxon was detected.
term editor: Person: John Judkins
definition source: MicrobiomeDB

animal taxon detected by sequence match
type: Class
subclass of: taxon detected by sequence match
VEuPathDB alternative label: Animal taxon detected by sequence match
definition: A taxon detected by sequence match that indicates whether an animal taxon was detected.
term editor: Person: John Judkins
definition source: MicrobiomeDB

protist taxon detected by sequence match
type: Class
subclass of: taxon detected by sequence match
VEuPathDB alternative label: Protist taxon detected by sequence match
definition: A taxon detected by sequence match that indicates whether a protist taxon was detected.
term editor: Person: John Judkins
definition source: MicrobiomeDB

taxon detected by sequence match
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Taxon detected by sequence match
definition: A data item that indicates whether a method applied to data coming from a sequencing assay of the sample has detected a taxon through identifying sequences associated with organisms of a particular taxonomic grouping.
term editor: Person: John Judkins
definition source: MicrobiomeDB

fungal taxon detected by sequence match
type: Class
subclass of: taxon detected by sequence match
VEuPathDB alternative label: Fungal taxon detected by sequence match
definition: A taxon detected by sequence match that indicates whether a fungal taxon was detected.
term editor: Person: John Judkins
definition source: MicrobiomeDB

normalized number of taxon-specific sequence matches
type: Class
subclass of: IAO_0000027
example of usage: 12.34 CPM (copies per million reads)
definition: A data item of the normalized number of sequences that match a specific taxon.
term editor: Person: John Judkins
alternative label: taxon-specific sequence matches
definition source: MicrobiomeDB

absolute taxonomic abundance analysis
type: Class
subclass of: OBI_0200000
definition: A data transformation of input sequence data to obtain the absolute abundance of organisms.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB
contributor: John Brestelli

absolute abundance of kingdom data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of kingdom.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of phylum data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of phylum.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of class data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of class.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of order data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of order.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of family data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of family.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of genus data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of genus.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

absolute abundance of species data
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: absolute taxonomic abundance analysis
definition: A data item that is the output of an absolute taxonomic abundance analysis for organisms grouped at the level of species.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: MicrobiomeDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/484
ontology term requester: MicrobiomeDB

antibiotic administration preceding feces collection
type: Class
subclass of: OBI_0000011
subclass of: Restriction
  on property: has part
  some values from: Class
    intersection of: OBI_0003057
    intersection of: Restriction
      on property: precedes
      some values from: feces specimen collection process
VEuPathDB alternative label: Antibiotic administration before stool collection
definition: A planned process in which a feces specimen is collected from an organism after the administration of an antibiotic to the organism, in order to determine effects of the antibiotic.

information on case matching
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: STATO_0000139
      intersection of: Restriction
        on property: realizes
        some values from: Restriction
subclass of: IAO_0000030
VEuPathDB alternative label: Matched case
definition: An information content entity that is about a subject pairing of two participants for a case-control study design
term editor: Person: John Judkins, Chris Stoeckert
alternative label: Matched case
definition source: EuPathDB

previous diarrheal treatment datum
type: Class
subclass of: OGMS_0000015
VEuPathDB alternative label: Previous diarrheal care
definition: A clinical history that is about a treatment for diarrhea.
term editor: Person: John Judkins
definition source: VEuPathDB

information on diarrheal episode
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Diarrheal episodes
definition: an information content entity that is about a realization of diarrhea
term editor: John Judkins
alternative label: Diarrheal episodes
definition source: EuPathDB

rehydration treatment
type: Class
subclass of: OGMS_0000090
VEuPathDB alternative label: Rehydration therapy
definition: Treatment whose aim is to restore the normal hydration state of a living organism.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
alternative label: Rehydration therapy
definition source: EuPathDB
definition source: GEMS
definition source: Penn Group

environment associated with human dwelling
type: Class
subclass of: environmental system
VEuPathDB alternative label: Dwelling environment
definition: environmental system associated with the dwelling used by humans.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

study participant administrative information
type: Class
subclass of: study participant information
VEuPathDB alternative label: Administrative information
definition: study participant information that specifies details of the study design execution in which the human participant under investigation is participating
term editor: John Judkins
alternative label: Administrative information
definition source: EuPathDB

information on eligibility criterion
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: mentions
    some values from: OBI_0500026
subclass of: IAO_0000030
VEuPathDB alternative label: Eligibility criteria
definition: An information content entity that mentions an eligiblity criterion
term editor: Person: John Judkins
alternative label: Eligibility criteria
definition source: EuPathDB

information on relation to participant
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: NCBITaxon 9606
VEuPathDB alternative label: Individuals related to participant
definition: an information content entity that is about a human being in the community of a human participant under investigation and identifies the relationship between them both
term editor: John Judkins
alternative label: Individuals related to participant
definition source: EuPathDB

fecal specimen quality data item
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: quality
    intersection of: Restriction
      on property: characteristic of
      some values from: OBI_0002503
VEuPathDB alternative label: Stool characteristics
definition: A data item that is about a quality of a fecal specimen
term editor: Person: John Judkins
alternative label: Stool characteristics
definition source: EuPathDB

feces specimen collection process
type: Class
subclass of: OBI_0600005
VEuPathDB alternative label: Stool sample collection process
definition: Specimen collection process aimed at collecting a feces specimen.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

information specifying antibiotic administered before stool collection
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: mentions
  some values from: antibiotics
VEuPathDB alternative label: Antibiotic administered before stool collection
definition: an information content entity that specifies an antibiotic that is administered to a human participant under investigation, which precedes stool collection from the participant
term editor: Person: John Judkins
alternative label: Antibiotic administered before stool collection
definition source: EuPathDB

obsolete study center
type: Class
subclass of: ObsoleteClass
definition: Organization that undertakes a clinical study at some point in time.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003068
deprecated: true

case participant identifier
type: Class
subclass of: IAO_0020000
VEuPathDB alternative label: Case ID
definition: A participant identifier that denotes the bearer of a case-control study case role.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

location of death
type: Class
subclass of: site
VEuPathDB alternative label: Death location
definition: Site where a human life process ended.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
alternative label: place of death
definition source: GEMS
definition source: Penn Group

caregiver and participant combined mass measurement datum
type: Class
subclass of: IAO_0000414
VEuPathDB alternative label: Caregiver plus participant weight
definition: A mass measurement datum that is the result of measuring the combined mass of a human participant under investigation and a caregiver of that participant.
editor note: "caretaker" replaced with "caregiver"
term editor: Person: John Judkins
alternative label: Weight of caretaker + child
definition source: EuPathDB

caregiver of participant mass measurement datum
type: Class
subclass of: IAO_0000414
VEuPathDB alternative label: Caregiver weight
definition: A mass measurement datum that is the result of measuring the mass of a caregiver of a human participant under investigation.
editor note: "caretaker" replaced with "caregiver"
term editor: Person: John Judkins
alternative label: Weight of caretaker alone
definition source: EuPathDB

first height measurement datum
type: Class
subclass of: IAO_0000408
VEuPathDB alternative label: Height
definition: A length measurement datum that is the result of the first in a series of assays measuring the height of the same material entity.
term editor: Person: John Judkins
definition source: VEuPathDB

second height measurement datum
type: Class
subclass of: IAO_0000408
VEuPathDB alternative label: Height, 2nd
definition: A length measurement datum that is the result of the second in a series of assays measuring the height of the same material entity.
term editor: Person: John Judkins
definition source: VEuPathDB

third height measurement datum
type: Class
subclass of: IAO_0000408
VEuPathDB alternative label: Height, 3rd
definition: A length measurement datum that is the result of the third in a series of assays measuring the height of the same material entity.
term editor: Person: John Judkins
definition source: VEuPathDB

mean height
type: Class
subclass of: OBI_0000679
VEuPathDB alternative label: Mean height
definition: an average value that is the specified output of a data transformation that has as input only length measurement data about height
term editor: John Judkins
definition source: EuPathDB

median height
type: Class
subclass of: OBI_0000674
VEuPathDB alternative label: Median height
definition: A center value that is the specified output of a median calculation that has as input only length measurement data about height
term editor: Person: John Judkins
definition source: EuPathDB

first mid-upper arm circumference datum
type: Class
subclass of: OBI_0003416
VEuPathDB alternative label: MUAC
definition: a length measurement datum that is the result of the first in a series of assays measuring the length around the same upper arm, such that the measurement is taken midway along the upper arm
term editor: John Judkins
alternative label: MUAC, 1st
definition source: The Mother and Child Health and Education Trust

second mid-upper arm circumference datum
type: Class
subclass of: OBI_0003416
VEuPathDB alternative label: MUAC, 2nd
definition: a length measurement datum that is the result of the second in a series of assays measuring the length around the same upper arm, such that the measurement is taken midway along the upper arm
term editor: John Judkins
alternative label: MUAC, 2nd
definition source: The Mother and Child Health and Education Trust

third mid-upper arm circumference datum
type: Class
subclass of: OBI_0003416
VEuPathDB alternative label: MUAC, 3rd
definition: A length measurement datum that is the result of the third in a series of assays measuring the length around the same upper arm, such that the measurement is taken midway along the upper arm
term editor: Person: John Judkins
alternative label: MUAC, 3rd
definition source: EuPathDB

mean mid-upper arm circumference
type: Class
subclass of: OBI_0000679
VEuPathDB alternative label: Mean MUAC
definition: An average value of two or more mid-upper arm circumference data of the same human participant under investigation
term editor: Person: John Judkins, Chris Stoeckert
alternative label: MUAC; mean
definition source: EuPathDB

median mid-upper arm circumference
type: Class
subclass of: OBI_0000674
VEuPathDB alternative label: Median MUAC
definition: A center value of one or more mid-upper arm circumference data of the same human participant under investigation
term editor: Person: John Judkins, Chris Stoeckert
alternative label: MUAC; median
definition source: EuPathDB

obsolete axillary temperature measurement datum
type: Class
subclass of: ObsoleteClass
definition: A temperature measurement datum that is about the temperature of an axilla
term editor: John Judkins
alternative label: Axillary temperature
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003072
deprecated: true

first respiratory rate measurement datum
type: Class
subclass of: OBI_0001554
definition: a rate measurement datum that is about a human participant under investigation and is the specified output of the first of a series of countings of instances of the participant's respiration
term editor: John Judkins
alternative label: Respiratory rate 1
alternative label: Respiratory rate per minute, 1st
definition source: EuPathDB
scheduled for obsoletion on or after: yes

second respiratory rate measurement datum
type: Class
subclass of: OBI_0001554
VEuPathDB alternative label: Respiratory rate, 2nd
definition: a rate measurement datum that is about a human participant under investigation and is the specified output of the second of a series of countings of instances of the participant's respiration
term editor: John Judkins
alternative label: Respiratory rate 2
alternative label: Respiratory rate per minute, 2nd
definition source: EuPathDB

average respiratory rate
type: Class
subclass of: OBI_0000679
subclass of: Restriction
  on property: is_specified_output_of
  some values from: Class
    intersection of: OBI_0200170
    intersection of: Restriction
      on property: has_specified_input
      all values from: respiration rate
VEuPathDB alternative label: Mean respiratory rate
definition: an average value that is the specified output of a data transformation that has two or more respiratory rates of the same human participant under investigation as specified input
term editor: John Judkins
alternative label: Respiratory rate, mean
definition source: EuPathDB

water container
type: Class
subclass of: OBI_0000967
VEuPathDB alternative label: Drinking water container
definition: Container used by humans to drink water.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

chlorine test result
type: Class
subclass of: IAO_0000109
VEuPathDB alternative label: Chlorine test result
definition: Information Content entity that is a boolean-valued measurement datum, outcome of a chlorine testing assay that aims at testing a body of drinking water for a specified minimum concentration of Chlorine.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

location of hand washing
type: Class
subclass of: site
VEuPathDB alternative label: Hand washing location
definition: Site where humans wash their hands.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

indicator of whether participant receiving medication
type: Class
subclass of: study participant information
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Currently receiving medication
definition: An information content entity that specifies whether a human participant under investigation is currently a medication-taking patient
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: Person: John Judkins, Jie Zheng
alternative label: Currently receiving medication
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

date of defecation
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Date stool passed
definition: A time measurement datum of the date encompassing a defecation
term editor: Person: John Judkins
alternative label: Date stool passed
definition source: EuPathDB

stool consistency
type: Class
subclass of: quality
VEuPathDB alternative label: Stool consistency
definition: a quality of water composition, shape, or structure that inheres in fecal material
term editor: John Judkins
definition source: Wikipedia: Bristol stool scale

date of first antibiotic administration
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: First antibiotic administration date
definition: A time measurement datum of the date of the first in a series of antibiotic administrations to a human participant under investigation
term editor: Person: John Judkins
definition source: EuPathDB

time of first antibiotic administration to human participant under investigation
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: OBI_0003057
VEuPathDB alternative label: Time of 1st antibiotic administration
definition: A time measurement datum of the time of the first in a series of antibiotic administrations to a human participant under investigation
term editor: Person: John Judkins
alternative label: Time of first antibiotic administration
definition source: EuPathDB

duration of diarrheal episode
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Diarrheal episode duration
definition: A time measurement datum that is the result of measuring the duration of a diarrheal episode
term editor: Person: John Judkins, Chris Stoeckert
definition source: EuPathDB

feces volume measurement datum
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Stool volume
definition: A measurement datum that results from measuring the volume of feces excreted during an instance of defecation.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert, John Judkins
alternative label: stool volume measurement datum
definition source: GEMS
definition source: Penn Group

date of rehydration
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Rehydration date
definition: a time measurement datum of the date at which a dehydration treatment is administered
term editor: John Judkins
term editor: Person: John Judkins
definition source: EuPathDB

time of rehydration
type: Class
subclass of: treatment information
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: OGMS_0000090
VEuPathDB alternative label: Rehydration time
definition: a time measurement datum of the time of day at which a dehydration treatment is administered
term editor: John Judkins
definition source: EuPathDB

duration of hospitalization
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Hospitalization duration
definition: A time measurement datum of the duration of a health care encounter occuring in a hospital facility.
term editor: Person: John Judkins
definition source: VEuPathDB

symptom in last seven days information
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Symptoms in the last 7 days
definition: A symptom at enrollment information about a symptom that was experienced within seven days prior to the time of enrollment
term editor: Person: John Judkins
alternative label: Symptoms in the last 7 days
definition source: EuPathDB

symptom since illness began information
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Symptoms since illness began
definition: A symptom or sign information that is about a symptom experienced after a disease course has started
term editor: Person: John Judkins
alternative label: Symptoms since illness began
definition source: EuPathDB

obsolete breastfeeding process
type: Class
subclass of: ObsoleteClass
definition: Process of feeding of babies and young children with milk from a woman's breast.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group
has obsolescence reason: IAO_0000228
term replaced by: GO_0001967
deprecated: true

child study subject identifier at first enrollment
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Participant ID at 1st enrollment
definition: Child study subject identifier received upon enrolling into a healthcare study for the first time.
term editor: Person: Cristian Cocos, Jie Zheng, Chris Stoeckert
definition source: GEMS
definition source: Penn Group

information on diarrhea treatment before clinical visit
type: Class
subclass of: treatment information
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: OGMS_0000090
    intersection of: Restriction
      on property: precedes
      some values from: OGMS_0000097
VEuPathDB alternative label: Diarrhea treatment before visit
definition: An information content entity that is about a treatment for diarrhea that precedes any treatment for diarrhea given to the same person during a clinical visit.
term editor: Person: John Judkins
alternative label: Diarrhea treatment before visit
definition source: EuPathDB

information on raising money for health care encounter
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Money source for expenses before visit
definition: an information content entity that specifies how the money was raised to cover the cost of a health care encounter
term editor: John Judkins
alternative label: Money source for expenses before visit
definition source: EuPathDB

information on where diarrheal treatment sought
type: Class
subclass of: previous diarrheal treatment datum
VEuPathDB alternative label: Previously sought care
definition: A previous diarrheal treatment datum that is about the person or place from which the treatment is sought
term editor: Person: John Judkins
alternative label: Previously sought care
definition source: EuPathDB

anthropometric value range specification
type: Class
subclass of: OBI_0001930
VEuPathDB alternative label: Anthropometry flag
definition: A categorical value specification that specifies whether the value of an anthropometric information content entity lies outside a specified range
term editor: Person: John Judkins
alternative label: Anthropometry flag
definition source: EuPathDB

information on diarrhea treatment in health care facility
type: Class
subclass of: information on diarrhea treatment
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: OGMS_0000090
    intersection of: Restriction
      on property: occurs in
      some values from: OMRSE_00000102
VEuPathDB alternative label: Diarrhea treatment given in health center
definition: An information content entity that is about a treatment for diarrhea that is administered in a health care facility
term editor: Person: John Judkins
alternative label: Diarrhea treatment given in health center
definition source: EuPathDB

information on diarrhea treatment by prescription
type: Class
subclass of: information on diarrhea treatment
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: OGMS_0000090
    intersection of: Restriction
      on property: executes
      some values from: PDRO_0000001
VEuPathDB alternative label: Diarrhea treatment by prescription at home
definition: An information content entity that is about a treatment provided by a health care prescription for a human participant under investigation for diarrhea
term editor: Person: John Judkins
alternative label: Diarrhea treatment by prescription at home
definition source: EuPathDB

diagnosis previous to two month follow-up
type: Class
subclass of: OGMS_0000073
VEuPathDB alternative label: Previous diagnosis noted at 60 day follow-up visit
definition: A diagnosis of a human participant under investigation, two months before the participant's follow-up visit.
term editor: Person: John Judkins
definition source: VEuPathDB

information on sex of matched case
type: Class
equivalent class: Class
  intersection of: information on case matching
  intersection of: Restriction
    on property: denotes
    some values from: Class
      intersection of: PATO_0000047
      intersection of: Restriction
        on property: characteristic of
        some values from: Restriction
subclass of: information on case matching
VEuPathDB alternative label: Sex, matched case
definition: Information on case matching that denotes the sex of the case subject
term editor: Person: John Judkins
alternative label: Sex, matched case
definition source: EuPathDB

date of birth of matched case
type: Class
subclass of: EFO_0004950
VEuPathDB alternative label: Birth date, matched case
definition: The date of birth of a case subject in a case-control study
term editor: Person: John Judkins
definition source: EuPathDB

eligibility criterion of diarrhea episode starting with past 7 days
type: Class
subclass of: OBI_0500026
VEuPathDB alternative label: Current diarrhea episode began within the last 7 days
definition: An eligibility criterion indicating an episode of diarrhea starting within the past seven days.
term editor: Person: John Judkins
definition source: VEuPathDB

indicator of whether participant eligible for enrollment
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0600004
VEuPathDB alternative label: Eligible for enrollment
definition: A categorical value specification that specifies whether a human participant under investigation meets requirements for human subject enrollment
term editor: Jie Zheng
term editor: Person: John Judkins
alternative label: Eligibility for enrollment
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

presence of maximum fever temperature of at least 37.5 degrees
type: Class
subclass of: OBI_0000938
VEuPathDB alternative label: Fever at episode >37.5 C
definition: a categorical measurement datum that is about a maximum fever temperature in Celsius and specifies whether its value is at least 37.5
term editor: John Judkins
alternative label: Fever at episode, temperature >37.5C
definition source: EuPathDB

indicator of whether Adenovirus ELISA performed
type: Class
subclass of: specimen information
subclass of: information on whether assay performed
subclass of: Restriction
  on property: is about
  some values from: OBI_0100051
VEuPathDB alternative label: Adenovirus ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Adenovirus
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Adenovirus ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether Astrovirus ELISA performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Astrovirus ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Astrovirus
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Astrovirus ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether Rotavirus ELISA performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Rotavirus ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Rotavirus
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Rotavirus ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether modified acid fast staining method performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Modified acid stain microscopy performed
definition: a categorical value specification that specifies whether a modified acid fast staining method was performed
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: modified acid fast staining method performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

number of feces assays
type: Class
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OBI_0003237
VEuPathDB alternative label: Stool test count
definition: A count of feces assays evaluating the same specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

indicator of whether Norovirus RT-PCR performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Norovirus qRT-PCR performed
definition: a categorical value specifiction that specifies whether a reverse transcription polymerase chain reaction assay was performed with the objective of determining whether a specimen contains Norovirus
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Norovirus RT-PCR performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether Cryptosporidium ELISA performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Cryptosporidium ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Cryptosporidium
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Cryptosporidium ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether Entamoeba histolytica ELISA performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Entamoeba histolytica ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Entamoeba histolytica
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Entamoeba histolytica ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether Giardia ELISA performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Giardia ELISA performed
definition: a categorical value specification that specifies whether an enzyme linked immunosorbent assay was performed with the objective of determining whether a specimen contains Giardia
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Giardia ELISA performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

presence of Adenoviridae in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Adenovirus, by ELISA
definition: A eukaryota in feces datum by enzyme-linked immunosorbent assay datum that specifies whether the virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Aeromonas unspecified in feces
type: Class
subclass of: presence of Aeromonas in feces
VEuPathDB alternative label: Aeromonas, by bacteriology
definition: An Aeromonas in feces datum that specifies whether Aeromonas was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Ascaris lumbricoides in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6252
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0036059
VEuPathDB alternative label: Ascaris lumbricoides, by microscopy
definition: A eukaryota in feces datum in feces that specifies whether Ascaris lumbricoides was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Astrovirus in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_39733
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Astrovirus, by ELISA
definition: An Astrovirus in feces by enzyme-linked immunosorbent assay datum that specifies whether the virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Trichuris trichiura in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36087
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Trichuris trichiura, by microscopy
definition: A eukaryota in feces datum that specifies whether Trichuris trichiura was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Balantioides coli in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1073269
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Balantidium coli, by microscopy
definition: A eukaryota in feces datum that specifies whether Balantioides cf. coli was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Aeromonas in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 642
subclass of: OBI_0003264
VEuPathDB alternative label: Aeromonas, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Aeromonas in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Campylobacter in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: Campylobacter in feces datum
VEuPathDB alternative label: Campylobacter, by ELISA result
definition: A bacteria in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Campylobacter in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Campylobacter in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
subclass of: OBI_0003264
VEuPathDB alternative label: Campylobacter, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Campylobacter in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Escherichia coli in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
subclass of: OBI_0003264
VEuPathDB alternative label: Escherichia coli, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Escherichia coli in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Salmonella in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
subclass of: OBI_0003264
VEuPathDB alternative label: Salmonella, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Salmonella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Shigella in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 620
subclass of: OBI_0003264
VEuPathDB alternative label: Shigella, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Shigella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Vibrio in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 662
subclass of: OBI_0003264
VEuPathDB alternative label: Vibrio, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Vibrio in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Chilomastix mesnili in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_472572
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Chilomastix mesnili, by microscopy
definition: A eukaryota in feces datum that specifies whether Chilomastix mesnili was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cyclospora in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_44417
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Cyclospora, by microscopy
definition: A eukaryota in feces datum that specifies whether Cyclospora was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Entamoeba histolytica in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5759
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Entamoeba histolytica in feces by enzyme-linked immunosorbent assay datum
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Entamoeba histolytica, by ELISA
definition: A Entamoeba histolytica in feces by enzyme-linked immunosorbent assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Endolimax nana in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_110788
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Endolimax nana, by microscopy
definition: A eukaryota in feces datum that specifies whether Endolimax nana was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobius vermicularis in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_51028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Enterobius vermicularis, by microscopy
definition: A eukaryota in feces datum that specifies whether Enterobius vermicularis was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Adenovirus in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: OBI_0003266
VEuPathDB alternative label: Adenovirus, by ELISA result
definition: A virus in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Adenovirus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Astrovirus in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_39733
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: OBI_0003266
VEuPathDB alternative label: Astrovirus, by ELISA result
definition: A virus in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Astrovirus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Hymenolepis diminuta in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Hymenolepis diminuta, by microscopy
definition: A eukaryota in feces datum that specifies whether Hymenolepis diminuta was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Rodentolepis nana in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_102285
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Hymenolepis nana, by microscopy
definition: A eukaryota in feces datum that specifies whether Rodentolepis nana was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Ancylostomatoidea in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2572558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Ancylostomatoidea in feces by real time polymerase chain reaction assay
VEuPathDB alternative label: Hookworm, by microscopy
definition: A eukaryota in feces datum that specifies whether Ancylostomatoidea was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Iodamoeba butschlii by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1089792
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Iodamoeba butschlii, by microscopy
definition: A eukaryota in feces datum that specified whether Iodamoeba butschlii was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Entamoeba coli in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_110766
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Entamoeba coli, by microscopy
definition: A eukaryota in feces datum that specifies whether Entamoeba coli was detected by microscopy assay
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Norovirus in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_142786
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Norovirus, by RT-PCR
definition: A virus in feces datum that specifies whether Norovirus was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Norovirus GI in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122928
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Norovirus in feces by real time polymerase chain reaction assay
VEuPathDB alternative label: Norovirus GI, by RT-PCR
definition: A virus in feces datum that specifies whether Norovirus GI was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Norovirus GII in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122929
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Norovirus in feces by real time polymerase chain reaction assay
VEuPathDB alternative label: Norovirus GII, by RT-PCR
definition: A virus in feces datum that specifies whether Norovirus GII was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Norovirus GII in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122929
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000911
subclass of: multiplex qPCR threshold cycle for Norovirus in feces
VEuPathDB alternative label: Norovirus GII, by qRT-PCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Norovirus GII in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Norovirus GI in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122928
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000911
subclass of: multiplex qPCR threshold cycle for Norovirus in feces
VEuPathDB alternative label: Norovirus GI, by qRT-PCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Norovirus GI in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Norovirus in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_142786
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000911
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Norovirus, by qRT-PCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Norovirus in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Cryptosporidium in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5806
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: OBI_0003265
VEuPathDB alternative label: Cryptosporidium, by ELISA result
definition: A eukaryota in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Cryptosporidium in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete presence of Entamoeba histolytica by ELISA
type: Class
subclass of: ObsoleteClass
definition: a categorical measurement datum that specifies whether Entamoeba histolytica was detected by an enzyme-linked immunosorbent assay
term editor: John Judkins
alternative label: Entamoeba histolytica, by ELISA
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: presence of Entamoeba histolytica in feces by enzyme-linked immunosorbent assay
deprecated: true

Giardia in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5740
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: OBI_0003265
VEuPathDB alternative label: Giardia, by ELISA result
definition: A eukaryota in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Giardia in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plesiomonas shigelloides in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 703
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plesiomonas in feces
VEuPathDB alternative label: Plesiomonas shigelloides, by bacteriology
definition: A bacteria in feces datum that specifies whether Plesiomonas shigelloides was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Rotavirus in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10912
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Rotavirus, by ELISA
definition: A virus in feces datum that specifies whether Rotavirus was detected by enzyme-linked immunosorbent assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella unspecified in feces
type: Class
subclass of: presence of Salmonella in feces
VEuPathDB alternative label: Salmonella, by bacteriology
definition: A Salmonella in feces datum that specifies whether Salmonella was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Schistosoma in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6181
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Schistosoma, by microscopy
definition: A eukaryota in feces datum that specifies whether Schistosoma was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella unspecified in feces
type: Class
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Strongyloides stercoralis in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6248
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Strongyloides stercoralis, by microscopy
definition: A eukaryota in feces datum that specifies whether Strongyloides stercoralis was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Escherichia coli in feces by polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002692
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Escherichia in feces
VEuPathDB alternative label: STEC stx1-pos or stx2-pos, by PCR
definition: An Escherichia coli in feces datum that specifies whether Escherichia coli was detected by polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Taenia in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6202
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Taenia, by microscopy
definition: A eukaryota in feces datum that specifies whether Taenia was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio unspecified in feces
type: Class
subclass of: presence of Vibrio in feces
VEuPathDB alternative label: Vibrio, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio was detected, withou specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Yersinia enterocolitica in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 630
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Yersinia in feces
VEuPathDB alternative label: Yersinia enterocolitica, by bacteriology
definition: A bacteria in feces datum that specifies whether Yersinia enterocolitica was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of unspecified bacteria in feces by unspecified assay
type: Class
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Any bacteria, by any method
definition: A bacteria in feces datum that specifies whether bacteria were detected, without further specifying the taxon or assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of unspecified parasite organism in feces by unspecified assay
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: Any parasites, by any method
definition: A feces microbiology datum that specifies whether a parasite organism was detected, without further specifying the taxon or assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of unspecified pathogen in feces by unspecified assay
type: Class
subclass of: presence of organism in feces
subclass of: Restriction
  on property: is about
  some values from: IDO_0000528
VEuPathDB alternative label: presence of pathogen
definition: A feces microbiology datum that specifies whether a pathogen was detected, without further specifying the taxon or assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of any pathogen excluding Norovirus in feces by unspecified assay
type: Class
subclass of: presence of organism in feces
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: IDO_0000528
    intersection of: Class
      complement of: NCBITaxon_142786
VEuPathDB alternative label: Any pathogen (excluding NRV), by any method
definition: A feces microbiology datum that specifies whether a pathogen excluding Norovirus was detected by an unspecified assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

number of bacteria species in feces specimen
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Bacteria count
definition: A count of species of bacteria in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

number of parasite organism species in feces specimen
type: Class
subclass of: OBI_0003245
subclass of: STATO_0000047
subclass of: Restriction
  on property: is about
  some values from: OPL_0000232
subclass of: Restriction
  on property: is_specified_output_of
  some values from: OBI_0003237
VEuPathDB alternative label: Parasite count
definition: A count of species of parasite organisms in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

number of pathogen species in feces specimen
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Pathogen count, analysis monthly and per protocol diarrheal stools
definition: A count of species of pathogen in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

number of virus species in feces specimen
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Virus count
definition: A count of species of virus in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of unspecified virus in feces by unspecified assay
type: Class
subclass of: presence of virus in feces
VEuPathDB alternative label: Any virus, by any method
definition: A feces microbiology datum that specifies whether a virus was detected, without further specifying the taxon or assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus excluding Norovirus in feces
type: Class
subclass of: presence of virus in feces
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: NCBITaxon_10239
    intersection of: Class
      complement of: NCBITaxon_142786
VEuPathDB alternative label: Any virus (excluding NRV), by any method
definition: A virus in feces datum that specifies whether a virus excluding Norovirus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of parasite organism in feces by modified acid-fast stain microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: OPL_0000232
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003294
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of parasite organism in feces by microscopy assay
VEuPathDB alternative label: Any parasites, by modified acid stain microscopy
definition: A feces microbiology datum that specifies whether a parasite organism was detected by modified acid-fast stain microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter in feces by polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002692
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter, by PCR
definition: A Campylobacter in feces datum that specifies whether the organism was detected by polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter, by ELISA
definition: A Campylobacter in feces by enzyme-linked immunosorbent assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cryptosporidium in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5806
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Cryptosporidium in feces by enzyme-linked immunosorbent assay datum
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Cryptosporidium, by ELISA
definition: A Cryptosporidium in feces by enzyme-linked immunosorbent assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Cryptosporidium in feces by modified acid-fast stain microscopy datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5806
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003294
subclass of: OBI_0003265
VEuPathDB alternative label: Cryptosporidium, by modified acid stain microscopy result
definition: A eukaryota in feces datum that is the output of a modified acid-fast stain microscopy and is used to determine the presence of Cryptosporidium in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Entamoeba histolytica in feces by microscopy assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5759
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
subclass of: OBI_0003265
VEuPathDB alternative label: Entamoeba histolytica, by microscopy result
definition: A eukaryota in feces datum that is the output of a microscopy assay and is used to determine the presence of Entamoeba histolytica in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Giardia in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5740
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Giardia in feces by enzyme-linked immunosorbent assay datum
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Giardia, by ELISA
definition: A Giardia in feces by enzyme-linked immunosorbent assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Giardia lamblia in feces by microscopy assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5741
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
subclass of: OBI_0003265
VEuPathDB alternative label: Giardia lamblia, by microscopy result
definition: A eukaryota in feces datum that is the output of a microscopy assay and is used to determine the presence of Giardia lamblia in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Isospora in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_56625
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Isospora, by microscopy
definition: A eukaryota in feces datum that specifies whether Isospora was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

feces myeloperoxidase concentration
type: Class
subclass of: OBI_0003245
subclass of: Restriction
  on property: is about
  some values from: PR_000010543
VEuPathDB alternative label: Myeloperoxidase
definition: A feces assay datum of the concentration of myeloperoxidase.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/505
ontology term requester: ClinEpiDB
contributor: Sheena Tomko

blood specimen collection process
type: Class
subclass of: OBI_0600005
VEuPathDB alternative label: Blood sample collection process
definition: A collecting specimen from organism that has the objective to obtain a blood specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/548
ontology term requester: ClinEpiDB

indicator of dairy food product consumption yesterday
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Dairy
definition: An information content entity that specifies whether a dairy food product was consumed by a study participant yesterday.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

information on suckling behavior
type: Class
equivalent class: Class
  intersection of: information on process
  intersection of: Restriction
    on property: is about
    some values from: GO_0001967
subclass of: information on process
VEuPathDB alternative label: Breastfeeding
definition: Information on process that is about suckling behavior.
term editor: Person: John Judkins and Chris Stoeckert
alternative label: Breastfeeding
definition source: EuPathDB

calorie intake measurement
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: Calories
definition: Any measurement of the calories (usually large calories, kilogram calories, dietary calories, or nutritional calories) consumed by an organism. a large calorie is the amount of energy needed to raise the temperature of one kilogram of water by one degree celsius, a measure of the energy which an organism can derive by metabolizing the source of those calories, i.e., a food, a drink, or both.
term editor: Person: John Judkins
alternative label: Calories
definition source: EuPathDB

feces assay to detect inflammation
type: Class
subclass of: OBI_0003237
VEuPathDB alternative label: Stool intestinal inflammation test
definition: A feces assay that measures some material entity, the amount of which could indicate the occurence of an inflammatory reponse in the organism from which the specimen was collected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/507
ontology term requester: ClinEpiDB
contributor: Sheena Tomko

information on acute lower respiratory tract disease
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: lower respiratory tract disease
VEuPathDB alternative label: ALRI episodes
definition: An information content entity that is about an acute manifestation of a lower respiratory tract disease
term editor: Person: John Judkins
alternative label: ALRI episodes
definition source: EuPathDB

obsolete blood test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that has a blood specimen as specified input.
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003040
deprecated: true

obsolete urine test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that has a urine specimen as specified input.
term editor: John Judkins
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003043
deprecated: true

obsolete information on microscopy assay
type: Class
subclass of: ObsoleteClass
definition: An information content entity that is about a microscopy assay
term editor: Person: John Judkins
definition source: VEuPathDB
deprecated: true

blood ferritin concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: GO_0070288
VEuPathDB alternative label: Ferritin
definition: A blood assay datum of the concentration of ferritin.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Blastocystis in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12967
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Blastocystis, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Blastocystis in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Clostridioides difficile in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1496
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003264
subclass of: STATO_0000190
VEuPathDB alternative label: Clostridium difficile, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Clostridioides difficile in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Entamoeba in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5758
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Entamoeba, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Entamoeba in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rodentolepis nana in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_102285
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Hymenolepis nana, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rodentolepis nana in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Mycobacterium tuberculosis in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1773
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003264
subclass of: STATO_0000190
VEuPathDB alternative label: Mycobacterium tuberculosis, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Mycobacterium tuberculosis in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Norovirus GI.1 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_647514
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Norovirus GI in feces
VEuPathDB alternative label: Norovirus GI.1, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Norovirus GI.1 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Norovirus GII.4 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_489821
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Norovirus GII in feces
VEuPathDB alternative label: Norovirus GII.4, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Norovirus GII.4 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Plesiomonas in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 702
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003264
subclass of: STATO_0000190
VEuPathDB alternative label: Plesiomonas, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Plesiomonas in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Schistosoma in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6181
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Schistosoma, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Schistosoma in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

blood retinol concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: retinol
VEuPathDB alternative label: Retinol
definition: A blood assay datum of the concentration of retinol.
term editor: Person: John Judkins
definition source: VEuPathDB

Entamoeba histolytica in feces by enzyme-linked immunosorbent assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5759
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
subclass of: OBI_0003265
VEuPathDB alternative label: Entamoeba histolytica, by ELISA result
definition: A eukaryota in feces datum that is the output of an enzyme-linked immunosorbent assay and is used to determine the presence of Entamoeba histolytica in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 662
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Vibrio in stool
definition: A bacteria in feces datum that specifies whether Vibrio was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in feces
VEuPathDB alternative label: Virus in stool
definition: A virus in feces datum that specifies whether a virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Yersinia in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 629
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Yersinia in stool
definition: A bacteria in feces datum that specifies whether Yersinia was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Aeromonas in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 642
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Aeromonas in stool
definition: A bacteria in feces datum that specifies whether Aeronomas was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in feces
VEuPathDB alternative label: Bacteria in stool
definition: A bacteria in feces datum that specifies whether bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Campylobacter in stool
definition: A bacteria in feces datum that specifies whether Campylobacter was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Escherichia in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 561
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Escherichia in stool
definition: A bacteria in feces datum that specifies whether Escherichia was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plesiomonas in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 702
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Plesiomonas in stool
definition: A bacteria in feces datum that specifies whether Plesiomonas was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Salmonella in stool
definition: A bacteria in feces datum that specifies whether Salmonella was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 620
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Shigella in stool
definition: A bacteria in feces datum that specifies whether Shigella was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Norovirus GI in feces by real time reverse-transcription polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122928
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000911
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Norovirus GI, by qRT-PCR
definition: A virus in feces datum that specifies whether Norovirus GI was detected by real time reverse-transcription polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Norovirus GII in feces by real time reverse-transcription polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122929
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000911
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Norovirus GII, by qRT-PCR
definition: A virus in feces datum that specifies whether Norovirus GII was detected by real time reverse-transcription polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

charcoal cooking fuel
type: Class
equivalent class: Class
  intersection of: charcoal
  intersection of: cooking fuel material
subclass of: charcoal
subclass of: cooking fuel material
VEuPathDB alternative label: Charcoal
definition: Charcoal as a cooking fuel
term editor: Person: John Judkins
alternative label: Charcoal
definition source: EuPathDB

obsolete information on drinking water piped into dwelling
type: Class
subclass of: ObsoleteClass
definition: An information content entity that mentions drinking water piped into a dwelling
term editor: Person: John Judkins
alternative label: Piped into house
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/136
term replaced by: drinking water from pipe into dwelling
deprecated: true

obsolete information on drinking water piped into yard
type: Class
subclass of: ObsoleteClass
definition: An information content entity that mentions drinking water obtained through a plumbing fixture located in the yard of a human dwelling
term editor: Person: John Judkins
alternative label: Piped into yard
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/136
term replaced by: drinking water from pipe into yard
deprecated: true

drinking water derived from rainwater
type: Class
equivalent class: Class
  intersection of: drinking water
  intersection of: Restriction
    on property: derives from
    some values from: rainwater
subclass of: drinking water
VEuPathDB alternative label: Rainwater
definition: drinking water that is derived from rainwater
term editor: John Judkins
alternative label: Rainwater
definition source: EuPathDB

drinking water derived from bore hole water
type: Class
equivalent class: Class
  intersection of: drinking water
  intersection of: Restriction
    on property: derives from
    some values from: bore hole water
subclass of: drinking water
VEuPathDB alternative label: Bore hole
definition: Drinking water that is derived from bore hole water
term editor: John Judkins
alternative label: Bore hole
definition source: EuPathDB

respiratory distress since illness began information
type: Class
equivalent class: Class
  intersection of: symptom since illness began information
  intersection of: Restriction
    on property: mentions
    some values from: HP_0002098
subclass of: symptom since illness began information
VEuPathDB alternative label: Difficulty breathing
definition: A symptom since illness began information that mentions respiratory distress
term editor: Person: John Judkins
alternative label: Difficulty breathing
definition source: EuPathDB

convulsion since illness began information
type: Class
equivalent class: Class
  intersection of: symptom since illness began information
  intersection of: Restriction
    on property: mentions
    some values from: SYMP_0000596
subclass of: symptom since illness began information
VEuPathDB alternative label: Convulsion
definition: A symptom since illness began information that mentions convulsion
term editor: Person: John Judkins
alternative label: Convulsion
definition source: EuPathDB

information on oral rehydration for diarrhea before visit
type: Class
subclass of: information on diarrhea treatment before clinical visit
VEuPathDB alternative label: ORALITE or ORS
definition: Information on diarrhea treatment before clinical visit that mentions an oral rehydration product as the treatment.
term editor: Person: John Judkins
definition source: VEuPathDB

information on cutting food expenses to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Cutting down expenses from meals
definition: information on raising money for health care encounter that specifies that less money was spent on food to cover healthcare costs
term editor: John Judkins
alternative label: Cutting down expenses from meal
definition source: EuPathDB

information on cutting non-food expenses to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Cutting down from other expenses
definition: information on raising money for health care encounter that specifies that less money was spent on goods or services other than food to cover healthcare costs
term editor: John Judkins
alternative label: Cutting down from other expenses
definition source: EuPathDB

information on using savings to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Using savings
definition: information on raising money for health care encounter that specifies that the money to cover healthcare costs was derived from savings
term editor: John Judkins
alternative label: Using savings
definition source: EuPathDB

information on borrowing to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Borrowing
definition: information on raising money for health care encounter that specifies that the money to cover healthcare costs was borrowed
term editor: John Judkins
alternative label: Borrowing
definition source: EuPathDB

information on selling assets to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Selling assets
definition: information on raising money for health care encounter that specifies that the money to cover healthcare costs derived from money obtained through the sale of assets
term editor: John Judkins
alternative label: Selling assets
definition source: EuPathDB

information on asking for donations outside the household to pay for health care
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Asking for donations outside the household
definition: information on raising money for health care encounter that specifies that the money to cover healthcare costs was donated but not by any member of the patient's household
term editor: John Judkins
alternative label: Asking for donations outside the household
definition source: EuPathDB

information on health care paid for by relative or friend
type: Class
subclass of: information on raising money for health care encounter
VEuPathDB alternative label: Paid by relative or friend
definition: information on raising money for health care encounter that specifies that the money to cover healthcare costs was donated by a friend or relative of the patient
term editor: John Judkins
alternative label: Paid by relative or friend
definition source: EuPathDB

rectal prolapse information
type: Class
equivalent class: Class
  intersection of: symptom or sign information
  intersection of: Restriction
    on property: mentions
    some values from: rectal prolapse
subclass of: symptom or sign information
VEuPathDB alternative label: Rectal prolapse
definition: A symptom or sign information that mentions rectal prolapse
term editor: Person: John Judkins
alternative label: Rectal prolapse
definition source: EuPathDB

bipedal edema symptom or sign information
type: Class
equivalent class: Class
  intersection of: symptom or sign information
  intersection of: Restriction
    on property: mentions
    some values from: HP_0033045
subclass of: symptom or sign information
VEuPathDB alternative label: Bipedal edema
definition: A symptom or sign information that mentions bipedal edema
term editor: Person: John Judkins
alternative label: Bipedal edema
definition source: EuPathDB

flaky paint dermatosis information
type: Class
equivalent class: Class
  intersection of: symptom or sign information
  intersection of: Restriction
    on property: mentions
    some values from: HP_0032178
subclass of: symptom or sign information
VEuPathDB alternative label: Skin has 'flaky paint' appearance
definition: A symptom or sign information that mentions flaky paint dermatosis
term editor: Person: John Judkins
alternative label: Skin has 'flaky paint' appearance
definition source: EuPathDB

diagnosis of diarrhea at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: diarrhea
VEuPathDB alternative label: Diarrhea
definition: A diagnosis at patient discharge that is an assertion that a patient has diarrhea.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of dysentery at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: dysentery
VEuPathDB alternative label: Dysentery
definition: A diagnosis at patient discharge that is an assertion that a patient has dysentery.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of pneumonia of lower repiratory tract disease at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: Class
    union of: lower respiratory tract disease
    union of: pneumonia
VEuPathDB alternative label: Pneumonia or lower respiratory infection
definition: A diagnosis at patient discharge that is an assertion that a patient has pneumonia or lower respiratory tract disease.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of malaria at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: malaria
VEuPathDB alternative label: Malaria
definition: A diagnosis at patient discharge that is an assertion that a patient has malaria.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of nutritional deficiency disease at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: nutritional deficiency disease
VEuPathDB alternative label: Malnutrition
definition: A diagnosis at patient discharge that is an assertion that a patient has nutritional deficiency disease.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of typhoid fever at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: typhoid fever
VEuPathDB alternative label: Typhoid
definition: A diagnosis at patient discharge that is an assertion that a patient has typhoid fever.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Human mastadenovirus F in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_130309
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000661
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Adenoviridae in feces by enzyme-linked immunosorbent assay
VEuPathDB alternative label: Adenovirus 40/41, by ELISA
definition: A virus in feces datum that specifies whether Human mastadenovirus F was detected by enzyme-linked immunosorbent assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Adenoviridae excluding human mastadenovirus F in feces by enzyme-linked immunosorbent assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon_10508
      intersection of: Class
        complement of: NCBITaxon_130309
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Adenovirus non-40/41, by ELISA
definition: A virus in feces datum that specifies whether Adenoviridae excluding human mastadenovirus F were detected by enzyme-linked immunosorbent assay
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae O1 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_127906
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio cholerae in feces
VEuPathDB alternative label: Vibrio cholerae O1, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae O1 was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae serotype Inaba in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Vibrio cholerae serotype Inaba
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio cholerae O1 in feces
VEuPathDB alternative label: Vibrio cholerae O1 Inaba, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae serotype Inaba was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae serotype Ogawa in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Vibrio cholerae serotype Ogawa
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio cholerae O1 in feces
VEuPathDB alternative label: Vibrio cholerae O1 Ogawa, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae serotype Ogawa was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae O139 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_45888
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio cholerae in feces
VEuPathDB alternative label: Vibrio cholerae O139, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae O139 was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica subsp. enterica serovar Typhi in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_90370
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Salmonella in feces
VEuPathDB alternative label: Salmonella typhi, by bacteriology
definition: A Salmonella in feces datum that specifies whether Salmonella enterica subsp. enterica serovar Typhi was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica enterica other than Typhi
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon 590
      intersection of: Class
        complement of: NCBITaxon_90370
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Salmonella in feces
VEuPathDB alternative label: Salmonella non-typhi, by bacteriology
definition: A Salmonella in feces datum that specifies whether Salmonella enterica enterica other than Typhi was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Sapovirus in feces by reverse transcription polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_95341
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Sapovirus, by RT-PCR
definition: A virus in feces datum that specifies whether Sapovirus was detected by reverse transcription polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter non-(jejuni or coli) in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon 194
      intersection of: Class
        complement of: Class
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter (non-jejuni or coli), by bacteriology
definition: A Campylobacter in feces datum that specifies whether Campylobacter other than coli or jejuni was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter unspecified in feces
type: Class
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter (non-speciated), by bacteriology
definition: A Campylobacter in feces datum that specifies whether Campylobacter was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri, serovar 4b in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Shigella flexneri, serovar 4b
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 4B, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri, serovar 4b was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 5b in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2021401
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 5B, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 5b was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 6 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_424719
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 6, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 6 was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Shigella flexneri non-typeable in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 623
subclass of: Shigella in feces datum
VEuPathDB alternative label: Shigella flexneri non-typeable, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of non-typeable Shigella flexneri in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella non-typeable in feces
type: Class
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella non-typeable, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella non-typeable was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 666
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio in feces
VEuPathDB alternative label: Vibrio cholerae, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio cholerae non-(O1 or O139) in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon 666
      intersection of: Class
        complement of: Class
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio cholerae in feces
VEuPathDB alternative label: Vibrio cholerae non-O1/O139, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio cholerae non-(O1 or O139) was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio non-(cholerae or parahaemolyticus) in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon 662
      intersection of: Class
        complement of: Class
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio in feces
VEuPathDB alternative label: Vibrio (other species), by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio other than cholerae or parahaemolyticus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter coli in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 195
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter coli, by bacteriology
definition: A Campylobacter in feces datum that specifies whether Campylobacter coli was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Campylobacter jejuni in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 197
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Campylobacter in feces
VEuPathDB alternative label: Campylobacter jejuni, by bacteriology
definition: A Campylobacter in feces datum that specifies whether Campylobacter jejuni was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 623
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella flexneri, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella boydii in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 621
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella boydii, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella boydii was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella dysenteriae in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 622
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella dysenteriae, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella dysenteriae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Vibrio parahaemolyticus in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 670
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Vibrio in feces
VEuPathDB alternative label: Vibrio parahaemolyticus, by bacteriology
definition: A Vibrio in feces datum that specifies whether Vibrio parahaemolyticus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella sonnei in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 624
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella in feces
VEuPathDB alternative label: Shigella sonnei, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella sonnei was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 4a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_984898
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 4A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 4a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 4c in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1617964
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 4C, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 4c was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 5a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_424718
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 5A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 5a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri X variant in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1935182
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype X, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri X variant was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri Y in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_424720
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype Y, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri Y was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Astrovirus in feces by reverse transcription polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_39733
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Astrovirus, by RT-PCR
definition: A virus in feces datum that specifies whether Astrovirus was detected by reverse transcription polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

TaqMan threshold cycle for Adenoviridae in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Adenovirus, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Adenoviridae in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Aeromonas in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 642
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: Aeromonas in feces datum
subclass of: STATO_0000190
VEuPathDB alternative label: Aeromonas by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Aeromonas in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Ancylostoma in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_29169
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Ancylostoma, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Ancylostoma in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Ascaris in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6251
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Ascaris, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Ascaris in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Astroviridae in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_39733
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Astrovirus, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Astroviridae in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Bacteroides fragilis in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 817
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Bacteroides fragilis, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Bacteroides fragilis in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Campylobacter in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 194
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: Campylobacter in feces datum
subclass of: STATO_0000190
VEuPathDB alternative label: Campylobacter, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Campylobacter in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Cryptosporidium in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5806
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Cryptosporidium, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Cryptosporidium in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Cryptosporidium hominis in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_237895
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Cryptosporidium in feces
VEuPathDB alternative label: Cryptosporidium hominis, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Cryptosporidium hominis in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Cryptosporidium parvum in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5807
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Cryptosporidium in feces
VEuPathDB alternative label: Cryptosporidium parvum, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Cryptosporidium parvum in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Cyclospora in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_44417
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Cyclospora, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Cyclospora in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Enterocytozoon bieneusi in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31281
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Enterocytozoon bieneusi, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Enterocytozoon bieneusi in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Entamoeba histolytica in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5759
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Entamoeba in feces
VEuPathDB alternative label: Entamoeba histolytica, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Entamoeba histolytica in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Encephalitozoon intestinalis in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_58839
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Encephalitozoon intestinalis, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Encephalitozoon intestinalis in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Giardia intestinalis assemblage A in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_941442
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Giardia in feces
VEuPathDB alternative label: Giardia assemblage A, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Giardia intestinalis assemblage A in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Giardia intestinalis assemblage B in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1394984
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Giardia in feces
VEuPathDB alternative label: Giardia assemblage B, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Giardia intestinalis assemblage B in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Giardia in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5740
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Giardia, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Giardia in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Helicobacter pylori in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 210
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003264
subclass of: STATO_0000190
VEuPathDB alternative label: Helicobacter pylori, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Helicobacter pylori in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Isospora in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_56625
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Isospora, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Isospora in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Necator in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_51030
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Necator, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Necator in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Norovirus GI in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122928
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Norovirus GI, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Norovirus GI in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Norovirus GII in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_122929
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Norovirus GII, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Norovirus GII in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10912
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Rotavirus, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G10 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_263595
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G10, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G10 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G12 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_215680
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G12, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G12 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G1 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_72132
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G1, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G1 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G2 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_73034
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G2, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G2 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G3 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_73036
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G3, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G3 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G4 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_35336
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G4, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G4 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G8 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_71031
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G8, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G8 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus G9 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42567
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype G9, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus G9 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus A P4 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2751882
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype P4, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus A P4 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Human rotavirus P6 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_566029
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype P6, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Human rotavirus P6 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Rotavirus A P8 in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2751883
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: TaqMan threshold cycle for Rotavirus in feces
VEuPathDB alternative label: Rotavirus genotype P8, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Rotavirus A P8 in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Salmonella in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: Salmonella in feces datum
subclass of: STATO_0000190
VEuPathDB alternative label: Salmonella, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Salmonella in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Sapovirus in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003266
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_95341
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003266
subclass of: STATO_0000190
VEuPathDB alternative label: Sapovirus, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Sapovirus in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Strongyloides in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6247
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Strongyloides, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Strongyloides in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Trichuris trichiura in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36087
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: OBI_0003265
subclass of: STATO_0000190
VEuPathDB alternative label: Trichuris trichiura, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Trichuris trichiura in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

TaqMan threshold cycle for Vibrio cholerae in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 666
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003031
subclass of: Vibrio cholerae Inaba or Ogawa in feces datum
subclass of: STATO_0000190
VEuPathDB alternative label: Vibrio cholerae, by TAC result
definition: The threshold cycle that is the specified output of a fluorogenic PCR assay that has the objective of determining the number of Vibrio cholerae in a feces specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Ancylostoma duodenale in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_51022
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Ancylostomatoidea in feces by real time polymerase chain reaction assay
VEuPathDB alternative label: Ancylostoma duodenale, by RT-PCR
definition: A eukaryota in feces datum that specifies whether Ancylostoma duodenale was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Ascaris lumbricoides in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6252
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Ascaris lumbricoides, by RT-PCR
definition: A eukaryota in feces datum that specifies whether Ascaris lumbricoides was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Ascaris lumbricoides in feces by reverse transcription polymerase chain reaction assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6252
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
subclass of: OBI_0003265
VEuPathDB alternative label: Ascaris lumbricoides, by RT-PCR result
definition: A eukaryota in feces datum that is the output of a reverse transcription polymerase chain reaction assay and is used to determine the presence of Ascaris lumbricoides in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Bacteroides fragilis in feces by reverse transcription polymerase chain reaction assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 817
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
subclass of: OBI_0003264
VEuPathDB alternative label: Bacteroides fragilis, by RT-PCR result
definition: A bacteria in feces datum that is the output of a reverse transcription polymerase chain reaction assay and is used to determine the presence of Bacteroides fragilis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete presence of Escherichia coli by differential medium assay
type: Class
subclass of: ObsoleteClass
definition: a categorical measurement datum that specifies whether Escherichia coli was detected by differential medium assay
term editor: John Judkins
alternative label: E. coli, by bacteriology
definition source: EuPathDB
has obsolescence reason: IAO_0000228
term replaced by: Escherichia coli in feces datum
deprecated: true

presence of Helicobacter pylori in feces by immunoassay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 210
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Helicobacter in feces
VEuPathDB alternative label: Helicobacter pylori, by immunoassay
definition: A bacteria in feces datum that specifies whether Helicobacter pylori was detected by immunoassay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Ancylostomatoidea in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2572558
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Hookworm, by RT-PCR
definition: A eukaryota in feces datum that specifies whether Ancylostomatoidea was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Necator americanus in feces by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_51031
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Ancylostomatoidea in feces by real time polymerase chain reaction assay
VEuPathDB alternative label: Necator americanus, by RT-PCR
definition: A eukaryota in feces datum that specifies whether Necator americanus was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Shigella dysenteriae 1 in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_984897
subclass of: Shigella in feces datum
VEuPathDB alternative label: Shigella dysenteriae serotype 1, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Shigella dysenteriae 1 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Shigella flexneri 7 in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 623
subclass of: Shigella in feces datum
VEuPathDB alternative label: Shigella flexneri serotype 7, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Shigella flexneri serotype 7 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 1a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_374923
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 1A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 1a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 1b in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_41434
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 1B, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 1b was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 2a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42897
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 2A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 2a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 2b in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1288825
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 2B, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 2b was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 3a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_424717
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 3A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 3a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 3b in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_435321
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri serotype 3B, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 3b was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri, serovar 3c in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: Shigella flexneri, serovar 3c
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri 3C, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri, serovar 3c was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Shigella flexneri 7a in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2924859
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Shigella flexneri in feces
VEuPathDB alternative label: Shigella flexneri 7A, by bacteriology
definition: A Shigella in feces datum that specifies whether Shigella flexneri 7a was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

feces specimen mass measurement datum
type: Class
subclass of: IAO_0000414
VEuPathDB alternative label: Stool weight
definition: A mass measurement datum of the mass of a feces specimen.
term editor: Person: John Judkins
alternative label: Stool weight
definition source: EuPathDB

Strongyloides stercoralis in feces by reverse transcription polymerase chain reaction assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003265
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6248
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
subclass of: OBI_0003265
VEuPathDB alternative label: Strongyloides stercoralis, by RT-PCR result
definition: A eukaryota in feces datum that is the output of a reverse transcription polymerase chain reaction assay and is used to determine the presence of Strongyloides stercoralis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Strongyloides stercoralis in feces by reverse transcription polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6248
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0001170
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Strongyloides stercoralis in feces by reverse transcription polymerase chain reaction assay datum
subclass of: presence of eukaryote in feces
VEuPathDB alternative label: Strongyloides stercoralis, by RT-PCR
definition: A Strongyloides stercoralis in feces by reverse transcription polymerase chain reaction assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

date of feces microbiology assay
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: OGMS_0000056
    intersection of: Restriction
      on property: realizes
      some values from: Class
        intersection of: OBI_0000112
        intersection of: Restriction
VEuPathDB alternative label: Test date
definition: A time measurement datum of the date encompassing a feces microbiology assay
term editor: Person: John Judkins
alternative label: Test date
definition source: EuPathDB

presence of Bacteroides fragilis in feces by polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 817
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002692
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Bacteroides in feces
VEuPathDB alternative label: Bacteroides fragilis toxin-pos, by PCR
definition: A Bacteroides fragilis in feces by reverse transcription polymerase chain reaction assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Vibrio cholerae O1 biovar El Tor in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 686
subclass of: Vibrio cholerae O1 in feces datum
VEuPathDB alternative label: Vibrio cholerae O1 El Tor, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Vibrio cholerae O1 biovar El Tor in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Vibrio cholerae O1 in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_127906
subclass of: Vibrio cholerae Inaba or Ogawa in feces datum
VEuPathDB alternative label: Vibrio cholerae O1, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Vibrio cholerae O1 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Vibrio cholerae O139 in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_45888
subclass of: Vibrio cholerae Inaba or Ogawa in feces datum
VEuPathDB alternative label: Vibrio cholerae O139, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Vibrio cholerae O139 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Vibrio cholerae Inaba or Ogawa in feces datum
type: Class
equivalent class: Class
  intersection of: OBI_0003264
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 666
subclass of: Vibrio in feces datum
VEuPathDB alternative label: Vibrio cholerae Inaba or Ogawa, by bacteriology result
definition: A bacteria in feces datum that is used to determine the presence of Vibrio cholerae Inaba or Ogawa in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

information on diarrhea treatment
type: Class
subclass of: treatment information
subclass of: Restriction
  on property: mentions
  some values from: Class
    intersection of: OBIB_0000029
    intersection of: Restriction
      on property: is substance that treats
      some values from: diarrhea
VEuPathDB alternative label: Diarrhea treatment
definition: A treatment information that mentions a medication that treats diarrhea.

presence of Bacteroides in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 816
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Bacteroides in stool
definition: A bacteria in feces datum that specifies whether Bacteroides was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Clostridioides in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_1870884
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Clostridium in stool
definition: A bacteria in feces datum that specifies whether Clostridioides was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Helicobacter in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 209
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in feces
VEuPathDB alternative label: Helicobacter in stool
definition: A bacteria in feces datum that specifies whether Helicobacter was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

information on cause of death
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Cause of death
definition: An information content entity that is about a dead human participant under investigation and specifies the process which caused the death of the participant
term editor: Person: John Judkins
alternative label: Cause of death
definition source: EuPathDB

aggregated clinical data item
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Aggregated illness data
definition: A data item that is the specified output of a data transformation that has multiple clinical data items as input.
term editor: Person: John Judkins
definition source: VEuPathDB

Plasmodium in blood by real time polymerase chain reaction assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003263
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
subclass of: OBI_0003263
VEuPathDB alternative label: Plasmodium, by qPCR result
definition: A eukaryota in blood datum that is the output of a real time polymerase chain reaction assay and is used to determine the presence of Plasmodium in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plasmodium ovale in blood by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36330
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium ovale
definition: A Plasmodium in blood by microscopy assay datum that specifies whether Plasmodium ovale was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

livestock animal
type: Class
subclass of: domesticated animal in a human dwelling
VEuPathDB alternative label: Livestock
definition: a domesticated animal that is raised in an agricultural setting to produce labor and commodities
term editor: John Judkins
alternative label: Livestock
definition source: Wikipedia

no use of bed net
type: Class
subclass of: information on when bed net last treated
VEuPathDB alternative label: None
definition: a categorical value specification that specifies that a bed net is not used
term editor: John Judkins
alternative label: None
definition source: EuPathDB

bed net not treated
type: Class
subclass of: information on when bed net last treated
VEuPathDB alternative label: Untreated
definition: a categorical value specification that specifies that a bed net is used, but it is not treated with insecticide
term editor: John Judkins
alternative label: Untreated
definition source: EuPathDB

bed net treated over six months ago
type: Class
subclass of: information on when bed net last treated
VEuPathDB alternative label: Regular ITN, treated >6 months ago
definition: a categorical value specification that specifies that a bed net is used, but it was last treated earlier than six months ago
term editor: John Judkins
alternative label: Regular ITN treated >6 months ago
definition source: EuPathDB

bed net treated within past six months
type: Class
subclass of: information on when bed net last treated
VEuPathDB alternative label: Regular ITN, treated <6 months ago
definition: a categorical value specification that specifies that a bed net is used, and it was last treated more recently than six months previous
term editor: John Judkins
alternative label: Regular ITN treated <6 months ago
definition source: EuPathDB

bed net treated with long last insecticide
type: Class
subclass of: information on when bed net last treated
VEuPathDB alternative label: Long-lasting ITN
definition: a categorical value specification that specifies that a bed net is used, and it was treated with long last insecticide
term editor: John Judkins
alternative label: Long-lasting ITN
definition source: EuPathDB

information specifying fever treated at clinic in past 2 weeks
type: Class
subclass of: treatment information
VEuPathDB alternative label: Clinic
definition: an information content entity that is about a human participant under investigation and specifies that the participant received treatment, for a fever, that was provided at a clinic within the past two weeks
term editor: John Judkins
alternative label: Clinic
definition source: EuPathDB

information specifying fever treated by private practicioner in past 2 weeks
type: Class
subclass of: treatment information
VEuPathDB alternative label: Private practice
definition: an information content entity that is about a human participant under investigation and specifies that the participant received treatment, for a fever, that was provided by a self-employed health care provider within the past two weeks
term editor: John Judkins
alternative label: Private practice
definition source: EuPathDB

information specifying fever self-treated in past 2 weeks
type: Class
subclass of: treatment information
VEuPathDB alternative label: Self-treated
definition: an information content entity that is about a human participant under investigation and specifies that the participant received treatment, for a fever, that was self-provided within the past two weeks
term editor: John Judkins
alternative label: (Fever treatment location) Self-treated
definition source: EuPathDB

information specifying untreated fever in past two weeks
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: human participant under investigation
    intersection of: Restriction
      on property: has characteristic
      some values from: Class
        intersection of: febrile
        intersection of: Class
VEuPathDB alternative label: Not treated
definition: an information content entity that is about a human participant under investigation and specifies that the participant had a fever within the past two weeks but did not receive treatment for the fever
term editor: John Judkins
alternative label: Not treated
definition source: EuPathDB

no Plasmodium by microscopy
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Negative
definition: a data item that is the specified output of a microscopy assay that has a sample of blood as specified input and indicates that the sample does not contain Plasmodium
term editor: John Judkins
alternative label: (Plasmodium species, by microscopy) Negative
definition source: EuPathDB

presence of Plasmodium falciparum in blood by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5833
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium falciparum
definition: A Plasmodium in blood by microscopy assay datum that specifies whether Plasmodium falciparum was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plasmodium vivax by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5855
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium vivax
definition: A Plasmodium in blood by microscopy assay datum that specifies whether Plasmodium vivax was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plasmodium malariae by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5858
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium malariae
definition: A Plasmodium in blood by microscopy assay datum that specifies whether Plasmodium malariae was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

indicator of whether microscopy assay performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: Microscopy performed
definition: a categorical value specification that specifies whether a microscopy assay was performed
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Microscopy performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

Plasmodium falciparum diagnosis within past year
type: Class
subclass of: OGMS_0000015
VEuPathDB alternative label: Plasmodium falciparum
definition: an information content entity that is about a human participant under investigation and specifies that the participant remembers being diagnosed, within the past year, with a disease by Plasmodium falciparum
term editor: John Judkins
alternative label: (Plasmodium species in last year) Plasmodium falciparum
definition source: EuPathDB

Plasmodium vivax diagnosis within past year
type: Class
subclass of: OGMS_0000015
subclass of: Restriction
  on property: mentions
  some values from: NCBITaxon 5855
VEuPathDB alternative label: Plasmodium vivax
definition: an information content entity that is about a human participant under investigation and specifies that the participant remembers being diagnosed, within the past year, with a disease by Plasmodium vivax
term editor: John Judkins
alternative label: (Plasmodium species in last year) Plasmodium vivax
definition source: EuPathDB

Plasmodium malariae diagnosis within past year
type: Class
subclass of: OGMS_0000015
subclass of: Restriction
  on property: mentions
  some values from: NCBITaxon 5858
VEuPathDB alternative label: Plasmodium malariae
definition: an information content entity that is about a human participant under investigation and specifies that the participant remembers being diagnosed, within the past year, with a disease by Plasmodium malariae
term editor: John Judkins
alternative label: (Plasmodium species in last year) Plasmodium malariae
definition source: EuPathDB

forgot which Plasmodium species in diagnosis within past year
type: Class
subclass of: OBI_0000852
VEuPathDB alternative label: Can't remember
definition: an information content entity that is about a human participant under investigation and specifies that the participant remembers being diagnosed, within the past year, with a disease by Plasmodium, but does not remember the species of Plasmodium
term editor: John Judkins
alternative label: (Plasmodium species in last year) Can't remember
definition source: EuPathDB

information specifying Artesunate as antimalarial drug as most recent treatment within past year
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Artesunate
definition: information on antimalarial drug used last year that specifies artesunate as the drug administered as the most recent treatment
term editor: John Judkins
alternative label: Artesunate
definition source: EuPathDB

forgot which antimalarial in most recent treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Can't remember
definition: an information content entity that is about a human participant under investigation who, within one year previous, was administered an antimalarial drug to alleviate symptoms of malaria. This information content entity specifies that the participant does not remember which drug was administered.
term editor: John Judkins
alternative label: (Antimalarial medications used) Can't remember
definition source: EuPathDB

artesunate/pyrimethamine/sulphadoxine combination as most recent malaria treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Artesunate/pyrimethamine/sulphadoxine
definition: information on antimalarial drug used last year that specifies a combination of aretesunate, pyrimethamine, and sulphadox as the drugs administered as the most recent treatment
term editor: John Judkins
alternative label: Artesunate/pyrimethamine/sulphadoxine
definition source: EuPathDB

chloroquine or primaquine as most recent malaria treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Chloroquine/primaquine
definition: information on antimalarial drug used last year that specifies chloroquine or primaquine as the drugs administered as the most recent treatment
term editor: John Judkins
alternative label: Chloroquine/primaquine
definition source: EuPathDB

pyrimethamine or sulphadoxine as most recent malaria treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Pyrimethamine/sulphadoxine
definition: information on antimalarial drug used last year that specifies pyrimethamine or sulphadoxine as the drugs administered as the most recent treatment
term editor: John Judkins
alternative label: Pyrimethamine/sulphadoxine
definition source: EuPathDB

quinine or quinidine as most recent malaria treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Quinine/quinidine
definition: information on antimalarial drug used last year that specifies quinine or quinidine as the drugs administered as the most recent treatment
term editor: John Judkins
alternative label: Quinine/quinidine
definition source: EuPathDB

tetracycline or doxycycline as most recent malaria treatment
type: Class
subclass of: information on antimalarial drug used last year
VEuPathDB alternative label: Tetracycline/doxycycline
definition: information on antimalarial drug used last year that specifies tetracycline or doxycycline as the drugs administered as the most recent treatment
term editor: John Judkins
alternative label: Tetracycline/doxycycline
definition source: EuPath

indicator of whether treated in clinic
type: Class
subclass of: information on who treated malaria last year
VEuPathDB alternative label: Clinic or hospital
definition: an information content entity that is about a human participant under investigation and specifies that the participant received treatment for malaria in a clinic, within the past year
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Clinic/hospital
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether treated by private practice
type: Class
subclass of: information on who treated malaria last year
VEuPathDB alternative label: Private doctor
definition: a categorical value specification that specifies whether the bearer of an organization health care role, which administered a treatment to alleviate an episode of malaria, was a private practice
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Private doctor
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether malaria self-treated
type: Class
subclass of: information on who treated malaria last year
VEuPathDB alternative label: Self-treated
definition: A categorical value specification that specifies whether a treatment to alleviate an episode of malaria was self-administered
term editor: Jie Zheng
term editor: Person: John Judkins
alternative label: (Where treated) Self-treated
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant forgot treatment location within past year
type: Class
subclass of: information on who treated malaria last year
VEuPathDB alternative label: Can't remember
definition: an information content entity that is about a human participant under investigation who, within one year previous, was administered an antimalarial drug to alleviate symptoms of malaria. This information content entity specifies that the participant does not remember the geographic location where this treatment was provided.
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: (Where treated) Can't remember
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

no Plasmodium by blood sample PCR
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: Negative
definition: a presence of parasite that is the specified output of a parasite detection by PCR assay, has a blood specimen as specified input, and specifies that no Plasmodium was detected
term editor: John Judkins
alternative label: (Plasmodium species, by qPCR) Negative
definition source: EuPathDB

presence of Plasmodium falciparum by blood sample PCR
type: Class
subclass of: presence of Plasmodium falciparum
VEuPathDB alternative label: Plasmodium falciparum
definition: a presence of Plasmodium falciparum that is the specified output of a parasite detection by PCR assay, has a blood specimen as specified input, and specifies that Plasmodium falciparum was detected
term editor: John Judkins
alternative label: (Plasmodium species, by qPCR) Plasmodium falciparum
definition source: EuPathDB

presence of Plasmodium vivax by blood sample PCR
type: Class
subclass of: presence of Plasmodium vivax
VEuPathDB alternative label: Plasmodium vivax
definition: a presence of Plasmodium falciparum that is the specified output of a parasite detection by PCR assay, has a blood specimen as specified input, and specifies that Plasmodium vivax was detected
term editor: John Judkins
alternative label: (Plasmodium species, by qPCR) Plasmodium vivax
definition source: EuPathDB

presence of Plasmodium malariae by blood sample PCR
type: Class
subclass of: presence of Plasmodium malariae
VEuPathDB alternative label: Plasmodium malariae
definition: a presence of Plasmodium malariae that is the specified output of a parasite detection by PCR assay, has a blood specimen as specified input, and specifies that Plasmodium malariae was detected
term editor: John Judkins
alternative label: (Plasmodium species, by qPCR) Plasmodium malariae
definition source: EuPathDB

presence of Plasmodium ovale by blood sample PCR
type: Class
subclass of: presence of Plasmodium ovale
VEuPathDB alternative label: Plasmodium ovale
definition: a presence of Plasmodium ovale that is the specified output of a parasite detection by PCR assay, has a blood specimen as specified input, and specifies that Plasmodium ovale was detected
term editor: John Judkins
alternative label: Plasmodium ovale
definition source: EuPathDB

presence of Plasmodium falciparum by falcivax
type: Class
subclass of: presence of Plasmodium falciparum
VEuPathDB alternative label: Plasmodium falciparum
definition: a presence of Plasmodium falciparum that is the specified output of a falcivax rapid diagnostic test and specifies that Plasmodium falciparum was detected
term editor: John Judkins
alternative label: (Plasmodium species, by FalciVax RDT) Plasmodium falciparum
definition source: EuPathDB

presence of Plasmodium vivax by falcivax
type: Class
subclass of: presence of Plasmodium vivax
VEuPathDB alternative label: Plasmodium vivax
definition: a presence of Plasmodium vivax that is the specified output of a falcivax rapid diagnostic test and specifies that Plasmodium vivax was detected
term editor: John Judkins
alternative label: (Plasmodium species, by FalciVax RDT) Plasmodium vivax
definition source: EuPathDB

no presence of Plasmodium by falcivax
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: Negative
definition: a presence of parasite that is the specified output of a falcivax rapid diagnostic test and indicates that no Plasmodium was detected
term editor: John Judkins
alternative label: (Plasmodium species, by FalciVax RDT) Negative
definition source: EuPathDB

indicator of whether falcivax performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: FalciVax RDT performed
definition: a categorical value specification that specifies whether a falcivax rapid diagnostic test was performed
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: FalciVax RDT performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

presence of Plasmodium falciparum by optimal-IT
type: Class
subclass of: presence of Plasmodium falciparum
VEuPathDB alternative label: Plasmodium falciparum
definition: a presence of Plasmodium falciparum that is the specified output of a optimal-IT rapid diagnostic test and specifies that Plasmodium falciparum was detected
term editor: John Judkins
alternative label: (Plasmodium species, by OptiMAL RDT) Plasmodium falciparum
definition source: EuPathDB

presence of pan-Plasmodium antigen by optimal-IT
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: Pan Plasmodium
definition: a presence of parasite that is the specified output of a optimal-IT rapid diagnostic test and specifies that an antigen common to multiple Plasmodium species was detected
term editor: John Judkins
alternative label: Pan Plasmodium
definition source: EuPathDB

no Plasmodium by optimal-IT
type: Class
subclass of: presence of parasite
VEuPathDB alternative label: Negative
definition: a presence of parasite that is the specified output of an optimal-IT rapid diagnostic test and specifies that no Plasmodium was detected
term editor: John Judkins
alternative label: (Plasmodium species, by OptiMAL RDT) Negative
definition source: EuPathDB

indicator of whether optimal-IT performed
type: Class
subclass of: information on whether assay performed
VEuPathDB alternative label: OptiMAL RDT performed
definition: a categorical value specification that specifies whether an optimal-IT rapid diagnostic test was performed
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: OptiMAL RDT performed
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

information on participant forgetting whether used personal mosquito repellent
type: Class
subclass of: OBI_0000852
VEuPathDB alternative label: Can't remember
definition: an information content entity that is about a human participant under investigation and specifies that the participant does not remember using a personal mosquito repellent
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: (Personal mosquito repellent) Can't remember
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

no knowledge of insecticide spraying in last 12 months
type: Class
subclass of: OBI_0000852
VEuPathDB alternative label: Can't remember
definition: an information content entity that specifies that a human participant under investigation does not remember whether insecticide was applied in the previous 12 months
term editor: John Judkins
alternative label: (Sprayed in the last 12 months) Can't remember
definition source: EuPathDB

public healthcare information
type: Class
subclass of: health care information
VEuPathDB alternative label: Public
definition: healthcare information that specifies that the organization that typically provides the healthcare is funded by a government rather than funded independently
term editor: John Judkins
alternative label: Public
definition source: EuPathDB

private healthcare information
type: Class
subclass of: health care information
VEuPathDB alternative label: Private
definition: healthcare information that specifies that the organization that typically provides the healthcare is funded independently of any government
term editor: John Judkins
alternative label: Private
definition source: EuPathDB, New Oxford American Dictionary entry for 'private'

water piped into dwelling
type: Class
subclass of: liquid water
VEuPathDB alternative label: Indoor plumbing
definition: water accessed through a plumbing fixture located inside a human dwelling
term editor: John Judkins
alternative label: Indoor plumbing
definition source: EuPathDB

stream water
type: Class
subclass of: liquid water
VEuPathDB alternative label: Stream or river
definition: water derived from water that is part of either a stream or a river
term editor: John Judkins
alternative label: Stream/river
definition source: EuPath

obsolete blood specimen in vacutainer
type: Class
subclass of: ObsoleteClass
definition: A blood specimen that is located in a vacutainer.
term editor: Chris Stoeckert
term editor: Jie Zheng
alternative label: Vacutainer sample
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003054
deprecated: true

indicator of household having electricity
type: Class
subclass of: household asset information
VEuPathDB alternative label: Electricity
definition: A household asset information indicating whether a household has electricity.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

date of household data collection
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Household data collection date
definition: a time measurement datum of the day that encompasses a process that has as specified output a data item about a household
term editor: John Judkins
definition source: EuPathDB

indicator of whether participant has sign
type: Class
subclass of: symptom or sign information
VEuPathDB alternative label: Any signs
definition: a categorical value specification that specifies whether there exists some quality of a patient, material entity that is part of a patient, or processual entity that a patient participates in, that is both observed in a physical examination and deemed by the clinician to be of clinical significance
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Any signs
definition source: EuPathDB, based on definition for 'sign' in OGMS
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant has symptom
type: Class
subclass of: symptom or sign information
VEuPathDB alternative label: Any symptoms
definition: a categorical value specification that specifies whether there exists some quality of a patient that is observed by the patient or some processual entity experienced by the patient that is hypothesized by the patient to be a realization of a disease
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Any symptoms
definition source: EuPathDB, based on definition for 'sign' in OGMS
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant had fever in last 48 hours
type: Class
subclass of: study participant information
VEuPathDB alternative label: Fever in last 48 hours
definition: a categorical value specification that specifies whether a human participant under investigation was febrile in the previous 48 hours
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Fever in last 48 hours
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

information on whether given malaria medication in past 2 weeks
type: Class
subclass of: study participant information
VEuPathDB alternative label: Antimalarial medication in last 2 weeks
definition: a categorical value specification that specifies whether medication to treat malaria was administered in the past two weeks to a human participant under investigation
term editor: John Judkins
alternative label: Malaria medication in last 2 weeks
definition source: EuPathDB

state of India
type: Class
subclass of: first-order administrative region
VEuPathDB alternative label: State
definition: A first-order administrative region of India.
term editor: Person: John Judkins
definition source: VEuPathDB

indicator of whether participant had fever in last two weeks
type: Class
subclass of: study participant information
VEuPathDB alternative label: Fever in last 2 weeks
definition: a categorical value specification that specifies whether a human participant under investigation was febrile in the previous two weeks
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Fever in last 2 weeks
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

obsolete immediate clinical history
type: Class
subclass of: ObsoleteClass
definition: a clinical history that is about a human participant under investigation and contains only statements about health-relevant qualities that come into existence after the enrollment of the participant in the study
term editor: John Judkins
definition source: EuPathDB
has obsolescence reason: IAO_0000103
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/340
deprecated: true

indicator of medication administered during health care encounter
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Medication provided
definition: An information content entity that specifies whether medication material was administered during a health care encounter.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of typhus group in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_114292
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033293
VEuPathDB alternative label: Typhus in blood
definition: A bacteria in blood datum that specifies whether a typhus group virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Chikungunya virus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_37124
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
VEuPathDB alternative label: Chikungunya in blood
definition: A virus in blood datum that specifies whether the Chikungunya virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Dengue virus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12637
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
VEuPathDB alternative label: Dengue in blood
definition: A virus in blood datum that specifies whether the Dengue virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Orthohepadnavirus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10405
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
definition: A virus in blood datum that specifies whether Orthohepadnavirus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica subsp. enterica serovar Typhi in blood by polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_90370
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002692
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Salmonella enterica enterica serovar Typhi in blood
VEuPathDB alternative label: Salmonella typhi, by PCR
definition: A bacteria in blood datum that specifies whether Salmonella enterica subsp. enterica serovar Typhi was detected by polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

blood alanine aminotransferase concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: PR_000050219
VEuPathDB alternative label: Alanine aminotransferase
definition: A blood assay datum of the concentration of alanine aminotransferase.
term editor: Person: John Judkins
definition source: VEuPathDB

blood alkaline phosphatase concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: PR_000023540
VEuPathDB alternative label: Alkaline phosphatase
definition: A blood assay datum of the concentration of alkaline phosphatase.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of chikungunya at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: chikungunya
VEuPathDB alternative label: Chikungunya
definition: A diagnosis at patient discharge that is an assertion that a patient has chikungunya.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Chikungunya virus in blood by unspecified assay
type: Class
subclass of: presence of Chikungunya virus in blood
VEuPathDB alternative label: Chikungunya, by any method
definition: A virus in blood datum that specifies whether Chikungunya virus was detected, by an unspecified assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

diagnosis of dengue disease at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: dengue disease
VEuPathDB alternative label: Dengue
definition: A diagnosis at patient discharge that is an assertion that a patient has dengue disease.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Dengue virus in blood by unspecified assay
type: Class
subclass of: presence of Dengue virus in blood
VEuPathDB alternative label: Dengue, by any method
definition: A virus in blood datum that specifies whether Dengue virus was detected by an unspecified assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

diagnosis of gastrointestinal infection at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: Class
    intersection of: disease by infectious agent
    intersection of: gastrointestinal system disease
VEuPathDB alternative label: Gastrointestinal infection
definition: A diagnosis at patient discharge that is an assertion that a patient has a gastrointestinal infection.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Hepacivirus C in blood by unspecified assay
type: Class
subclass of: OBI_0003262
subclass of: Restriction
  on property: is about
  some values from: NCBITaxon_11103
VEuPathDB alternative label: Hepatitis C, by any method
definition: A virus in blood datum that specifies whether Hepacivirus C was detected by an unspecified assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Hepatitis B virus in blood by surface antigen assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10407
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002157
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in feces
VEuPathDB alternative label: Hepatitis B, by surface antigen test
definition: A virus in blood datum that specifies whether Hepatitis B virus was detected by HBV surface antigen assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human immunodeficiency virus 1 in blood by unspecified assay
type: Class
subclass of: OBI_0003262
subclass of: Restriction
  on property: is about
  some values from: NCBITaxon_11676
VEuPathDB alternative label: HIV, by any method
definition: A virus in blood datum that specifies whether Human immunodeficiency virus 1 was detected by an unspecified assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

diagnosis of leptospirosis at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: leptospirosis
VEuPathDB alternative label: Leptospirosis
definition: A diagnosis at patient discharge that is an assertion that a patient has leptospirosis.
term editor: Person: John Judkins
definition source: VEuPathDB

blood phosphate concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: phosphate ion
VEuPathDB alternative label: Phosphate
definition: A blood assay datum of the concentration of phosphate.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of scrub typhus at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: scrub typhus
VEuPathDB alternative label: Scrub typhus
definition: A diagnosis at patient discharge that is an assertion that a patient has scrub typhus.
term editor: Person: John Judkins
definition source: VEuPathDB

blood urea concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: urea
VEuPathDB alternative label: Urea
definition: A blood assay datum of the concentration of urea.
term editor: Person: John Judkins
definition source: VEuPathDB

blood uric acid concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: uric acid
VEuPathDB alternative label: Uric acid
definition: A blood assay datum of the concentration of uric acid.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of viral hepatitis at patient discharge
type: Class
subclass of: diagnosis at patient discharge
subclass of: Restriction
  on property: mentions
  some values from: viral hepatitis
VEuPathDB alternative label: Viral hepatitis
definition: A diagnosis at patient discharge that is an assertion that a patient has viral hepatitis.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Lentivirus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11646
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
VEuPathDB alternative label: Lentivirus in blood
definition: A virus in blood datum that specifies whether Lentivirus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Hepacivirus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11102
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in blood
VEuPathDB alternative label: Hepacivirus in blood
definition: A virus in blood datum that specifies whether Hepacivirus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

community
type: Class
subclass of: GAZ_00000448
VEuPathDB alternative label: Settlement
definition: a geographic location that is either a city or an area containing settlements where the inhabitants share a common trait
term editor: John Judkins
definition source: Wikipedia

external wall material
type: Class
subclass of: wall material
VEuPathDB alternative label: External wall material
definition: a wall material used to build an exterior wall
term editor: John Judkins
definition source: EuPathDB

internal wall material
type: Class
subclass of: wall material
VEuPathDB alternative label: Internal wall material
definition: a wall material used to build a wall between rooms
term editor: John Judkins
definition source: EuPathDB

number of beds with bednet
type: Class
subclass of: STATO_0000047
VEuPathDB alternative label: Beds with bednets count
definition: a count of the number of beds in the dwelling of a household that have a bed net hung over them
term editor: John Judkins
alternative label: Beds with bednet (#)
definition source: EuPathDB

indicator of household having freezer
type: Class
subclass of: household asset information
VEuPathDB alternative label: Freezer
definition: A household asset information indicating whether a household has a freezer.
term editor: John Judkins
alternative label: Freezer
definition source: EuPathDB

indicator of household having blender
type: Class
subclass of: household asset information
VEuPathDB alternative label: Blender
definition: A household asset information indicating whether a household has an electrical appliance that has the function of mixing food or drink.
term editor: John Judkins
alternative label: Blender
definition source: EuPathDB

indicator of household having electric stove
type: Class
subclass of: household asset information
VEuPathDB alternative label: Electric stove
definition: A household asset information indicating whether a household has an appliance that has a heating element as part and has the function of heating food or drink.
term editor: John Judkins
alternative label: Electric stove
definition source: EuPathDB

indicator of household having gas stove
type: Class
subclass of: household asset information
VEuPathDB alternative label: Gas stove
definition: A household asset information indicating whether a household has an appliance that has the function of heating food or drink through the combustion of natural gas.
term editor: John Judkins
alternative label: Gas stove
definition source: EuPathDB

indicator of household having kerosene stove
type: Class
subclass of: household asset information
VEuPathDB alternative label: Kerosene stove
definition: A household asset information indicating whether a household has an appliance that has the function of heating food or drink through the combustion of kerosene.
term editor: John Judkins
alternative label: Kerosene stove
definition source: EuPathDB

indicator of household having coal stove
type: Class
subclass of: household asset information
VEuPathDB alternative label: Coal stove
definition: A household asset information indicating whether a household has an appliance that has the function of heating food or drink through the combustion of coal.
term editor: John Judkins
alternative label: Coal stove
definition source: EuPathDB

indicator of household having black and white television
type: Class
subclass of: household asset information
VEuPathDB alternative label: Black and white television
definition: A household asset information indicating whether a household has a television set that is capable of producing grayscale images but not color images.
term editor: John Judkins
alternative label: Black and white TV
definition source: EuPathDB

indicator of household having color television
type: Class
subclass of: household asset information
VEuPathDB alternative label: Color television
definition: A household asset information indicating whether a household has a television set that is capable of producing color images.
term editor: John Judkins
alternative label: Color TV
definition source: EuPathDB

indicator of household having DVD player
type: Class
subclass of: household asset information
VEuPathDB alternative label: DVD
definition: A household asset information indicating whether a household has a device capable of playing a DVD.
term editor: John Judkins
alternative label: DVD
definition source: EuPathDB

indicator of household having sound system
type: Class
subclass of: household asset information
VEuPathDB alternative label: Stereo
definition: A household asset information indicating whether a household has a sound system.
term editor: John Judkins
alternative label: Stereo
definition source: EuPathDB

indicator of household having cow
type: Class
subclass of: household asset information
VEuPathDB alternative label: Cows
definition: A household asset information indicating whether a household has any cows.
term editor: John Judkins
alternative label: Cows
definition source: EuPathDB

indicator of household having goat
type: Class
subclass of: household asset information
VEuPathDB alternative label: Goats
definition: A household asset information indicating whether a household has a goat.
term editor: John Judkins
alternative label: Goats
definition source: EuPathDB

indicator of household having chick
type: Class
subclass of: household asset information
VEuPathDB alternative label: Chicks
definition: A household asset information indicating whether a household has any sexually immature domesticated birds.
term editor: John Judkins
alternative label: Chicks
definition source: EuPathDB

indicator of household having hen
type: Class
subclass of: household asset information
VEuPathDB alternative label: Hens
definition: A household asset information indicating whether a household has a domesticated female bird.
term editor: John Judkins
alternative label: Hens
definition source: EuPathDB

indicator of household having roosters
type: Class
subclass of: household asset information
VEuPathDB alternative label: Roosters
definition: A household asset information indicating whether a household has a rooster.
term editor: John Judkins
alternative label: Roosters
definition source: EuPathDB

indicator of household having turkeys
type: Class
subclass of: household asset information
VEuPathDB alternative label: Turkeys
definition: A household asset information indicating whether a household has a turkey.
term editor: John Judkins
alternative label: Turkeys
definition source: EuPathDB

indicator of household having duck
type: Class
subclass of: household asset information
VEuPathDB alternative label: Ducks
definition: A household asset information indicating whether a household has a duck.
term editor: John Judkins
alternative label: Ducks
definition source: EuPathDB

indicator of household having parakeet
type: Class
subclass of: household asset information
VEuPathDB alternative label: Parakeets
definition: A household asset information indicating whether a household has a small parrot with a long tail.
term editor: John Judkins
alternative label: Parakeets
definition source: EuPathDB

indicator of household having parrot
type: Class
subclass of: household asset information
VEuPathDB alternative label: Parrots
definition: A household asset information indicating whether a household has a parrot.
term editor: John Judkins
alternative label: Parrots
definition source: EuPathDB

indicator of household having monkey
type: Class
subclass of: household asset information
VEuPathDB alternative label: Monkeys
definition: A household asset information indicating whether a household has a monkey.
term editor: John Judkins
alternative label: Monkeys
definition source: EuPathDB

indicator of household having pig
type: Class
subclass of: household asset information
VEuPathDB alternative label: Pigs
definition: A household asset information indicating whether a household has a pig.
term editor: John Judkins
alternative label: Pigs
definition source: EuPathDB

indicator of household having rabbits
type: Class
subclass of: household asset information
VEuPathDB alternative label: Rabbits
definition: A household asset information indicating whether a household has a rabbit.
term editor: John Judkins
alternative label: Rabbits
definition source: EuPathDB

indicator of household having dog
type: Class
subclass of: household asset information
VEuPathDB alternative label: Dogs
definition: A household asset information indicating whether a household has a dog.
term editor: John Judkins
alternative label: Dogs
definition source: EuPathDB

indicator of household having cat
type: Class
subclass of: household asset information
VEuPathDB alternative label: Cats
definition: A household asset information indicating whether a household has a cat.
term editor: John Judkins
alternative label: Cats
definition source: EuPathDB

indicator of household having turtles
type: Class
subclass of: household asset information
VEuPathDB alternative label: Turtles
definition: A household asset information indicating whether a household has a turtle.
term editor: John Judkins
alternative label: Turtles
definition source: EuPathDB

traveled within two weeks earlier than most recent malaria episode
type: Class
subclass of: information on travel before malaria
VEuPathDB alternative label: Traveled in the 2 weeks before most recent malaria episode
definition: a categorical value specification that specifies whether a human participant under investigation had traveled within the two weeks previous to the time of the participant's most recent malaria episode
term editor: John Judkins
alternative label: Traveled in the 2 weeks before most recent malaria episode
definition source: EuPath

traveled within two weeks earlier than second most recent malaria episode
type: Class
subclass of: information on travel before malaria
VEuPathDB alternative label: Traveled in the 2 weeks before 2nd most recent malaria episode
definition: a categorical value specification that specifies whether a human participant under investigation had traveled within the two weeks previous to the time of the participant's second most recent malaria episode
term editor: John Judkins
alternative label: Traveled in the 2 weeks before second most recent malaria episode
definition source: EuPath

traveled within two weeks earlier than third most recent malaria episode
type: Class
subclass of: information on travel before malaria
VEuPathDB alternative label: Traveled in the 2 weeks before 3rd most recent malaria episode
definition: a categorical value specification that specifies whether a human participant under investigation had traveled within the two weeks previous to the time of the participant's third most recent malaria episode
term editor: John Judkins
alternative label: Traveled in the 2 weeks before third most recent malaria episode
definition source: EuPath

traveled within two weeks earlier than fourth most recent malaria episode
type: Class
subclass of: information on travel before malaria
VEuPathDB alternative label: Traveled in the 2 weeks before 4th most recent malaria episode
definition: a categorical value specification that specifies whether a human participant under investigation had traveled within the two weeks previous to the time of the participant's fourth most recent malaria episode
term editor: John Judkins
alternative label: Traveled in the 2 weeks before fourth most recent malaria episode
definition source: EuPath

duration of most recent trip
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Most recent trip duration
definition: a time measurement datum of the duration of the most recent journey of a human participant under investigation
term editor: John Judkins
alternative label: Length of most recent trip (days)
definition source: EuPathDB

duration of second most recent trip
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Second most recent trip duration
definition: a time measurement datum of the duration of the second most recent journey of a human participant under investigation
term editor: John Judkins
alternative label: Length of second most recent trip (days)
definition source: EuPathDB

duration of third most recent trip
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Third most recent trip duration
definition: a time measurement datum of the duration of the third most recent journey of a human participant under investigation
term editor: John Judkins
alternative label: Length of third most recent trip (days)
definition source: EuPathDB

duration of fourth most recent trip
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Fourth most recent trip duration
definition: a time measurement datum of the duration of the fourth most recent journey of a human participant under investigation
term editor: John Judkins
alternative label: Length of fourth most recent trip (days)
definition source: EuPathDB

rivers traveled on most recent trip
type: Class
subclass of: OMRSE_00000142
subclass of: Restriction
  on property: mentions
  some values from: river
VEuPathDB alternative label: River traveled on most recent trip
definition: an information content entity that specifies which rivers were visited during the most recent journey of a human participant under investigation
term editor: John Judkins
alternative label: River traveled on most recent trip
definition source: EuPathDB

community visited on most recent trip
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Settlement visited on most recent trip
definition: human traveling information that specifies the community to which a human participant under investigation has most recently traveled
term editor: John Judkins
definition source: EuPathDB

community visited on second most recent trip
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Settlement visited on 2nd most recent trip
definition: human traveling information that specifies the community to which a human participant under investigation has traveled the second most recently
term editor: John Judkins
definition source: EuPathDB

community visited on third most recent trip
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Settlement visited on 3rd most recent trip
definition: human traveling information that specifies the community to which a human participant under investigation has traveled the third most recently
term editor: John Judkins
definition source: EuPathDB

community visited on fourth most recent trip
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Settlement visited on 4th most recent trip
definition: human traveling information that specifies the community to which a human participant under investigation has traveled the fourth most recently
term editor: John Judkins
definition source: EuPathDB

duration of current main occupation
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is duration of
  all values from: Restriction
    on property: realizes
    some values from: REO_0000699
VEuPathDB alternative label: Time at occupation
definition: a time measurement datum of the time since the beginning of the most significant occupation of a human participant under investigation
term editor: John Judkins
alternative label: Length of main occupation (years)
definition source: EuPathDB

duration of current secondary occupation
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is duration of
  some values from: Restriction
    on property: realizes
    some values from: Class
      intersection of: REO_0000699
      intersection of: Restriction
        on property: role of
        some values from: human participant under investigation
subclass of: Restriction
  on property: is duration of
  all values from: Restriction
    on property: realizes
    some values from: REO_0000699
VEuPathDB alternative label: Time at occupation 2
definition: a time measurement datum of the time since the beginning of the second most significant occupation of a human participant under investigation
term editor: John Judkins
alternative label: Length of secondary occupation (years)
definition source: EuPathDB

indicator of whether participant present for clinical visit
type: Class
subclass of: IAO_0000030
VEuPathDB alternative label: Present at visit
definition: a categorical value specification that specifies whether a human participant under investigation was on the property of the participant's household at the time of a scheduled clinical visit
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Present at visit
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

information on most recent travel
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Most recent travel
definition: human travel informaton that is about a human participant under investigation and specifies both method and geographic location of the most recent journey taken by the participant
term editor: John Judkins
alternative label: Most recent travel
definition source: EuPathDB

information on second most recent travel
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: Second most recent travel
definition: human travel information that is about a human participant under investigation and specifies both method and geographic location of the second most recent journey taken by the participant
term editor: John Judkins
alternative label: Second most recent travel
definition source: EuPathDB

information on whether specimen collection prompted by sign of fever
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: OBI_0000659
VEuPathDB alternative label: Reason for sample collection
definition: a categorical value specification that specifies whether the collection of a specimen from a human participant under investigation was prompted by a sign that the participant was febrile
term editor: John Judkins
alternative label: Reason for specimen collection
definition source: EuPathDB

reason besides fever for specimen collection
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: human participant under investigation
    intersection of: Restriction
      on property: has part
      some values from: Restriction
        on property: derives into
        some values from: OBI_0100051
VEuPathDB alternative label: Other reason for sample collection
definition: an information content entity that is about a human participant under investigation from which the collection of a specimen was not prompted by a sign that the partipant was febrile. This information content entity specifies that which prompted the specimen collection
term editor: John Judkins
alternative label: Other reason for specimen collection
definition source: EuPathDB

qPCR threshold cycle for Plasmodium vivax in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003263
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5855
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
subclass of: Plasmodium in blood by real time polymerase chain reaction assay datum
subclass of: STATO_0000190
VEuPathDB alternative label: Plasmodium vivax, by qPCR result
definition: The threshold cycle that is the specified output of a real time polymerase chain reaction assay that has the objective of determining the number of Plasmodium vivax in a blood specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

qPCR threshold cycle for Plasmodium falciparum in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003263
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5833
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
subclass of: Plasmodium in blood by real time polymerase chain reaction assay datum
subclass of: STATO_0000190
VEuPathDB alternative label: Plasmodium falciparum, by qPCR result
definition: The threshold cycle that is the specified output of a real time polymerase chain reaction assay that has the objective of determining the number of Plasmodium falciparum in a blood specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

time of most recent bednet treatment
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: OBI_0000094
    intersection of: Restriction
      on property: has participant
      some values from: pesticide
VEuPathDB alternative label: Last bednet treatment
definition: a time measurement datum of the last time insecticide was applied to the bednets used by a household
term editor: John Judkins
alternative label: Last bednet treatment
definition source: EuPath

presence of parasite organism in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: OPL_0000232
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in feces
VEuPathDB alternative label: Parasites, by microscopy
definition: A eukaryota in feces datum that specifies whether a parasite organism was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plasmodium gametocyte in blood by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: OPL_0000267
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by real time polymerase chain reaction assay
VEuPathDB alternative label: Plasmodium gametocytes, by qPCR
definition: A eukaryota in blood datum that specifies whether a Plasmodium gametocyte was detected by real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

indicator of household having shotgun
type: Class
subclass of: household asset information
VEuPathDB alternative label: Shotgun
definition: A household asset information indicating whether a household has a shotgun.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

dwelling lot area measurement datum
type: Class
subclass of: area measurement datum
VEuPathDB alternative label: Total area
definition: A measurement datum of the total area of a land lot on which a dwelling is built.
term editor: Person: John Judkins
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/149

relocation information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: is about
  some values from: PCO_0000024
definition: an information content entity that is about the relocation of the household of a human participant under investigation
term editor: John Judkins
alternative label: Relocation details
definition source: EuPathDB

time of participant first enrolled in a study
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: OBI_0600004
VEuPathDB alternative label: Enrollment time
definition: a time measurement datum of the time point at which a human subject enrollment is complete
term editor: John Judkins
alternative label: Enrollment time
definition source: EuPath

presence of bacteria in blood by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033293
VEuPathDB alternative label: Bacteria, by microscopy
definition: A bacteria in blood datum that specifies whether bacteria were detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

blood hydrogencarbonate concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: hydrogencarbonate
VEuPathDB alternative label: Bicarbonate
definition: A blood assay datum of the concentration of hydrogencarbonate.
term editor: Person: John Judkins
definition source: VEuPathDB

Blantyre coma score sum
type: Class
subclass of: IAO_0000027
VEuPathDB alternative label: Blantyre coma score - total
definition: A data item that is about a child infected with malaria and is the sum of the blantyre coma eye movement score, the blantyre coma motor response score, and the blantyre coma verbal response score for the same child during the same infection
term editor: Person: John Judkins
alternative label: Blantyre coma score - total
definition source: Wikipedia

blood urea nitrogen concentration
type: Class
subclass of: IAO_0000032
VEuPathDB alternative label: BUN
definition: A scalar measurement datum of the concentration of urea nitrogen in blood that is the specified output of a blood test.
term editor: John Judkins
alternative label: BUN (mg/dL)
definition source: EuPathDB

blood creatinine concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: creatinine
VEuPathDB alternative label: Creatinine
definition: A blood assay datum of the concentration of creatinine.
term editor: Person: John Judkins
definition source: VEuPathDB

indicator of whether participant taking second antimalarial medication
type: Class
subclass of: treatment information
VEuPathDB alternative label: Take 2nd antimalarial medication
definition: a categorical value specification that specifies whether a human participant under investigation was administered malaria medication a second time while in hospital
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Take second antimalarial medication
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant discharged from hospital
type: Class
subclass of: hospitalization information
VEuPathDB alternative label: Discharged
definition: a categorical value specification that specifies whether a human participant under investigation was discharged from hospital
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Discharged
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

Plasmodium gametocytes in blood by microscopy assay datum
type: Class
equivalent class: Class
  intersection of: OBI_0003263
  intersection of: Restriction
    on property: is about
    some values from: OPL_0000267
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
subclass of: Plasmodium in blood by microscopy assay datum
VEuPathDB alternative label: Plasmodium gametocytes, by microscopy result
definition: A eukaryota in blood datum that is the output of a microscopy assay and is used to determine the presence of Plasmodium gametocytes in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

indicator of whether participant taking third antimalarial medication
type: Class
subclass of: treatment information
VEuPathDB alternative label: Take 3rd antimalarial medication
definition: a categorical value specification that specifies whether a human participant under investigation was administered malaria medication a third time while in hospital
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Take third antimalarial medication
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

hemoglobin concentration measured in hospital
type: Class
subclass of: blood hemoglobin level
VEuPathDB alternative label: Hemoglobin, at hospital
definition: A hemoglobin level in g per dl that is the specified output of an assay that occurs in a hospital facility
term editor: Person: John Judkins
alternative label: Hemoglobin, from hospital
definition source: EuPathDB

indicator of whether participant moved in past twelve months
type: Class
subclass of: relocation information
VEuPathDB alternative label: Moved in last 12 months
definition: a categorical value specification that specifies whether a human participant under investigation moved to a different dwelling in the previous twelve months
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Moved in last 12 months
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant moved in past month
type: Class
subclass of: relocation information
VEuPathDB alternative label: Moved in last month
definition: a categorical value specification that specifies whether a human participant under investigation moved to a different dwelling in the previous month
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Moved in last month
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

Plasmodium falciparum parasitemia measurement datum
type: Class
subclass of: EFO_0005528
VEuPathDB alternative label: Plasmodium falciparum parasitemia (%), by microscopy result
definition: A parasitemia measurement that is the specified output of a microscopy assay in which a blood specimen is evaluated to determine the fraction of red blood cells infected with plasmodium falciparum
term editor: Person: John Judkins
alternative label: P. falciparum parasitemia, microscopy
definition source: EuPathDB

Plasmodium malariae parasitemia measurement datum
type: Class
subclass of: EFO_0005528
VEuPathDB alternative label: Plasmodium malariae parasitemia (%), by microscopy result
definition: A parasitemia measurement that is the specified output of a microscopy assay in which a blood specimen is evaluated to determine the fraction of red blood cells infected with plasmodium malariae
term editor: Person: John Judkins
alternative label: P. malariae parasitemia, microscopy
definition source: EuPathDB

Plasmodium vivax parasitemia measurement datum
type: Class
subclass of: EFO_0005528
VEuPathDB alternative label: Plasmodium vivax parasitemia (%), by microscopy result
definition: A parasitemia measurement that is the specified output of a microscopy assay in which a blood specimen is evaluated to determine the fraction of red blood cells infected with plasmodium vivax
term editor: Person: John Judkins
alternative label: P. vivax parasitemia, microscopy
definition source: EuPathDB

falcivax rapid diagnostic test in hospital
type: Class
subclass of: OBI_0003041
VEuPathDB alternative label: Plasmodium species, by FalciVax RDT at hospital
definition: a falcivax rapid diagnostic test that occurs in a hospital facility
term editor: John Judkins
alternative label: Parasite species, FalciVax RDT from hospital
definition source: EuPathDB

presence of Plasmodium in blood by thick smear microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: Class
      intersection of: OBI_0002119
      intersection of: Restriction
        on property: has part
        some values from: NCIT C85820
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium species, by thick smear microscopy
definition: A eukaryota in blood datum that specifies whether Plasmodium was detected by thick smear microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Plasmodium in blood by thin smear microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: Class
      intersection of: OBI_0002119
      intersection of: Restriction
        on property: has part
        some values from: NCIT C85819
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Plasmodium in blood by microscopy assay
VEuPathDB alternative label: Plasmodium species, by thin smear microscopy
definition: A eukaryota in blood datum that specifies whether Plasmodium was detected by thin smear microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

specimen collection time of day measurement datum
type: Class
subclass of: OBI_0001619
VEuPathDB alternative label: Sample collection time
definition: A specimen collection time measurement datum that specifies the time of day without the date.
term editor: Person: John Judkins
definition source: VEuPathDB

indicator of whether participant taking initial antimalarial medication
type: Class
subclass of: treatment information
VEuPathDB alternative label: Initiated antimalarial treatment
definition: a categorical value specification that specifies whether a human participant under investigation is receiving treatment to alleviate symptoms of malaria
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Initiated antimalarial treatment
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

subnational region relocated from within past month
type: Class
subclass of: relocation information
VEuPathDB alternative label: State moved from in last month
definition: A relocation information on a human participant under investigation who moved to a different dwelling within one month previous. this information specifies the subnational region from which the participant moved.
term editor: Person: John Judkins
alternative label: State moved from in last month
definition source: EuPathDB

subnational region visited within past month
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: State visited in last month
definition: human traveling information that specifies which subnational regions a human participant under investigation had visited within one month previous
term editor: John Judkins
alternative label: State visited in last month
definition source: EuPath

subnational region relocated from within past 12 months
type: Class
subclass of: relocation information
VEuPathDB alternative label: States moved from in last 12 months
definition: A relocation information on a human participant under investigation who moved to a different dwelling within twelve months previous. this information specifies subnational regions from which the participant moved.
term editor: Person: John Judkins
alternative label: States moved from in last 12 months
definition source: EuPathDB

indicator of whether participant taking fourth antimalarial medication
type: Class
subclass of: treatment information
VEuPathDB alternative label: Take 4th antimalarial medication
definition: a categorical value specification that specifies whether a human participant under investigation was administered malaria medication a fourth time while in hospital
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Take fourth antimalarial medication
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant taking fifth antimalarial medication
type: Class
subclass of: treatment information
VEuPathDB alternative label: Take 5th antimalarial medication
definition: a categorical value specification that specifies whether a human participant under investigation was administered malaria medication a fifth time while in hospital
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Take fifth antimalarial medication
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

subnational region visited within past 12 months
type: Class
subclass of: OMRSE_00000142
VEuPathDB alternative label: States visited in last 12 months
definition: human traveling information that specifies which subnational regions a human participant under investigation had visited within twelve months previous
term editor: John Judkins
alternative label: States visited in last 12 months
definition source: EuPath

date treatment started
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: process boundary
    intersection of: Restriction
      on property: starts
      some values from: OGMS_0000090
VEuPathDB alternative label: Treatment start date
definition: a time measurement datum of the date during which a treatment starts
term editor: John Judkins
definition source: EuPath

time treatment started
type: Class
subclass of: IAO_0000416
subclass of: Restriction
  on property: is about
  some values from: Class
    intersection of: process boundary
    intersection of: Restriction
      on property: starts
      some values from: OGMS_0000090
VEuPathDB alternative label: Treatment start time
definition: a time measurement datum of the time point at which a treatment starts
term editor: John Judkins
alternative label: Treatment start time
definition source: EuPath

time of 60-day follow up
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Observation time
definition: a time measurement datum specifying the time (of day) of a clinical visit scheduled for sixty days after a treatment
term editor: John Judkins
alternative label: Time of observation
definition source: EuPathDB

blood bilirubin IXalpha concentration
type: Class
subclass of: OBI_0003243
subclass of: Restriction
  on property: is about
  some values from: bilirubin IXalpha
VEuPathDB alternative label: Total bilirubin
definition: A blood assay datum of the concentration of bilirubin IXalpha.
term editor: Person: John Judkins
definition source: VEuPathDB

information on participant travel in the last twelve months
type: Class
subclass of: OMRSE_00000142
subclass of: Restriction
  on property: is about
  some values from: human participant under investigation
VEuPathDB alternative label: Traveled in last 12 months
definition: a categorical value specification that is about a human participant under investigation and specifies whether the participant had traveled within twelve months previous
term editor: John Judkins
alternative label: Traveled in last 12 months
definition source: EuPathDB

indicator of whether participant is member of tribe
type: Class
subclass of: study participant information
subclass of: Restriction
  on property: is about
  some values from: OMRSE_00000001
VEuPathDB alternative label: Tribal affiliation
definition: a categorical value specification that specifies whether a human participant under investigation self-identifies as a member of a tribe
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Tribal affilliation
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

indicator of whether participant died in hospital
type: Class
subclass of: OGMS_0000083
definition: a categorical value specification that specifies whether the life-death temporal boundary of a human participant under investigation occurred during a health care encounter in a hospital facility
term editor: Jie Zheng
term editor: Chris Stoeckert
term editor: John Judkins
alternative label: Died
definition source: EuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/142

duration since bed net treatment
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time since last personal bednet treatment
definition: A time measurement datum of the duration since the last application of pesticide to a bed net.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/445
ontology term requester: ClinEpiDB
contributor: Sheena Tomko

duration of bed net ownership
type: Class
subclass of: IAO_0000416
VEuPathDB alternative label: Time owned personal bednet
definition: A time measurement datum of the duration a human being has owned a bed net.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/446
contributor: Sheena Tomko

diagnosis of diarrhea
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: diarrhea
VEuPathDB alternative label: Diarrhea
definition: A diagnosis that is an assertion that a patient has diarrhea.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of pneumonia
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: pneumonia
VEuPathDB alternative label: Pneumonia
definition: A diagnosis that is an assertion that a patient has pneumonia.
term editor: Person: John Judkins
definition source: VEuPathDB

diagnosis of upper respiratory tract disease
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: upper respiratory tract disease
VEuPathDB alternative label: Upper respiratory tract infection
definition: A diagnosis that is an assertion that a patient has upper respiratory tract disease.
term editor: Person: John Judkins
definition source: VEuPathDB

first medication in treatment
type: Class
subclass of: treatment information
VEuPathDB alternative label: Medication
definition: The first mention of a medication that is administered as part of a treatment.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/501
contributor: Sheena Tomko

presence of Plasmodium in blood by real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0000893
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Plasmodium in blood by real time polymerase chain reaction assay datum
subclass of: EUPATH_0033308
VEuPathDB alternative label: Plasmodium, by qPCR
definition: A Plasmodium in blood by real time polymerase chain reaction assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

diagnosis of malaria
type: Class
subclass of: OGMS_0000073
subclass of: Restriction
  on property: mentions
  some values from: malaria
VEuPathDB alternative label: Malaria
definition: A diagnosis that is an assertion that a patient has malaria.
term editor: Person: John Judkins
definition source: VEuPathDB

categorical duration since bed net treatment
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: Class
    intersection of: OBI_0200000
    intersection of: Restriction
      on property: has_specified_input
      some values from: duration since bed net treatment
subclass of: Restriction
  on property: has value specification
  some values from: OBI_0001930
VEuPathDB alternative label: Time since last personal bednet treatment categorization
definition: A data item that specifies which group a value for 'duration since bed net treatment' belongs to when the data are grouped by range of values.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/445
ontology term requester: ClinEpiDB
contributor: Sheena Tomko

categorical duration of bed net ownership
type: Class
subclass of: IAO_0000027
subclass of: Restriction
  on property: is_specified_output_of
  some values from: Class
    intersection of: OBI_0200000
    intersection of: Restriction
      on property: has_specified_input
      some values from: duration of bed net ownership
subclass of: Restriction
  on property: has value specification
  some values from: OBI_0001930
VEuPathDB alternative label: Time owned personal bednet categorization
definition: A data item that specifies which group a value for 'duration of bed net ownership' belongs to when the data are grouped by range of values.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/446
ontology term requester: ClinEpiDB
contributor: Sheena Tomko

subdistrict of Thailand
type: Class
subclass of: third-order administrative region
VEuPathDB alternative label: Subdistrict in Thailand
definition: A third-order administrative region of Thailand.
term editor: Person: John Judkins
definition source: VEuPathDB

district of Thailand
type: Class
subclass of: second-order administrative region
VEuPathDB alternative label: District in Thailand
definition: A second-order administrative region of Thailand.
term editor: Person: John Judkins
definition source: VEuPathDB

province of Thailand
type: Class
subclass of: first-order administrative region
VEuPathDB alternative label: Province in Thailand
definition: A first-order administrative region of Thailand.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Plasmodium in blood by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 5820
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: Plasmodium in blood by microscopy assay datum
subclass of: EUPATH_0033308
VEuPathDB alternative label: Plasmodium, by microscopy
definition: A Plasmodium in blood by microscopy assay datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

parish of Uganda
type: Class
subclass of: administrative region
VEuPathDB alternative label: Parish in Uganda
definition: A fifth-order administrative region of Uganda.
term editor: Person: John Judkins
definition source: VEuPathDB

obsolete urine microbiology assay
type: Class
subclass of: ObsoleteClass
definition: Assay that subjects a urine specimen to a test for microorganisms.
term editor: John Judkins
alternative label: urine microbiology test
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003286
deprecated: true

presence of eukaryote in feces
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in feces
subclass of: OBI_0003265
VEuPathDB alternative label: Eukaryota in stool
definition: A eukaryota in feces datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Schistosoma mansoni in feces by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003246
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6183
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Schistosoma in feces by microscopy assay
VEuPathDB alternative label: Schistosoma mansoni, by microscopy
definition: A eukaryota in feces datum that specifies whether Schistosoma mansoni was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Schistosoma in urine
type: Class
equivalent class: Class
  intersection of: OBI_0003248
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6181
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in urine
VEuPathDB alternative label: Schistosoma in urine
definition: A eukaryota in urine datum that specifies whether Schistosoma was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Schistosoma haematobium in urine by microscopy assay
type: Class
equivalent class: Class
  intersection of: OBI_0003248
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 6185
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002119
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Schistosoma in urine
VEuPathDB alternative label: Schistosoma haematobium, by microscopy
definition: A eukaryota in urine datum that specifies whether Schistosoma haematobium was detected by microscopy assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of eukaryote in urine
type: Class
equivalent class: Class
  intersection of: OBI_0003248
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in urine
subclass of: OBI_0003267
VEuPathDB alternative label: Eukaryota in urine
definition: A eukaryota in urine datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete induced sputum microbiology assay
type: Class
subclass of: ObsoleteClass
definition: Assay that subjects an induced sputum specimen to a test for microorganisms.
term editor: John Judkins
alternative label: induced sputum microbiology test
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003242
deprecated: true

presence of bacteria in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in induced sputum
VEuPathDB alternative label: Bacteria in induced sputum
definition: A bacteria in induced sputum datum that specifies whether bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of eukaryote in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in induced sputum
subclass of: OBI_0003269
VEuPathDB alternative label: Eukaryota in induced sputum
definition: A eukaryota in induced sputum datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete virus in induced sputum datum
type: Class
subclass of: ObsoleteClass
VEuPathDB alternative label: Virus in induced sputum
definition: A virus in induced sputum datum that specifies whether a virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term tracker item: https://github.com/VEuPathDB-ontology/VEuPathDB-ontology/issues/424
term replaced by: OBI_0003270
deprecated: true

obsolete pleural fluid microbiology assay
type: Class
subclass of: ObsoleteClass
definition: Assay that subjects a pleural fluid specimen to a test for microorganisms.
term editor: John Judkins
alternative label: pleural fluid microbiology test
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003283
deprecated: true

presence of bacteria in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in pleural fluid
VEuPathDB alternative label: Bacteria in pleural fluid
definition: A bacteria in pleural fluid datum that specifies whether bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of eukaryote in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in pleural fluid
subclass of: OBI_0003279
VEuPathDB alternative label: Eukaryota in pleural fluid
definition: A eukaryota in pleural fluid datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in pleural fluid
VEuPathDB alternative label: Virus in pleural fluid
definition: A virus in pleural fluid datum that specifies whether a virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in lung
VEuPathDB alternative label: Bacteria in lung aspirate
definition: A bacteria in lung datum that specifies whether bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of eukaryote in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in lung
subclass of: OBI_0003273
VEuPathDB alternative label: Eukaryota in lung aspirate
definition: A eukaryota in lung datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in lung
VEuPathDB alternative label: Virus in lung aspirate
definition: A virus in lung datum that specifies whether a virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in nasopharynx or oropharynx
VEuPathDB alternative label: Bacteria in nasopharyngeal/oropharyngeal swabs
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of eukaryote in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2759
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in nasopharynx or oropharynx
subclass of: OBI_0003276
VEuPathDB alternative label: Eukaryota in nasopharyngeal/oropharyngeal swabs
definition: A eukaryota in nasopharyngeal or oropharyngeal swab datum that specifies whether a eukaryote was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in nasopharynx or oropharynx
VEuPathDB alternative label: Virus in nasopharyngeal/oropharyngeal swabs
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether a virus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete endotracheal aspirate microbiology assay
type: Class
subclass of: ObsoleteClass
definition: Assay that subjects a endotracheal aspirate specimen to a test for microorganisms.
term editor: John Judkins
alternative label: endotracheal aspirate microbiology test
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003233
deprecated: true

presence of Haemophilus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 724
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung
VEuPathDB alternative label: Haemophilus in lung aspirate
definition: A bacteria in lung datum that specifies whether Haemophilus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 475
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung
VEuPathDB alternative label: Moraxella in lung aspirate
definition: A bacteria in lung datum that specifies whether Moraxella was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1279
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung
VEuPathDB alternative label: Staphylococcus in lung aspirate
definition: A bacteria in lung datum that specifies whether Staphylococcus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1301
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung
VEuPathDB alternative label: Streptococcus in lung aspirate
definition: A bacteria in lung datum that specifies whether Streptococcus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Acinetobacter unspecified in blood
type: Class
subclass of: EUPATH_0033294
VEuPathDB alternative label: Acinetobacter, by bacteriology
definition: A bacteria in blood datum that specifies whether Acinetobacter was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of unspecified bacteria in blood
type: Class
subclass of: EUPATH_0033293
VEuPathDB alternative label: Any bacteria, by bacteriology
definition: A bacteria in blood datum that specifies whether unspecified bacteria were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobacter cloacae in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 550
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033296
VEuPathDB alternative label: Enterobacter cloacae, by bacteriology
definition: A bacteria in blood datum that specifies whether Enterobacter cloacae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobacteriaceae in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 543
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033293
VEuPathDB alternative label: Enterobacteriaceae, by bacteriology
definition: A bacteria in blood datum that specifies whether Enterobacteriaceae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterococcus faecium in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1352
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033297
VEuPathDB alternative label: Enterococcus faecium, by bacteriology
definition: A bacteria in blood datum that specifies whether Enterococcus faecium was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Escherichia coli in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033298
VEuPathDB alternative label: Escherichia coli, by bacteriology
definition: A bacteria in blood datum that specifies whether Escherichia coli was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033303
VEuPathDB alternative label: Haemophilus influenzae, by bacteriology
definition: A bacteria in blood datum that specifies whether Haemophilus influenzae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Klebsiella pneumoniae in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 573
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033299
VEuPathDB alternative label: Klebsiella pneumoniae, by bacteriology
definition: A bacteria in blood datum that specifies whether Klebsiella pneumoniae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033300
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by bacteriology
definition: A bacteria in blood datum that specifies whether Moraxella catarrhalis was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Neisseria meningitidis in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 487
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033301
VEuPathDB alternative label: Neisseria meningitidis, by bacteriology
definition: A bacteria in blood datum that specifies whether Neisseria meningitidis was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pseudomonas aeruginosa in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033306
VEuPathDB alternative label: Pseudomonas aeruginosa, by bacteriology
definition: A bacteria in blood datum that specifies whether Pseudomonas aeruginosa was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica enterica serovar Paratyphi A in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_54388
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033304
VEuPathDB alternative label: Salmonella Paratyphi A, by bacteriology
definition: A bacteria in blood datum that specifies whether Salmonella enterica enterica serovar Paratyphi A was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica enterica non-(Typhi or Paratyphi-A) in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: Class
      intersection of: NCBITaxon 590
      intersection of: Class
        complement of: Class
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033304
VEuPathDB alternative label: Salmonella except Paratyphi A or Typhi, by bacteriology
definition: A bacteria in blood datum that specifies whether Salmonella enterica enterica other than serovars Typhi or Paratyphi A were detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica enterica serovar Typhi in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_90370
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033304
VEuPathDB alternative label: Salmonella typhi, by bacteriology
definition: A bacteria in blood datum that specifies whether Salmonella enterica enterica serovar Typhi was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella unspecified in blood
type: Class
subclass of: EUPATH_0033304
VEuPathDB alternative label: Salmonella, by bacteriology
definition: A bacteria in blood datum that specifies whether Salmonella was detected, without specifying the taxon further.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033302
VEuPathDB alternative label: Staphylococcus aureus, by bacteriology
definition: A bacteria in blood datum that specifies whether Staphylococcus aureus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus group A in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36470
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033305
VEuPathDB alternative label: Streptococcus group A (Streptococcus pyogenes), by bacteriology
definition: A bacteria in blood datum that specifies whether Staphylococcus group A was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in blood
type: Class
equivalent class: Class
  intersection of: OBI_0003244
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033305
VEuPathDB alternative label: Streptococcus pneumoniae, by bacteriology
definition: A bacteria in blood datum that specifies whether Streptococcus pneumoniae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Acinetobacter baumannii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 470
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Acinetobacter in induced sputum
VEuPathDB alternative label: Acinetobacter baumannii, by bacteriology
definition: An Acinetobacter baumannii in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Acinetobacter calcoaceticus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 471
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Acinetobacter in induced sputum
VEuPathDB alternative label: Acinetobacter calcoaceticus, by bacteriology
definition: An Acinetobacter calcoaceticus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Acinetobacter lwoffii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_28090
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Acinetobacter in induced sputum
VEuPathDB alternative label: Acinetobacter lwoffii, by bacteriology
definition: An Acinetobacter in induced sputum datum that specifies whether Acinetobacter lwoffii was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Acinetobacter in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 469
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Acinetobacter, by bacteriology
definition: An Acinetobacter in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Aeromonas hydrophila in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 644
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Aeromonas hydrophila, by bacteriology
definition: An Aeromonas hydrophila in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Aggregatibacter aphrophilus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 732
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Agregattibacter aphrophilus (Haemophilus aphrophilus), by bacteriology
definition: An Aggregatibacter aphrophilus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Alpha-Hemolytic Streptococcus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCIT C86141
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Alpha-hemolytic Streptococcus (viridans), by bacteriology
definition: An Alpha-Hemolytic Streptococcus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Any noncontaminant bacteria, by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether bacteria were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Beta-Hemolytic Streptococcus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCIT C86190
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Beta-hemolytic Streptococcus, by bacteriology
definition: A Beta-Hemolytic Streptococcus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Bordetella pertussis in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether Bordetella pertussis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Burkholderia cepacia in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 292
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Burkholderia cepacia, by bacteriology
definition: A Burkholderia cepacia in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Chlamydia pneumoniae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_83558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Chlamydophila pneumoniae, by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether Chlamydia pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Citrobacter braakii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_57706
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Citrobacter braakii, by bacteriology
definition: A Citrobacter braakii in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Citrobacter freundii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 546
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Citrobacter freundii, by bacteriology
definition: A Citrobacter freundii in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Coagulase-Negative Staphylococcus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCIT C62584
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Coagulase-negative Staphylococcus, by bacteriology
definition: A Coagulase-Negative Staphylococcus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Coliform bacilli in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCIT C122046
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Coliform bacilli, by bacteriology
definition: A bacteria in induced sputum datum that specifies whether Coliform bacilli was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Corynebacterium in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1716
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Corynebacterium, by bacteriology
definition: A Corynebacterium in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cronobacter sakazakii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_28141
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Cronobacter sakazakii (Enterobacter sakazakii), by bacteriology
definition: A Cronobacter sakazakii in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobacter asburiae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_61645
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Enterobacter in induced sputum
VEuPathDB alternative label: Enterobacter asburiae, by bacteriology
definition: A Enterobacter asburiae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobacter cloacae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 550
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Enterobacter in induced sputum
VEuPathDB alternative label: Enterobacter cloacae, by bacteriology
definition: A Enterobacter cloacae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterobacter in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 547
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Enterobacter, by bacteriology
definition: An Enterobacter in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterococcus faecalis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1351
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Enterococcus in induced sputum
VEuPathDB alternative label: Enterococcus faecalis, by bacteriology
definition: A Enterobacter in induced sputum datum that specifies whether Enterococcus faecalis was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Enterococcus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1350
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Enterococcus, by bacteriology
definition: An Enterococcus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Escherichia coli in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Escherichia coli, by bacteriology
definition: A Escherichia coli in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus haemolyticus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 726
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in induced sputum
VEuPathDB alternative label: Haemophilus haemolyticus, by bacteriology
definition: A Haemophilus haemolyticus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae serotype b in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: VO_0000741
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus influenzae in induced sputum
VEuPathDB alternative label: Haemophilus influenzae type B, by bacteriology
definition: A Haemophilus influenzae serotype b in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae serotype b in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: VO_0000741
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus influenzae serotype b in induced sputum
subclass of: presence of Haemophilus influenzae in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus influenzae type B, by multiplexed qPCR
definition: A Haemophilus influenzae serotype b in induced sputum datum that specifies whether the organism was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in induced sputum
VEuPathDB alternative label: Haemophilus influenzae, by bacteriology
definition: A Haemophilus influenzae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Haemophilus influenzae in induced sputum
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR
definition: A Haemophilus influenzae in induced sputum datum that specifies whether the organism was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parahaemolyticus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in induced sputum
VEuPathDB alternative label: Haemophilus parahaemolyticus, by bacteriology
definition: A Haemophilus parahaemolyticus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parahaemolyticus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Haemophilus parahaemolyticus in induced sputum
VEuPathDB alternative label: Haemophilus parahaemolyticus, by multiplexed qPCR
definition: A Haemophilus parahaemolyticus in induced sputum datum that specifies whether the organism was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parainfluenzae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 729
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in induced sputum
VEuPathDB alternative label: Haemophilus parainfluenzae, by bacteriology
definition: A Haemophilus parainfluenzae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 724
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Haemophilus, by bacteriology
definition: A Haemophilus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Kingella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_32257
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Kingella, by bacteriology
definition: A Kingella in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Klebsiella aerogenes in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 548
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Klebsiella in induced sputum
VEuPathDB alternative label: Klebsiella aerogenes (Enterobacter aerogenes), by bacteriology
definition: A Klebsiella aerogenes in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Klebsiella oxytoca in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 571
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Klebsiella in induced sputum
VEuPathDB alternative label: Klebsiella oxytoca, by bacteriology
definition: A Klebsiella oxytoca in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Klebsiella pneumoniae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 573
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Klebsiella in induced sputum
VEuPathDB alternative label: Klebsiella pneumoniae, by bacteriology
definition: A Klebsiella pneumoniae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Klebsiella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 570
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Klebsiella, by bacteriology
definition: A Klebsiella in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Legionella in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Legionella, by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether Legionella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Mixed gram-negative rods in induced sputum
type: Class
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Mixed gram-negative rods, by bacteriology
definition: A bacteria in induced sputum datum that specifies whether Mixed gram-negative rods was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Moraxella in induced sputum
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by bacteriology
definition: A Moraxella catarrhalis in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Moraxella catarrhalis in induced sputum
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether Moraxella catarrhalis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella nonliquefaciens in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 478
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Moraxella in induced sputum
VEuPathDB alternative label: Moraxella nonliquefaciens, by bacteriology
definition: A Moraxella nonliquefaciens in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 475
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Moraxella, by bacteriology
definition: A Moraxella in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Mycoplasmoides pneumoniae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR
definition: A bacteria in induced sputum datum that specifies whether Mycoplasmoides pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Neisseria meningitidis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 487
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Neisseria meningitidis, by bacteriology
definition: A Neisseria meningitidis in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Proteus mirabilis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 584
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Proteus mirabilis, by bacteriology
definition: A Proteus mirabilis in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pseudomonas aeruginosa in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Pseudomonas in induced sputum
VEuPathDB alternative label: Pseudomonas aeruginosa, by bacteriology
definition: A Pseudomonas aeruginosa in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pseudomonas fluorescens in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 294
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Pseudomonas in induced sputum
VEuPathDB alternative label: Pseudomonas fluorescens, by bacteriology
definition: A Pseudomonas fluorescens in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pseudomonas in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 286
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Pseudomonas, by bacteriology
definition: A Pseudomonas in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Stutzerimonas stutzeri in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 316
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Pseudomonas stutzeri, by bacteriology
definition: A Stutzerimonas stutzeri in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Salmonella, by bacteriology
definition: A Salmonella in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Salmonella in induced sputum
VEuPathDB alternative label: Salmonella, by multiplexed qPCR
definition: A Salmonella in induced sputum datum that specifies whether Salmonella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella enterica subsp. enterica serovar Typhi in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_90370
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Salmonella in induced sputum
VEuPathDB alternative label: Salmonella typhi, by bacteriology
definition: A Salmonella in induced sputum datum that specifies whether Salmonella enterica subsp. enterica serovar Typhi was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Serratia marcescens in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 615
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Serratia in induced sputum
VEuPathDB alternative label: Serratia marcescens, by bacteriology
definition: A Serratia marcescens in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Serratia in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 613
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Serratia, by bacteriology
definition: A Serratia in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Staphylococcus aureus, by bacteriology
definition: A Staphylococcus aureus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Staphylococcus aureus in induced sputum
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR
definition: A Staphylococcus aureus in induced sputum datum that specifies whether Staphylococcus aureus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus epidermidis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1282
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Staphylococcus epidermidis, by bacteriology
definition: A Staphylococcus epidermidis in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Stenotrophomonas maltophilia in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_40324
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Stenotrophomonas maltophilia, by bacteriology
definition: A Stenotrophomonas maltophilia in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus anginosus group in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_671232
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Streptococcus anginosus group (Streptococcus milleri group), by bacteriology
definition: A Streptococcus anginosus group in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus group A in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36470
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Streptococcus group A (Streptococcus pyogenes), by bacteriology
definition: A Streptococcus sp. group A in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus group C in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_33972
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Streptococcus group C, by bacteriology
definition: A Streptococcus sp. group C in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus group G in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1320
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Streptococcus group G, by bacteriology
definition: A Streptococcus sp. group G in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

obsolete induced sputum test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that has an induced sputum specimen as specified input.
term editor: John Judkins
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003234
deprecated: true

obsolete endotracheal aspirate test
type: Class
subclass of: ObsoleteClass
definition: A laboratory test that has a endotracheal aspirate specimen as specified input.
term editor: John Judkins
definition source: VEuPathDB
has obsolescence reason: IAO_0000228
term replaced by: OBI_0003233
deprecated: true

presence of Streptococcus pneumoniae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in induced sputum
VEuPathDB alternative label: Streptococcus pneumoniae, by bacteriology
definition: A Streptococcus pneumoniae in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum by multiplex real time polymerase chain reaction assay
subclass of: presence of Streptococcus pneumoniae in induced sputum
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR
definition: A Streptococcus pneumoniae in induced sputum datum that specifies whether the organism was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1301
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in induced sputum
VEuPathDB alternative label: Streptococcus, by bacteriology
definition: A Streptococcus in induced sputum datum that specifies whether the organism was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pneumocystis jirovecii in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in induced sputum
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR
definition: A eukaryota in induced sputum datum that specifies whether Pneumocystis jirovecii was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Acinetobacter baumannii in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 470
subclass of: Acinetobacter in induced sputum datum
VEuPathDB alternative label: Acinetobacter baumannii, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Acinetobacter baumannii in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Acinetobacter calcoaceticus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 471
subclass of: Acinetobacter in induced sputum datum
VEuPathDB alternative label: Acinetobacter calcoaceticus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Acinetobacter calcoaceticus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Acinetobacter in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 469
subclass of: OBI_0003268
VEuPathDB alternative label: Acinetobacter, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Acinetobacter in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Aeromonas hydrophila in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 644
subclass of: OBI_0003268
VEuPathDB alternative label: Aeromonas hydrophila, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Aeromonas hydrophila in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Aggregatibacter aphrophilus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 732
subclass of: OBI_0003268
VEuPathDB alternative label: Agregattibacter aphrophilus (Haemophilus aphrophilus), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Aggregatibacter aphrophilus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Alpha-Hemolytic Streptococcus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCIT C86141
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Alpha-hemolytic Streptococcus (viridans), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Alpha-Hemolytic Streptococcus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Beta-Hemolytic Streptococcus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCIT C86190
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Beta-hemolytic Streptococcus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Beta-Hemolytic Streptococcus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Bordetella pertussis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003268
subclass of: STATO_0000190
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Bordetella pertussis in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Burkholderia cepacia in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 292
subclass of: OBI_0003268
VEuPathDB alternative label: Burkholderia cepacia, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Burkholderia cepacia in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Citrobacter braakii in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_57706
subclass of: OBI_0003268
VEuPathDB alternative label: Citrobacter braakii, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Citrobacter braakii in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Citrobacter freundii in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 546
subclass of: OBI_0003268
VEuPathDB alternative label: Citrobacter freundii, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Citrobacter freundii in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Coagulase-Negative Staphylococcus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCIT C62584
subclass of: OBI_0003268
VEuPathDB alternative label: Coagulase-negative Staphylococcus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Coagulase-Negative Staphylococcus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Coliform Bacteria in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCIT C122046
subclass of: OBI_0003268
VEuPathDB alternative label: Coliform bacilli, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Coliform Bacteria in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Corynebacterium in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1716
subclass of: OBI_0003268
VEuPathDB alternative label: Corynebacterium, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Corynebacterium in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Cronobacter sakazakii in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_28141
subclass of: OBI_0003268
VEuPathDB alternative label: Cronobacter sakazakii (Enterobacter sakazakii), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Cronobacter sakazakii in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Enterobacter asburiae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_61645
subclass of: Enterobacter in induced sputum datum
VEuPathDB alternative label: Enterobacter asburiae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Enterobacter asburiae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Enterobacter cloacae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 550
subclass of: Enterobacter in induced sputum datum
VEuPathDB alternative label: Enterobacter cloacae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Enterobacter cloacae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Enterobacter in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 547
subclass of: OBI_0003268
VEuPathDB alternative label: Enterobacter, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Enterobacter in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Enterococcus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1350
subclass of: OBI_0003268
VEuPathDB alternative label: Enterococcus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Enterococcus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Escherichia coli in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
subclass of: OBI_0003268
VEuPathDB alternative label: Escherichia coli, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Escherichia coli in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Haemophilus haemolyticus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 726
subclass of: Haemophilus in induced sputum datum
VEuPathDB alternative label: Haemophilus haemolyticus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus haemolyticus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Haemophilus influenzae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Haemophilus influenzae in induced sputum datum
subclass of: STATO_0000190
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Haemophilus influenzae in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Haemophilus influenzae serotype b in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: VO_0000741
subclass of: Haemophilus influenzae in induced sputum datum
VEuPathDB alternative label: Haemophilus influenzae type B, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus influenzae serotype b in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Haemophilus influenzae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
subclass of: Haemophilus in induced sputum datum
VEuPathDB alternative label: Haemophilus influenzae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus influenzae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Haemophilus parahaemolyticus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
subclass of: Haemophilus in induced sputum datum
VEuPathDB alternative label: Haemophilus parahaemolyticus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus parahaemolyticus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Haemophilus parainfluenzae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 729
subclass of: Haemophilus in induced sputum datum
VEuPathDB alternative label: Haemophilus parainfluenzae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus parainfluenzae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Haemophilus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 724
subclass of: OBI_0003268
VEuPathDB alternative label: Haemophilus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Haemophilus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Kingella in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_32257
subclass of: OBI_0003268
VEuPathDB alternative label: Kingella, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Kingella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Klebsiella aerogenes in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 548
subclass of: Klebsiella in induced sputum datum
VEuPathDB alternative label: Klebsiella aerogenes (Enterobacter aerogenes), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Klebsiella aerogenes in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Klebsiella oxytoca in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 571
subclass of: Klebsiella in induced sputum datum
VEuPathDB alternative label: Klebsiella oxytoca, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Klebsiella oxytoca in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Klebsiella pneumoniae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 573
subclass of: Klebsiella in induced sputum datum
VEuPathDB alternative label: Klebsiella pneumoniae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Klebsiella pneumoniae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Klebsiella in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 570
subclass of: OBI_0003268
VEuPathDB alternative label: Klebsiella, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Klebsiella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Legionella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003268
subclass of: STATO_0000190
VEuPathDB alternative label: Legionella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Legionella in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Moraxella catarrhalis in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Moraxella catarrhalis in induced sputum datum
subclass of: STATO_0000190
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Moraxella catarrhalis in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Moraxella catarrhalis in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
subclass of: Moraxella in induced sputum datum
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Moraxella catarrhalis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Moraxella nonliquefaciens in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 478
subclass of: Moraxella in induced sputum datum
VEuPathDB alternative label: Moraxella nonliquefaciens, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Moraxella nonliquefaciens in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Moraxella in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 475
subclass of: OBI_0003268
VEuPathDB alternative label: Moraxella, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Moraxella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Mycoplasmoides pneumoniae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003268
subclass of: STATO_0000190
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Mycoplasmoides pneumoniae in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Neisseria meningitidis in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 487
subclass of: OBI_0003268
VEuPathDB alternative label: Neisseria meningitidis, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Neisseria meningitidis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Proteus mirabilis in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 584
subclass of: OBI_0003268
VEuPathDB alternative label: Proteus mirabilis, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Proteus mirabilis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Pseudomonas aeruginosa in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 287
subclass of: Pseudomonas in induced sputum datum
VEuPathDB alternative label: Pseudomonas aeruginosa, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Pseudomonas aeruginosa in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Pseudomonas fluorescens in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 294
subclass of: Pseudomonas in induced sputum datum
VEuPathDB alternative label: Pseudomonas fluorescens, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Pseudomonas fluorescens in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Pseudomonas in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 286
subclass of: OBI_0003268
VEuPathDB alternative label: Pseudomonas, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Pseudomonas in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Stutzerimonas stutzeri in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 316
subclass of: OBI_0003268
VEuPathDB alternative label: Pseudomonas stutzeri, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Stutzerimonas stutzeri in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Salmonella in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Salmonella in induced sputum datum
subclass of: STATO_0000190
VEuPathDB alternative label: Salmonella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Salmonella in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Salmonella in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
subclass of: OBI_0003268
VEuPathDB alternative label: Salmonella, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Salmonella in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Serratia marcescens in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 615
subclass of: Serratia in induced sputum datum
VEuPathDB alternative label: Serratia marcescens, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Serratia marcescens in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Serratia in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 613
subclass of: OBI_0003268
VEuPathDB alternative label: Serratia, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Serratia in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Staphylococcus aureus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Staphylococcus aureus in induced sputum datum
subclass of: STATO_0000190
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Staphylococcus aureus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Staphylococcus aureus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
subclass of: OBI_0003268
VEuPathDB alternative label: Staphylococcus aureus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Staphylococcus aureus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Staphylococcus epidermidis in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1282
subclass of: OBI_0003268
VEuPathDB alternative label: Staphylococcus epidermidis, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Staphylococcus epidermidis in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Stenotrophomonas maltophilia in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_40324
subclass of: OBI_0003268
VEuPathDB alternative label: Stenotrophomonas maltophilia, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Stenotrophomonas maltophilia in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus anginosus group in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_671232
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus anginosus group (Streptococcus milleri group), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus anginosus group in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus sp. group A in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_36470
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus group A (Streptococcus pyogenes), by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus sp. group A in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus sp. group C in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_33972
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus group C, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus sp. group C in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus sp. group G in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1320
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus group G, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus sp. group G in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Streptococcus pneumoniae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Streptococcus pneumoniae in induced sputum datum
subclass of: Streptococcus pneumoniae serotype 2 in induced sputum datum
subclass of: STATO_0000190
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Streptococcus pneumoniae in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

Streptococcus pneumoniae in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus pneumoniae, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus pneumoniae in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1301
subclass of: OBI_0003268
VEuPathDB alternative label: Streptococcus, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Pneumocystis jirovecii in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003269
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003269
subclass of: STATO_0000190
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Pneumocystis jirovecii in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Adenoviridae in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Adenoviridae in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus 229E in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus 229E in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus OC43 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus OC43 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus NL63 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus NL63 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus HKU1 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus HKU1 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Cytomegalovirus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Cytomegalovirus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human bocavirus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human bocavirus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human metapneumovirus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Human metapneumovirus A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human metapneumovirus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Respiratory syncytial virus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12814
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Respiratory syncytial virus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza A virus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza A, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza A virus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza B virus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza B virus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza C virus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza C, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza C virus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 1 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 1 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 2 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 2 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 3 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 3 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 4 in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 4 in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Enterovirus or Parechovirus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: Class
      union of: NCBITaxon_12059
      union of: NCBITaxon_138954
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003270
subclass of: STATO_0000190
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Enterovirus or Parechovirus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Rhinovirus in induced sputum
type: Class
equivalent class: Class
  intersection of: OBI_0003270
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: multiplex qPCR threshold cycle for Enterovirus or Parechovirus in induced sputum
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Rhinovirus in an induced sputum specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Adenoviridae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Adenoviridae were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of organism in induced sputum
VEuPathDB alternative label: Any virus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether a virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of human coronavirus 229E in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human coronavirus 229E was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus OC43 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human coronavirus OC43 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus NL63 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human coronavirus NL63 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus HKU1 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human coronavirus HKU1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cytomegalovirus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Cytomegalovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human bocavirus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human bocavirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human metapneumovirus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human metapneumoviruses A/B, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human metapneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthopneumovirus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11250
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human orthopneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza A virus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza A, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Influenza A virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza B virus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza B, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Influenza B virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza C virus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza C, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Influenza C virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 1 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human respirovirus 1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 2 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human orthorubulavirus 2 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 3 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human respirovirus 3 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 4 in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Human orthorubulavirus 4 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Picornaviridae in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12058
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Picornaviridae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Rhinovirus in induced sputum by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003251
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Picornaviridae in induced sputum by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR
definition: A virus in induced sputum datum that specifies whether Rhinovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus pneumoniae serotype 2 in induced sputum datum
type: Class
equivalent class: Class
  intersection of: OBI_0003268
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
subclass of: Streptococcus in induced sputum datum
VEuPathDB alternative label: Streptococcus pneumoniae serotype 2, by bacteriology result
definition: A bacteria in induced sputum datum that is used to determine the presence of Streptococcus pneumoniae serotype 2 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung
VEuPathDB alternative label: Any noncontaminant bacteria, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether bacteria were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Bordetella pertussis in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033313
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Bordetella pertussis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Chlamydia pneumoniae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_83558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033312
VEuPathDB alternative label: Chlamydophila pneumoniae, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Chlamydia pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Coagulase-Negative Staphylococcus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCIT C62584
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Staphylococcus in lung
VEuPathDB alternative label: Coagulase-negative Staphylococcus, by bacteriology
definition: A bacteria in lung datum that specifies whether Coagulase-Negative Staphylococcus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae serotype b in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: VO_0000741
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus influenzae in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus influenzae type B, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Haemophilus influenzae serotype b was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in lung
VEuPathDB alternative label: Haemophilus influenzae, by bacteriology
definition: A bacteria in lung datum that specifies whether Haemophilus influenzae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: presence of Haemophilus influenzae in lung
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Haemophilus influenzae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parahaemolyticus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Haemophilus in lung
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus parahaemolyticus, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Haemophilus parahaemolyticus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Legionella in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033314
VEuPathDB alternative label: Legionella, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Legionella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Moraxella in lung
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by bacteriology
definition: A bacteria in lung datum that specifies whether Moraxella catarrhalis was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: presence of Moraxella catarrhalis in lung
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Moraxella catarrhalis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Mycoplasmoides pneumoniae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033311
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Mycoplasmoides pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033310
VEuPathDB alternative label: Salmonella, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Salmonella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Staphylococcus in lung
VEuPathDB alternative label: Staphylococcus aureus, by bacteriology
definition: A bacteria in lung datum that specifies whether Staphylococcus aureus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: presence of Staphylococcus aureus in lung
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Staphylococcus aureus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Streptococcus in lung
VEuPathDB alternative label: Streptococcus pneumoniae, by bacteriology
definition: A bacteria in lung datum that specifies whether Streptococcus pneumoniae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in lung by multiplex real time polymerase chain reaction assay
subclass of: presence of Streptococcus pneumoniae in lung
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR
definition: A bacteria in lung datum that specifies whether Streptococcus pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pneumocystis jirovecii in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: EUPATH_0033315
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR
definition: A eukaryota in lung datum that specifies whether Pneumocystis jirovecii was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Bordetella pertussis in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Bordetella pertussis in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Chlamydia pneumoniae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_83558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Chlamydophila pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Chlamydia pneumoniae in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Haemophilus influenzae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Haemophilus influenzae in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Legionella in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Legionella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Legionella in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Moraxella catarrhalis in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Moraxella catarrhalis in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Mycoplasmoides pneumoniae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Mycoplasmoides pneumoniae in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Salmonella in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Salmonella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Salmonella in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Staphylococcus aureus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Staphylococcus aureus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Streptococcus pneumoniae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003272
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003272
subclass of: STATO_0000190
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Streptococcus pneumoniae in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Pneumocystis jirovecii in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003273
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003273
subclass of: STATO_0000190
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Pneumocystis jirovecii in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Adenoviridae in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Adenoviridae in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus 229E in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus 229E in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus OC43 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus OC43 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus NL63 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus NL63 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus HKU1 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus HKU1 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Cytomegalovirus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Cytomegalovirus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human bocavirus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human bocavirus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human metapneumovirus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Human metapneumonoviruses A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human metapneumovirus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Respiratory syncytial virus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12814
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Respiratory syncytial virus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza A virus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza A, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza A virus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza B virus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza B virus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza C virus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza C, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza C virus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 1 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 1 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 2 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 2 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 3 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 3 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 4 in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 4 in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Enterovirus or Parechovirus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: Class
      union of: NCBITaxon_12059
      union of: NCBITaxon_138954
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003274
subclass of: STATO_0000190
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Enterovirus or Parechovirus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Rhinovirus in lung
type: Class
equivalent class: Class
  intersection of: OBI_0003274
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: multiplex qPCR threshold cycle for Enterovirus or Parechovirus in lung
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Rhinovirus in an lung specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Adenoviridae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Adenoviridae were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung
VEuPathDB alternative label: Any virus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether a virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus 229E in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033370
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human coronavirus 229E was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus OC43 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033371
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human coronavirus OC43 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus NL63 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033370
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human coronavirus NL63 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus HKU1 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033371
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human coronavirus HKU1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cytomegalovirus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033360
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Cytomegalovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human bocavirus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033359
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human bocavirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human metapneumovirus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033363
VEuPathDB alternative label: Human metapneumonoviruses A/B, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human metapneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthopneumovirus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11250
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033364
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human orthopneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza A virus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033357
VEuPathDB alternative label: Influenza A, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Influenza A virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza B virus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033358
VEuPathDB alternative label: Influenza B, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Influenza B virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza C virus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033362
VEuPathDB alternative label: Influenza C, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Influenza C virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 1 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033365
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human respirovirus 1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 2 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human orthorubulavirus 2 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 3 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033365
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human respirovirus 3 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 4 in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Human orthorubulavirus 4 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Picornaviridae in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12058
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in lung by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Picornaviridae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Rhinovirus in lung by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003256
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Picornaviridae in lung by multiplex real time polymerase chain reaction assay
subclass of: EUPATH_0033361
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR
definition: A virus in lung datum that specifies whether Rhinovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Bordetella pertussis in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Bordetella pertussis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Chlamydia pneumoniae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_83558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Chlamydophila pneumoniae, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Chlamydia pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Haemophilus influenzae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Legionella in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Legionella, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Legionella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Moraxella catarrhalis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Mycoplasmoides pneumoniae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Mycoplasmoides pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Salmonella, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Salmonella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Staphylococcus aureus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus pneumoniae serotype 2 in nasopharyngeal or oropharyngeal swab datum
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
subclass of: OBI_0003275
VEuPathDB alternative label: Streptococcus pneumoniae serotype 2, by bacteriology result
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that is used to determine the presence of Streptococcus pneumoniae serotype 2 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus pneumoniae serotype 3 in nasopharyngeal or oropharyngeal swab datum
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
subclass of: OBI_0003275
VEuPathDB alternative label: Streptococcus pneumoniae serotype 3, by bacteriology result
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that is used to determine the presence of Streptococcus pneumoniae serotype 3 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

Streptococcus pneumoniae serotype 4 in nasopharyngeal or oropharyngeal swab datum
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
subclass of: OBI_0003275
VEuPathDB alternative label: Streptococcus pneumoniae serotype 4, by bacteriology result
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that is used to determine the presence of Streptococcus pneumoniae serotype 4 in the specimen.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
subclass of: presence of Streptococcus pneumoniae in nasopharynx or oropharynx
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Streptococcus pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Pneumocystis jirovecii in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of eukaryote in nasopharynx or oropharynx
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR
definition: A eukaryota in nasopharyngeal or oropharyngeal swab datum that specifies whether Pneumocystis jirovecii was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

multiplex qPCR threshold cycle for Bordetella pertussis in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Bordetella pertussis in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Chlamydia pneumoniae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_83558
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Chlamydophila pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Chlamydia pneumoniae in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Haemophilus influenzae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Haemophilus influenzae in a nasopharynx specimen or oropharynx specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Legionella in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Legionella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Legionella in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Moraxella catarrhalis in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Moraxella catarrhalis in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Mycoplasmoides pneumoniae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Mycoplasmoides pneumoniae in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Salmonella in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Salmonella, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Salmonella in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Staphylococcus aureus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003275
subclass of: STATO_0000190
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Staphylococcus aureus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Streptococcus pneumoniae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003275
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: Streptococcus pneumoniae serotype 2 in nasopharyngeal or oropharyngeal swab datum
subclass of: Streptococcus pneumoniae serotype 3 in nasopharyngeal or oropharyngeal swab datum
subclass of: Streptococcus pneumoniae serotype 4 in nasopharyngeal or oropharyngeal swab datum
subclass of: STATO_0000190
VEuPathDB alternative label: Streptococcus pneumoniae, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Streptococcus pneumoniae in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Pneumocystis jirovecii in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003276
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_42068
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003276
subclass of: STATO_0000190
VEuPathDB alternative label: Pneumocystis jiroveci, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Pneumocystis jirovecii in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Adenoviridae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Adenoviridae in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus 229E in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus 229E in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus OC43 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus OC43 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus NL63 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus NL63 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human coronavirus HKU1 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human coronavirus HKU1 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Cytomegalovirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Cytomegalovirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human bocavirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human bocavirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human metapneumovirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Human metapneumonoviruses A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human metapneumovirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthopneumovirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11250
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthopneumovirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza A virus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza A, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza A virus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza B virus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza B, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza B virus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Influenza C virus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Influenza C, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Influenza C virus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 1 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 1 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 2 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 2 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human respirovirus 3 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human respirovirus 3 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Human orthorubulavirus 4 in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Human orthorubulavirus 4 in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Enterovirus or Parechovirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: Class
      union of: NCBITaxon_12059
      union of: NCBITaxon_138954
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: OBI_0003277
subclass of: STATO_0000190
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Enterovirus or Parechovirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

multiplex qPCR threshold cycle for Rhinovirus in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003277
  intersection of: STATO_0000190
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: multiplex qPCR threshold cycle for Enterovirus or Parechovirus in nasopharynx or oropharynx
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR result
definition: The threshold cycle that is the specified output of a multiplex real time polymerase chain reaction assay that has the objective of determining the number of Rhinovirus in a nasopharyngeal or oropharyngeal swab specimen.
term editor: Person: John Judkins
definition source: VEuPathDB

presence of Adenoviridae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10508
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Adenovirus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Adenoviridae were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus 229E in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11137
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 229, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human coronavirus 229E was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus OC43 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_31631
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 43, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human coronavirus OC43 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus NL63 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_277944
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus 63, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human coronavirus NL63 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human coronavirus HKU1 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_290028
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Coronavirus HKU, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human coronavirus HKU1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Cytomegalovirus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10358
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Cytomegalovirus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Cytomegalovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human bocavirus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_329641
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human bocavirus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human bocavirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human metapneumovirus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_162145
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human metapneumonoviruses A/B, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human metapneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthopneumovirus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11250
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Human respiratory syncytial viruses A/B, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human orthopneumovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza A virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11320
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza A, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Influenza A virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza B virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza B, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Influenza B virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Influenza C virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11552
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Influenza C, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Influenza C virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 1 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12730
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 1, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human respirovirus 1 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 2 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560525
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 2, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human orthorubulavirus 2 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human respirovirus 3 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11216
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 3, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human respirovirus 3 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Human orthorubulavirus 4 in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_2560526
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parainfluenza 4, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Human orthorubulavirus 4 was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Picornaviridae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_12058
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Parechovirus/Enterovirus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Picornaviridae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Rhinovirus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCIT C77200
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of Picornaviridae in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Rhinovirus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Rhinovirus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx
VEuPathDB alternative label: Any bacteria, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether bacteria were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parahaemolyticus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus parahaemolyticus, by multiplexed qPCR
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Haemophilus parahaemolyticus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Streptococcus pneumoniae in nasopharynx or oropharynx
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1313
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in nasopharynx or oropharynx
VEuPathDB alternative label: Streptococcus pneumoniae, by bacteriology
definition: A bacteria in nasopharyngeal or oropharyngeal swab datum that specifies whether Streptococcus pneumoniae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of virus in nasopharynx or oropharynx by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_10239
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx
VEuPathDB alternative label: Any virus, by multiplexed qPCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether a virus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Measles morbillivirus in nasopharynx or oropharynx by polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003257
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon_11234
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0002692
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of virus in nasopharynx or oropharynx
VEuPathDB alternative label: Measles morbillivirus, by PCR
definition: A virus in nasopharyngeal or oropharyngeal swab datum that specifies whether Measles morbillivirus was detected by polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid
VEuPathDB alternative label: Any noncontaminant bacteria, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether bacteria were detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Bordetella pertussis in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 520
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Bordetella pertussis, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Bordetella pertussis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Escherichia coli in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 562
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid
VEuPathDB alternative label: Escherichia coli, by bacteriology
definition: A bacteria in pleural fluid datum that specifies whether Escherichia coli was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid
VEuPathDB alternative label: Haemophilus influenzae, by bacteriology
definition: A bacteria in pleural fluid datum that specifies whether Haemophilus influenzae was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus influenzae in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 727
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
subclass of: presence of Haemophilus influenzae in pleural fluid
VEuPathDB alternative label: Haemophilus influenzae, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Haemophilus influenzae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Haemophilus parahaemolyticus in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 735
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Haemophilus parahaemolyticus, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Haemophilus parahaemolyticus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Legionella in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 445
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Legionella, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Legionella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by bacteriology
definition: A bacteria in pleural fluid datum that specifies whether Moraxella catarrhalis was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Moraxella catarrhalis in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 480
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
subclass of: presence of Moraxella catarrhalis in pleural fluid
VEuPathDB alternative label: Moraxella catarrhalis (Branhamella catarrhalis), by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Moraxella catarrhalis was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Mycoplasmoides pneumoniae in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 2104
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Mycoplasma pneumoniae, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Mycoplasmoides pneumoniae was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Salmonella in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 590
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
VEuPathDB alternative label: Salmonella, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Salmonella was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in pleural fluid
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: has value specification
    some values from: Restriction
      on property: has specified value
      all values from: boolean
subclass of: presence of bacteria in pleural fluid
VEuPathDB alternative label: Staphylococcus aureus, by bacteriology
definition: A bacteria in pleural fluid datum that specifies whether Staphylococcus aureus was detected.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB

presence of Staphylococcus aureus in pleural fluid by multiplex real time polymerase chain reaction assay
type: Class
equivalent class: Class
  intersection of: OBI_0003258
  intersection of: Restriction
    on property: is about
    some values from: NCBITaxon 1280
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: OBI_0003287
subclass of: presence of bacteria in pleural fluid by multiplex real time polymerase chain reaction assay
subclass of: presence of Staphylococcus aureus in pleural fluid
VEuPathDB alternative label: Staphylococcus aureus, by multiplexed qPCR
definition: A bacteria in pleural fluid datum that specifies whether Staphylococcus aureus was detected by multiplex real time polymerase chain reaction assay.
term editor: John Judkins ORCID:0000-0001-6595-0902
definition source: VEuPathDB