DIDEO
type: Ontology
version IRI: dideo.owl
imports: classes-only.owl
imports: iao.owl
imports: core.owl
alternative term: Drug-drug Interaction and Drug-drug Interaction Evidence Ontology
contributor: Anuj Shah
contributor: Dan Malone
contributor: Jessica Tay-Sontheimer
contributor: Jingjing Yu
contributor: Jodi Schneider
contributor: Philip E. Empey
contributor: Richard D. Boyce
contributor: William R. Hogan
creator: Mathias Brochhausen
license: http://creativecommons.org/licenses/by/4.0/
comment: The Drug-drug Interaction and Drug-drug Interaction Evidence Ontology (DIDEO) by the DIDEO development group is licensed under CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/).
comment: The Drug-drug Interaction and Drug-drug Interaction Evidence Ontology (DIDEO) by the DIDEO development group is licensed under CC BY 4.0. You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow the license terms. You must give appropriate credit (by using the original ontology IRI for the whole ontology and original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.
version info: 2023-10-16

BFO OWL specification label
type: AnnotationProperty

BFO CLIF specification label
type: AnnotationProperty

Cell line LINCS ID
type: AnnotationProperty

STR profile
type: AnnotationProperty

editor preferred label
label: editor preferred term
label: editor preferred term~editor preferred label

example of usage

has curation status

definition
label: textual definition

editor note

definition editor
label: term editor

alternative term

definition source

curator note
type: AnnotationProperty

imported from

expand expression to

OBO foundry unique label
type: AnnotationProperty

elucidation

has associated axiom(fol)
type: AnnotationProperty

has literature mining keywords
type: AnnotationProperty

MPIO user-centered definition
type: AnnotationProperty

ISA alternative term
type: AnnotationProperty

IEDB alternative term
type: AnnotationProperty

temporal interpretation

is direct form of
type: AnnotationProperty

is indirect form of
type: AnnotationProperty

external_definition
type: AnnotationProperty

has_relational_adjective
type: AnnotationProperty

Unique Apollo Label
type: AnnotationProperty

has_rank
type: AnnotationProperty

Creator

Source

alternative_term
type: AnnotationProperty

definition
type: AnnotationProperty

has_alternative_id
type: AnnotationProperty

has_broad_synonym
type: AnnotationProperty

database_cross_reference
type: AnnotationProperty

has_exact_synonym
type: AnnotationProperty

has_narrow_synonym
type: AnnotationProperty

has_obo_namespace
type: AnnotationProperty

has_related_synonym
type: AnnotationProperty

in_subset
type: AnnotationProperty

label

see also

part of
type: ObjectProperty
sub property of: topObjectProperty
editor preferred label: is part of
example of usage: my brain is part of my body (continuant parthood, two material entities)
example of usage: my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)
example of usage: this day is part of this year (occurrent parthood)
definition: a core relation that holds between a part and its whole
editor note: Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.
editor note: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
editor note: Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.) A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.
alternative term: part_of
imported from: http://purl.obolibrary.org/obo/ro.owl
temporal interpretation: RO_0001901

has part
type: ObjectProperty
sub property of: topObjectProperty
editor preferred label: has part
example of usage: my body has part my brain (continuant parthood, two material entities)
example of usage: my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)
example of usage: this year has part this day (occurrent parthood)
definition: a core relation that holds between a whole and its part
editor note: Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part.
editor note: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
editor note: Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.) A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'.
alternative term: has_part
imported from: http://purl.obolibrary.org/obo/obi.owl
temporal interpretation: RO_0001901

preceded by
type: ObjectProperty
sub property of: ends after
sub property of: topObjectProperty
editor preferred label: preceded by
definition: x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), 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.
editor note: An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other.
alternative term: is preceded by
alternative term: preceded_by
imported from: Optional.of(http://purl.obolibrary.org/obo/obi.owl)
imported from: http://purl.obolibrary.org/obo/ro.owl
Source: http://www.obofoundry.org/ro/#OBO_REL:preceded_by
in_subset: ro-eco

precedes
type: ObjectProperty
sub property of: temporally related to
type: TransitiveProperty
editor preferred label: precedes
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: http://purl.obolibrary.org/obo/ro.owl
in_subset: ro-eco

begins_to_exist_during
type: ObjectProperty
definition: continuant(c) and process(p) and first_time_point(p,t1) and last_time_point(p,t2) and not(exists_at(c,t1)) and exists_at(c,t2)
definition editor: Alan Ruttenberg
Source: https://code.google.com/p/bfo/issues/detail

has occurrent part
type: ObjectProperty
sub property of: topObjectProperty
BFO OWL specification label: o-has-part
BFO CLIF specification label: hasOccurrentPart
example of usage: [copied from inverse property 'part of occurrent'] Mary’s 5th birthday occurrent_part_of Mary’s life
example of usage: [copied from inverse property 'part of occurrent'] The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football.
example of usage: [copied from inverse property 'part of occurrent'] the first set of the tennis match occurrent_part_of the tennis match.
definition: b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001])
editor note: [copied from inverse property 'part of occurrent'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: [copied from inverse property 'part of occurrent'] BFO2 Reference: occurrent
imported from: http://purl.obolibrary.org/obo/bfo.owl
imported from: http://purl.obolibrary.org/obo/dideo/release/2017-11-17/dideo.owl
elucidation: [copied from inverse property 'part of occurrent'] b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002])
has associated axiom(fol): (iff (hasOccurrentPart a b) (occurrentPartOf b a)) // axiom label in BFO2 CLIF: [007-001]

organismally_begins_to_exist_during
type: ObjectProperty
sub property of: begins_to_exist_during
definition: there is some extended organism e & there is some temporal region tr & p occupies temporal region tr & p occurs_in e & c begins to exist during p & there is some t ( t part-of tr & c located-in e at t )
definition editor: Alan Ruttenberg
definition editor: Mathias Brochhausen
definition editor: William R. Hogan

organismally immediately precedes
type: ObjectProperty
inverse of: is organismally immediately preceded by
type: TransitiveProperty
domain: BFO_0000015
range: BFO_0000015
definition: there is some extended organism e & p1 occurs_in e & p2 occurs_in e & p1 immediately precedes p2
definition editor: Mathias Brochhausen
Source: for immediatly precedes please see: http://krr.meraka.org.za/~aow2010/Trentelman-etal.pdf

is organismally immediately preceded by
type: ObjectProperty
sub property of: topObjectProperty

is substrate of
type: ObjectProperty
sub property of: causally influences
domain: Class
  union of: Class
    intersection of: chemical entity
    intersection of: Restriction
      on property: RO_0000053
      some values from: metabolite
  union of: Restriction
    on property: part of
    some values from: drug product
range: enzyme
definition: A pharmaeutic ingredient or a metabolite X is the substrate of an enzyme E, iff E catalyzes X to M.
definition editor: Mathias Brochhausen

realizes substrate role
type: ObjectProperty
sub property of: BFO_0000055
domain: catalytic activity
range: enzyme substrate role
IAO_0000231: IAO_0000103
deprecated: true

involves substrate
type: ObjectProperty
IAO_0000231: IAO_0000103
deprecated: true

inhibits-catalyzes metabolism of
type: ObjectProperty
property chain axiom: molecularly decreases activity of
property chain axiom: catalyzes a Phase I or Phase II enzymatic reaction involving

catalyzes a Phase I or Phase II enzymatic reaction involving
type: ObjectProperty

is_specified_input_of
type: ObjectProperty
sub property of: participates in
editor preferred label: 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.
definition editor: Alan Ruttenberg
definition editor: PERSON:Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

is_specified_output_of
type: ObjectProperty
sub property of: participates in
editor preferred label: 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.
definition editor: Alan Ruttenberg
definition editor: PERSON:Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

specifies value of
type: ObjectProperty
sub property of: IAO_0000136
editor preferred label: 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: Optional.of(http://purl.obolibrary.org/obo/obi.owl)

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

process is result of
type: ObjectProperty
sub property of: immediately preceded by
editor preferred label: process is result of
example of usage: The production of IFN-gamma by effector T cells is a process result of T cell stimulation through the TCR
has curation status: IAO_0000123
definition: is a relationship between a process and a preceding occurrent that directly caused the later one to occur
definition editor: IEDB
definition editor: PERSON:Bjoern Peters
imported from: Optional.of(http://purl.obolibrary.org/obo/obi.owl)

inheres in
type: ObjectProperty
sub property of: topObjectProperty
editor preferred label: inheres in
example of usage: this fragility inheres in this vase
example of usage: this red color inheres in this apple
definition: a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence
editor note: A dependent inheres in its bearer at all times for which the dependent exists.
alternative term: inheres_in
imported from: http://purl.obolibrary.org/obo/obi.owl
temporal interpretation: RO_0001901

participates in
type: ObjectProperty
sub property of: topObjectProperty
editor preferred label: participates in
example of usage: this blood clot participates in this blood coagulation
example of usage: this input material (or this output material) participates in this process
example of usage: this investigator participates in this investigation
definition: a relation between a continuant and a process, in which the continuant is somehow involved in the process
alternative term: participates_in
imported from: http://purl.obolibrary.org/obo/ro.owl

has participant
type: ObjectProperty
sub property of: topObjectProperty
editor preferred label: has participant
example of usage: this blood coagulation has participant this blood clot
example of usage: this investigation has participant this investigator
example of usage: this process has participant this input material (or this output material)
definition: a relation between a process and a continuant, in which the continuant is somehow involved in the process
editor note: Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time.
alternative term: has_participant
imported from: http://purl.obolibrary.org/obo/dron.owl
Source: http://www.obofoundry.org/ro/#OBO_REL:has_participant

ends after
type: ObjectProperty
sub property of: temporally related to
definition editor: David Osumi-Sutherland
imported from: http://purl.obolibrary.org/obo/ro.owl
in_subset: ro-eco
comment: X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)

immediately preceded by
type: ObjectProperty
sub property of: preceded by
definition editor: David Osumi-Sutherland
alternative term: starts_at_end_of
imported from: Optional.of(http://purl.obolibrary.org/obo/obi.owl)
comment: X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)

immediately precedes
type: ObjectProperty
sub property of: precedes
property chain axiom: ends with
property chain axiom: starts with
definition editor: David Osumi-Sutherland
alternative term: ends_at_start_of
alternative term: meets
imported from: http://purl.obolibrary.org/obo/ro.owl
is direct form of: precedes
in_subset: ro-eco
comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)

regulates
type: ObjectProperty
sub property of: causally upstream of or within
domain: BFO_0000015
range: BFO_0000015
property chain axiom: part of
property chain axiom: ends with
has curation status: IAO_0000125
definition: x regulates y if and only if the x is the realization of a function to exert an effect on the frequency, rate or extent of y
editor note: We use 'regulates' here to specifically imply control. However, many colloquial usages of the term correctly correspond to the weaker relation of 'causally upstream of or within' (aka influences). Consider relabeling to make things more explicit
definition editor: Chris Mungall
definition editor: David Hill
definition editor: Tanya Berardini
definition source: GO
curator note: Regulation does not preclude parthood; the regulatory process may be upstream, or may be within the regulated process.
imported from: http://purl.obolibrary.org/obo/ro.owl
OBO foundry unique label: regulates (processual)
elucidation: false

negatively regulates
type: ObjectProperty
sub property of: regulates
property chain axiom: ends with
has curation status: IAO_0000125
definition: x negatively regulates y if and only if the progression of x reduces the frequency, rate or extent of y
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl
OBO foundry unique label: negatively regulates (process to process)

has prototype
type: ObjectProperty
sub property of: topObjectProperty
example of usage: 'human p53 protein' SubClassOf some ('has prototype' some ('participates in' some 'DNA repair'))
example of usage: heart SubClassOf 'has prototype' some ('participates in' some 'blood circulation')
has curation status: IAO_0000125
definition: x has prototype y if and only if x is an instance of C and y is a prototypical instance of C. For example, every instance of heart, both normal and abnormal is related by the has prototype relation to some instance of a "canonical" heart, which participates in blood circulation.
editor note: Experimental. In future there may be a formalization in which this relation is treated as a shortcut to some modal logic axiom. We may decide to obsolete this and adopt a more specific evolutionary relationship (e.g. evolved from)
editor note: This property can be used to make weaker forms of certain relations by chaining an additional property. For example, we may say: retina SubClassOf has_prototype some 'detection of light'. i.e. every retina is related to a prototypical retina instance which is detecting some light. Note that this is very similar to 'capable of', but this relation affords a wider flexibility. E.g. we can make a relation between continuants.
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

capable of
type: ObjectProperty
sub property of: capable of part of
domain: BFO_0000004
range: BFO_0000015
example of usage: mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)
example of usage: osteoclast SubClassOf 'capable of' some 'bone resorption'
has curation status: IAO_0000125
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.
definition editor: Chris Mungall
alternative term: has function realized in
definition source: http://www.ncbi.nlm.nih.gov/pubmed/20123131
definition source: http://www.ncbi.nlm.nih.gov/pubmed/21208450
curator note: For compatibility with BFO, this relation has a shortcut definition in which the expression "capable of some P" expands to "bearer_of (some realized_by only P)".
imported from: http://purl.obolibrary.org/obo/ro.owl
expand expression to: RO_0000053 some (RO_0000054 only ?Y)
in_subset: ro-eco

capable of part of
type: ObjectProperty
sub property of: causal agent in
property chain axiom: capable of
property chain axiom: part of
has curation status: IAO_0000125
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.
definition editor: Chris Mungall
alternative term: has function in
imported from: http://purl.obolibrary.org/obo/ro.owl
expand expression to: RO_0000053 some (RO_0000054 only (BFO_0000050 some ?Y))

actively participates in
type: ObjectProperty
sub property of: participates in
has curation status: IAO_0000125
definition: x actively participates in y if and only if x participates in y and x realizes some active role
definition editor: Chris Mungall
alternative term: agent in
imported from: http://purl.obolibrary.org/obo/ro.owl

temporally related to
type: ObjectProperty
sub property of: topObjectProperty
has curation status: IAO_0000125
definition editor: Chris Mungall
definition source: Allen's interval algebra
curator note: Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends.
imported from: http://purl.obolibrary.org/obo/ro.owl
Source: https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit
in_subset: ro-eco
comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations.

starts with
type: ObjectProperty
sub property of: topObjectProperty
example of usage: Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor
has curation status: IAO_0000125
definition: x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), 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.
definition editor: Chris Mungall
alternative term: started by
imported from: http://purl.obolibrary.org/obo/ro.owl
in_subset: ro-eco

ends with
type: ObjectProperty
sub property of: topObjectProperty
has curation status: IAO_0000125
definition: x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), 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.
definition editor: Chris Mungall
alternative term: finished by
imported from: http://purl.obolibrary.org/obo/ro.owl
in_subset: ro-eco

has input
type: ObjectProperty
sub property of: has participant
inverse of: input of
definition: p has direct input c iff c is a participant in p, c is present at the start of p, and the state of c is modified during p.
definition editor: Chris Mungall
alternative term: consumes

has output
type: ObjectProperty
sub property of: has participant
inverse of: output of
definition: p has output c iff c is a participant in p, c is present at the end of p, and c is not present at the beginning of p.
definition editor: Chris Mungall
alternative term: produces

enables
type: ObjectProperty
sub property of: capable of
inverse of: enabled by
example of usage: a particular instances of akt-2 enables some instance of protein kinase activity
definition editor: Chris Mungall
alternative term: catalyzes
alternative term: executes
alternative term: has
curator note: This relation is currently used experimentally by the Gene Ontology Consortium. It may not be stable and may be obsoleted at some future time.
imported from: http://purl.obolibrary.org/obo/ro.owl

functionally related to
type: ObjectProperty
sub property of: topObjectProperty
definition editor: Chris Mungall
curator note: This is a grouping relation that collects relations used for the purpose of connecting structure and function
imported from: http://purl.obolibrary.org/obo/ro.owl

enabled by
type: ObjectProperty
sub property of: functionally related to
definition: inverse of enables
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

regulated by
type: ObjectProperty
sub property of: causally downstream of or within
definition: inverse of regulates
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl
OBO foundry unique label: regulated by (processual)

negatively regulated by
type: ObjectProperty
sub property of: regulated by
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

input of
type: ObjectProperty
sub property of: participates in
definition: inverse of has input
definition editor: Chris Mungall
imported from: Optional.of(http://purl.obolibrary.org/obo/ro.owl)
in_subset: RO_0002259
in_subset: ro-eco

output of
type: ObjectProperty
sub property of: participates in
definition: inverse of has output
definition editor: Chris Mungall
imported from: Optional.of(http://purl.obolibrary.org/obo/ro.owl)
in_subset: RO_0002259
in_subset: ro-eco

causally downstream of
type: ObjectProperty
sub property of: causally downstream of or within
has curation status: IAO_0000428
definition: inverse of upstream of
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

directly inhibits
type: ObjectProperty
sub property of: negatively regulates
sub property of: immediately causally upstream of
has curation status: IAO_0000428
definition editor: Chris Mungall
alternative term: directly negatively regulates
imported from: http://purl.obolibrary.org/obo/ro.owl
OBO foundry unique label: directly inhibits (process to process)

indirectly inhibits
type: ObjectProperty
sub property of: immediately causally upstream of
has curation status: IAO_0000428
definition editor: Chris Mungall
alternative term: indirectly negatively regulates
imported from: http://purl.obolibrary.org/obo/ro.owl
is indirect form of: negatively regulates

causally related to
type: ObjectProperty
sub property of: related via dependence to
has curation status: IAO_0000428
definition: This relation groups causal relations between material entities and causal relations between processes
editor note: This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents. To define causal relations in an activity-flow type network, we make use of 3 primitives: * Temporal: how do the intervals of the two occurrents relate? * Is the causal relation regulatory? * Is the influence positive or negative The first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified. For the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule. For the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral. Each of these 3 primitives can be composed to yiel…
definition editor: Chris Mungall
curator note: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
imported from: http://purl.obolibrary.org/obo/ro.owl

causally upstream of
type: ObjectProperty
sub property of: precedes
sub property of: causally upstream of or within
has curation status: IAO_0000428
definition: p is causally upstream of q if and only if p precedes q and p and q are linked in a causal chain
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

immediately causally upstream of
type: ObjectProperty
sub property of: immediately precedes
sub property of: causally upstream of
has curation status: IAO_0000428
definition: p is immediately causally upstream of q iff both (a) p immediately precedes q and (b) p is causally upstream of q. In addition, the output of p must be an input of q.
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl
is direct form of: causally upstream of

causally upstream of or within
type: ObjectProperty
sub property of: causal relation between processes
definition: p 'causally upstream or within' q iff (1) the end of p is before the end of q and (2) the execution of p exerts some causal influence over the outputs of q; i.e. if p was abolished or the outputs of p were to be modified, this would necessarily affect q.
editor note: We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2
definition editor: Chris Mungall
alternative term: influences (processual)
imported from: http://purl.obolibrary.org/obo/ro.owl

causally downstream of or within
type: ObjectProperty
sub property of: causal relation between processes
definition editor: Chris Mungall
definition source: causal-relations
imported from: http://purl.obolibrary.org/obo/ro.owl

interacts with
type: ObjectProperty
sub property of: topObjectProperty
definition: A relationship that holds between two entities in which the processes executed by the two entities are causally connected.
editor note: Considering relabeling as 'pairwise interacts with'
editor note: This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.
definition editor: Chris Mungall
curator note: Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules.
imported from: http://purl.obolibrary.org/obo/ro.owl
has_exact_synonym: in pairwise interaction with
in_subset: ro-eco

molecularly interacts with
type: ObjectProperty
sub property of: interacts with
definition: An interaction relationship in which the two partners are molecular entities and are executing molecular processes that are directly causally connected.
definition editor: Chris Mungall
alternative term: binds
alternative term: molecularly binds with
imported from: http://purl.obolibrary.org/obo/ro.owl

molecularly controls
type: ObjectProperty
sub property of: molecularly interacts with
property chain axiom: enables
property chain axiom: regulates
property chain axiom: enabled by
definition: Holds between molecular entities a and b when the execution of a activates or inhibits the activity of b
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

molecularly decreases activity of
type: ObjectProperty
sub property of: molecularly controls
property chain axiom: enables
property chain axiom: directly inhibits
property chain axiom: enabled by
definition: Holds between molecules a and b if and only if a executes a process that directly diminishes a process executed by b.
definition editor: Chris Mungall
alternative term: inhibits
imported from: http://purl.obolibrary.org/obo/ro.owl

causal agent in
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: http://purl.obolibrary.org/obo/ro.owl

causal relation between processes
type: ObjectProperty
sub property of: causally related to
domain: BFO_0000003
range: BFO_0000003
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 of direct activation or direct inhibition. p may be upstream, downstream, part of or a container of q.
definition editor: Chris Mungall
definition source: causal-relations
definition source: https://docs.google.com/document/d/1WxocTXZaGVhEV1n7NB86pCF3SUcBJh8bq4vQrVCkjSU/edit#
curator note: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
imported from: http://purl.obolibrary.org/obo/ro.owl

causal relation between material entities
type: ObjectProperty
sub property of: causally related to
domain: BFO_0000040
range: BFO_0000040
editor note: The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch
definition editor: Chris Mungall
curator note: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
imported from: http://purl.obolibrary.org/obo/ro.owl

causally influences
type: ObjectProperty
sub property of: causal relation between material entities
property chain axiom: enables
property chain axiom: causally upstream of
property chain axiom: enabled by
definition: Holds between materal entities a and b if the activity of a is causally upstream of the activity of b, or causally upstream of a an activity that modifies b
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl
OBO foundry unique label: causally influences (material entity to material entity)

causal relation between material entity and a process
type: ObjectProperty
sub property of: causally related to
domain: BFO_0000040
range: BFO_0000015
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.
editor note: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
definition editor: Chris Mungall
imported from: http://purl.obolibrary.org/obo/ro.owl

related via dependence to
type: ObjectProperty
sub property of: topObjectProperty
definition: A relationship that holds between two entities, where the relationship holds based on the presence or absence of statistical dependence relationship. The entities may be statistical variables, or they may be other kinds of entities such as diseases, chemical entities or processes.
curator note: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
imported from: http://purl.obolibrary.org/obo/ro.owl

has_proper_part
type: ObjectProperty
sub property of: topObjectProperty
inverse of: proper_part_of
curator note: DIDEO uses this object property from the old (depracted) RO, since we need to infer parts of drug products as represented by DRON (and DRON [along with many other OBO Foundry candidate ontologies] uses this object property).
imported from: http://purl.obolibrary.org/obo/ido.owl
has_alternative_id: OBO_REL:0000007
has_obo_namespace: relationship

proper_part_of
type: ObjectProperty
sub property of: topObjectProperty
curator note: DIDEO uses this object property from the old (depracted) RO, since we need to infer parts of drug products as represented by DRON (and DRON [along with many other OBO Foundry candidate ontologies] uses this object property).
imported from: http://purl.obolibrary.org/obo/ido.owl
has_alternative_id: OBO_REL:0000006
has_obo_namespace: relationship

has specified value
type: DatatypeProperty
domain: value specification
range: real
editor preferred label: has specified 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.
definition editor: PERSON: James A. Overton
definition source: OBI

count
type: Class
subclass of: IAO_0000109
definition: A measurement datum that is the output of counting.
definition editor: Mathias Brochhausen
imported from: http://purl.obolibrary.org/obo/apollo_sv/dev/apollo_sv.owl
elucidation: A measurement datum that is the output of counting.
Unique Apollo Label: count

drug identifier
type: Class
subclass of: identifier
definition: An identifier that denotes a drug product.
definition editor: Matthew Diller
definition editor: William R. Hogan
imported from: http://purl.obolibrary.org/obo/apollo_sv/v4.1.1./apollo_sv.owl
elucidation: An identifier that denotes a drug product.
Unique Apollo Label: drugId

diltiazem
type: Class
subclass of: 5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydro-1,5-benzothiazepin-3-yl acetate
definition: A 5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydro-1,5-benzothiazepin-3-yl acetate in which both stereocentres have S configuration. A calcium-channel blocker and vasodilator, it is used as the hydrochloride in the management of angina pectoris and hypertension.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:4602
database_cross_reference: Beilstein:3573079
database_cross_reference: ChemIDplus:42399-41-7
database_cross_reference: CiteXplore:11937779
database_cross_reference: CiteXplore:16651034
database_cross_reference: CiteXplore:19167257
database_cross_reference: CiteXplore:23687551
database_cross_reference: CiteXplore:24261918
database_cross_reference: CiteXplore:25122162
database_cross_reference: CiteXplore:8369596
database_cross_reference: DrugBank:DB00343
database_cross_reference: HMDB:HMDB14487
database_cross_reference: KEGG COMPOUND:42399-41-7
database_cross_reference: KEGG COMPOUND:C06958
database_cross_reference: KEGG DRUG:D07845
database_cross_reference: NIST Chemistry WebBook:42399-41-7
database_cross_reference: Patent:DE1805714
database_cross_reference: Patent:DE3415035
database_cross_reference: Patent:US3562257
database_cross_reference: Patent:US4552695
database_cross_reference: Reaxys:3573079
database_cross_reference: Wikipedia:Diltiazem
has_exact_synonym: (2S,3S)-5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydro-1,5-benzothiazepin-3-yl acetate
has_exact_synonym: DILTIAZEM
has_exact_synonym: Diltiazem
has_obo_namespace: chebi_ontology
has_related_synonym: (+)-cis-5-[2-(dimethylamino)ethyl]-2,3-dihydro-3-hydroxy-2-(p-methoxyphenyl)-1,5-benzothiazepin-4(5H)-one acetate ester
has_related_synonym: (2S,3S)-5-(2-(dimethylamino)ethyl)-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydrobenzo[b][1,4]thiazepin-3-yl acetate
has_related_synonym: (2S-cis)-3-(acetyloxy)-5-[2-(dimethylamino)ethyl]-2,3-dihydro-2-(4-methoxyphenyl)-1,5-benzothiazepin-4(5H)-one
has_related_synonym: Acetic acid (2S,3S)-5-(2-dimethylamino-ethyl)-2-(4-methoxy-phenyl)-4-oxo-2,3,4,5-tetrahydro-benzo[b][1,4]thiazepin-3-yl ester
has_related_synonym: C22H26N2O4S
has_related_synonym: D-cis-diltiazem
has_related_synonym: InChI=1S/C22H26N2O4S/c1-15(25)28-20-21(16-9-11-17(27-4)12-10-16)29-19-8-6-5-7-18(19)24(22(20)26)14-13-23(2)3/h5-12,20-21H,13-14H2,1-4H3/t20-,21+/m1/s1
has_related_synonym: InChIKey=HSUGRBWQSSZJOP-RTWAWAEBSA-N
has_related_synonym: d-cis-diltiazem
has_related_synonym: diltiazem
has_related_synonym: diltiazemum
id: CHEBI:101278

NAD
type: Class
subclass of: heteroarene
definition: Abbreviation for nicotinamide-adenine dinucleotide when its oxidation state is unknown or unspecified. It is used in metabolic pathways like glycolysis and citric acid cycle.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: HMDB:HMDB00902
database_cross_reference: Wikipedia:Nicotinamide_adenine_dinucleotide
has_exact_synonym: NAD
has_obo_namespace: chebi_ontology
has_related_synonym: nicotinamide-adenine dinucleotide
id: CHEBI:13389
in_subset: 3 STAR

17alpha-estradiol 3-glucosiduronic acid
type: Class
subclass of: organooxygen compound
definition: A steroid glucosiduronic acid having 17alpha-estradiol as the steroid component.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:14218
has_alternative_id: CHEBI:23962
has_alternative_id: CHEBI:4863
database_cross_reference: KEGG:C04300
has_exact_synonym: 17alpha-hydroxyestra-1,3,5(10)-trien-3-yl beta-D-glucopyranosiduronic acid
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 17alpha-estradiol 3-glucuronide
has_related_synonym: 448.210
has_related_synonym: 448.50610
has_related_synonym: C24H32O8
has_related_synonym: Estradiol-17alpha 3-D-glucuronoside
has_related_synonym: InChI=1S/C24H32O8/c1-24-9-8-14-13-5-3-12(10-11(13)2-4-15(14)16(24)6-7-17(24)25)31-23-20(28)18(26)19(27)21(32-23)22(29)30/h3,5,10,14-21,23,25-28H,2,4,6-9H2,1H3,(H,29,30)/t14-,15-,16+,17-,18+,19+,20-,21+,23-,24+/m1/s1
has_related_synonym: MUOHJTRCBBDUOW-FNUZHIFDSA-N
id: CHEBI:15822
in_subset: 3 STAR

polynucleotide
type: Class
subclass of: information biomacromolecule
definition: A nucleobase-containing molecular entity with a polymeric structure comprised of a linear sequence of 13 or more nucleotide residues.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13672
has_alternative_id: CHEBI:14859
has_alternative_id: CHEBI:8312
database_cross_reference: KEGG COMPOUND:C00419
has_exact_synonym: Polynucleotide
has_obo_namespace: chebi_ontology
has_related_synonym: C10H17O10PR2(C5H8O6PR)n
has_related_synonym: polynucleotides
id: CHEBI:15986

NADPH
type: Class
subclass of: heteroarene
definition: NADPH is the reduced form of NADP+; used in anabolic reactions, such as lipid and nucleic acid synthesis, which require NADPH as a reducing agent.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13399
has_alternative_id: CHEBI:13400
has_alternative_id: CHEBI:21904
has_alternative_id: CHEBI:44286
has_alternative_id: CHEBI:7425
database_cross_reference: Beilstein:77911
database_cross_reference: CAS:53-57-6
database_cross_reference: COMe:MOL000028
database_cross_reference: ECMDB:ECMDB04111
database_cross_reference: HMDB:HMDB00221
database_cross_reference: KEGG:C00005
database_cross_reference: KNApSAcK:C00019545
database_cross_reference: PDBeChem:NDP
database_cross_reference: PMID:16884311
database_cross_reference: PMID:17371809
database_cross_reference: PMID:8627598
database_cross_reference: YMDB:YMDB00426
has_exact_synonym: 2'-O-phosphonoadenosine 5'-{3-[1-(3-carbamoyl-1,4-dihydropyridin-1-yl)-1,4-anhydro-D-ribitol-5-yl] dihydrogen diphosphate}
has_exact_synonym: NADPH
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 745.091
has_related_synonym: 745.42116
has_related_synonym: ACFIXJIJDZMPPO-NNYOXOHSSA-N
has_related_synonym: C21H30N7O17P3
has_related_synonym: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
has_related_synonym: Reduced nicotinamide adenine dinucleotide phosphate
has_related_synonym: TPNH
has_related_synonym: dihydronicotinamide-adenine dinucleotide phosphate
has_related_synonym: reduced nicotinamide-adenine dinucleotide phosphate
id: CHEBI:16474
in_subset: 3 STAR

glutathione
type: Class
subclass of: organooxygen compound
definition: A tripeptide compound consisting of glutamic acid attached via its side chain to the N-terminus of cysteinylglycine.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:12402
has_alternative_id: CHEBI:14327
has_alternative_id: CHEBI:24334
has_alternative_id: CHEBI:42873
has_alternative_id: CHEBI:43049
has_alternative_id: CHEBI:5437
database_cross_reference: CAS:70-18-8
database_cross_reference: DrugBank:DB00143
database_cross_reference: Drug_Central:1312
database_cross_reference: HMDB:HMDB00125
database_cross_reference: KEGG:C00051
database_cross_reference: KEGG:D00014
database_cross_reference: KNApSAcK:C00001518
database_cross_reference: MetaCyc:GLUTATHIONE
database_cross_reference: PDBeChem:GSH
database_cross_reference: PMID:17439666
database_cross_reference: PMID:4200890
database_cross_reference: PMID:4745654
database_cross_reference: Reaxys:1729812
database_cross_reference: Wikipedia:Glutathione
has_exact_synonym: Glutathione
has_exact_synonym: L-gamma-glutamyl-L-cysteinylglycine
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 307.084
has_related_synonym: 307.32300
has_related_synonym: 5-L-Glutamyl-L-cysteinylglycine
has_related_synonym: C10H17N3O6S
has_related_synonym: GSH
has_related_synonym: Glutathione-SH
has_related_synonym: InChI=1S/C10H17N3O6S/c11-5(10(18)19)1-2-7(14)13-6(4-20)9(17)12-3-8(15)16/h5-6,20H,1-4,11H2,(H,12,17)(H,13,14)(H,15,16)(H,18,19)/t5-,6-/m0/s1
has_related_synonym: N-(N-gamma-L-Glutamyl-L-cysteinyl)glycine
has_related_synonym: RWSXRVCMGQZWBV-WDSKDSINSA-N
has_related_synonym: Reduced glutathione
has_related_synonym: gamma-L-Glutamyl-L-cysteinyl-glycine
id: CHEBI:16856
in_subset: 3 STAR

NADH
type: Class
subclass of: NAD
definition: A coenzyme found in all living cells; consists of two nucleotides joined through their 5'-phosphate groups, with one nucleotide containing an adenine base and the other containing nicotinamide.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13395
has_alternative_id: CHEBI:13396
has_alternative_id: CHEBI:21902
has_alternative_id: CHEBI:44216
has_alternative_id: CHEBI:7423
database_cross_reference: Beilstein:79324
database_cross_reference: CAS:58-68-4
database_cross_reference: COMe:MOL000027
database_cross_reference: DrugBank:DB00157
database_cross_reference: Gmelin:544241
database_cross_reference: HMDB:HMDB01487
database_cross_reference: KEGG:C00004
database_cross_reference: KNApSAcK:C00019343
database_cross_reference: PDBeChem:NAI
database_cross_reference: PMID:11259315
database_cross_reference: PMID:19459318
database_cross_reference: Reaxys:79324
database_cross_reference: Wikipedia:Nicotinamide_adenine_dinucleotide
has_exact_synonym: NADH
has_exact_synonym: adenosine 5'-{3-[1-(3-carbamoyl-1,4-dihydropyridin-1-yl)-1,4-anhydro-D-ribitol-5-yl] dihydrogen diphosphate}
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
has_related_synonym: 665.125
has_related_synonym: 665.44126
has_related_synonym: BOPGDPNILDQYTO-NNYOXOHSSA-N
has_related_synonym: C21H29N7O14P2
has_related_synonym: DPNH
has_related_synonym: Reduced nicotinamide adenine dinucleotide
has_related_synonym: nicotinamide adenine dinucleotide (reduced)
id: CHEBI:16908
in_subset: 3 STAR

UDP-alpha-D-glucuronic acid
type: Class
subclass of: heteroarene
definition: A UDP-sugar having alpha-D-glucuronic acid as the sugar component.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13489
has_alternative_id: CHEBI:13506
has_alternative_id: CHEBI:22104
has_alternative_id: CHEBI:46309
has_alternative_id: CHEBI:9846
database_cross_reference: Beilstein:78881
database_cross_reference: CAS:2616-64-0
database_cross_reference: HMDB:HMDB00935
database_cross_reference: KEGG:C00167
database_cross_reference: KEGG:G10612
database_cross_reference: KNApSAcK:C00007238
database_cross_reference: PDBeChem:UGA
database_cross_reference: PMID:11420884
database_cross_reference: PMID:13984680
database_cross_reference: PMID:14351193
database_cross_reference: Reaxys:78881
database_cross_reference: Wikipedia:Uridine_diphosphate_glucuronic_acid
has_exact_synonym: uridine 5'-[3-(alpha-D-glucopyranuronosyl) dihydrogen diphosphate]
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 580.034
has_related_synonym: 580.28538
has_related_synonym: C15H22N2O18P2
has_related_synonym: HDYANYHVCAPMJV-LXQIFKJMSA-N
has_related_synonym: UDP-D-glucuronate
has_related_synonym: UDP-alpha-D-glucuronate
has_related_synonym: UDP-glucuronate
has_related_synonym: UDPglucuronate
has_related_synonym: URIDINE-5'-DIPHOSPHATE-GLUCURONIC ACID
has_related_synonym: uridine diphosphate glucuronic acid
id: CHEBI:17200
in_subset: 3 STAR

3'-phospho-5'-adenylyl sulfate
type: Class
subclass of: ester
definition: An adenosine bisphosphate having monophosphate groups at the 3'- and 5'-positions and a sulfo group attached to the phosphate at position 5'.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:11679
has_alternative_id: CHEBI:11680
has_alternative_id: CHEBI:1353
has_alternative_id: CHEBI:19857
database_cross_reference: CAS:482-67-7
database_cross_reference: KEGG:C00053
database_cross_reference: KNApSAcK:C00007446
database_cross_reference: PDBeChem:PPS
has_exact_synonym: 3'-O-phosphono-5'-adenylyl sulfate
has_exact_synonym: 3'-Phospho-5'-adenylyl sulfate
has_exact_synonym: 3'-phospho-5'-adenylyl sulfate
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 3'-Phosphoadenosine 5'-phosphosulfate
has_related_synonym: 3'-Phosphoadenylyl sulfate
has_related_synonym: 3'-phosphoadenosine 5'-phosphosulfate
has_related_synonym: 506.986
has_related_synonym: 507.26552
has_related_synonym: C10H15N5O13P2S
has_related_synonym: GACDQMDRPRGCTN-KQYNXXCUSA-N
has_related_synonym: PAPS
id: CHEBI:17980
in_subset: 3 STAR

delta-lactone
type: Class
subclass of: lactone
definition: A lactone having a six-membered lactone ring.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: delta-lactone
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: 1,5-lactone
has_related_synonym: 1,5-lactones
has_related_synonym: delta-lactona
has_related_synonym: delta-lactonas
has_related_synonym: delta-lactones
id: CHEBI:18946

benzimidazoles
type: Class
subclass of: organic heterobicyclic compound
definition: An organic heterocyclic compound containing a benzene ring fused to an imidazole ring.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
id: CHEBI:22715
in_subset: 3 STAR

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.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: molecular entity
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: entidad molecular
has_related_synonym: entidades moleculares
has_related_synonym: entite moleculaire
has_related_synonym: molecular entities
has_related_synonym: molekulare Entitaet
id: CHEBI:23367

diazole
type: Class
subclass of: azole
definition: An azole that is either one of a pair of heterocyclic organic compounds comprising three carbon atoms and two nitrogen atoms arranged in a ring.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: diazoles
id: CHEBI:23677

estradiol
type: Class
subclass of: organic cyclic compound
definition: A 3-hydroxy steroid that is estra-1,3,5(10)-triene substituted by hydroxy groups at positions 3 and 17.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:42364
database_cross_reference: PMID:10696569
database_cross_reference: PMID:24084694
database_cross_reference: Wikipedia:Estradiol
has_exact_synonym: estra-1,3,5(10)-triene-3,17-diol
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 272.178
has_related_synonym: 272.38196
has_related_synonym: C18H24O2
has_related_synonym: InChI=1S/C18H24O2/c1-18-9-8-14-13-5-3-12(19)10-11(13)2-4-15(14)16(18)6-7-17(18)20/h3,5,10,14-17,19-20H,2,4,6-9H2,1H3/t14-,15-,16+,17?,18+/m1/s1
has_related_synonym: VOXZDWNPVJITMN-WKUFJEKOSA-N
has_related_synonym: oestradiol
id: CHEBI:23965
in_subset: 3 STAR

chemical entity
type: Class
subclass of: BFO_0000040

biological role
type: Class
subclass of: BFO_0000023
definition: A role played by the molecular entity or part thereof within a biological context.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: biological function
has_related_synonym: grouped_by_functions
id: CHEBI:24432

organic heterocyclic compound
type: Class
subclass of: organic cyclic compound
definition: A cyclic compound having as ring members atoms of carbon and at least of one other element.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: ChEBI:C03123
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: organic heterocycle
has_related_synonym: organic heterocyclic compounds
id: CHEBI:24532

hydroxy carboxylic acid
type: Class
subclass of: carboxylic acid
definition: Any carboxylic acid with at least one hydroxy group.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: hydroxy carboxylic acids
has_related_synonym: hydroxyacids
id: CHEBI:24669

imidazoles
type: Class
subclass of: diazole
definition: A five-membered organic heterocycle containing two nitrogen atoms at positions 1 and 3, or any of its derivatives; compounds containing an imidazole skeleton.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: imidazoles
has_obo_namespace: chebi_ontology
id: CHEBI:24780

lactone
type: Class
subclass of: carboxylic ester
definition: Any cyclic carboxylic ester containing a 1-oxacycloalkan-2-one structure, or an analogue having unsaturation or heteroatoms replacing one or more carbon atoms of the ring.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: lactone
has_exact_synonym: lactones
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: Lacton
has_related_synonym: Lakton
has_related_synonym: Laktone
has_related_synonym: lactona
has_related_synonym: lactonas
id: CHEBI:25000

metabolite
type: Class
subclass of: BFO_0000023
definition: Any intermediate or product resulting from metabolism. The term 'metabolite' subsumes the classes commonly known as primary and secondary metabolites.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:26619
has_alternative_id: CHEBI:35220
has_exact_synonym: metabolite
has_obo_namespace: chebi_ontology
has_related_synonym: metabolites
has_related_synonym: primary metabolites
has_related_synonym: secondary metabolites
id: CHEBI:25212

phenoxazine
type: Class
subclass of: organic heterotricyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: phenoxazines
id: CHEBI:25970
in_subset: 3 STAR

amiodarone
type: Class
subclass of: 1-benzofurans
definition: An organoiodine compound that has formula C25H29I2NO3.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:1271711
database_cross_reference: ChemIDplus:1951-25-3
database_cross_reference: DrugBank:DB01118
database_cross_reference: KEGG COMPOUND:1951-25-3
database_cross_reference: KEGG COMPOUND:C06823
database_cross_reference: KEGG DRUG:D02910
database_cross_reference: Wikipedia:Amiodarone
has_exact_synonym: (2-butyl-1-benzofuran-3-yl){4-[2-(diethylamino)ethoxy]-3,5-diiodophenyl}methanone
has_exact_synonym: Amiodarone
has_obo_namespace: chebi_ontology
has_related_synonym: 2-Butyl-3-(3,5-diiodo-4-(2-diethylaminoethoxy)benzoyl)benzofuran
has_related_synonym: 2-Butyl-3-benzofuranyl 4-(2-(diethylamino)ethoxy)-3,5-diiodophenyl ketone
has_related_synonym: 2-n-Butyl-3',5'-diiodo-4'-N-diethylaminoethoxy-3-benzoylbenzofuran
has_related_synonym: C25H29I2NO3
has_related_synonym: InChI=1S/C25H29I2NO3/c1-4-7-11-22-23(18-10-8-9-12-21(18)31-22)24(29)17-15-19(26)25(20(27)16-17)30-14-13-28(5-2)6-3/h8-10,12,15-16H,4-7,11,13-14H2,1-3H3
has_related_synonym: InChIKey=IYIKLHRQXLHMJQ-UHFFFAOYSA-N
id: CHEBI:2663

organic heterotricyclic compound
type: Class
subclass of: organic heteropolycyclic compound
definition: An organic tricyclic compound in which at least one of the rings of the tricyclic skeleton contains one or more heteroatoms.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: heterotricyclic compounds
has_related_synonym: organic heterotricyclic compounds
id: CHEBI:26979

organic heterobicyclic compound
type: Class
subclass of: organic heteropolycyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: heterobicyclic compounds
has_related_synonym: organic heterobicyclic compounds
has_related_synonym: two-ring heterocyclic compounds
id: CHEBI:27171

tolbutamide
type: Class
subclass of: p-block molecular entity
definition: An N-sulfonylurea that consists of 1-butylurea having a tosyl group attached at the 3-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:27019
has_alternative_id: CHEBI:9616
database_cross_reference: CAS:64-77-7
database_cross_reference: DrugBank:DB01124
database_cross_reference: Drug_Central:2696
database_cross_reference: KEGG:C07148
database_cross_reference: KEGG:D00380
database_cross_reference: LINCS:LSM-3907
database_cross_reference: PMID:11835228
database_cross_reference: PMID:11840346
database_cross_reference: PMID:11911494
database_cross_reference: PMID:12042355
database_cross_reference: PMID:12355256
database_cross_reference: PMID:15207658
database_cross_reference: PMID:15317941
database_cross_reference: PMID:15620874
database_cross_reference: PMID:15655519
database_cross_reference: PMID:16290322
database_cross_reference: PMID:16426753
database_cross_reference: PMID:19059420
database_cross_reference: PMID:20880646
database_cross_reference: PMID:21178111
database_cross_reference: PMID:21193530
database_cross_reference: PMID:21471135
database_cross_reference: PMID:21535124
database_cross_reference: PMID:21712613
database_cross_reference: PMID:21757329
database_cross_reference: PMID:21827497
database_cross_reference: PMID:21831467
database_cross_reference: PMID:22028182
database_cross_reference: PMID:22079696
database_cross_reference: Patent:DE1066575
database_cross_reference: Patent:GB808071
database_cross_reference: Patent:US2968158
database_cross_reference: Reaxys:1984428
database_cross_reference: Wikipedia:Tolbutamide
has_exact_synonym: N-[(butylamino)carbonyl]-4-methylbenzenesulfonamide
has_exact_synonym: Tolbutamide
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 1-Butyl-3-(p-methylphenylsulfonyl)urea
has_related_synonym: 1-Butyl-3-(p-tolylsulfonyl)urea
has_related_synonym: 1-Butyl-3-tosylurea
has_related_synonym: 1-p-Toluenesulfonyl-3-butylurea
has_related_synonym: 270.104
has_related_synonym: 270.34800
has_related_synonym: 3-(p-Tolyl-4-sulfonyl)-1-butylurea
has_related_synonym: C12H18N2O3S
has_related_synonym: CCCCNC(=O)NS(=O)(=O)c1ccc(C)cc1
has_related_synonym: InChI=1S/C12H18N2O3S/c1-3-4-9-13-12(15)14-18(16,17)11-7-5-10(2)6-8-11/h5-8H,3-4,9H2,1-2H3,(H2,13,14,15)
has_related_synonym: JLRGJRBPOGGCBT-UHFFFAOYSA-N
has_related_synonym: N-(4-Methylbenzenesulfonyl)-N'-butylurea
has_related_synonym: N-(4-Methylphenylsulfonyl)-N'-butylurea
has_related_synonym: N-(Sulfonyl-p-methylbenzene)-N'-N-butylurea
has_related_synonym: N-(p-Methylbenzenesulfonyl)-N'-butylurea
has_related_synonym: N-Butyl-N'-(4-methylphenylsulfonyl)urea
has_related_synonym: N-Butyl-N'-(p-tolylsulfonyl)urea
has_related_synonym: N-Butyl-N'-p-toluenesulfonylurea
has_related_synonym: N-n-Butyl-N'-tosylurea
has_related_synonym: Orinase (TN)
has_related_synonym: Tolylsulfonylbutylurea
has_related_synonym: tolbutamida
has_related_synonym: tolbutamide
has_related_synonym: tolbutamidum
id: CHEBI:27999
in_subset: 3 STAR

coumarin
type: Class
subclass of: organic heteropolycyclic compound
definition: A chromenone having the keto group located at the 2-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:101256
has_alternative_id: CHEBI:23402
has_alternative_id: CHEBI:3906
has_alternative_id: CHEBI:41552
database_cross_reference: Beilstein:383644
database_cross_reference: CAS:91-64-5
database_cross_reference: DrugBank:DB04665
database_cross_reference: Drug_Central:738
database_cross_reference: Gmelin:165222
database_cross_reference: HMDB:HMDB01218
database_cross_reference: KEGG:C05851
database_cross_reference: KEGG:D07751
database_cross_reference: KNApSAcK:C00002460
database_cross_reference: LINCS:LSM-2519
database_cross_reference: MetaCyc:COUMARIN
database_cross_reference: PMID:17988284
database_cross_reference: PMID:19025869
database_cross_reference: PMID:21046436
database_cross_reference: PMID:21462332
database_cross_reference: PMID:21798343
database_cross_reference: PMID:8735869
database_cross_reference: Reaxys:383644
database_cross_reference: Wikipedia:Coumarin
has_exact_synonym: 2H-chromen-2-one
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 1,2-Benzopyrone
has_related_synonym: 146.037
has_related_synonym: 146.14270
has_related_synonym: 146.143
has_related_synonym: 2-Propenoic acid, 3-(2-hydroxyphenyl)-, d-lactone
has_related_synonym: 2-Propenoic acid, 3-(2-hydroxyphenyl)-, delta-lactone
has_related_synonym: 2H-1-Benzopyran-2-one
has_related_synonym: 2H-benzo[b]pyran-2-one
has_related_synonym: 5,6-Benzo-2-pyrone
has_related_synonym: Benzo-a-pyrone
has_related_synonym: Benzo-alpha-pyrone
has_related_synonym: C9H6O2
has_related_synonym: C=1C=CC=C2C1C=CC(=O)O2
has_related_synonym: Coumarine
has_related_synonym: Coumarinic anhydride
has_related_synonym: Cumarin
has_related_synonym: InChI=1S/C9H6O2/c10-9-6-5-7-3-1-2-4-8(7)11-9/h1-6H
has_related_synonym: Rattex
has_related_synonym: Tonka bean camphor
has_related_synonym: ZYGHJZDHTFUPRJ-UHFFFAOYSA-N
has_related_synonym: cis-o-Coumarinic acid lactone
has_related_synonym: o-Hydroxycinnamic acid lactone
has_related_synonym: o-hydroxycinnamic acid delta-lactone
id: CHEBI:28794
in_subset: 3 STAR

dextrorphan
type: Class
subclass of: heteroorganic entity
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:88093
database_cross_reference: CAS:125-73-5
database_cross_reference: LINCS:LSM-36603
has_exact_synonym: 17-methyl-9alpha,13alpha,14alpha-morphinan-3-ol
has_obo_namespace: chebi_ontology
has_related_synonym: (+)-3-hydroxy-N-methylmorphinan
has_related_synonym: 0
has_related_synonym: 257.178
has_related_synonym: 257.37066
has_related_synonym: C17H23NO
has_related_synonym: InChI=1S/C17H23NO/c1-18-9-8-17-7-3-2-4-14(17)16(18)10-12-5-6-13(19)11-15(12)17/h5-6,11,14,16,19H,2-4,7-10H2,1H3/t14-,16+,17+/m1/s1
has_related_synonym: JAQUASYNZVUNQP-PVAVHDDUSA-N
has_related_synonym: d-3-hydroxy-N-methylmorphinan
has_related_synonym: dextrorphan
has_related_synonym: dextrorphane
has_related_synonym: dextrorphanum
id: CHEBI:29133
in_subset: 3 STAR

bupropion
type: Class
subclass of: organic cyclic compound
definition: A propanone that is propan-1-one substituted by a tert-butylamino group at position 2 and a 3-chlorophenyl group at position 1.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:2101062
database_cross_reference: CAS:34841-39-9
database_cross_reference: CAS:34911-55-2
database_cross_reference: DrugBank:DB01156
database_cross_reference: Drug_Central:435
database_cross_reference: HMDB:HMDB01510
database_cross_reference: KEGG:C06860
database_cross_reference: KEGG:D07591
database_cross_reference: LINCS:LSM-1267
database_cross_reference: MetaCyc:CPD-3481
database_cross_reference: PMID:12826985
database_cross_reference: PMID:15876900
database_cross_reference: Reaxys:2101062
database_cross_reference: Wikipedia:Bupropion
has_exact_synonym: 2-(tert-butylamino)-1-(3-chlorophenyl)propan-1-one
has_exact_synonym: Bupropion
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 239.108
has_related_synonym: 239.74086
has_related_synonym: C13H18ClNO
has_related_synonym: CC(NC(C)(C)C)C(=O)c1cccc(Cl)c1
has_related_synonym: InChI=1S/C13H18ClNO/c1-9(15-13(2,3)4)12(16)10-6-5-7-11(14)8-10/h5-9,15H,1-4H3
has_related_synonym: SNPPWIUOZRMYNY-UHFFFAOYSA-N
id: CHEBI:3219
in_subset: 3 STAR

coordination entity
type: Class
subclass of: heteroatomic molecular entity
definition: An assembly consisting of a central atom (usually metallic) to which is attached a surrounding array of other groups of atoms (ligands).
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: coordination entities
has_exact_synonym: coordination entity
has_obo_namespace: chebi_ontology
has_related_synonym: coordination compounds
id: CHEBI:33240
in_subset: 3 STAR

heteroorganic entity
type: Class
subclass of: organic molecular entity
definition: A heteroorganic entity is an organic molecular entity in which carbon atoms or organic groups are bonded directly to one or more heteroatoms.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: heteroorganic entities
has_related_synonym: organoelement compounds
id: CHEBI:33285

carboxylic ester
type: Class
subclass of: ester
definition: An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13204
has_alternative_id: CHEBI:23028
has_alternative_id: CHEBI:3408
database_cross_reference: KEGG COMPOUND:C02391
database_cross_reference: Wikipedia:Ester
has_exact_synonym: Carboxylic ester
has_exact_synonym: carboxylic esters
has_obo_namespace: chebi_ontology
has_related_synonym: CO2R2
has_related_synonym: [*]C(=O)O[*]
has_related_synonym: a carboxylic ester
has_related_synonym: carboxylic acid esters
id: CHEBI:33308

carboxylic acid
type: Class
subclass of: carbon oxoacid
definition: A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13428
has_alternative_id: CHEBI:13627
has_alternative_id: CHEBI:23027
database_cross_reference: CiteXplore:17147560
database_cross_reference: CiteXplore:18433345
has_exact_synonym: carboxylic acid
has_exact_synonym: carboxylic acids
has_obo_namespace: chebi_ontology
has_related_synonym: CHO2R
has_related_synonym: Carbonsaeure
has_related_synonym: Carbonsaeuren
has_related_synonym: Karbonsaeure
has_related_synonym: OC([*])=O
has_related_synonym: RC(=O)OH
has_related_synonym: acide carboxylique
has_related_synonym: acides carboxyliques
has_related_synonym: acido carboxilico
has_related_synonym: acidos carboxilicos
id: CHEBI:33575

main group molecular entity
type: Class
subclass of: molecular entity
definition: A molecular entity containing one or more atoms from any of groups 1, 2, 13, 14, 15, 16, 17, and 18 of the periodic table.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: main group compounds
has_related_synonym: main group molecular entities
id: CHEBI:33579

carbon group molecular entity
type: Class
subclass of: p-block molecular entity
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: carbon group molecular entity
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: carbon group molecular entities
id: CHEBI:33582

p-block molecular entity
type: Class
subclass of: main group molecular entity
definition: A p-block molecular entity is a molecular entity containing one or more atoms of a p-block element.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: p-block compounds
has_related_synonym: p-block molecular entities
has_related_synonym: p-block molecular entitiy
id: CHEBI:33675

biomacromolecule
type: Class
subclass of: macromolecule
definition: A macromolecule formed by a living organism.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: biopolymer
has_obo_namespace: chebi_ontology
has_related_synonym: Biopolymere
has_related_synonym: biomacromolecules
has_related_synonym: biopolymers
id: CHEBI:33694

information biomacromolecule
type: Class
subclass of: biomacromolecule
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: genetically encoded biomacromolecules
has_related_synonym: genetically encoded biopolymers
has_related_synonym: information biomacromolecules
has_related_synonym: information biopolymers
has_related_synonym: information macromolecule
has_related_synonym: information macromolecules
id: CHEBI:33695

nucleic acid
type: Class
subclass of: polynucleotide
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.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: nucleic acids
has_obo_namespace: chebi_ontology
has_related_synonym: NA
has_related_synonym: Nukleinsaeure
has_related_synonym: Nukleinsaeuren
has_related_synonym: acide nucleique
has_related_synonym: acides nucleiques
has_related_synonym: acido nucleico
has_related_synonym: acidos nucleicos
id: CHEBI:33696

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.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: ChemIDplus:63231-63-0
has_exact_synonym: ribonucleic acid
has_exact_synonym: ribonucleic acids
has_obo_namespace: chebi_ontology
has_related_synonym: RNA
has_related_synonym: RNS
has_related_synonym: Ribonukleinsaeure
has_related_synonym: pentosenucleic acids
has_related_synonym: ribonucleic acids
has_related_synonym: ribose nucleic acid
has_related_synonym: yeast nucleic acid
id: CHEBI:33697

organic cyclic compound
type: Class
subclass of: organic molecule
definition: Any organic molecule that consists of atoms connected in the form of a ring.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: organic cyclic compounds
id: CHEBI:33832

heteroarene
type: Class
subclass of: organic heterocyclic compound
definition: A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2).
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: heteroarenes
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: hetarenes
id: CHEBI:33833

macromolecule
type: Class
subclass of: polyatomic 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.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Wikipedia:Macromolecule
has_exact_synonym: macromolecule
has_obo_namespace: chebi_ontology
has_related_synonym: macromolecules
has_related_synonym: polymer
has_related_synonym: polymer molecule
has_related_synonym: polymers
id: CHEBI:33839

magnesium coordination entity
type: Class
subclass of: alkaline earth coordination entity
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: magnesium coordination entity
has_obo_namespace: chebi_ontology
has_related_synonym: magnesium coordination compounds
has_related_synonym: magnesium coordination entities
id: CHEBI:33976
in_subset: 3 STAR

6beta-hydroxytestosterone
type: Class
subclass of: organooxygen compound
definition: A 17beta-hydroxy steroid that is testosterone bearing an additional hydroxy substituent at the 6beta-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:63819
database_cross_reference: CAS:62-99-7
database_cross_reference: HMDB:HMDB06259
database_cross_reference: KEGG:C14497
database_cross_reference: LIPID_MAPS_instance:LMST02020054
database_cross_reference: PMID:10574192
database_cross_reference: PMID:15203039
database_cross_reference: PMID:22822673
database_cross_reference: Reaxys:2625776
has_exact_synonym: 6beta,17beta-dihydroxyandrost-4-en-3-one
has_exact_synonym: 6beta-Hydroxytestosterone
has_obo_namespace: chebi_ontology
has_related_synonym: (6beta,17beta)-6,17-dihydroxyandrost-4-en-3-one
has_related_synonym: 0
has_related_synonym: 304.204
has_related_synonym: 304.42380
has_related_synonym: 4-androsten-6beta,17beta-diol-3-one
has_related_synonym: 6beta,17beta-Dihydroxyandrost-4-en-3-one
has_related_synonym: 6beta,17beta-dihydroxy-4-androsten-3-one
has_related_synonym: 6beta,17beta-dihydroxyandrost-4-en-3-one
has_related_synonym: C19H28O3
has_related_synonym: InChI=1S/C19H28O3/c1-18-7-5-11(20)9-15(18)16(21)10-12-13-3-4-17(22)19(13,2)8-6-14(12)18/h9,12-14,16-17,21-22H,3-8,10H2,1-2H3/t12-,13-,14-,16+,17-,18+,19-/m0/s1
has_related_synonym: XSEGWEUVSZRCBC-ZVBLRVHNSA-N
id: CHEBI:34477
in_subset: 3 STAR

7-ethoxyresorufin
type: Class
subclass of: phenoxazine
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:225973
database_cross_reference: CAS:5725-91-7
database_cross_reference: KEGG:C13630
has_exact_synonym: 7-Ethoxyresorufin
has_exact_synonym: 7-ethoxy-3H-phenoxazin-3-one
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 241.074
has_related_synonym: 241.24208
has_related_synonym: 7-Ethoxyphenoxazone
has_related_synonym: C14H11NO3
has_related_synonym: CCOc1ccc2nc3ccc(=O)cc3oc2c1
has_related_synonym: CRCWUBLTFGOMDD-UHFFFAOYSA-N
has_related_synonym: Ethoxyresorufin
has_related_synonym: InChI=1S/C14H11NO3/c1-2-17-10-4-6-12-14(8-10)18-13-7-9(16)3-5-11(13)15-12/h3-8H,2H2,1H3
has_related_synonym: Resorufin ethyl ether
id: CHEBI:34480
in_subset: 3 STAR

Bufuralol
type: Class
subclass of: benzofurans
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:54340-62-4
database_cross_reference: Drug_Central:424
database_cross_reference: KEGG:C13769
has_exact_synonym: Bufuralol
has_obo_namespace: chebi_ontology
has_related_synonym: (+/-)-Bufuralol
has_related_synonym: 0
has_related_synonym: 261.173
has_related_synonym: 261.360
has_related_synonym: C16H23NO2
has_related_synonym: CCc1cccc2cc(oc12)C(O)CNC(C)(C)C
has_related_synonym: InChI=1S/C16H23NO2/c1-5-11-7-6-8-12-9-14(19-15(11)12)13(18)10-17-16(2,3)4/h6-9,13,17-18H,5,10H2,1-4H3
has_related_synonym: SSEBTPPFLLCUMN-UHFFFAOYSA-N
has_related_synonym: dl-Bufuralol
id: CHEBI:34593
in_subset: 2 STAR

metalloprotein
type: Class
subclass of: protein
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: COMe:PRX000002
has_exact_synonym: metalloprotein
has_obo_namespace: chebi_ontology
has_related_synonym: metalloproteine
has_related_synonym: metalloproteins
id: CHEBI:35134

iron protein
type: Class
subclass of: metalloprotein
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: COMe:PRX000004
has_exact_synonym: iron protein
has_obo_namespace: chebi_ontology
has_related_synonym: iron proteins
has_related_synonym: iron-containing proteins
id: CHEBI:35136

hemoprotein
type: Class
subclass of: iron protein
definition: Conjugated proteins containing heme as the prosthetic group.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: COMe:PRX000008
has_exact_synonym: hemoprotein
has_obo_namespace: chebi_ontology
has_related_synonym: Haemoprotein
has_related_synonym: Haemprotein
has_related_synonym: haem protein
has_related_synonym: haemoprotein
has_related_synonym: heme protein
has_related_synonym: hemeproteins
has_related_synonym: hemoproteins
id: CHEBI:35137

alkaline earth coordination entity
type: Class
subclass of: main-group coordination entity
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: alkaline earth coordination entity
has_obo_namespace: chebi_ontology
has_related_synonym: alkaline earth coordination compounds
has_related_synonym: alkaline earth coordination entities
id: CHEBI:35217
in_subset: 3 STAR

inhibitor
type: Class
subclass of: biological role
definition: A substance that diminishes the rate of a chemical reaction.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: inhibitor
has_obo_namespace: chebi_ontology
has_related_synonym: inhibidor
has_related_synonym: inhibiteur
has_related_synonym: inhibitors
id: CHEBI:35222

benzofurans
type: Class
subclass of: organic heteropolycyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:22721
has_exact_synonym: benzofurans
has_obo_namespace: chebi_ontology
id: CHEBI:35259

triazolobenzodiazepine
type: Class
subclass of: organic heterotricyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: triazolobenzodiazepines
id: CHEBI:35501

carbon oxoacid
type: Class
subclass of: organooxygen compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: carbon oxoacids
has_related_synonym: oxoacids of carbon
id: CHEBI:35605

ester
type: Class
subclass of: organooxygen compound
definition: A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:23960
has_alternative_id: CHEBI:4859
database_cross_reference: KEGG COMPOUND:C00287
has_exact_synonym: Ester
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: [*]OC([*])=O
has_related_synonym: esters
id: CHEBI:35701

hydroxy monocarboxylic acid
type: Class
subclass of: hydroxy carboxylic acid
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: hydroxy acid
has_related_synonym: hydroxy monocarboxylic acids
id: CHEBI:35868

dihydroxy monocarboxylic acid
type: Class
subclass of: hydroxy monocarboxylic acid
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: dihydroxy monocarboxylic acids
id: CHEBI:35972

heme-thiolate protein
type: Class
subclass of: hemoprotein
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: COMe:PRX000150
has_obo_namespace: chebi_ontology
has_related_synonym: haem-thiolate protein
has_related_synonym: heme-thiolate proteins
id: CHEBI:36074

protein
type: Class
subclass of: information biomacromolecule
definition: A biological macromolecule minimally consisting of one polypeptide chain synthesized at the ribosome.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:13677
has_alternative_id: CHEBI:14911
has_exact_synonym: proteins
has_obo_namespace: chebi_ontology
id: CHEBI:36080

polyatomic entity
type: Class
subclass of: molecular entity
definition: Any molecular entity consisting of more than one atom.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: polyatomic entities
id: CHEBI:36357

chlorzoxazone
type: Class
subclass of: organic heterobicyclic compound
definition: A member of the class of 1,3-benzoxazoles that is 1,3-benzoxazol-2-ol in which the hydrogen atom at position 5 is substituted by chlorine. A centrally acting muscle relaxant with sedative properties, it is used for the symptomatic treatment of painful muscle spasm.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:47330
database_cross_reference: Beilstein:638882
database_cross_reference: CAS:95-25-0
database_cross_reference: DrugBank:DB00356
database_cross_reference: Drug_Central:626
database_cross_reference: HMDB:HMDB14500
database_cross_reference: KEGG:C07931
database_cross_reference: KEGG:D00771
database_cross_reference: LINCS:LSM-6011
database_cross_reference: PDBeChem:CLW
database_cross_reference: PMID:10640318
database_cross_reference: PMID:11727787
database_cross_reference: PMID:12437348
database_cross_reference: PMID:16763012
database_cross_reference: PMID:16859676
database_cross_reference: PMID:17621748
database_cross_reference: PMID:21195386
database_cross_reference: PMID:23975871
database_cross_reference: PMID:24210069
database_cross_reference: PMID:25815637
database_cross_reference: PMID:6631711
database_cross_reference: Patent:US2895877
database_cross_reference: Reaxys:638882
database_cross_reference: Wikipedia:Chlorzoxazone
has_exact_synonym: 5-chloro-1,3-benzoxazol-2-ol
has_exact_synonym: CHLORZOXAZONE
has_exact_synonym: Chlorzoxazone
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 168.993
has_related_synonym: 169.56500
has_related_synonym: 2-hydroxy-5-chlorobenzoxazole
has_related_synonym: 5-chloro-2(3H)-benzoxazolone
has_related_synonym: 5-chloro-2-benzoxazolinone
has_related_synonym: 5-chloro-2-benzoxazolol
has_related_synonym: 5-chloro-2-benzoxazolone
has_related_synonym: 5-chloro-2-hydroxybenzoxazole
has_related_synonym: 5-chlorobenzoxazolidone
has_related_synonym: 5-chlorobenzoxazolin-2-one
has_related_synonym: C7H4ClNO2
has_related_synonym: InChI=1S/C7H4ClNO2/c8-4-1-2-6-5(3-4)9-7(10)11-6/h1-3H,(H,9,10)
has_related_synonym: Oc1nc2cc(Cl)ccc2o1
has_related_synonym: TZFWDZFKRBELIQ-UHFFFAOYSA-N
has_related_synonym: chlorzoxane
has_related_synonym: chlorzoxazona
has_related_synonym: chlorzoxazone
has_related_synonym: chlorzoxazonum
id: CHEBI:3655
in_subset: 3 STAR

main-group coordination entity
type: Class
subclass of: coordination entity
definition: A coordination entity in which the central atom to which the ligands are attached comes from groups 1, 2, 13, 14, 15, 16, 17, or 18 of the periodic table.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: main group coordination compounds
has_related_synonym: main-group coordination entities
id: CHEBI:36562
in_subset: 3 STAR

organochalcogen compound
type: Class
subclass of: heteroorganic entity
definition: An organochalcogen compound is a compound containing at least one carbon-chalcogen bond.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: organochalcogen compound
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: organochalcogen compounds
id: CHEBI:36962

organooxygen compound
type: Class
subclass of: organochalcogen compound
definition: An organochalcogen compound containing at least one carbon-oxygen bond.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CiteXplore:17586126
has_exact_synonym: organooxygen compound
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: organooxygen compounds
id: CHEBI:36963

heteroatomic molecular entity
type: Class
subclass of: polyatomic entity
definition: A molecular entity consisting of two or more chemical elements.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: chemical compound
has_related_synonym: heteroatomic molecular entities
id: CHEBI:37577
in_subset: 3 STAR

organic heterotetracyclic compound
type: Class
subclass of: organic heteropolycyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: organic heterotetracyclic compounds
id: CHEBI:38163
in_subset: 3 STAR

organic heteropolycyclic compound
type: Class
subclass of: organic heterocyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:25429
has_alternative_id: CHEBI:38075
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: multi-ring heterocyclic compounds
has_related_synonym: organic heteropolycyclic compounds
id: CHEBI:38166

monocyclic heteroarene
type: Class
subclass of: heteroarene
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: monocyclic heteroarenes
id: CHEBI:38179

rosuvastatin
type: Class
subclass of: dihydroxy monocarboxylic acid
definition: A dihydroxy monocarboxylic acid that is (6E)-7-{4-(4-fluorophenyl)-2-[methyl(methylsulfonyl)amino]-6-(propan-2-yl)pyrimidin-5-yl} hept-6-enoic acid carrying two hydroxy substituents at positions 3 and 5 (the 3R,5S-diastereomer).
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:9670765
database_cross_reference: ChemIDplus:287714-41-4
database_cross_reference: CiteXplore:17970755
database_cross_reference: CiteXplore:18509206
database_cross_reference: CiteXplore:19724024
database_cross_reference: CiteXplore:19956889
database_cross_reference: CiteXplore:23806820
database_cross_reference: CiteXplore:23881596
database_cross_reference: CiteXplore:23944632
database_cross_reference: CiteXplore:24072337
database_cross_reference: CiteXplore:24076283
database_cross_reference: CiteXplore:24076297
database_cross_reference: CiteXplore:24156555
database_cross_reference: CiteXplore:24163149
database_cross_reference: CiteXplore:24230979
database_cross_reference: CiteXplore:24253250
database_cross_reference: CiteXplore:24259612
database_cross_reference: CiteXplore:24304551
database_cross_reference: CiteXplore:24333476
database_cross_reference: CiteXplore:24353409
database_cross_reference: CiteXplore:24410968
database_cross_reference: CiteXplore:24417785
database_cross_reference: CiteXplore:24434545
database_cross_reference: CiteXplore:24440231
database_cross_reference: CiteXplore:24440960
database_cross_reference: CiteXplore:24444439
database_cross_reference: CiteXplore:24452083
database_cross_reference: CiteXplore:24456217
database_cross_reference: CiteXplore:24467235
database_cross_reference: DrugBank:DB01098
database_cross_reference: HMDB:HMDB15230
database_cross_reference: KEGG DRUG:D08492
database_cross_reference: Patent:US2013035316
database_cross_reference: Reaxys:9670765
database_cross_reference: Wikipedia:Rosuvastatin
has_exact_synonym: (3R,5S,6E)-7-{4-(4-fluorophenyl)-2-[methyl(methylsulfonyl)amino]-6-(propan-2-yl)pyrimidin-5-yl}-3,5-dihydroxyhept-6-enoic acid
has_obo_namespace: chebi_ontology
has_related_synonym: (3R,5S,6E)-7-(4-(4-fluorophenyl)-6-(1-methylethyl)-2-(ethyl(methylsulfonyl)amino)-5-pyrimidinyl)-3,5-dihydroxy-6-heptenoic acid
has_related_synonym: (3R,5S,6E)-7-{4-(4-fluorophenyl)-6-isopropyl-2-[methyl(methylsulfonyl)amino]pyrimidin-5-yl}-3,5-dihydroxyhept-6-enoic acid
has_related_synonym: C22H28FN3O6S
has_related_synonym: InChI=1S/C22H28FN3O6S/c1-13(2)20-18(10-9-16(27)11-17(28)12-19(29)30)21(14-5-7-15(23)8-6-14)25-22(24-20)26(3)33(4,31)32/h5-10,13,16-17,27-28H,11-12H2,1-4H3,(H,29,30)/b10-9+/t16-,17-/m1/s1
has_related_synonym: InChIKey=BPRHUIZQVSMCRT-VEUZHWNKSA-N
has_related_synonym: rosuvastatin
id: CHEBI:38545

cytochrome P450
type: Class
subclass of: heme-thiolate protein
subclass of: Restriction
  on property: RO_0000085
  some values from: catalytic activity
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: COMe:PRX000645
has_exact_synonym: cytochrome P450
has_obo_namespace: chebi_ontology
has_related_synonym: CYP
has_related_synonym: P450 protein
has_related_synonym: cytochrome P-450
id: CHEBI:38559

fluvastatin
type: Class
subclass of: racemate
definition: A racemate comprising equimolar amounts of (3R,5S)- and (3S,5R)-fluvastatin. An HMG-CoA reductase inhibitor, it is used (often as the corresponding sodium salt) to reduce triglycerides and LDL-cholesterol, and increase HDL-chloesterol, in the treatment of hyperlipidaemia.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:9168031
database_cross_reference: ChemIDplus:93957-54-1
database_cross_reference: CiteXplore:11273020
database_cross_reference: CiteXplore:12147804
database_cross_reference: CiteXplore:18410471
database_cross_reference: CiteXplore:18413661
database_cross_reference: CiteXplore:18452779
database_cross_reference: CiteXplore:18936176
database_cross_reference: CiteXplore:23212095
database_cross_reference: CiteXplore:23846727
database_cross_reference: DrugBank:DB01095
database_cross_reference: KEGG COMPOUND:93957-54-1
database_cross_reference: KEGG COMPOUND:C07014
database_cross_reference: KEGG DRUG:D07983
database_cross_reference: Patent:US4739073
database_cross_reference: Patent:WO8402131
database_cross_reference: Wikipedia:Fluvastatin
has_exact_synonym: rac-(3R,5S,6E)-7-[3-(4-fluorophenyl)-1-(propan-2-yl)-1H-indol-2-yl]-3,5-dihydroxyhept-6-enoic acid
has_obo_namespace: chebi_ontology
has_related_synonym: (+-)-fluvastatin
has_related_synonym: (6E)-erythro7-[3-(4-fluorophenyl)-1-(propan-2-yl)-1H-indol-2-yl]-3,5-dihydroxyhept-6-enoic acid
has_related_synonym: C24H26FNO4
has_related_synonym: Cranoc
has_related_synonym: erythro-(E)-3,5-dihydroxy-7-[3'-(4''-fluorophenyl)-1'-(1''-methylethyl)indol-2'-yl]hept-6-enoic acid
has_related_synonym: fluvastatin
has_related_synonym: fluvastatina
has_related_synonym: fluvastatine
has_related_synonym: fluvastatinum
has_related_synonym: rac-(3R,5S)-fluvastatin
has_related_synonym: rac-(3R,5S,6E)-7-(3-(4-fluorophenyl)-1-(1-methylethyl)-1H-indol-2-yl)-3,5-dihydroxy-6-heptenoic acid
id: CHEBI:38561

triazole
type: Class
subclass of: azole
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_exact_synonym: triazole
has_obo_namespace: chebi_ontology
has_related_synonym: C2H3N3
id: CHEBI:38597

1-benzofurans
type: Class
subclass of: benzofurans
definition: A member of the class of benzofurans consisting of a 1-benzofuran skeleton and its substituted derivatives thereof.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
id: CHEBI:38830

atorvastatin
type: Class
subclass of: dihydroxy monocarboxylic acid
definition: A dihydroxy monocarboxylic acid that is a member of the drug class known as statins, used primarily for lowering blood cholesterol and for preventing cardiovascular diseases.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:2910
has_alternative_id: CHEBI:39538
database_cross_reference: Beilstein:8373630
database_cross_reference: ChemIDplus:134523-00-5
database_cross_reference: CiteXplore:11693468
database_cross_reference: CiteXplore:15012735
database_cross_reference: CiteXplore:18720283
database_cross_reference: DrugBank:DB01076
database_cross_reference: HMDB:HMDB05006
database_cross_reference: KEGG COMPOUND:134523-00-5
database_cross_reference: KEGG COMPOUND:C06834
database_cross_reference: KEGG DRUG:D07474
database_cross_reference: PDBeChem:117
database_cross_reference: Patent:EP409281
database_cross_reference: Patent:US5273995
database_cross_reference: Reaxys:8373630
database_cross_reference: Wikipedia:Atorvastatin
has_exact_synonym: (3R,5R)-7-[3-(anilinocarbonyl)-5-(4-fluorophenyl)-4-phenyl-2-(propan-2-yl)-1H-pyrrol-1-yl]-3,5-dihydroxyheptanoic acid
has_exact_synonym: Atorvastatin
has_obo_namespace: chebi_ontology
has_related_synonym: (3R,5R)-7-[2-(4-fluorophenyl)-5-(1-methylethyl)-3-phenyl-4-(phenylcarbamoyl)-1H-pyrrol-1-yl]-3,5-dihydroxyheptanoic acid
has_related_synonym: (R-(R*,R*))-2-(4-Fluorophenyl)-beta,delta-dihydroxy-5-(1-methylethyl)-3-phenyl-4-((phenylamino)carbonyl)-1H-pyrrole-1-heptanoic acid
has_related_synonym: 7-[2-(4-FLUORO-PHENYL)-5-ISOPROPYL-3-PHENYL-4-PHENYLCARBAMOYL-PYRROL-1-YL]- 3,5-DIHYDROXY-HEPTANOIC ACID
has_related_synonym: 7-[2-(4-FLUORO-PHENYL)-5-ISOPROPYL-3-PHENYL-4-PHENYLCARBAMOYL-PYRROL-1-YL]-3,5-DIHYDROXY-HEPTANOIC ACID
has_related_synonym: Atorlip
has_related_synonym: C33H35FN2O5
has_related_synonym: InChI=1S/C33H35FN2O5/c1-21(2)31-30(33(41)35-25-11-7-4-8-12-25)29(22-9-5-3-6-10-22)32(23-13-15-24(34)16-14-23)36(31)18-17-26(37)19-27(38)20-28(39)40/h3-16,21,26-27,37-38H,17-20H2,1-2H3,(H,35,41)(H,39,40)/t26-,27-/m1/s1
has_related_synonym: InChIKey=XUKUURHRXDUEBC-KAYWLYCHSA-N
has_related_synonym: atorvastatin
has_related_synonym: atorvastatina
has_related_synonym: atorvastatine
has_related_synonym: atorvastatinum
id: CHEBI:39548

lovastatin
type: Class
subclass of: delta-lactone
definition: A fatty acid ester that is mevastatin carrying an additional methyl group on the carbobicyclic skeleton. It is used in as a antilipemic drug and has been found in fungal species such as Aspergillus terreus and Pleurotus ostreatus (oyster mushroom).
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:40299
has_alternative_id: CHEBI:6544
database_cross_reference: ChemIDplus:3631989
database_cross_reference: ChemIDplus:75330-75-5
database_cross_reference: CiteXplore:11375168
database_cross_reference: CiteXplore:11389707
database_cross_reference: CiteXplore:11483865
database_cross_reference: CiteXplore:18642339
database_cross_reference: CiteXplore:24093797
database_cross_reference: DrugBank:DB00227
database_cross_reference: HMDB:HMDB14372
database_cross_reference: KEGG COMPOUND:C07074
database_cross_reference: KEGG DRUG:75330-75-5
database_cross_reference: KEGG DRUG:D00359
database_cross_reference: KNApSAcK:C00000547
database_cross_reference: PDBeChem:803
database_cross_reference: Patent:CN103172602
database_cross_reference: Patent:WO2013090461
database_cross_reference: Reaxys:4720754
database_cross_reference: Wikipedia:Lovastatin
has_exact_synonym: (1S,3R,7S,8S,8aR)-8-{2-[(2R,4R)-4-hydroxy-6-oxotetrahydro-2H-pyran-2-yl]ethyl}-3,7-dimethyl-1,2,3,7,8,8a-hexahydronaphthalen-1-yl (2S)-2-methylbutanoate
has_exact_synonym: LOVASTATIN
has_exact_synonym: Lovastatin
has_obo_namespace: chebi_ontology
has_related_synonym: (1S,3R,7S,8S,8aR)-1,2,3,7,8,8a-hexahydro-3,7-dimethyl-8-(2-(2R,4R)-(tetrahydro-4-hydroxy-6-oxo-2H-pyran-2-yl)ethyl)-1-naphthalenyl (S)-2-methyl-butyrate
has_related_synonym: 2beta,6alpha-dimethyl-8alpha-(2-methyl-1-oxobutoxy)-mevinic acid lactone
has_related_synonym: 6alpha-methylcompactin
has_related_synonym: C24H36O5
has_related_synonym: InChI=1S/C24H36O5/c1-5-15(3)24(27)29-21-11-14(2)10-17-7-6-16(4)20(23(17)21)9-8-19-12-18(25)13-22(26)28-19/h6-7,10,14-16,18-21,23,25H,5,8-9,11-13H2,1-4H3/t14-,15-,16-,18+,19+,20-,21-,23-/m0/s1
has_related_synonym: InChIKey=PCZOHLXUXFIOCF-BXMDZJJMSA-N
has_related_synonym: MK-803
has_related_synonym: ML-530B
has_related_synonym: Mevacor
has_related_synonym: Mevinolin
id: CHEBI:40303

dextromethorphan
type: Class
subclass of: organic heterotetracyclic compound
definition: An organic heterotetracyclic compound that is morphinan substituted by a methoxy group at position 3 and a methyl group at position 7. It is used as an antitussive drug for suppressing cough.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:125-71-3
database_cross_reference: DrugBank:DB00514
database_cross_reference: HMDB:HMDB01920
database_cross_reference: KEGG:C06947
database_cross_reference: KEGG:D03742
database_cross_reference: PMID:17461892
database_cross_reference: PMID:18198471
database_cross_reference: PMID:24269965
database_cross_reference: Reaxys:88549
database_cross_reference: Wikipedia:Dextromethorphan
has_exact_synonym: 3-methoxy-17-methylmorphinan
has_exact_synonym: Dextromethorphan
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 271.194
has_related_synonym: 271.39724
has_related_synonym: C18H25NO
has_related_synonym: DXM
has_related_synonym: InChI=1S/C18H25NO/c1-19-10-9-18-8-4-3-5-15(18)17(19)11-13-6-7-14(20-2)12-16(13)18/h6-7,12,15,17H,3-5,8-11H2,1-2H3/t15-,17+,18+/m0/s1
has_related_synonym: MKXZASYAUGDDCJ-CGTJXYLNSA-N
has_related_synonym: d-Methorphan
has_related_synonym: delta-Methorphan
id: CHEBI:4470
in_subset: 3 STAR

paclitaxel
type: Class
subclass of: organic molecular entity
definition: A tetracyclic diterpenoid isolated originally from the bark of the Pacific yew tree, Taxus brevifolia. It is a mitotic inhibitor used in cancer chemotherapy. Note that the use of the former generic name 'taxol' is now limited, as Taxol is a registered trade mark.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:45862
has_alternative_id: CHEBI:7887
database_cross_reference: CAS:33069-62-4
database_cross_reference: DrugBank:DB01229
database_cross_reference: Drug_Central:2044
database_cross_reference: KEGG:C07394
database_cross_reference: KEGG:D00491
database_cross_reference: KNApSAcK:C00002365
database_cross_reference: PDBeChem:TA1
database_cross_reference: Wikipedia:Paclitaxel
has_exact_synonym: 4alpha,10beta-bis(acetyloxy)-13alpha-[(2S,3S)-3-benzamido-2-hydroxy-3-phenylpropanoyloxy]-1,7beta-dihydroxy-9-oxo-5beta,20-epoxytax-11-en-2alpha-yl benzoate
has_exact_synonym: Paclitaxel
has_obo_namespace: chebi_ontology
has_related_synonym: (2aR-(2aalpha,4beta,4abeta,6beta,9alpha(alpha R*,betaS*),11alpha,12alpha,12balpha))-beta-(Benzoylamino)-alpha-hydroxybenzenepropanoic acid 6,12b-bis(acetyloxy)-12-(benzoyloxy)-2a,3,4,4a,5,6,9,10,11,12,12a,12b-dodecahydro-4,11-dihydroxy-4a,8,13,13-tetramethyl-5-oxo-7,11-methano-1H-cyclodeca(3,4)benz(1,2-b)oxet-9-yl ester
has_related_synonym: 0
has_related_synonym: 5beta,20-Epoxy-1,2-alpha,4,7beta,10beta,13alpha-hexahydroxytax-11-en-9-one 4,10-diacetate 2-benzoate 13-ester with (2R,3S)-N-benzoyl-3-phenylisoserine
has_related_synonym: 853.331
has_related_synonym: 853.90618
has_related_synonym: C47H51NO14
has_related_synonym: InChI=1S/C47H51NO14/c1-25-31(60-43(56)36(52)35(28-16-10-7-11-17-28)48-41(54)29-18-12-8-13-19-29)23-47(57)40(61-42(55)30-20-14-9-15-21-30)38-45(6,32(51)22-33-46(38,24-58-33)62-27(3)50)39(53)37(59-26(2)49)34(25)44(47,4)5/h7-21,31-33,35-38,40,51-52,57H,22-24H2,1-6H3,(H,48,54)/t31-,32-,33+,35-,36+,37+,38-,40-,45+,46-,47+/m0/s1
has_related_synonym: RCINICONZNJXQF-MZXODVADSA-N
has_related_synonym: TAXOL
has_related_synonym: Taxol A
has_related_synonym: taxol
id: CHEBI:45863
in_subset: 3 STAR

fluconazole
type: Class
subclass of: triazole
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 has been shown to exhibit antifungal activity.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:46079
has_alternative_id: CHEBI:5099
database_cross_reference: Beilstein:4269710
database_cross_reference: ChemIDplus:86386-73-4
database_cross_reference: CiteXplore:11366931
database_cross_reference: CiteXplore:16822276
database_cross_reference: CiteXplore:23171950
database_cross_reference: CiteXplore:23793863
database_cross_reference: DrugBank:DB00196
database_cross_reference: HMDB:HMDB14342
database_cross_reference: KEGG DRUG:D00322
database_cross_reference: PDBeChem:TPF
database_cross_reference: Patent:GB2099818
database_cross_reference: Patent:US4404216
database_cross_reference: Reaxys:7311650
database_cross_reference: Wikipedia:Fluconazole
has_exact_synonym: 2-(2,4-difluorophenyl)-1,3-bis-(1H-1,2,4-triazol-1-yl)propan-2-ol
has_obo_namespace: chebi_ontology
has_related_synonym: 2,4-difluoro-alpha,alpha-bis(1H-1,2,4-triazol-1-ylmethyl)benzyl alcohol
has_related_synonym: 2-(2,4-DIFLUOROPHENYL)-1,3-DI(1H-1,2,4-TRIAZOL-1-YL)PROPAN-2-OL
has_related_synonym: Biozole
has_related_synonym: C13H12F2N6O
has_related_synonym: Diflucan
has_related_synonym: Elazor
has_related_synonym: InChI=1S/C13H12F2N6O/c14-10-1-2-11(12(15)3-10)13(22,4-20-8-16-6-18-20)5-21-9-17-7-19-21/h1-3,6-9,22H,4-5H2
has_related_synonym: InChIKey=RFHAOTPXVQNOHP-UHFFFAOYSA-N
has_related_synonym: OC(Cn1cncn1)(Cn1cncn1)c1ccc(F)cc1F
has_related_synonym: Triflucan
has_related_synonym: fluconazol
has_related_synonym: fluconazole
has_related_synonym: fluconazolum
id: CHEBI:46081

diclofenac
type: Class
subclass of: organic cyclic compound
definition: A monocarboxylic acid consisting of phenylacetic acid having a (2,6-dichlorophenyl)amino group at the 2-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:4507
has_alternative_id: CHEBI:47380
database_cross_reference: Beilstein:2146636
database_cross_reference: CAS:15307-86-5
database_cross_reference: DrugBank:DB00586
database_cross_reference: Drug_Central:865
database_cross_reference: HMDB:HMDB14724
database_cross_reference: KEGG:C01690
database_cross_reference: KEGG:D07816
database_cross_reference: LINCS:LSM-2160
database_cross_reference: PDBeChem:DIF
database_cross_reference: PMID:11322639
database_cross_reference: PMID:1502708
database_cross_reference: PMID:23777257
database_cross_reference: PMID:7838674
database_cross_reference: Patent:NL6604752
database_cross_reference: Patent:US3558690
database_cross_reference: Reaxys:2146636
database_cross_reference: Wikipedia:Diclofenac
has_exact_synonym: 2-[(2,6-dichlorophenyl)amino]benzeneacetic acid
has_exact_synonym: Diclofenac
has_exact_synonym: {2-[(2,6-dichlorophenyl)amino]phenyl}acetic acid
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 2-((2,6-dichlorophenyl)amino)benzeneacetic acid
has_related_synonym: 296.14900
has_related_synonym: 353.022
has_related_synonym: C16H13Cl2NO4
has_related_synonym: DCOPUUMXTXDBNB-UHFFFAOYSA-N
has_related_synonym: InChI=1S/C14H11Cl2NO2/c15-10-5-3-6-11(16)14(10)17-12-7-2-1-4-9(12)8-13(18)19/h1-7,17H,8H2,(H,18,19)
has_related_synonym: OC(=O)Cc1ccccc1Nc1c(Cl)cccc1Cl
has_related_synonym: [2-(2,6-dichloroanilino)phenyl]acetic acid
has_related_synonym: diclofenac
has_related_synonym: diclofenac acid
has_related_synonym: diclofenaco
has_related_synonym: diclofenacum
id: CHEBI:47381
in_subset: 3 STAR

ketoconazole
type: Class
subclass of: imidazoles
definition: A N-carbonylpiperazine that has formula C26H28Cl2N4O4.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:634785
database_cross_reference: DrugBank:DB01026
has_exact_synonym: 1-acetyl-4-(4-{[2-(2,4-dichlorophenyl)-2-(1H-imidazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy}phenyl)piperazine
has_obo_namespace: chebi_ontology
has_related_synonym: C26H28Cl2N4O4
has_related_synonym: InChIKey=XMAYWYJOQHXEEK-UHFFFAOYSA-N
id: CHEBI:48339

benzothiazepine
type: Class
subclass of: organic heterobicyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: benzothiazepines
id: CHEBI:48684

organic molecular entity
type: Class
subclass of: carbon group molecular entity
definition: Any molecular entity that contains carbon.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:25700
has_alternative_id: CHEBI:33244
has_obo_namespace: chebi_ontology
has_related_synonym: .
has_related_synonym: organic compounds
has_related_synonym: organic entity
has_related_synonym: organic molecular entities
has_related_synonym: organic molecules
id: CHEBI:50860

magnesium halide
type: Class
subclass of: magnesium coordination entity
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: magnesium halides
id: CHEBI:51234
in_subset: 3 STAR

resorufin
type: Class
subclass of: phenoxazine
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:174850
database_cross_reference: CAS:635-78-9
has_exact_synonym: 7-hydroxy-3H-phenoxazin-3-one
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 213.043
has_related_synonym: 213.18892
has_related_synonym: 7-Hydroxy-3H-phenoxazin-3-one
has_related_synonym: 7-Hydroxyphenoxazin-3-one
has_related_synonym: C12H7NO3
has_related_synonym: HSSLDCABUXLXKM-UHFFFAOYSA-N
has_related_synonym: InChI=1S/C12H7NO3/c14-7-1-3-9-11(5-7)16-12-6-8(15)2-4-10(12)13-9/h1-6,14H
has_related_synonym: Oc1ccc2nc3ccc(=O)cc3oc2c1
has_related_synonym: Resorufine
id: CHEBI:51602
in_subset: 3 STAR

4'-hydroxydiclofenac
type: Class
subclass of: organic cyclic compound
definition: A monocarboxylic acid that is the 4'-hydroxylated metabolite of diclofenac.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:4198042
database_cross_reference: CAS:64118-84-9
database_cross_reference: PMID:10027798
database_cross_reference: PMID:10709153
database_cross_reference: PMID:10807502
database_cross_reference: PMID:12966366
database_cross_reference: PMID:14609740
database_cross_reference: PMID:15139759
database_cross_reference: PMID:15265128
database_cross_reference: PMID:15455182
database_cross_reference: PMID:17123753
database_cross_reference: PMID:18548238
database_cross_reference: PMID:2118185
database_cross_reference: PMID:9226412
database_cross_reference: PMID:9862754
database_cross_reference: Reaxys:4198042
has_exact_synonym: {2-[(2,6-dichloro-4-hydroxyphenyl)amino]phenyl}acetic acid
has_obo_namespace: chebi_ontology
has_related_synonym: (o-(2,6-Dichloro-4-hydroxyanilino)phenyl)acetic acid
has_related_synonym: 0
has_related_synonym: 311.012
has_related_synonym: 312.14800
has_related_synonym: 4'-OH DCF
has_related_synonym: 4'-hydroxy diclofenac
has_related_synonym: C14H11Cl2NO3
has_related_synonym: InChI=1S/C14H11Cl2NO3/c15-10-6-9(18)7-11(16)14(10)17-12-4-2-1-3-8(12)5-13(19)20/h1-4,6-7,17-18H,5H2,(H,19,20)
has_related_synonym: KGVXVPRLBMWZLG-UHFFFAOYSA-N
has_related_synonym: OC(=O)Cc1ccccc1Nc1c(Cl)cc(O)cc1Cl
id: CHEBI:59613
in_subset: 3 STAR

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: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: Chemische Substanz
id: CHEBI:59999

mixture
type: Class
subclass of: chemical substance
definition: A mixture is a chemical substance composed of multiple molecules, at least two of which are of a different kind.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: Mischung
id: CHEBI:60004

itraconazole
type: Class
subclass of: triazole
definition: A dioxolane that has formula C35H38Cl2N8O4.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: ChEMBL:17194821
database_cross_reference: ChemIDplus:84625-61-6
database_cross_reference: DrugBank:DB01167
database_cross_reference: KEGG DRUG:84625-61-6
database_cross_reference: KEGG DRUG:D00350
database_cross_reference: Wikipedia:Itraconazole
has_exact_synonym: 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
has_exact_synonym: Itraconazole
has_obo_namespace: chebi_ontology
has_related_synonym: C35H38Cl2N8O4
has_related_synonym: InChIKey=VHVPQPYKVGDNFY-ZPGVKDDISA-N
has_related_synonym: Itrizole (TN)
has_related_synonym: Oriconazole
has_related_synonym: Sporanox (TN)
id: CHEBI:6076

racemate
type: Class
subclass of: mixture
definition: A racemate is an equimolar mixture of a pair of enantiomers.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: melange racemique
has_related_synonym: racemates
has_related_synonym: racemic mixture
id: CHEBI:60911

4-hydroxytolbutamide
type: Class
subclass of: organic cyclic compound
definition: A urea that consists of 1-butylurea having a 4-hydroxymethylbenzenesulfonyl group attached at the 3-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:5719-85-7
database_cross_reference: HMDB:HMDB06408
database_cross_reference: PMID:16493553
database_cross_reference: Reaxys:2867981
has_exact_synonym: N-(butylcarbamoyl)-4-(hydroxymethyl)benzenesulfonamide
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 1-Butyl-3-(4-hydroxymethylphenyl)sulfonylurea
has_related_synonym: 286.099
has_related_synonym: 286.34700
has_related_synonym: C12H18N2O4S
has_related_synonym: CCCCNC(=O)NS(=O)(=O)c1ccc(CO)cc1
has_related_synonym: Hydroxymethyltolbutamide
has_related_synonym: Hydroxytolbutamide
has_related_synonym: InChI=1S/C12H18N2O4S/c1-2-3-8-13-12(16)14-19(17,18)11-6-4-10(9-15)5-7-11/h4-7,15H,2-3,8-9H2,1H3,(H2,13,14,16)
has_related_synonym: Methylhydroxytolbutamide
has_related_synonym: SJRHYONYKZIRPM-UHFFFAOYSA-N
id: CHEBI:63799
in_subset: 3 STAR

5'-hydroxyomeprazole
type: Class
subclass of: benzimidazoles
definition: A sulfoxide that is omeprazole in which one of the methyl hydrogens at position 5 on the pyridine ring is substituted by a hydroxy group.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:92340-57-3
database_cross_reference: PMID:19166730
database_cross_reference: PMID:21546194
database_cross_reference: PMID:7781266
database_cross_reference: PMID:8550990
database_cross_reference: PMID:9916309
database_cross_reference: Reaxys:8439890
has_exact_synonym: (4-methoxy-6-{[(5-methoxy-1H-benzimidazol-2-yl)sulfinyl]methyl}-5-methylpyridin-3-yl)methanol
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 361.110
has_related_synonym: 361.41500
has_related_synonym: 5-Methoxy-2-(((4-methoxy-3-methyl-5-hydroxymethyl-2-pyridinyl)methyl)sulfinyl)-1H-benzimidazole
has_related_synonym: C17H19N3O4S
has_related_synonym: CMZHQFXXAAIBKE-UHFFFAOYSA-N
has_related_synonym: Hydroxyomeprazole
has_related_synonym: InChI=1S/C17H19N3O4S/c1-10-15(18-7-11(8-21)16(10)24-3)9-25(22)17-19-13-5-4-12(23-2)6-14(13)20-17/h4-7,21H,8-9H2,1-3H3,(H,19,20)
id: CHEBI:63840
in_subset: 3 STAR

6-hydroxypaclitaxel
type: Class
subclass of: organic molecular entity
definition: A taxane diterpenoid that consists of paclitaxel bearing an additional hydroxy substituent at the 6alpha-position.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:153212-75-0
database_cross_reference: Reaxys:8105272
has_exact_synonym: (2alpha,5beta,6alpha,7beta,10beta,13alpha)-4,10-diacetoxy-13-{[(2R,3S)-3-(benzoylamino)-2-hydroxy-3-phenylpropanoyl]oxy}-1,6,7-trihydroxy-9-oxo-5,20-epoxytax-11-en-2-yl benzoate
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 6-hydroxytaxol
has_related_synonym: 6alpha-hydroxypaclitaxel
has_related_synonym: 6alpha-hydroxytaxol
has_related_synonym: 869.326
has_related_synonym: 869.90550
has_related_synonym: C47H51NO15
has_related_synonym: InChI=1S/C47H51NO15/c1-24-30(61-43(57)33(51)32(27-16-10-7-11-17-27)48-41(55)28-18-12-8-13-19-28)22-47(58)40(62-42(56)29-20-14-9-15-21-29)36-45(6,38(54)35(60-25(2)49)31(24)44(47,4)5)37(53)34(52)39-46(36,23-59-39)63-26(3)50/h7-21,30,32-37,39-40,51-53,58H,22-23H2,1-6H3,(H,48,55)/t30-,32-,33+,34-,35+,36-,37-,39+,40-,45-,46+,47+/m0/s1
has_related_synonym: NDCWHEDPSFRTDA-FJMWQILYSA-N
id: CHEBI:63859
in_subset: 3 STAR

magnesium dichloride
type: Class
subclass of: magnesium halide
definition: A magnesium salt comprising of two chlorine atoms bound to a magnesium atom.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:7786-30-3
database_cross_reference: Gmelin:9305
database_cross_reference: KEGG:C07755
database_cross_reference: MolBase:1868
database_cross_reference: Reaxys:8128169
has_exact_synonym: magnesium dichloride
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 93.923
has_related_synonym: 95.21040
has_related_synonym: Cl2Mg
has_related_synonym: InChI=1S/2ClH.Mg/h2*1H;/q;;+2/p-2
has_related_synonym: Magnesium chloride
has_related_synonym: Magnesium chloride anhydrous
has_related_synonym: Magnesiumchlorid
has_related_synonym: MgCl2
has_related_synonym: TWRXJAOTZQYOKJ-UHFFFAOYSA-L
has_related_synonym: [Mg++].[Cl-].[Cl-]
has_related_synonym: [MgCl2]
id: CHEBI:6636
in_subset: 3 STAR

azole
type: Class
subclass of: monocyclic heteroarene
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: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Wikipedia:Azole
has_obo_namespace: chebi_ontology
has_related_synonym: azoles
id: CHEBI:68452

Midazolam
type: Class
subclass of: organic heterocyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: CAS:59467-70-8
database_cross_reference: Drug_Central:1802
database_cross_reference: KEGG:C07524
database_cross_reference: KEGG:D00550
database_cross_reference: LINCS:LSM-5200
has_exact_synonym: Midazolam
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 325.078
has_related_synonym: 325.768
has_related_synonym: C18H13ClFN3
has_related_synonym: Cc1ncc2CN=C(c3ccccc3F)c3cc(Cl)ccc3-n12
has_related_synonym: DDLIGBOFAVUZHB-UHFFFAOYSA-N
has_related_synonym: InChI=1S/C18H13ClFN3/c1-11-21-9-13-10-22-18(14-4-2-3-5-16(14)20)15-8-12(19)6-7-17(15)23(11)13/h2-9H,10H2,1H3
has_related_synonym: buccolam
has_related_synonym: mezolam
has_related_synonym: midazolam HCl
has_related_synonym: midazolam hydrochloride
id: CHEBI:6931
in_subset: 2 STAR

organic molecule
type: Class
subclass of: organic molecular entity
definition: Any molecule that consists of at least one carbon atom as part of the electrically neutral entity.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_obo_namespace: chebi_ontology
has_related_synonym: organic molecules
id: CHEBI:72695

nifedipine
type: Class
subclass of: organic heterocyclic compound
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:497773
database_cross_reference: CAS:21829-25-4
database_cross_reference: DrugBank:DB01115
database_cross_reference: Drug_Central:1922
database_cross_reference: KEGG:C07266
database_cross_reference: KEGG:D00437
database_cross_reference: LINCS:LSM-4176
database_cross_reference: Wikipedia:Nifedipine
has_exact_synonym: Nifedipine
has_exact_synonym: dimethyl 2,6-dimethyl-4-(2-nitrophenyl)-1,4-dihydropyridine-3,5-dicarboxylate
has_obo_namespace: chebi_ontology
has_related_synonym: 0
has_related_synonym: 346.116
has_related_synonym: 346.33460
has_related_synonym: 4-(2'-Nitrophenyl)-2,6-dimethyl-1,4-dihydropyridin-3,5-dicarbonsaeuredimethylester
has_related_synonym: Adalat
has_related_synonym: Adapine
has_related_synonym: C17H18N2O6
has_related_synonym: COC(=O)C1=C(C)NC(C)=C(C1c1ccccc1[N+]([O-])=O)C(=O)OC
has_related_synonym: Coracten
has_related_synonym: HYIMSNHJOBLJNT-UHFFFAOYSA-N
has_related_synonym: InChI=1S/C17H18N2O6/c1-9-13(16(20)24-3)15(14(10(2)18-9)17(21)25-4)11-7-5-6-8-12(11)19(22)23/h5-8,15,18H,1-4H3
has_related_synonym: Nifecard
has_related_synonym: Nifecor
has_related_synonym: Nifedipres
has_related_synonym: Procardia
has_related_synonym: nifedipine
has_related_synonym: nifedipino
has_related_synonym: nifedipinum
id: CHEBI:7565
in_subset: 3 STAR

omeprazole
type: Class
subclass of: racemate
definition: A racemate comprising equimolar amounts of (R)- and (S)-omeprazole.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:3628192
database_cross_reference: CAS:73590-58-6
database_cross_reference: DrugBank:DB00338
database_cross_reference: KEGG:C07324
database_cross_reference: KEGG:D00455
database_cross_reference: PMID:11060758
database_cross_reference: PMID:11208500
database_cross_reference: PMID:11210716
database_cross_reference: PMID:11304936
database_cross_reference: PMID:11321383
database_cross_reference: PMID:11395292
database_cross_reference: PMID:11404722
database_cross_reference: PMID:11459434
database_cross_reference: PMID:11568514
database_cross_reference: PMID:11700946
database_cross_reference: PMID:11774962
database_cross_reference: PMID:11807212
database_cross_reference: PMID:11851112
database_cross_reference: PMID:11903739
database_cross_reference: PMID:11962536
database_cross_reference: PMID:12072663
database_cross_reference: PMID:12135028
database_cross_reference: PMID:12235248
database_cross_reference: PMID:12495367
database_cross_reference: PMID:12683615
database_cross_reference: PMID:13680386
database_cross_reference: PMID:14616415
database_cross_reference: PMID:14708212
database_cross_reference: PMID:14725575
database_cross_reference: PMID:15004262
database_cross_reference: PMID:15125696
database_cross_reference: PMID:15586641
database_cross_reference: PMID:15598025
database_cross_reference: PMID:15684503
database_cross_reference: PMID:15707461
database_cross_reference: PMID:15774534
database_cross_reference: PMID:16080278
database_cross_reference: PMID:16129922
database_cross_reference: PMID:16259581
database_cross_reference: PMID:16276979
database_cross_reference: PMID:16380990
database_cross_reference: PMID:16386527
database_cross_reference: PMID:16397810
database_cross_reference: PMID:16440530
database_cross_reference: PMID:16998872
database_cross_reference: PMID:17049542
database_cross_reference: PMID:17384694
database_cross_reference: PMID:17532167
database_cross_reference: PMID:18294333
database_cross_reference: PMID:18366242
database_cross_reference: PMID:18416943
database_cross_reference: PMID:18448060
database_cross_reference: PMID:18498918
database_cross_reference: PMID:18520598
database_cross_reference: PMID:18571645
database_cross_reference: PMID:18616070
database_cross_reference: PMID:18793272
database_cross_reference: PMID:18818790
database_cross_reference: PMID:19150046
database_cross_reference: PMID:19166730
database_cross_reference: PMID:19176055
database_cross_reference: PMID:19236757
database_cross_reference: PMID:19327607
database_cross_reference: PMID:19383986
database_cross_reference: PMID:19434360
database_cross_reference: PMID:19470853
database_cross_reference: PMID:19517893
database_cross_reference: PMID:19746659
database_cross_reference: PMID:19796313
database_cross_reference: PMID:19801857
database_cross_reference: PMID:19937171
database_cross_reference: Patent:EP5129
database_cross_reference: Patent:US4255431
database_cross_reference: Patent:US5693818
database_cross_reference: Reaxys:3628192
database_cross_reference: Wikipedia:Omeprazole

5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydro-1,5-benzothiazepin-3-yl acetate
type: Class
subclass of: benzothiazepine
definition: A lactam that is 2,3-dihydro-1,5-benzothiazepin-4(5H)-one in which positions 2 and 3 are substituted by 4-methoxyphenyl and acetoxy, respectively, while the hydrogen attached to the nitrogen is substituted by a 2-(dimethylamino)ethyl group.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: ChemIDplus:34933-06-7
database_cross_reference: Reaxys:25644899
has_exact_synonym: 5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxo-2,3,4,5-tetrahydro-1,5-benzothiazepin-3-yl acetate
has_obo_namespace: chebi_ontology
has_related_synonym: 3-acetoxy-5-(2-(dimethylamino)ethyl)-2,3-dihydro-2-(4-methoxyphenyl)-1,5-benzothiazepin-4(5H)-one
has_related_synonym: C22H26N2O4S
has_related_synonym: InChI=1S/C22H26N2O4S/c1-15(25)28-20-21(16-9-11-17(27-4)12-10-16)29-19-8-6-5-7-18(19)24(22(20)26)14-13-23(2)3/h5-12,20-21H,13-14H2,1-4H3
has_related_synonym: InChIKey=HSUGRBWQSSZJOP-UHFFFAOYSA-N
id: CHEBI:82814

simvastatin
type: Class
subclass of: delta-lactone
definition: A fatty acid ester comprising a dihydroxyheptanoic acid unit condensed into a lactone; a partially reduced naphthalene structure; and a 2,2-dimethylbutyric acyl substituent at C17. It is used as a cholesterol-lowering and anti-cardiovascular disease drug.
imported from: http://purl.obolibrary.org/obo/chebi.owl
has_alternative_id: CHEBI:45577
database_cross_reference: Beilstein:4768037
database_cross_reference: ChemIDplus:79902-63-9
database_cross_reference: CiteXplore:11336576
database_cross_reference: CiteXplore:12827636
database_cross_reference: CiteXplore:14561068
database_cross_reference: CiteXplore:14973129
database_cross_reference: CiteXplore:18199328
database_cross_reference: CiteXplore:18688862
database_cross_reference: CiteXplore:18936176
database_cross_reference: DrugBank:DB00641
database_cross_reference: KEGG DRUG:79902-63-9
database_cross_reference: KEGG DRUG:D00434
database_cross_reference: PDBeChem:SIM
database_cross_reference: Patent:EP33538
database_cross_reference: Patent:US4444784
database_cross_reference: Wikipedia:Simvastatin
has_exact_synonym: (1S,3R,7S,8S,8aR)-8-{2-[(2R,4R)-4-hydroxy-6-oxotetrahydro-2H-pyran-2-yl]ethyl}-3,7-dimethyl-1,2,3,7,8,8a-hexahydronaphthalen-1-yl 2,2-dimethylbutanoate
has_exact_synonym: SIMVASTATIN
has_exact_synonym: Simvastatin
has_obo_namespace: chebi_ontology
has_related_synonym: (3R,5R)-7-{(1S,2S,6R,8S,8aR)-8-[(2,2-dimethylbutanoyl)oxy]-2,6-dimethyl-1,2,6,7,8,8a-hexahydronaphthalen-1-yl}-3,5-dihydroxyheptanoic acid
has_related_synonym: 2,2-dimethylbutyric acid, 8-ester with (4R,6R)-6-(2-((1S,2S,6R,8S,8aR)-1,2,6,7,8,8a-hexahydro-8-hydroxy-2,6-dimethyl-1-naphthyl)ethyl)tetrahydro-4-hydroxy-2H-pyran-2-one
has_related_synonym: C25H38O5
has_related_synonym: InChI=1S/C25H38O5/c1-6-25(4,5)24(28)30-21-12-15(2)11-17-8-7-16(3)20(23(17)21)10-9-19-13-18(26)14-22(27)29-19/h7-8,11,15-16,18-21,23,26H,6,9-10,12-14H2,1-5H3/t15-,16-,18+,19+,20-,21-,23-/m0/s1
has_related_synonym: InChIKey=RYMZZMVNJRMUDD-HGQWONQESA-N
has_related_synonym: MK-733
has_related_synonym: Simvastatina
has_related_synonym: Simvastatine
has_related_synonym: Simvastatinum
has_related_synonym: Zocor
has_related_synonym: simvastatin
id: CHEBI:9150

triazolam
type: Class
subclass of: triazolobenzodiazepine
definition: A triazolobenzodiazepine that has formula C17H12Cl2N4.
imported from: http://purl.obolibrary.org/obo/chebi.owl
database_cross_reference: Beilstein:1226643
database_cross_reference: ChemIDplus:28911-01-5
database_cross_reference: DrugBank:DB00897
database_cross_reference: KEGG DRUG:D00387
database_cross_reference: Wikipedia:Triazolam
has_exact_synonym: 8-chloro-6-(2-chlorophenyl)-1-methyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepine
has_obo_namespace: chebi_ontology
has_related_synonym: C17H12Cl2N4
has_related_synonym: Cc1nnc2CN=C(c3ccccc3Cl)c3cc(Cl)ccc3-n12
has_related_synonym: Halcion
has_related_synonym: InChI=1S/C17H12Cl2N4/c1-10-21-22-16-9-20-17(12-4-2-3-5-14(12)19)13-8-11(18)6-7-15(13)23(10)16/h2-8H,9H2,1H3
has_related_synonym: InChIKey=JOFWLTCLBGQGBO-UHFFFAOYSA-N
id: CHEBI:9674

high-speed centrifugation
type: Class
subclass of: centrifugation
definition: A separation method where components of a sample are separated on the basis of their density in a centrifuge according to the centrifugal force they experience. Samples are spun at >5000 rpm.
imported from: http://purl.obolibrary.org/obo/chmo.owl
created by: burchh
creation date: 2009-06-19T02:03:14Z
has_exact_synonym: high speed centrifugation
id: CHMO:0002013

absorption of material
type: Class
subclass of: BFO_0000015
definition: The process of one material (absorbate) being retained by another (absorption).
imported from: http://purl.obolibrary.org/obo/chmo.owl
has_alternative_id: REX:0000188
id: CHMO:0002914
comment: Gold Book, somewhat modified. It goes on "The process of one material (absorbate) being retained by another (absorbent); this may be the physical solution of a gas, liquid, or solid in a liquid, attachment of molecules of a gas, vapour, liquid, or dissolved substance to a solid surface by physical forces, etc."

cell line cell
type: Class
subclass of: cultured cell
editor preferred label: cell line cell
definition: A cultured cell that is part of a cell line - a stable and homogeneous population of cells with a common biological origin and propagation history in culture
definition editor: Yongqun He, Matthew Brush, Sirarat Sarntivijai, Alexander Diehl, Jie Zheng, Yu Lin, Bjoern Peters
imported from: http://purl.obolibrary.org/obo/clo.owl
comment: A 'cell line cell' is a part of a cell line established through the passaging/selection of a primary cultured cells or the experimental modification of an existing cell line. New types of cell line cells are established after sufficient passaging of a primary culture to establish a stable and homogenous population that qualifies as a line (typically 1-20 passages), or following some spontaneous or experimental modification that confers novel characteristics to an existing line. A cell line cell typically has mutations of five or more genes compared to the original cell that derives the cell line cell. Some gene mutations may turn on some oncogenes. Cell line cells can be in active culture, stored in a quiescent state for future use (e.g. frozen in liquid nitrogen), or applied in experimental procedures.

cell line
type: Class
subclass of: cultured cell population
example of usage: He, Tong-Chuan, et al., Identification of c-MYC as a target of the APC pathway. Science 281.5382 (1998): 1509-1512.: "To evaluate the transcriptional effects of APC, we studied a human colorectal cancer cell line (HT29-APC) containing a zinc-inducible APC gene and a control cell line (HT29–β-Gal) containing an analogous inducible lacZ gene". Note that common usage in the literature is often of the form "a human colorectal cancer cell line", as seen above. But such references to studies in "a line" refer to the fact that discrete populations of cells that are input into culturing or experiments, not an entire lineage of cells. It is these discrete populations that we refer to as 'cell lines'.
definition: A cultured cell population that represents a genetically stable and homogenous population of cultured cells that shares a common propagation history (i.e. has been successively passaged together in culture).
editor note: In the spring of 2013, a working group comprised of domain experts and representatives from CLO, OBI, CL, and ReO worked to establish a consensus model and definitions of cultured cells across these efforts. This included a careful characterization of how the term 'cell line' should be defined and applied. Notes about this work and its outcomes can be found on the CLO wiki here: http://code.google.com/p/clo-ontology/wiki/Cell_Lines
definition editor: MB, SS, JZ, MAH, BP, CS, YH
comment: The term 'line' is used when a culture has undergone an intentional experimental process to establish a more uniform and stable population of cells (see 'establishing cell line'). This will require one or more passages, but may involve additional selection processes. Through such passaging and/or selection processes, the resulting 'line' attains some level of genetic stability and compositional homogeneity which is typically absent in primary cultures. Because of their relative homogeneity, ‘lines’ are capable of being characterized and stably propagated over a period of time. A new *type* of cell line can be established not only through the passaging/selection of a primary culture, but also through experimental modifications of existing lines (e.g. immortalization, stable genetic modifications, drug selection for a resistant subset, etc.). The definition provided here establishes the 'scale' of cell populations that qualify as cell lines - specifically those with a shared propagation history in culture. In this way, the 'cell line' class demarcates populations that represent what researchers actually use in the practice of science - e.g. as inputs to culturing, experimentation, and sharing. The definition is such that cell lines will exhibit important attributes. For example, they will have a relatively homogenous cell type composition as they have experienced similar selective pressures due to their continuous co-propagation. In addition, these populations can also be characterized by a passage number, again owing to their common passaging history. As defined here, 'cell line' can refer to a population of cells in active culture, applied experimentally, or stored in a quiescent state for future use.

Caco-2 cell
type: Class
subclass of: cell line cell
Cell line LINCS ID: LCL-1170
alternative term: Caco-2
imported from: http://purl.obolibrary.org/obo/clo.owl
comment: disease: colorectal adenocarcinoma
see also: ATCC: HTB-37
see also: CHEMBL: CHEMBL3307519
see also: CVCL: CVCL_0025
see also: EFO: EFO_0001099
see also: HyperCLDB: cl618
see also: MeSH: D018938

CHO cell
type: Class
subclass of: cell line cell
alternative term: CHO
alternative term: Chinese Hamster Ovary cell
imported from: http://purl.obolibrary.org/obo/clo-merged.owl
see also: HyperCLDB: cl721
see also: MeSH: D016466

LLC-PK subscript(1) cell
type: Class
subclass of: cell line cell
alternative term: LLC-PK subscript(1)
imported from: http://purl.obolibrary.org/obo/clo.owl
see also: ATCC: CL-101
see also: HyperCLDB: cl3221
see also: MeSH: D018374

MDCK cell
type: Class
subclass of: cell line cell
alternative term: MDCK
imported from: http://purl.obolibrary.org/obo/clo.owl
see also: HyperCLDB: cl5078

293-derived cell
type: Class
subclass of: cell line cell
STR profile: Amelogenin: X; CSF1PO: 11,12; D13S317: 12; D16S539: 9; D18S51: 18; D21S11: 28,30.2; D3S1358: 15,17; D5S818: 8,9; D7S820: 11,12; D8S1179: 12,14; FGA: 23; Penta D: 9,10; Penta E: 7,15; TH01: 7,9.3; TPOX: 11; vWA: 16,19
alternative term: 293
alternative term: 293 HEK
alternative term: HEK 293
alternative term: HEK-293
alternative term: HEK293
definition source: WEB: http://hek293.com/
definition source: WEB: http://web.expasy.org/cellosaurus/CVCL_0045
definition source: WEB: https://www.atcc.org/Products/All/CRL-1573.aspx
imported from: http://purl.obolibrary.org/obo/clo-merged.owl
see also: ATCC: CRL-1573
see also: RRID: CVCL_0045

cultured cell
type: Class
subclass of: experimentally modified cell in vitro
editor preferred label: cultured cell
definition: A cell in vitro that is or has been maintained or propagated as part of a cell culture.
imported from: http://purl.obolibrary.org/obo/clo.owl
has_obo_namespace: cell
comment: Note that this class was re-labeled to 'cultured cell' instead of 'cell line cell', as it intent was clarified to cover any cultured cells of multicellular and unicellular organisms. This includes cells actively being cultured, or cells that have been cultured but are stored in a quiescent state for future use. In having been cultured, cells must establish homeostasis and often replicate in a foreign environment. Accomodation of this stress initiates a selection of cells fit for such challenges, wherein necessary adaptive biochemical and.or genetic changes can occur. These changes can set them apart from the in vivo cells from which they derive, and such changes will typically accumulate and change over increasing time in culture.

experimentally modified cell in vitro
type: Class
subclass of: processed material
editor preferred label: experimentally modified cell in vitro
definition: A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure.
imported from: http://purl.obolibrary.org/obo/clo.owl
has_obo_namespace: cell
comment: This class has been re-labeled to imply reference only to in vitro experimentally modified cells, similarly, the definition has been slightly updated to reflect this. 'experimentally modified cell' refers only to cells in vitro, and not modified in vivo/in environment cells. There is currently no class representing unmodified in vitro cells (other than the parent 'cell in vitro'), or a class representing modified native cells. More granular subclassing of experimentally modified cell can be found in ReO. MHB 1.12.12

potential drug-drug interaction
type: Class
subclass of: IAO_0000030
subclass of: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: has part
    some values from: Class
      union of: data item about biological process
      union of: observational data item about drug-drug interaction
      union of: physiological observation from clinical study data item
      union of: data item from extrapolation
subclass of: Class
  intersection of: Restriction
    on property: has part
    some values from: object drug information
  intersection of: Restriction
    on property: has part
    some values from: precipitant drug information
subclass of: Restriction
  on property: has part
  some values from: drug identifier
definition: A potential drug-drug interaction (PDDI) is an information content entity that specifies the possibility of a drug-drug interaction based on either reasonable extrapolation about drug-drug interaction mechanisms or a data item created by clinical studies, clinical observation or physiological experiment.
definition editor: Mathias Brochhausen

drug-drug interaction description
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug-drug interaction
example of usage: the DDI mechanism, the risk of it causing a clinical effect, the clinical effect brought about by that DDI, factor's that modify the probability of it occuring
definition: An information content entity that is about a drug-drug interaction.
alternative term: DDI description

data item about biological process
type: Class
equivalent class: Class
  intersection of: IAO_0000027
  intersection of: Restriction
    on property: IAO_0000136
    some values from: biological_process
subclass of: IAO_0000027
definition: A data item that is about a biological process
definition editor: Mathias Brochhausen
alternative term: mechanistic assertion data item

observational data item about drug-drug interaction
type: Class
subclass of: IAO_0000027
definition: A data item that is about a drug-drug interaction and the creation of which was triggered by an observation outside a controlled context (e.g. a clinical trial).
definition editor: Mathias Brochhausen

physiological observation from clinical study data item
type: Class
equivalent class: Class
  intersection of: IAO_0000027
  intersection of: Restriction
    on property: IAO_0000136
    some values from: biological_process
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: Restriction
      on property: BFO_0000055
      some values from: Restriction
        on property: RO_0000059
        some values from: clinical study design
subclass of: IAO_0000027
definition: A data item that is about a biological process and that is the specified output of a clinical study.

data item from extrapolation
type: Class
subclass of: IAO_0000027
definition: A data item that is the output of a process of estimating, beyond the original observation range, the value of a variable on the basis of its relationship with another variable.
definition editor: Mathias Brochhausen
definition source: https://en.wikipedia.org/w/index.php

gastrointestinal functioning
type: Class
equivalent class: Restriction
  on property: BFO_0000055
  some values from: Class
    intersection of: BFO_0000034
    intersection of: Restriction
      on property: inheres in
      some values from: Restriction
        on property: part of
        some values from: digestive system
subclass of: biological_process
definition: A biological process that realizes the function of the gastrointestinal system (or any organ that is a part of it.). This includes digestion of ingested substances, absorption and eliminating waste.
comment: Physiological activity and functions of the gastrointestinal system as a whole or of any of its parts, including digestion, absorption and eliminating waste.

drug-drug interaction management option
type: Class
subclass of: IAO_0000104
example of usage: "Use only if benefit outweighs risk: “When a systemic dose of epinephrine is given to a person on one of these nonselective beta-blockers, an acute hypertensive reaction is almost certain. Systolic BPs of 250 mm/Hg are not uncommon. Most people can probably withstand a short episode of such a hypertensive reaction without permanent sequelae, but strokes have occurred in susceptible patients. Thus, it is best to avoid this reaction if possible. If a patient is likely to receive systemic epinephrine, it would be prudent to use a cardioselective beta-blocker.” (Title: Individualized Drug Interaction Alerts; Authors: Daniel C. Malone , University of Arizona; John Horn, Philip Hansten, University of Washington)
example of usage: No precaution: “If the NSAID is being used as an analgesic or antipyretic, it would be prudent to use an alternative such as acetaminophen. In some people, acetaminophen can increase the anticoagulant effect of warfarin, so monitor the INR if acetaminophen is used in doses over 2 g/day for a few days. For more severe pain consider short-term opioids in place of the NSAID.“ (Title: Individualized Drug Interaction Alerts; Authors: Daniel C. Malone , University of Arizona; John Horn, Philip Hansten, University of Washington)
definition: A evidence-based plan specification that specifies processes to prevent or mitigate a drug-drug interaction
alternative term: management option
MPIO user-centered definition: Evidence-based strategy to mitigate the potential clinical consequences of a drug-drug interaction; e.g., use only if benefit outweighs risk, assess risk and take action if necessary, no special precautions.
alternative_term: recommended action
comment: An instance of this entity would represent an optional recommendation for the clinical management of patients who are exposed or about to be exposed to a potential DDI. Management options may be generated by expert opinion, consensus, and/or a review and synthesis of relevant evidence.

reported drug-drug interaction
type: Class
subclass of: drug-drug interaction
subclass of: Class
  intersection of: drug-drug interaction
  intersection of: Restriction
    on property:
      inverse of: IAO_0000136
    some values from: IAO_0000311
definition: A drug-drug interaction that has been the subject of a case report or study.
alternative term: interaction occured
comment: An instance of a drug-drug interaction that has been identified in case report or study.

pharmacokinetic interaction signal
type: Class
subclass of: IAO_0000027
definition: A data item that is the outcome of running a kinetic model and that states that drug A has some effects on the absorption, metabolism and elimination of drug B.
comment: Evidence from a kinetic model that a drug-Y has some effect on the absorption, metabolism and elimination of drug-X.

bioavailability
type: Class
subclass of: BFO_0000016
subclass of: Restriction
  on property: inheres in
  some values from: drug product
definition: Bioavailability is a disposition that is borne by a drug product and is realized by the process of a proportion of the active pharmaceutical ingredient in that drug product reaching systemic circulation.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

object drug information
type: Class
subclass of: IAO_0000030
subclass of: Class
  intersection of: Restriction
    on property: IAO_0000136
    some values from: object drug role
  intersection of: Restriction
    on property: IAO_0000136
    some values from: drug product
definition: An information content entity that makes a statement about a drug product being an object drug in a drug interaction.
definition editor: Mathias Brochhausen

object drug role
type: Class
subclass of: BFO_0000023
definition: The role that inheres in a drug product or drug ingredient and that is realized by being affected by another drug pharmacokinetically or pharmacodynamically in a drug drug interaction.
definition editor: Daniel C. Malone
definition editor: Jodi Schneider
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey
definition editor: Richard D. Boyce
definition editor: William R. Hogan
Source: http://www.hanstenandhorn.com/article-d-i.html

precipitant drug role
type: Class
subclass of: BFO_0000023
definition: The role that inheres in a drug product or drug ingredient that is realized by affecting another drug pharmacokinetically or pharmacodynamically in a drug drug interaction.
definition editor: Daniel C. Malone
definition editor: Jodi Schneider
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey
definition editor: Richard C. Boyce
definition editor: William R. Hogan
Source: http://www.hanstenandhorn.com/article-d-i.html

precipitant drug information
type: Class
subclass of: IAO_0000030
subclass of: Class
  intersection of: Restriction
    on property: IAO_0000136
    some values from: precipitant drug role
  intersection of: Restriction
    on property: IAO_0000136
    some values from: drug product
definition: An information content entity that makes a statement about a drug product being an precipitant drug in a drug interaction.
definition editor: Mathias Brochhausen

metabolic potential drug-drug interaction
type: Class
equivalent class: Class
  intersection of: potential drug-drug interaction
  intersection of: Restriction
    on property: IAO_0000136
    some values from: drug metabolic process
subclass of: potential drug-drug interaction
definition: A potential drug drug interaction that is about a drug metabolism.
definition editor: Mathias Brochhausen

narrow therapeutic index
type: Class
subclass of: BFO_0000016
subclass of: Restriction
  on property: inheres in
  some values from: drug product
definition: A disposition inhering in a drug product that when realized is realized by processes that negatively affect the safety or the efficacy of the drug product, or increase its toxicity..
definition editor: Mathias Brochhausen

metabolism inhibition potential drug-drug interaction
type: Class
subclass of: metabolic potential drug-drug interaction
definition: A metabolism induction potential drug-drug interaction that is about an decrease of metabolic activity because of either a decreased expression of the enzyme or inference with how the enzyme contributes to the metabolic process.
definition editor: Mathias Brochhausen

metabolism induction potential drug-drug interaction
type: Class
subclass of: metabolic potential drug-drug interaction
definition: A metabolism induction potential drug-drug interaction that is about an increase of an enzyme participating in the metabolic process.
definition editor: Mathias Brochhausen

material entity participant in drug-drug interaction
type: Class
equivalent class: Class
  intersection of: Class
    union of: drug product
    union of: Restriction
      on property: proper_part_of
      some values from: drug product
  intersection of: Restriction
    on property: participates in
    some values from: drug-drug interaction
subclass of: BFO_0000040
definition: A material entity that is either drug product or an ingredient thereof and that participates in a drug-drug interaction.
alternative term: Drug participant in drug-drug interaction
comment: A drug entity that participate in a drug-drug interaction but for which its role is not assignable as a precipitant or object.

drug-drug interaction
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: has occurrent part
  some values from: drug co-administration
subclass of: Restriction
  on property: has participant
  some values from: BFO_0000040
definition: A biological process that results in a clinically meaningful change to the response of at least one co-administrated drug.
alternative term: DDI
comment: A clinically meaningful alteration in the exposure and/or response to a drug (object drug) that has occurred as a result of the co-administration of another drug (precipitant drug)Oates JA. Chapter 5. Goodman and Gilman 11th ed (2006):117–36; Hines. Response can refer to either precipitating an adverse event or altering the therapeutic effect of the object drug. Although some DDIs may be used for therapeutic benefit, this paper focuses on those with adverse clinical consequences. (based on the 2013 DDI conference series) / has participant some mechanism.

drug co-administration
type: Class
subclass of: OBI_0000011
definition: A planned process of administering more than one drug to the same individual over a specific time interval.
curator note: This class currently does not have a restriction. One candidate restriction is a necessary condition: 'has participant at some time' min 2 'drug product'. I was not able to find an OWL reasoner for Protege 5 that supports cardinality restrictions.
comment: An instance of this occurs when at least two or more drugs are taken in a specific time interval and the individual time interval for each drug administration overlaps with the other drug's or drugs' time interval(s). (SG1)

mechanism of interaction information
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug-drug interaction
example of usage: Non-steroidal anti-inflammatory drugs (NSAIDs) have antiplatelet effects which increase the bleeding risk when combined with oral anticoagulants such as warfarin. The antiplatelet effect of NSAIDs lasts only as long as the NSAID is present in the circulation, unlike aspirin’s antiplatelet effect, which lasts for up to 2 weeks after aspirin is discontinued.
example of usage: Timolol is a nonselective beta-blocker, and timolol eye drops have been shown to produce systemic beta-blockade. Timolol is metabolized by CYP2D6, and patients who are deficient in CYP2D6 (PMs) have been shown to develop higher timolol plasma concentrations following timolol ophthalmic aqueous drops.
definition: An information content entity that represents a drug interaction as a directional series of molecular processes.
editor note: This is an information content entity that is about a clinically measurable drug-drug interaction.
alternative term: drug interaction mechanism
MPIO user-centered definition: An assertion about the process or the processes by which a drug-drug interaction clinical consequence occurs.
comment: An instance of this entity would represent the biochemical process by which pharmacokinetic or pharmacodynamic DDI is thought to occur.

drug-drug interaction evidence
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug co-administration
definition: An information content entity that is about a drug co-administration and is intended to be specified input into the assessment of whether a drug-drug interaction exists or not.
comment: An instance of this type represents a information artifact used to establish knowledge for or against the existence of a drug-drug interaction.

clinically relevant potential drug-drug interaction
type: Class
subclass of: potential drug-drug interaction
definition: A potential drug-drug interaction that is causally linked to an elevated risk of an adverse event that warrants a drug-drug interaction management option.
comment: Alternative definitions use the risk of harm instead of the risk of an AE.

bioavailability measurement datum
type: Class
equivalent class: Restriction
  on property: is_specified_output_of
  some values from: drug bioavailability assay
subclass of: IAO_0000032
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug product
definition: A scalar measurement datum that is the specified outcome of a drug bioavailability assay.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen
alternative term: F

drug bioavailability assay
type: Class
subclass of: assay
subclass of: Restriction
  on property: OBI_0000293
  some values from: bioavailability
definition: An assay with the objective to capture information about the bioavailability of an active ingredient in a drug product.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

obsolete_drug-drug interaction effect
type: Class
subclass of: ObsoleteClass
definition: An entity that is the result of a drug-drug interaction.
IAO_0000231: IAO_0000226
IAO_0100001: drug-drug interaction effect
deprecated: true

first pass effect disposition
type: Class
subclass of: BFO_0000016
subclass of: Restriction
  on property: inheres in
  some values from: drug product
definition: It is a disposition that is borne by drug product and is realized by the metabolism of the active pharmaceutical ingredient in that drug product before entering systemic circulation, when ingested.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

drug first pass metabolism assay
type: Class
subclass of: assay
subclass of: Restriction
  on property: OBI_0000293
  some values from: first pass effect disposition
definition: An assay with the objective to capture information about the first pass metabolism of an active ingredient in a drug product.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

first pass metabolism measurement datum
type: Class
equivalent class: Restriction
  on property: is_specified_output_of
  some values from: drug first pass metabolism assay
subclass of: IAO_0000032
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug product
definition: A scalar measurement datum that is the specified outcome of a drug first pass metabolism assay.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

absorbability
type: Class
subclass of: BFO_0000016
definition: Absorbability is a disposition that is borne by a material entity that if realized is realized by the material entity taken up by another material entity in a different state of matter.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen
definition source: Daintith J (ed.): A Dictionary of Chemistry. 2008. Oxford University Press, Oxford UK.

drug absorbability assay
type: Class
subclass of: assay
subclass of: Restriction
  on property: OBI_0000293
  some values from: Class
    intersection of: absorbability
    intersection of: Restriction
      on property: inheres in
      some values from: drug product
definition: An assay with the objective to capture information about the absorbability of an active ingredient in a drug product.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

absorbability measurement datum
type: Class
equivalent class: Restriction
  on property: is_specified_output_of
  some values from: drug absorbability assay
subclass of: IAO_0000032
subclass of: Restriction
  on property: IAO_0000136
  some values from: drug product
definition: A a scalar measurement datum that is the specified outcome of an drug absorbability assay.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen
alternative term: AUC

drug maximum concentration assay
type: Class
subclass of: assay
subclass of: Class
  intersection of: Restriction
    on property: OBI_0000293
    some values from: drug product
  intersection of: Restriction
    on property: OBI_0000293
    some values from: organism
definition: An assay that measures the maximum concentration of an active ingredient of a drug product in a specified compartment of the body of an organism after the first dose of the drug product has been administered.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

drug maximum concentration measurement datum
type: Class
equivalent class: Restriction
  on property: is_specified_output_of
  some values from: drug maximum concentration assay
subclass of: IAO_0000032
definition: A scalar measurement datum that is the specified outcome of a drug maximum concentration assay.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen
alternative term: Cmax

primary total clearance enzyme role
type: Class
subclass of: BFO_0000023
subclass of: Restriction
  on property: inheres in
  some values from: enzyme
definition: A role that is borne by the enzyme responsible for 50% or more of the active pharmaceutic ingredient or metabolite’s total clearance from the body. The role role is realized by the metabolic process of the active pharmaceutical ingredient or metabolite.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

primary metabolic clearance enzyme role
type: Class
subclass of: BFO_0000023
definition: A role that is borne by the enzyme responsible for 50% or more of the active pharmaceutic ingredient or metabolite’s total metabolic clearance from the body.
definition editor: Anuj Shah
definition editor: Mathias Brochhausen

drug-drug interaction description from drug package insert
type: Class
subclass of: drug-drug interaction description
definition: A drug-drug interaction description that is part of a drug package insert.

drug-drug interaction description from FDA label information
type: Class
subclass of: drug-drug interaction description from drug package insert
subclass of: Restriction
  on property: part of
  some values from: U.S. Food and Drug Administration drug label
definition: A drug-drug interaction description from a drug package insert for an FDA approved drug.

drug package insert
type: Class
subclass of: IAO_0000310
definition: A document that is provided along with a medication and that gives additional information about that medication.
definition source: https://en.wikipedia.org/w/index.php

U.S. Food and Drug Administration drug label
type: Class
subclass of: drug package insert
definition: A drug package insert for FDA-approved drugs that gives information about the drug, including the approved doses and how it's to be given to treat the medical condition for which it was approved.
alternative term: FDA drug label
definition source: http://www.fda.gov/forpatients/other/offlabel/default.htm

pharmacokinetic area under curve
type: Class
subclass of: area under curve
subclass of: Restriction
  on property: IAO_0000136
  some values from: Restriction
    on property: part of
    some values from: drug product
definition: An area under curve in a plot of concentration of granular part of a drug product in some matrix (medium) against time.

drug package AUC information
type: Class
equivalent class: Class
  intersection of: Restriction
    on property: part of
    some values from: drug package insert
  intersection of: Restriction
    on property: IAO_0000136
    some values from: pharmacokinetic area under curve
subclass of: IAO_0000030
definition: An information content entity that is part of a drug package insert and that is about a pharmacokinetic area under the curve measurement result.
definition editor: Mathias Brochhausen

obsolete_evidence information content entity
type: Class
subclass of: ObsoleteClass
definition: An information content entity that provides statements or data that are used to support or refute an assertion.
definition editor: Mathias Brochhausen
definition source: Standards Development Working Group of the "Addressing PDDI Evidence Gaps" porject.
deprecated: true

pharmacokinetic area under curve information
type: Class
equivalent class: Restriction
  on property: IAO_0000136
  some values from: pharmacokinetic area under curve
subclass of: IAO_0000030
definition: An information content entity that is about a pharmacokinetic area under curve.
definition editor: Mathias Brochhausen
alternative term: AUC information

information about increase of pharmacokinetic area under the curve
type: Class
subclass of: pharmacokinetic area under curve information
subclass of: Restriction
  on property: IAO_0000136
  min qualified cardinality: 2
  on class: pharmacokinetic area under curve
definition: A pharmacokinetic area under curve information that is about at least 2 area under curve measurments and the time series shows an increase of the area under curve.
definition editor: Mathias Brochhausen

information about decrease of pharmacokinetic area under the curve
type: Class
subclass of: pharmacokinetic area under curve information
subclass of: Restriction
  on property: IAO_0000136
  min qualified cardinality: 2
  on class: pharmacokinetic area under curve
definition: A pharmacokinetic area under curve information that is about at least 2 area under curve measurments and the time series shows a decrease of the area under curve.
definition editor: Mathias Brochhausen

pharmacokinetic process
type: Class
subclass of: biological_process
definition: A biological process that has as a participant a part of a drug product and includes absorption, distribution, metabolism and excretion of that substance.
definition editor: Mathias Brochhausen
definition source: "Addressing PDDI Evidence Gaps" Standards Development Group.

evidence information content entity
type: Class
subclass of: IAO_0000030
definition: An information content entity that is used to support or refute an assertion.
definition editor: Mathias Brochhausen
definition source: "Addressing PDDI Evidence Gaps" Standards Development Group

evidence material information
type: Class
equivalent class: Class
  intersection of: IAO_0000030
  intersection of: Restriction
    on property: part of
    some values from: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000142
    some values from: Class
      intersection of: BFO_0000001
      intersection of: Restriction
        on property: is_specified_input_of
        some values from: assay
subclass of: IAO_0000030
definition: An information content entity that is part of an evidence information content entity and mentions the specified input to an assay.
definition editor: Mathias Brochhausen
definition source: "Addressing PDDI Evidence Gaps" Standards Development Group

evidence data item
type: Class
equivalent class: Class
  intersection of: IAO_0000027
  intersection of: Restriction
    on property: part of
    some values from: evidence information content entity
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: assay
subclass of: IAO_0000027
definition: A data item that is part of an evidence information content entity and is the specified output of an assay.
definition editor: Mathias Brochhausen
definition source: "Addressing PDDI Evidence Gaps" Standards Development Group

evidence information from clinical study
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial.
definition editor: Mathias Brochhausen
alternative term: EV_Clinical_Trial
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from drug metabolism identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process, as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from drug metabolism inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay and that has parts of a drug or drug metabolites, which participate in a negative regulation of a metabolic process, as it's specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_Inhibit
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from transport protein identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from transport protein inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of drug component transporter.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from observation-based adverse drug event report
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: causally downstream of
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that was triggered by an adverse drug event.
definition editor: Mathias Brochhausen
alternative term: EV_Case_Report_ADE
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from observational study
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: Class
        intersection of: assay
        intersection of: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: BFO_0000040
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an observation design.
definition editor: Mathias Brochhausen
alternative term: EV_Observational
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 drug metabolism identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 recombinant drug metabolism identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: cell line
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has a cell line as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Enz_ID_Cyp450_Hum_Recom
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 recombinant drug metabolism identification experiment using chemical inhibitors
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: cell line
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has human tissue specimen as a specified input, and that has chemical inhibitors as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450_Hum_Recom_Chem
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 recombinant drug metabolism identification experiment using antibody inhibitors
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: cell line
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has human tissue specimen as a specified input, and that has antibody inhibitors as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450_Hum_Recom_Antibody
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 human microsome drug metabolism identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has human tissue specimen as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450_Hum_Microsome
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 human microsome drug metabolism identification experiment using chemical inhibitors
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has human tissue specimen as a specified input, and that has chemical inhibitors as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450_Hum_Microsome_Chem
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 human microsome drug metabolism identification experiment using antibody inhibitors
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay that has a part of a drug or a drug metabolite, which participate in a metabolic process that has CYP 450 as a participant, as a specified input, and that has human tissue specimen as a specified input, and that has antibody inhibitors as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_ID_Cyp450_Hum_Microsome_Antibody
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 metabolic enzyme inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay and that has parts of a drug or drug metabolites, which participate in a negative regulation of a metabolic process that also involves CYP 450, as it's specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_Inhibit_Cyp450
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from drug-drug interaction clinical trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that has at least two drugs as its specified input.
definition editor: Mathias Brochhausen
alternative term: EV_CT_DDI
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from non-randomized drug-drug interaction clinical trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Class
        complement of: Restriction
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that has at least two drugs as its specified input and does not have group randomization as a part.
definition editor: Mathias Brochhausen
alternative term: EV_PK_DDI_NR
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from parallel groups drug-drug interaction clinical trial'
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Class
        complement of: Restriction
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that has at least two drugs as its specified input, and that does not have group randomization as a part, and that realizes a clinical study design that has parallel group design as a part.
definition editor: Mathias Brochhausen
alternative term: EV_PK_DDI_Par_Grps
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from randomized drug-drug interaction clinical trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: has part
        some values from: group randomization
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that has at least two drugs as its specified input and does have group randomization as a part.
definition editor: Mathias Brochhausen
alternative term: EV_PK_DDI_RCT
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from pharmacokinetic trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that focusses on pharmacokinetics.
definition editor: Mathias Brochhausen
alternative term: EV_CT_Pharmacokinetic
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from genotyped pharmacokinetic trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that focusses on pharmacokinetics and that has organisms as participants that participated in genotyping.
definition editor: Mathias Brochhausen
alternative term: EV_CT_PK_Genotype
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from observation-based report
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: causally downstream of
        some values from: BFO_0000003
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that was triggered by an occurrent.
definition editor: Mathias Brochhausen
alternative term: EV_Case_Report
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from observational pharmacokinetic study
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: Class
        intersection of: assay
        intersection of: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: drug product
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an observation design and has a drug product as a specified input, and that focuses on pharmacokinetics in an organism.
definition editor: Mathias Brochhausen
alternative term: EV_PK_Observational
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from observational drug-drug interaction study
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: Class
        intersection of: assay
        intersection of: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an observation design and has at least two drug products as a specified input, and that focuses on pharmacokinetics in an organism.
definition editor: Mathias Brochhausen
alternative term: EV_PK_DDI_Observational
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 recombinant drug metabolism inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: cell line
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay and that has parts of a drug or drug metabolites, which participate in a negative regulation of a metabolic process that also involves CYP 450, as it's specified input, and that has cell lines as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_Inhibit_Cyp450_Hum_Recom
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from CYP450 human microsome drug metabolism inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay and that has parts of a drug or drug metabolites, which participate in a negative regulation of a metabolic process that also involves CYP 450, as it's specified input, and that has human tissue specimens as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Met_Enz_Inhibit_Cyp450_Hum_Microsome
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

public adverse event reporting database
type: Class
subclass of: IAO_0000100
definition: A data set that is structured and stored on a computer and that is publicly available and contains reports of adverse events.
definition editor: Mathias Brochhausen

evidence information from a publicly reported observation-based adverse drug event report
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: part of
    some values from: public adverse event reporting database
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: causally downstream of
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that was triggered by an adverse drug event, and that is part on a publicly accessible database for adverse event reporting.
definition editor: Mathias Brochhausen
alternative term: EV_Case_Report_ADE_Public_Reported
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from an observation-based case-report of a drug interaction
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: causally downstream of
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that was triggered by an adverse drug event following the administration of at least two drugs.
definition editor: Mathias Brochhausen
alternative term: EV_Case_Report_DI
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

adverse drug reaction causality evaluation protocol
type: Class
subclass of: protocol
definition: A protocol that specifies methodology to assess the likelihood of a drug to be the cause for an adverse event by answering a set of questions about the drug reaction report.
definition editor: Mathias Brochhausen

evidence information from an evaluated observation-based case-report of a drug interaction
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: causally downstream of
        some values from: Class
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: Class
      intersection of: OBI_0000011
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that was triggered by an adverse drug event following the administration of at least two drugs, and that is the specified outcome of a adverse drug reaction causality evaluation.
definition editor: Mathias Brochhausen
alternative term: EV_Case_Report_DI_Evaluated
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

clearance measurement datum
type: Class
subclass of: IAO_0000109
definition: A measurement datum that is the specified output of measuring the volume of plasma that is completely cleared off of a substance per unit time.
definition editor: Mathias Brochhausen
alternative term: Cl

fold
type: Class
subclass of: ratio
definition: A dimensionless ratio unit which describes the relation between the two numbers x and y by giving the multiplier necessary to make x equal to y.
definition editor: Mathias Brochhausen

pharmacokinetic parameter ratio directionality
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: part of
  some values from: pharmacokinetic parameter ratio
definition: An information content entity that is part of a pharmacokinetic parameter ratio and that describes whether the relationship between the numbers of the ratio is a positive or a negative one.
definition editor: Mathias Brochhausen

area under the curve ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the pharmacokinetic area under the curve (AUC) for a given active ingredient or metabolite in an organism with and without the inhibiting drug present in the organism.
definition editor: Mathias Brochhausen
alternative term: AUC ratio

renal clearance ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the measurement of the volume of blood, serum, or plasma from which an active ingredient or a metabolite is completely removed by the kidney in a given amount of time in an organism with and without the inhibiting drug present in the organism.
alternative term: CL_R ratio

pharmacokinetic parameter ratio
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: IAO_0000136
  some values from: pharmacokinetic process
subclass of: Restriction
  on property: has value specification
  some values from: value specification
definition: An information content entity that describes the relationship between the mean (arithmetic and geometric) of measurements of a pharmacokintect parameter for a given drug A in absence of another drug and the mean (arithmetic and geometric) of measurements of a pharmacokintect parameter for a given drug A coadministrated with another drug B.
definition editor: Mathias Brochhausen

pharmacokinetic parameter ratio decrease
type: Class
subclass of: pharmacokinetic parameter ratio directionality
definition: An pharmacokinetic parameter directionality that describes negative relationship between the numbers of the ratio.
definition editor: Mathias Brochhausen

pharmacokinetic parameter ratio increase
type: Class
subclass of: pharmacokinetic parameter ratio directionality
definition: An pharmacokinetic parameter directionality that describes positive relationship between the numbers of the ratio.
definition editor: Mathias Brochhausen

drug maximum concentration ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the drug maximum concentration measurements for a given active ingredient or metabolite in an organism with and without the inhibiting drug present in the organism.
definition editor: Mathias Brochhausen
alternative term: Cmax ratio

half-life ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the time it takes for half of a given active ingredient or metabolite to be removed from the system of an organism with and without the inhibiting drug present in the organism.
definition editor: Mathias Brochhausen
alternative term: t1/2 ratio

hepatic clearance ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the measurement of the volume of blood, serum, or plasma from which an active ingredient or a metabolite is completely removed by the liver in a given amount of time in an organism with and without the inhibiting drug present in the organism.
definition editor: Mathias Brochhausen
alternative term: CL_H ratio

bioavailability ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the relation between the measurement of the fraction of the administered dose of an unaltered drug that reaches systemic circulation in the abscene of another drug, and the the measurement of the fraction of the administered dose of an unaltered drug that reaches systemic circulation when coadministered with another drug.
definition editor: Mathias Brochhausen
alternative term: F ratio

evidence information from phenotyped pharmacokinetic trial
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about a clinical drug trial that focusses on pharmacokinetics and that has organisms as participants that participated in phenotyping.
definition editor: Mathias Brochhausen
alternative term: EV_CT_PK_Phenotype
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein transport protein identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of P-Glycoprotein.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_P_Glycoprotein
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein transport protein identification experiment using Caco 2 cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Caco-2 cell
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of P-Glycoprotein using bidirectional flux in Caco-2 cells.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_P_Glycoprotein_Caco_2
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein transport protein identification experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of P-Glycoprotein using overexpressed cells.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_P_Glycoprotein_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B1 transport protein identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of OATP1B1.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_OATP1B1
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B3 transport protein identification experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of OATP1B3.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_OATP1B3
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B1 transport protein identification experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of OATP1B1 using overexpressed cells.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_OATP1B1_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B3 transport protein identification experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of drug components being imported across plasma membranes by involvement of OATP1B3 using overexpressed cells.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_ID_OATP1B3_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of P-Glycoprotein.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_P_Glycoprotein
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein inhibition experiment using Caco 2 cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Caco-2 cell
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of P-Glycoprotein, and that has Caco 2 cell lines as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_P_Glycoprotein_Caco_2
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from p-glycoprotein inhibition experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of P-Glycoprotein, and that has overexpressed cell lines as a specified input.
alternative term: EV_EX_Trans_Prot_Inhibit_P_Glycoprotein_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B1 inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of OATP1B1.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_OATP1B1
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B1 inhibition experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of OATP1B1, and that has overexpressed cell lines as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_OATP1B1_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B3 inhibition experiment using overexpressed cell lines
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of OATP1B3, and that has overexpressed cell lines as a specified input.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_OATP1B3_Overexpressed_Cells
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

evidence information from OATP1B3 inhibition experiment
type: Class
equivalent class: Class
  intersection of: evidence information content entity
  intersection of: Restriction
    on property: IAO_0000136
    some values from: Class
      intersection of: assay
      intersection of: Restriction
        on property: BFO_0000055
        some values from: Restriction
      intersection of: Restriction
        on property: OBI_0000293
        some values from: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the inhibition of OATP1B3.
definition editor: Mathias Brochhausen
alternative term: EV_EX_Trans_Prot_Inhibit_OATP1B3
definition source: https://dbmi-icode-01.dbmi.pitt.edu/dikb-evidence/just-inclusion-criteria/just-inclusion-criteria.html

volume of distribution ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the theoretical volume that would be necessary to contain the total amount of an administered drug at the same concentration that it is observed in a bodily fluid for a given active ingredient or metabolite in an organism with and without the inhibiting drug present. It is expressed as a ratio of the volume of distribution with the inhibitor present as the numerator and absent as the denominator.
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey
definition source: amended definition from Spruill WJ, Wade WE, DiPiro JT, Blouin RA, Pruemer JM: Concepts in Clinical Pharmacology. Bethesda, MA, 2014 based on a comment by Philip E. Empey.

time to maximum drug concentration ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the time from dose administration until a drug reaches its maximum concentration for a given active ingredient or metabolite in an organism with and without the inhibiting drug present in the organism. It is expressed as a ratio of the Tmax with the inhibitor present as the numerator and absent as the denominator.
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey
alternative term: Tmax ratio

efflux ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the drug transmembrane transporter activity regarding an active ingredient or a metabolite in an in vitro bi-directional transport assay. It is expressed as a ratio of the apparent permeability in the basal to apical direction as the numerator and apparent permeability in the apical-to-basolateral direction as the denominator.
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey

net flux ratio
type: Class
subclass of: pharmacokinetic parameter ratio
definition: A pharmacokinetic parameter ratio that describes the drug transmembrane transporter activity regarding an active ingredient or a metabolite in an in vitro bi-directional transport assay using transporter transfected cell model. It is expressed as a ratio of the efflux ratio in cells transfected with the transporter as the numerator and efflux ratio in cells not transfected with the transporter (wild type cells) as the denominator.
definition editor: Mathias Brochhausen
definition editor: Philip E. Empey

inhibitory constant
type: Class
subclass of: IAO_0000109
definition: A measurement data that gives the concentration of an inhibiting agent to reach half of the maximum inhibition of a meabolic or transport process.
definition editor: Mathias Brochhausen
alternative term: ki

probe subtrate role
type: Class
subclass of: BFO_0000023
definition: The role that inheres in a chemical substance and that, if realized, is realized by a single, specified metabolic or transport reaction, which is being affected by another chemically substance pharmacokinetically in a drug-drug interaction experiment or natural product-drug interaction.
definition editor: Mathias Brochhausen

clinical study
type: Class
equivalent class: Class
  intersection of: assay
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: clinical study design
subclass of: assay
definition: An assay that is the realization of a concretization of a clinical study design.
definition editor: Mathias Brochhausen

drug-drug interaction effect
type: Class
equivalent class: Restriction
  on property: process is result of
  some values from: drug-drug interaction
subclass of: biological_process
definition: A biological process that is the result of a drug-drug interaction.
definition editor: Mathias Brochhausen

ratio value specification
type: Class
subclass of: value specification
definition editor: A value specification that specifies the relationship between two numbers.
definition editor: Mathias Brochhausen

percentage value specification
type: Class
subclass of: ratio value specification
definition: A ratio value specification where the relationship between to numbers is expressed as a fraction of 100.
definition editor: Mathias Brochhausen

drug concept set identifier
type: Class
subclass of: identifier
definition: An identifier that denotes a set of drug identifiers.
definition editor: Mathias Brochhausen
comment: Term and definition provided by Richard D. Boyce.

cryopreserved human hepatocyte population
type: Class
subclass of: cultured cell population
definition: a cultured cell population that is derived from hepatocytes isolated from a human being and that has undergone cryopreservation
definition editor: John Judkins
comment: Cells isolated from human liver that have been frozen and stored, usually in liquid nitrogen; an in vitro model system for human metabolism or transport; cells can be thawed and used in metabolism or transport assays

freshly isolated human hepatocyte population
type: Class
subclass of: cultured cell population
definition: a cultured cell population that is derived from hepatocytes freshly isolated from a human being
definition editor: John Judkins
comment: Cells isolated from human liver, never frozen; an in vitro model system for human metabolism or transport; cells can be used in metabolism or transport assays

transgenic animal hepatocyte population
type: Class
subclass of: cultured cell population
definition: a cultured cell population that is derived from cells isolated from the liver of a transgenic organism
definition editor: John Judkins
comment: Cells isolated from livers of transgenic animals; an in vitro model system for human metabolism or transport

sandwich cultured hepatocyte population
type: Class
subclass of: cultured cell population
definition: a cultured cell population derived from hepatocytes, in which, during the culturing process, the cells occupy a region bound by two parallel plates made of gelled collagen
definition editor: John Judkins

human intestinal epithelial cell population
type: Class
subclass of: cultured cell population
definition: a cultured cell population derived from cells isolated from human intestinal epithelium
definition editor: John Judkins

HepaRG cell
type: Class
subclass of: cell line cell
definition: an immortal human liver-derived cell line cell that is part of the HepaRG cell line
definition editor: John Judkins
comment: HepaRG cells are terminally differentiated human hepatocellular carcinoma cells that reproducibly express drug-metabolizing enzymes and transporters. They are commonly used for metabolism and transport evaluations in vitro, as they respond and function like primary human hepatocytes across a range of applications.

Fa2N-4 cell
type: Class
subclass of: cell line cell
definition: an immortal human liver-derived cell line cell that is part of the Fa2N-4 cell line
definition editor: John Judkins
comment: Fa2N-4 cell line was prepared by immortalizing hepatocytes from a 12 year-old Caucasian female donor with Simian virus 40 large T antigen. The donor was tested negative for CMV, HIV, HBV, and HCV. This cell line was mainly used for major CYP induction studies (including CYP3A4/5, 1A2, 2B6, and 2C9) with limitations. Hepatic transporter expression levels are low.

HBG BC2 cell
type: Class
subclass of: cell line cell
definition: an immortal human liver-derived cell line cell that is part of the HBG BC2 cell line
definition editor: John Judkins
alternative term: BC2 cell
comment: An Immortalized human hepatoma cell line possesses the capacities of being reversibly differentiated in vitro, and of maintaining a relatviely higher mtabolic rate in the differentiated phase. It is mainly used for repeated toxicity evaluation in vitro.

human liver cytosolic fraction
type: Class
subclass of: processed material
definition: a processed material that has a supernatant role resulting from high-speed centrifugation of a human liver S9 fraction
definition editor: John Judkins
comment: Cell cytosol obtained via centrifugation of human liver cells. It is commonly used to support in vitro DMPK studies related to liver cytsolic enzymes, especially non-CYP enzymes, such as phase I enzyme aldehyde oxidase (AO), phase II enzyme SULT.

human intestine cytosolic fraction
type: Class
subclass of: processed material
definition: a processed material that has a supernatant role resulting from high-speed centrifugation of a human intestine S9 fraction
definition editor: John Judkins
comment: Cell cytosol obtained via centrifugation of human enterocytes. It is commonly used to support in vitro evaluation of intestinal cytosolic enzymes in the first-pass metabolism of orally ingested xenobitotics.

human liver S9 fraction
type: Class
subclass of: processed material
definition: a processed material that has a supernatant role resulting from medium-speed centrifugation of a human liver homogenate
definition editor: John Judkins
comment: A mixture of cell cytosol and microsomes isolated by disruption and centrifugation of human liver cells. It contains a wide range of drug-metabolizing enzymes and is commonly used for in vitro DMPK studies, including both phase I and phase II xenobiotic metabolism.

individual human intestinal microsomal fraction
type: Class
subclass of: processed material
definition: a processed material that has a centrifuge pellet role resulting from high-speed centrifugation of a human intestine S9 fraction, which is derived from a single donor
definition editor: John Judkins
alternative term: individual human intestinal microsomes
comment: Subcellular fractions, derived from endoplasmic reticulum that has been isolated from enterocytes from a single human donor. They contain a rich variety of metaboliz enzymes for assessing first-pass metabolism for orally ingested drugs.

pooled human liver microsomal fraction
type: Class
subclass of: processed material
definition: a processed material that has a centrifuge pellet role resulting from high-speed centrifugation of a pool of human liver S9 fractions, which is derived from multiple donors
definition editor: John Judkins
alternative term: pooled human liver microsomes
comment: Subcellular fractions, derived from endoplasmic reticulum that has been isolated from liver cells from multiple human donors. They contain a rich variety of metaboliz enzymes (e.g. CYP, UGT, FMO) for assessing drug DMPK in vitro, such as metabolic stability, CYP inhibition, CYP phenotyping, metabolite charaterization, etc.

individual human liver microsomal fraction
type: Class
subclass of: processed material
definition: a processed material that has a centrifuge pellet role resulting from high-speed centrifugation of a human liver S9 fraction, which is derived from a single donor
definition editor: John Judkins
alternative term: individual human liver microsomes
comment: Subcellular fractions, derived from endoplasmic reticulum that has been isolated from liver cells from a single human donor. They contain a rich variety of metaboliz enzymes (e.g. CYP, UGT, FMO) for assessing drug DMPK in vitro, such as metabolic stability, CYP inhibition, CYP phenotyping, metabolite charaterization, etc.

pooled human intestinal microsomal fraction
type: Class
subclass of: processed material
definition: a processed material that has a centrifuge pellet role resulting from high-speed centrifugation of a pool of human intestine S9 fractions, which is derived from multiple donors
definition editor: John Judkins
alternative term: pooled human intestinal microsomes
comment: Subcellular fractions, derived from endoplasmic reticulum that has been isolated from enterocytes of multiple human donors. They contain a rich variety of metaboliz enzymes for assessing first-pass metabolism for orally ingested drugs.

human intestine S9 fraction
type: Class
subclass of: processed material
definition: a processed material that has a supernatant role resulting from medium-speed centrifugation of a human intestine homogenate
definition editor: John Judkins
comment: A mixture of cell cytosol and microsomes isolated by disruption and centrifugation of human enterocytes. It contains a wide range of drug-metabolizing enzymes and is commonly used for in vitro DMPK studies, including both phase I and phase II xenobiotic metabolism.

baculovirus-insect recombinant protein production host cell
type: Class
subclass of: cultured cell
definition: a cultured cell that is part of a culture derived from an insect and has a recombinant protein production host role
definition editor: John Judkins
alternative term: baculovirus-insect cell
comment: Insect cell-hosted viral system used to produce and express recombinant proteins/enzymes; these systems are used in metabolism studies

E. coli recombinant protein production host cell
type: Class
equivalent class: Class
  intersection of: cultured cell
  intersection of: Escherichia coli
  intersection of: Restriction
    on property: RO_0000053
    some values from: recombinant protein production host role
subclass of: cultured cell
definition: a cultured cell of the species Escherichia coli that bears a recombinant protein production host role
definition editor: John Judkins
comment: Prokaryotic in vitro system used to produce and express recombinant proteins/enzymes; these systems are used in metabolism studies

percent inhibition
type: Class
subclass of: IAO_0000109
definition: a measurement datum that describes the decrease in activity of a transporter or enzyme in the presence of a compound from activity in the control experiment
definition editor: John Judkins
alternative term: % inhibition
comment: Percent inhibition: the percent decrease in activity of a transporter or enzyme in the presence of a compound from activity in the control experiment

midazolam 1'-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has midazolam as input and 1'-hydroxymidazolam as output
definition editor: John Judkins
comment: Hydroxylation of midazolam at the 1' position to form 1'-hydroxymidazolam;probe substrate of CYP3A4 activity (used to measure CYP3A4 activity)

7-ethoxyresorufin O-deethylation
type: Class
equivalent class: Class
  intersection of: deethylation
  intersection of: Restriction
    on property: has input
    some values from: 7-ethoxyresorufin
  intersection of: Restriction
    on property: has output
    some values from: resorufin
subclass of: deethylation
definition: a deethylation that has 7-ethoxyresorufin as input and resorufin as output
definition editor: John Judkins
comment: O-deethylation of 7-Ethoxyresorufin to form resorufin; probe substrate of CYP1A activity

nifedipine dehydrogenation
type: Class
subclass of: dehydrogenation
definition: a dehydrogenation that has nifedipine as input and has dehydronifedipine as output
definition editor: John Judkins
comment: Dehydrogenation of nifedipine to dehydronifedipine;probe substrate of CYP3A4 activity (used to measure CYP3A4 activity)

bufuralol 1'-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has bufuralol as input and 1'-hydroxybufurolol as output
definition editor: John Judkins
comment: 1'-hydroxylation of bufuralol to form 1'-hydroxybufurolol; probe substrate of CYP2D6 activity

omeprazole 5-hydroxylation
type: Class
equivalent class: Class
  intersection of: hydroxylation
  intersection of: Restriction
    on property: has input
    some values from: omeprazole
  intersection of: Restriction
    on property: has output
    some values from: 5'-hydroxyomeprazole
subclass of: hydroxylation
definition: a hydroxylation that has omeprazole as input and has 5-hydroxyomeprazole as output
definition editor: John Judkins
comment: Hydroxylation of omeprazole at the 5 position to form 5-hydroxyomeprazole; probe substrate of CYP2C19 activity

bupropion hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has bupropion as input and 1-hydroxybupropion as output
definition editor: John Judkins
comment: Hydroxylation of bupropion at the 1 position to form 1-hydroxybupropion; probe substrate of CYP2B6 activity

paclitaxel 6-alpha hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has paclitaxel as input and 6-alpha-hydroxypaclitaxel as output
definition editor: John Judkins
comment: Hydroxylation of paclitaxel at the 6-alpha position to form 6-alpha-hydroxypaclitaxel; probe substrate of CYP2C8 activity

phenacetin O-deethylation
type: Class
subclass of: deethylation
definition: a deethylation that has phenacetin as input and acetaminophen as output
definition editor: John Judkins
comment: O-deethylation of phenacetin to form acetaminophen; probe substrate of CYP1A2 activity

coumarin 7-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has coumarin as input and has 7-hydroxycoumarin as output
definition editor: John Judkins
comment: Hydroxylation of coumarin at the 7 position to form 7-hydroxycoumarin; probe substrate of CYP2A6 activity

testosterone 6-beta-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has testosterone as input and 6-beta-hydroxytestosterone as output
definition editor: John Judkins
comment: Hydroxylation of testosterone at the 6-beta position to form 6-beta-hydroxytestosterone; probe substrate of CYP3A4 activity

dextromethorphan O-demethylation
type: Class
equivalent class: Class
  intersection of: demethylation
  intersection of: Restriction
    on property: has input
    some values from: dextromethorphan
  intersection of: Restriction
    on property: has output
    some values from: dextrorphan
subclass of: demethylation
definition: a demethylation that has dextromethorphan as input and has dextrorphan as output
definition editor: John Judkins
comment: O-demethylation of dextromethorphan to form dextrorphan;probe substrate of CYP2C9 activity

diclofenac 4'-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has diclofenac as input and 4'-hydroxydiclofenac as output
definition editor: John Judkins
comment: Hydroxylation of diclofenac to form 4'-hydroxydiclofenac; probe substrate of CYP2C9 activity

recombinant protein production host role
type: Class
subclass of: target of material addition role
definition: a target of material addition role that is borne by a cultured cell and, if realized, is realized in recombinant protein production
definition editor: John Judkins
comment: An in vitro system that uses a combination of genetic pieces typically in a plasmid that is incorporated into a host cell which is used to produce the protein of interest

number of doses in a day
type: Class
subclass of: count
definition: a count of administrations of a substance to an organism over a duration of 24 hours
definition editor: John Judkins
comment: the frequency of administration of the precipitant during the day

Hep G2 cell
type: Class
subclass of: cell line cell
definition: an immortal human liver-derived cell line cell that is part of the Hep G2 cell line
definition editor: John Judkins
comment: HepG2 was derived from a liver hepatocellular carcinoma of a 15 year-old Caucasian male. HepG2 cells secrete a variety of major plasma proteins. They are a suitable in vitro model system for the study of polarized human hepatocytes, with high degree of morphological and functional differentiation in vitro. It can be used for hepatic metabolism, transport, and toxicity evaluations in vitro. It was tested negative for HBV.

CHO transfected cell
type: Class
equivalent class: Class
  intersection of: CHO cell
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: transfection
subclass of: CHO cell
definition: a CHO cell that is a specified output of a transfection
definition editor: John Judkins
comment: Chinese hamster ovary cells transfected with human transporter DNA; an in vitro model used to study transporters

Hep G2 transfected cell
type: Class
equivalent class: Class
  intersection of: Hep G2 cell
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: transfection
subclass of: Hep G2 cell
definition: a Hep G2 cell that has a target of material addition role and is a specified input of a transfection
definition editor: John Judkins
comment: Well characterized immortalized human liver cancer cell line used as an in vitro model system of metabolism or transport

siRNA knockout Caco-2 cell
type: Class
equivalent class: Class
  intersection of: Caco-2 cell
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: Class
      intersection of: gene knock out
      intersection of: Restriction
        on property: OBI_0000293
        some values from: siRNA oligonucleotide
subclass of: Caco-2 cell
definition: a Caco-2 cell that is a specified output of a gene knockout that has specified input siRNA
definition editor: John Judkins
comment: Caco-2 cells treated with siRNA designed to down-regulate specific enzymes or transporters

293 transfected cell
type: Class
equivalent class: Class
  intersection of: 293-derived cell
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: transfection
subclass of: 293-derived cell
definition: a 293-derived cell that is a specified output of a transfection
definition editor: John Judkins
alternative term: HEK293 transfected cell
comment: Immortalized human kideny cells transfected/transduced with a transporter or enzyme; an in vitro model overexpressing transporter or enzyme of interest; used for transporter or metabolism assays

number of liver donors
type: Class
subclass of: count
definition: a count of human beings from whom originate hepatocytes to be used in an investigation
definition editor: John Judkins
alternative term: Number of Livers
comment: Number of individual liver samples used

diclofenac 4'-hydroxylation
type: Class
equivalent class: Class
  intersection of: hydroxylation
  intersection of: Restriction
    on property: has input
    some values from: diclofenac
  intersection of: Restriction
    on property: has output
    some values from: 4'-hydroxydiclofenac
subclass of: hydroxylation
definition: a hydroxylation that has diclofenac as input and 4'-hydroxydiclofenac as output
comment: Hydroxylation of diclofenac to form 4'-hydroxydiclofenac; probe substrate of CYP2C9 activity

tolbutamide methylhydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has tolbutamide as input and 4-hydroxytolbutamide as output
definition editor: John Judkins
comment: Methyhydroxylation of tolbutamide to form hydroxytolbutamide;probe substrate of CYP2D6 activity

estradiol glucuronosylation
type: Class
subclass of: glucuronosylation
definition: a glucuronosylation that has estradiol as input and has estradiol-3-glucuronide as output
definition editor: John Judkins
comment: Glucuronidation of estradiol to estradiol-3-glucuronide; probe substrate of UGT1A1 activity (used to measure UGT1A1 activity)

MDCK transfected cell
type: Class
equivalent class: Class
  intersection of: MDCK cell
  intersection of: Restriction
    on property: is_specified_output_of
    some values from: transfection
subclass of: MDCK cell
definition: an MDCK cell that is the specified output of a transfection
definition editor: John Judkins
comment: Dog cells transfected with human transporter; an in vitro model used to study transporters

lamotrigine glucuronosylation
type: Class
subclass of: glucuronosylation
definition: a glucuronosylation that has lamotrigine as input and has lamotrigine glucoronide as output
definition editor: John Judkins
alternative term: lamotrigine glucuronidation
comment: Glucuronidation of lamotrigine; probe substrate of UGT1A4 activity (used to measure UGT1A4 activity)

chlorzoxazone 6-hydroxylation
type: Class
subclass of: hydroxylation
definition: a hydroxylation that has chlorzoxazone as input and 6-hydroxychlorzoxazone as output
definition editor: John Judkins
comment: Hydroxylation of chlorzoxazone at the 6 position to form 6-hydroxychlorzoxazone; probe substrate of CYP2E1 activity

evidence information from drug metabolism induction experiment
type: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an in vitro assay and that has parts of a drug or drug metabolites, which participate in a POSITIVE regulation of a metabolic process, as its specified input.
definition editor: Mathias Brochhausen
definition source: Eric Chou
definition source: Richard D. Boyce

evidence information from drug transport protein induction experiment
type: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that realizes an ex vivo design, and that has chemical substances as its specific input, which are the outcome of the INDUCTION of drug component transporter.
definition editor: Mathias Brochhausen
definition source: Eric Chou
definition source: Richard D. Boyce

evidence information from chemical analytic characterization of material
type: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that has chemical substances as its specific input an that has as its specified output the identification and quantification of chemical constituents
definition editor: Mathias Brochhausen
definition source: Eric Chou
definition source: Richard D. Boyce

evidence information from chemical analytic metabolomics of material
type: Class
subclass of: evidence information content entity
definition: An evidence information content entity that is about an assay that has as its specific input the identity and quantity of chemical constituents of two or more chemical substances, and has is its specified output an assessment of the similarity of the input chemical substances.
definition editor: Mathias Brochhausen
definition source: Eric Chou
definition source: Richard D. Boyce

clinical drug role
type: Class
subclass of: BFO_0000023
definition: the role of a material entity to prevent, diagnose, treat, or study disease and/or its effects
definition editor: William Hogan
imported from: http://purl.obolibrary.org/obo/dron.owl
creator: William Hogan

drug product
type: Class
subclass of: BFO_0000040
definition: a material entity (1) containing at least one scattered molecular aggregate as part (the active ingredient) and (2) that is the bearer of a clinical drug role
definition editor: William Hogan
imported from: http://purl.obolibrary.org/obo/dron.owl
creator: William Hogan

active ingredient
type: Class
subclass of: role of scattered molecular aggregate
subclass of: Restriction
  on property: BFO_0000054
  all values from: Class
    intersection of: BFO_0000015
    intersection of: Restriction
      on property: has part
      some values from: drug administration
    intersection of: Restriction
      on property: has part
      some values from: Class
        intersection of: BFO_0000015
        intersection of: Restriction
editor preferred label: active ingredient role
definition: a role of a scattered molecular aggregate that is part of a drug product that is realized by (1) administration of the drug to an organism followed by (2) some change in the structure or functioning of some part of the organism
definition editor: William R. Hogan
imported from: http://purl.obolibrary.org/obo/dron.owl

role of scattered molecular aggregate
type: Class
equivalent class: Class
  intersection of: BFO_0000023
  intersection of: Restriction
    on property: inheres in
    some values from: scattered molecular aggregate
subclass of: BFO_0000023
editor preferred label: role of a scattered molecular aggregate
definition: a role borne by a scattered molecular aggregate and realized by its grains participating in one or more processes
definition editor: William R. Hogan
imported from: http://purl.obolibrary.org/obo/dron.owl

drug administration
type: Class
subclass of: treatment
subclass of: Class
  intersection of: treatment
  intersection of: Restriction
    on property: has participant
    some values from: drug product
  intersection of: Restriction
    on property: has participant
    some values from: organism
editor preferred label: administration of a drug product to an organism
definition: a treatment that has as participants an extended organism and a drug product and that results in part of the drug product being located in the extended organism
definition editor: William R. Hogan
imported from: http://purl.obolibrary.org/obo/dron.owl

nucleic acid reagent
type: Class
subclass of: BFO_0000040
example of usage: A primer.
has curation status: IAO_0000120
definition: Reagent that is a polymer comprised of nucleotides, each of which consists of three components: a nitrogenous heterocyclic base, which is either a purine or a pyrimidine; a pentose sugar; and a phosphate group.
definition editor: PERSON: Melissa Haendel
definition source: http://en.wikipedia.org/wiki/Nucleic_acid
imported from: http://purl.obolibrary.org/obo/ero.owl
comment: Placeholder for class to be imported from the Reagent Ontology (ReO).

phenotype characterization
type: Class
subclass of: assay
example of usage: Characterization of the phenotype is often done in transgenic or knockout mice.
has curation status: IAO_0000120
definition: An organismal assay that involves characterization of a phenotype; any observable characteristic or trait of an organism: such as its morphology, development, biochemical or physiological properties, behavior, and products of behavior (such as a bird's nest). Phenotypes result from the expression of an organism's genes as well as the influence of environmental factors and the interactions between the two.
definition editor: PERSON: Nicole Vasilevsky
definition source: http://en.wikipedia.org/wiki/Phenotype
imported from: http://purl.obolibrary.org/obo/ero.owl

RNA reagent
type: Class
subclass of: nucleic acid reagent
example of usage: A riboprobe.
has curation status: IAO_0000120
definition: A reagent that is a polymer comprised of RNA nucleotides.
definition editor: PERSON: Matthew Brush
definition source: PERSON: Matthew Brush
imported from: http://purl.obolibrary.org/obo/ero.owl
comment: Placeholder for class to be imported from the Reagent Ontology (ReO).

RNA oligonucleotide
type: Class
subclass of: RNA reagent
has curation status: IAO_0000123
definition: An RNA reagent consisting of a short, linear RNA polymer, typically with 100 or fewer bases.
definition editor: PERSON: Matthew Brush
alternative term: RNA oligo
definition source: PERSON: Matthew Brush
imported from: http://purl.obolibrary.org/obo/ero.owl
comment: Placeholder for class to be imported from the Reagent Ontology (ReO).

RNA interference oligonucleotide
type: Class
subclass of: RNA oligonucleotide
has curation status: IAO_0000123
definition: An RNA interference reagent used to silence expression of a target gene in cells, through the RNA interference pathway.
definition editor: PERSON: Matthew Brush
alternative term: RNAi oligonucleotide
definition source: PERSON: Matthew Brush
imported from: http://purl.obolibrary.org/obo/ero.owl
comment: Placeholder for class to be imported from the Reagent Ontology (ReO).

siRNA oligonucleotide
type: Class
subclass of: RNA interference oligonucleotide
has curation status: IAO_0000123
definition: An RNA interference oligonucleotide capable of silencing expression of a target gene through the RNAi pathway. siRNAs are synthesized as single-stranded molecules, typically 19-25 nucleotides in length, and paired with complementary sequences to form duplexes that serve as substrates for cellular RNAi processing machinery.
definition editor: PERSON: Matthew Brush
alternative term: siRNA oligo
definition source: MHB, http://www.sigmaaldrich.com/life-science/custom-oligos/sirna-oligos.html
imported from: http://purl.obolibrary.org/obo/ero.owl
comment: Placeholder for class to be imported from the Reagent Ontology (ReO).

Portion of plasma
type: Class
subclass of: Portion of body substance
definition: Body substance in liquid state contained in the lumen of arterial and venous trees, blood capillary and the cardiac chambers; constitutes the liquid phase of blood.
imported from: http://purl.obolibrary.org/obo/fma.owl
has_exact_synonym: Blood plasma
has_obo_namespace: fma
id: FMA:62970

Portion of body substance
type: Class
subclass of: material anatomical entity
definition: Material anatomical entity in a gaseous, liquid, semisolid or solid state, with or without the admixture of cells and biological macromolecules; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures. Examples: saliva, semen, cerebrospinal fluid, respiratory air, urine, feces, blood, plasma, lymph.
imported from: http://purl.obolibrary.org/obo/fma.owl
has_exact_synonym: Body substance
has_obo_namespace: fma
id: FMA:9669

molecular_function
type: Class
subclass of: BFO_0000034
subclass of: bodily process
definition: Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
imported from: http://purl.obolibrary.org/obo/go.owl
imported from: http://purl.org/obo/owl/go_xp_all
has_alternative_id: GO:0005554
has_exact_synonym: molecular function
has_obo_namespace: molecular_function
id: GO:0003674
in_subset: goslim aspergillus
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
in_subset: gosubset prok
in_subset: goslim goa
comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. Note that when this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this.

catalytic activity
type: Class
subclass of: molecular_function
definition: Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
imported from: http://purl.obolibrary.org/obo/go.owl
imported from: http://purl.org/obo/owl/go_xp_all
database_cross_reference: Wikipedia:Enzyme
has_exact_synonym: enzyme activity
has_obo_namespace: molecular_function
id: GO:0003824
in_subset: goslim chembl
in_subset: goslim pir
in_subset: goslim plant
in_subset: gosubset prok
in_subset: goslim generic
in_subset: goslim goa

cellular_component
type: Class
subclass of: BFO_0000040
definition: The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
imported from: http://purl.obolibrary.org/obo/go.owl
has_alternative_id: GO:0008372
database_cross_reference: NIF_Subcellular:sao-1337158144
database_cross_reference: NIF_Subcellular:sao1337158144
has_exact_synonym: cell or subcellular entity
has_exact_synonym: cellular component
has_obo_namespace: cellular_component
has_related_synonym: subcellular entity
id: GO:0005575
in_subset: goslim aspergillus
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
in_subset: gosubset prok
comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that when this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this.

transport
type: Class
subclass of: establishment of localization
definition: The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
imported from: http://purl.obolibrary.org/obo/go.owl
has_alternative_id: GO:0015457
has_alternative_id: GO:0015460
has_narrow_synonym: small molecule transport
has_narrow_synonym: solute:solute exchange
has_obo_namespace: biological_process
has_related_synonym: auxiliary transport protein activity
has_related_synonym: transport accessory protein activity
id: GO:0006810
in_subset: goslim aspergillus
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: gosubset prok

biological_process
type: Class
subclass of: BFO_0000015
editor preferred label: biological_process
definition: Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
imported from: http://purl.obolibrary.org/obo/obi.owl

metabolic process
type: Class
subclass of: biological_process
definition: The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
imported from: http://purl.obolibrary.org/obo/go.owl
database_cross_reference: Wikipedia:Metabolism
has_exact_synonym: metabolism
has_narrow_synonym: metabolic process resulting in cell growth
has_narrow_synonym: metabolism resulting in cell growth
has_obo_namespace: biological_process
id: GO:0008152
in_subset: goslim pir
in_subset: goslim plant
in_subset: gosubset prok
comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions.

negative regulation of metabolic process
type: Class
equivalent class: Class
  intersection of: biological regulation
  intersection of: Restriction
    on property: negatively regulates
    some values from: metabolic process
subclass of: biological regulation
definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: down regulation of metabolic process
has_exact_synonym: down-regulation of metabolic process
has_exact_synonym: downregulation of metabolic process
has_exact_synonym: negative regulation of metabolism
has_narrow_synonym: inhibition of metabolic process
has_obo_namespace: biological_process
id: GO:0009892
in_subset: gosubset prok

cellular process
type: Class
subclass of: biological_process
imported from: http://purl.org/obo/owl/go_xp_all
has_alternative_id: GO:0008151
has_alternative_id: GO:0050875
has_obo_namespace: biological_process
in_subset: goslim goa
in_subset: goslim pir
in_subset: goslim plant
in_subset: gosubset prok

drug metabolic process
type: Class
subclass of: metabolic process
imported from: http://purl.org/obo/owl/go_xp_all
has_obo_namespace: biological_process
in_subset: goslim pir
in_subset: gosubset prok

immunoglobulin complex
type: Class
subclass of: protein complex
definition: A protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph.
imported from: http://purl.obolibrary.org/obo/go.owl
has_obo_namespace: cellular_component
id: GO:0019814
in_subset: goslim pir
comment: Note that an immunoglobulin complex has the function of antigen binding if a suitable antigen is available.

regulation of transporter activity
type: Class
subclass of: regulation of transport
definition: Any process that modulates the activity of a transporter.
imported from: http://purl.obolibrary.org/obo/go.owl
has_obo_namespace: biological_process
id: GO:0032409
in_subset: gosubset prok

negative regulation of transporter activity
type: Class
subclass of: regulation of transporter activity
definition: Any process that stops or reduces the activity of a transporter.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: down regulation of transporter activity
has_exact_synonym: down-regulation of transporter activity
has_exact_synonym: downregulation of transporter activity
has_narrow_synonym: inhibition of transporter activity
has_obo_namespace: biological_process
id: GO:0032410

regulation of localization
type: Class
subclass of: regulation of biological process
definition: Any process that modulates the frequency, rate or extent of any process in which a cell, a substance, or a cellular entity is transported to, or maintained in, a specific location.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: regulation of localisation
has_obo_namespace: biological_process
id: GO:0032879
in_subset: gosubset prok

macromolecular complex
type: Class
subclass of: cellular_component
definition: A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which the constituent parts function together.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: macromolecule complex
has_obo_namespace: cellular_component
id: GO:0032991
in_subset: goslim pir
in_subset: gosubset prok

immunoglobulin complex, circulating
type: Class
subclass of: immunoglobulin complex
definition: An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph. In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds. Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component.
imported from: http://purl.obolibrary.org/obo/go.owl
database_cross_reference: Wikipedia:Antibody
has_exact_synonym: antibody
has_obo_namespace: cellular_component
id: GO:0042571
comment: Note that an immunoglobulin complex has the function of antigen binding if a suitable antigen is available.

protein complex
type: Class
subclass of: macromolecular complex
definition: A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
imported from: http://purl.obolibrary.org/obo/go.owl
database_cross_reference: Wikipedia:Protein_complex
has_exact_synonym: protein-protein complex
has_obo_namespace: cellular_component
id: GO:0043234
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim pir
in_subset: gosubset prok
comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole.

cellular metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways by which individual cells transform chemical substances.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: cellular metabolism
has_obo_namespace: biological_process
has_related_synonym: intermediary metabolism
id: GO:0044237
in_subset: goslim pir
in_subset: gosubset prok

positive regulation of biological process
type: Class
subclass of: regulation of biological process
definition: Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.
imported from: http://purl.obolibrary.org/obo/go.owl
has_alternative_id: GO:0043119
has_exact_synonym: positive regulation of physiological process
has_exact_synonym: up regulation of biological process
has_exact_synonym: up-regulation of biological process
has_exact_synonym: upregulation of biological process
has_narrow_synonym: activation of biological process
has_narrow_synonym: stimulation of biological process
has_obo_namespace: biological_process
id: GO:0048518
in_subset: gosubset prok

negative regulation of biological process
type: Class
subclass of: regulation of biological process
definition: Any process that stops, prevents, or reduces the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.
imported from: http://purl.obolibrary.org/obo/go.owl
has_alternative_id: GO:0043118
has_exact_synonym: down regulation of biological process
has_exact_synonym: down-regulation of biological process
has_exact_synonym: downregulation of biological process
has_exact_synonym: negative regulation of physiological process
has_narrow_synonym: inhibition of biological process
has_obo_namespace: biological_process
id: GO:0048519
in_subset: gosubset prok

regulation of biological process
type: Class
subclass of: biological regulation
definition: Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.
imported from: http://purl.obolibrary.org/obo/go.owl
has_alternative_id: GO:0050791
has_exact_synonym: regulation of physiological process
has_obo_namespace: biological_process
id: GO:0050789
in_subset: goslim aspergillus
in_subset: goslim candida
in_subset: gosubset prok

regulation of transport
type: Class
subclass of: regulation of localization
definition: Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
imported from: http://purl.obolibrary.org/obo/go.owl
has_obo_namespace: biological_process
id: GO:0051049
in_subset: goslim yeast
in_subset: gosubset prok

negative regulation of transport
type: Class
subclass of: regulation of transport
definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: down regulation of transport
has_exact_synonym: down-regulation of transport
has_exact_synonym: downregulation of transport
has_narrow_synonym: inhibition of transport
has_obo_namespace: biological_process
id: GO:0051051
in_subset: gosubset prok

localization
type: Class
subclass of: biological_process
definition: Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: establishment and maintenance of localization
has_exact_synonym: establishment and maintenance of position
has_exact_synonym: localisation
has_narrow_synonym: establishment and maintenance of cellular component location
has_narrow_synonym: establishment and maintenance of substance location
has_narrow_synonym: establishment and maintenance of substrate location
has_obo_namespace: biological_process
id: GO:0051179
in_subset: goslim pir
in_subset: gosubset prok

establishment of localization
type: Class
subclass of: localization
definition: Any process that localizes a substance or cellular component. This may occur via movement, tethering or selective degradation.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: establishment of localisation
has_obo_namespace: biological_process
id: GO:0051234
in_subset: goslim pir
in_subset: gosubset prok

biological regulation
type: Class
subclass of: biological_process
definition: Any process that modulates a measurable attribute of any biological process, quality or function.
imported from: http://purl.obolibrary.org/obo/go.owl
has_broad_synonym: regulation
has_obo_namespace: biological_process
id: GO:0065007
in_subset: goslim pir
in_subset: gosubset prok

import into cell
type: Class
subclass of: transport
definition: The directed movement of some substance from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis.
imported from: http://purl.obolibrary.org/obo/go.owl
has_exact_synonym: uptake
has_obo_namespace: biological_process
id: GO:0098657

import across plasma membrane
type: Class
subclass of: import into cell
definition: The directed movement of some substance from outside of a cell, across the plasma membrane and into the cytosol.
imported from: http://purl.obolibrary.org/obo/go.owl
has_obo_namespace: biological_process
id: GO:0098739

identifier
type: Class
subclass of: IAO_0000030
definition: An identifier is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity.
definition editor: Mathias Brochhausen
alternative term: proper name
imported from: http://purl.obolibrary.org/obo/apollo_sv/v4.1.1./apollo_sv.owl
Unique Apollo Label: name
creator: Mathias Brochhausen
comment: Sep 29, 2016: The current definition has been amended from the previous version: "A proper name is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity." to more accuratly reflect the necessary and sufficient condition on the class. (MB)

enzyme substrate role
type: Class
subclass of: BFO_0000023
definition: A role that inheres in a protein or a compound upon which enzyme catalyzes. It is realized in the enzymatic reaction processes, where the molecules at the beginning of the process, called substrates, are converted into different molecules, called products.

gene expression
type: Class
subclass of: biological_process
definition: a biological interaction that uses the information from a gene to synthesize a functional gene product.
definition editor: YH, ZX
imported from: http://purl.obolibrary.org/obo/in/ino.owl
has literature mining keywords: express, expressed, expresses, expressing, expression, expressions

overexpression
type: Class
subclass of: gene expression
definition: a gene expression that has increased volume.
definition editor: YH, ZX
alternative term: increased gene expression
alternative term: overexpression
imported from: http://purl.obolibrary.org/obo/in/ino.owl
has literature mining keywords: hyper-expression, hyperactivate, hyperactivated, hyperactivates, hyperactivation, hyperexpression, overexpression

glucuronosylation
type: Class
subclass of: formation of covalent bond
definition: Formation of a covalent bond between a substrate and a glucuronosyl group.
imported from: http://purl.obolibrary.org/obo/mop.owl
has_exact_synonym: glucuronosylation
id: MOP:0000156
comment: has_participant: CHEBI:24303

molecular process
type: Class
subclass of: BFO_0000015
definition: A process in which at least one of the participants is a molecule.
imported from: http://purl.obolibrary.org/obo/mop.owl
id: MOP:0000543
comment: TODO: needs work, formal definition, etc.

dehydrogenation
type: Class
subclass of: BFO_0000015
definition: An oxidation process that involves the removal of adjacent hydrogen atoms, resulting in an increase of bond order.
imported from: http://purl.obolibrary.org/obo/mop.owl
created by: batchelorc
creation date: 2009-06-05T04:54:48Z
id: MOP:0000590

hydroxylation
type: Class
subclass of: formation of covalent bond
definition: Formation of a covalent bond between a substrate and a hydroxy group.
imported from: http://purl.obolibrary.org/obo/mop.owl
id: MOP:0000673

formation of covalent bond
type: Class
subclass of: molecular process
imported from: http://purl.obolibrary.org/obo/mop.owl
id: MOP:0000779

breaking of covalent bond
type: Class
subclass of: molecular process
imported from: http://purl.obolibrary.org/obo/mop.owl
id: MOP:0000780

demethylation
type: Class
subclass of: breaking of covalent bond
definition: Breaking of a covalent bond between a substrate and a methyl group.
imported from: http://purl.obolibrary.org/obo/mop.owl
id: MOP:0001364
comment: has_participant: CHEBI:32875

deethylation
type: Class
subclass of: breaking of covalent bond
definition: Breaking of a covalent bond between a substrate and an ethyl group.
imported from: http://purl.obolibrary.org/obo/mop.owl
has_exact_synonym: de-ethylation
id: MOP:0001385
comment: has_participant: CHEBI:37807

Dikarya
type: Class
subclass of: organism
imported from: http://purl.obolibrary.org/obo/doid.owl

Escherichia coli
type: Class
subclass of: organism
imported from: http://purl.obolibrary.org/obo/vo.owl
has alternative id: NCBITaxon:1637691
has alternative id: NCBITaxon:662101
has alternative id: NCBITaxon:662104
has db xref: GC_ID:11
has db xref: PMID:10319482
has exact synonym: E. coli
has exact synonym: Escherichia/Shigella coli
has OBO namespace: ncbi_taxonomy
has related synonym: Bacillus coli
has related synonym: Bacterium coli
has related synonym: Bacterium coli commune
has related synonym: Enterococcus coli
has related synonym: Escherchia coli
has related synonym: Eschericia coli
has_rank: NCBITaxon species

Xenopus laevis
type: Class
subclass of: organism
alternative term: African clawed frog
alternative term: Bufo laevis
alternative term: Xenopus laevis (Daudin, 1802)
alternative term: Xenopus leavis
alternative term: clawed frog
alternative term: common platanna
alternative term: platanna
imported from: http://purl.obolibrary.org/obo/ero.owl

Homo sapiens
type: Class
subclass of: organism
editor preferred label: Homo sapiens
alternative term: human
alternative term: human being
alternative term: man
imported from: http://purl.obolibrary.org/obo/obi.owl

adverse event
type: Class
subclass of: pathological bodily process
definition: a pathological bodily process that occurs after a medical intervention. An adverse event is likely caused by the medical intervention; however, such a causal association is not required to be an adverse event.

adverse drug event
type: Class
subclass of: adverse event
definition: an adverse event that occurs after a drug administration

contraindication
type: Class
subclass of: BFO_0000016
definition: A contraindication is a disposition that increases the risk of harm involved in using a particular drug, carrying out a medical procedure, or engaging in a particular activity such that the risk of harm exceeds a threshold. An contraindication serves as a reason to withhold a certain medical treatment.
definition source: http://en.wikipedia.org/wiki/Contraindication

causal adverse drug event
type: Class
subclass of: adverse drug event
definition: a drug adverse event that is caused by a drug adiministration. Here a causal effect is established between the drug administration and the adverse event.

severe adverse event
type: Class
subclass of: adverse event
definition: serious adverse event is an adverse event that requires in-patient hospitalization, or prolongation of existing hospitalization, or that causes congenital malformation, or that results in persistent or significant disability or incapacity, or that is life threatening or results in death.

centrifuge pellet role
type: Class
subclass of: BFO_0000023
editor preferred label: centrifuge pellet role
example of usage: Definition of pellet :the material concentrated at the bottom of a centrifuge tube after centrifugation. http://www.everythingbio.com/glos/definition.php?word=pellet
has curation status: IAO_0000125
definition: pellet role is a role which inheres in a material entity and is realized by a material separation process using gravitational force generated by a centrifuge in which the material bearing the pellet role is the heavier or heaviest component of the output material..
definition editor: GROUP: Role branch
definition source: OBI
curator note: 9Mar09 after discussion with process branch changed definition to include use of centrifuge;
imported from: http://purl.obolibrary.org/obo/obi.owl

supernatant role
type: Class
subclass of: BFO_0000023
editor preferred label: supernatant role
example of usage: Precipitation is the formation of a solid in a solution during a chemical reaction. When the reaction occurs, the solid formed is called the precipitate, and the liquid remaining above the solid is called the supernate. Wikipedia
has curation status: IAO_0000120
definition: supernatant role is a role which inheres in a material entity and is realized by a material separation process using gravitational force in which the material bearing the supernatant role is the liquid component of the output material.
definition editor: GROUP: Role branch
definition source: OBI
imported from: http://purl.obolibrary.org/obo/obi.owl

processed material
type: Class
subclass of: BFO_0000040
editor preferred label: processed material
example of usage: Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples
has curation status: IAO_0000122
definition: Is a material entity that is created or changed during material processing.
definition editor: PERSON: Alan Ruttenberg
imported from: http://purl.obolibrary.org/obo/obi.owl

evaluant role
type: Class
subclass of: BFO_0000023
editor preferred label: evaluant role
example of usage: When a specimen of blood is assayed for glucose concentration, the blood has the evaluant role. When measuring the mass of a mouse, the evaluant is the mouse. When measuring the time of DNA replication, the evaluant is the DNA. When measuring the intensity of light on a surface, the evaluant is the light source.
has curation status: IAO_0000122
definition: a role that inheres in a material entity that is realized in an assay in which data is generated about the bearer of the evaluant role
editor note: Role call - 17nov-08: JF and MC think an evaluant role is always specified input of a process. Even in the case where we have an assay taking blood as evaluant and outputting blood, the blood is not the specified output at the end of the assay (the concentration of glucose in the blood is)
editor note: examples of features that could be described in an evaluant: quality.... e.g. "contains 10 pg/ml IL2", or "no glucose detected")
definition editor: GROUP: Role Branch
definition source: OBI
curator note: Feb 10, 2009. changes after discussion at OBI Consortium Workshop Feb 2-6, 2009. accepted as core term.
imported from: http://purl.obolibrary.org/obo/obi.owl

assay
type: Class
subclass of: OBI_0000011
editor preferred label: assay
example of usage: Assay the wavelength of light emitted by excited Neon atoms. Count of geese flying over a house.
has curation status: IAO_0000122
definition: A planned process with the objective to produce information about the material entity that is the evaluant, by physically examining it or its proxies.
editor note: 12/3/12: BP: the reference to the 'physical examination' is included to point out that a prediction is not an assay, as that does not require physical examiniation.
definition editor: PlanAndPlannedProcess Branch
alternative term: measuring
alternative term: scientific observation
definition source: OBI branch derived
imported from: http://purl.obolibrary.org/obo/obi.owl
ISA alternative term: study assay
IEDB alternative term: any method

material processing
type: Class
subclass of: OBI_0000011
editor preferred label: material processing
example of usage: A cell lysis, production of a cloning vector, creating a buffer.
has curation status: IAO_0000122
definition: A planned process which results in physical changes in a specified input material
definition editor: PERSON: Bjoern Peters
definition editor: PERSON: Frank Gibson
definition editor: PERSON: Jennifer Fostel
definition editor: PERSON: Melanie Courtot
definition editor: PERSON: Philippe Rocca Serra
alternative term: material transformation
definition source: OBI branch derived
imported from: http://purl.obolibrary.org/obo/obi.owl

microtiter plate
type: Class
subclass of: container
editor preferred label: microtiter plate
example of usage: A microtiter plate with 6, 24, 96, 384 or 1536 sample wells used in the enzyme-linked immunosorbent assay (ELISA)
has curation status: IAO_0000122
definition: A microtiter_plate is a flat plate with multiple wells used as small test tubes.
definition editor: Melanie Courtot
alternative term: microplate
definition source: http://en.wikipedia.org/wiki/Microtiter_plate
imported from: http://purl.obolibrary.org/obo/obi.owl

protocol
type: Class
subclass of: IAO_0000033
editor preferred label: protocol
example of usage: PCR protocol, has objective specification, amplify DNA fragment of interest, and has action specification describes the amounts of experimental reagents used (e..g. buffers, dNTPS, enzyme), and the temperature and cycle time settings for running the PCR.
has curation status: IAO_0000122
definition: A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.
definition editor: PlanAndPlannedProcess Branch
definition source: OBI branch derived + wikipedia (http://en.wikipedia.org/wiki/Protocol_%28natural_sciences%29)
imported from: http://purl.obolibrary.org/obo/obi.owl
ISA alternative term: study protocol

enzyme
type: Class
subclass of: BFO_0000040
editor preferred label: enzyme
has curation status: IAO_0000125
definition: (protein or rna) or has_part (protein or rna) and has_function some GO:0003824 (catalytic activity)
editor note: MC: known issue: enzyme doesn't classify under material entity for now as it isn't stated that anything that has_part some material entity is a material entity. If we add as equivalent classes to material entity has_part some material entity and part_of some material entity (each one in his own necessary and sufficient block) Pellet in P3 doesn't classify any more.
definition editor: person: Melanie Courtot
definition source: GROUP:OBI
imported from: http://purl.obolibrary.org/obo/obi.owl

target of material addition role
type: Class
subclass of: BFO_0000023
editor preferred label: target of material addition role
example of usage: peritoneum of an animal receiving an interperitoneal injection; solution in a tube receiving additional material; location of absorbed material following a dermal application.
has curation status: IAO_0000120
definition: target of material addition role is a role realized by an entity into which a material is added in a material addition process
editor note: From Branch discussion with BP, AR, MC -- there is a need for the recipient to interact with the administered material. for example, a tooth receiving a filling was not considered to be a target role.
definition editor: GROUP: Role Branch
definition source: OBI
imported from: http://purl.obolibrary.org/obo/obi.owl

manufacturer role
type: Class
subclass of: BFO_0000023
editor preferred label: manufacturer role
example of usage: With respect to The Accuri C6 Flow Cytometer System, the organization Accuri bears the role manufacturer role. With respect to a transformed line of tissue culture cells derived by a specific lab, the lab whose personnel isolated the cll line bears the role manufacturer role. With respect to a specific antibody produced by an individual scientist, the scientist who purifies, characterizes and distributes the anitbody bears the role manufacturer role.
has curation status: IAO_0000123
definition: Manufacturer role is a role which inheres in a person or organization and which is realized by a manufacturing process.
definition editor: GROUP: Role Branch
definition source: OBI
imported from: http://purl.obolibrary.org/obo/obi.owl

scattered molecular aggregate
type: Class
subclass of: BFO_0000027
editor preferred label: scattered molecular aggregate
example of usage: the sodium and chloride ions in a glass of salt water
has curation status: IAO_0000123
definition: A scattered molecular aggregate is a material entity that consists of all the molecules of a specific type that are located in some bounded region and which is part of a more massive material entity that has parts that are other such aggregates
definition editor: PERSON: Alan Ruttenberg
alternative term: Collective
definition source: Discussion in Karslruhe with, among others, Alan Rector, Stefan Schulz, Marijke Keet, Melanie Courtot, and Alan Ruttenberg. With inspiration from the paper Granularity, scale and collectivity: When size does and does not matter, Alan Recto, Jeremy Rogers, Thomas Bittner, Journal of Biomedical Informatics 39 (2006) 333-349
imported from: http://purl.obolibrary.org/obo/dron.owl

specimen collection process
type: Class
subclass of: OBI_0000011
editor preferred label: specimen collection process
example of usage: drawing blood from a patient for analysis, collecting a piece of a plant for depositing in a herbarium, buying meat from a butcher in order to measure its protein content in an investigation
has curation status: IAO_0000122
definition: A planned process with the objective of collecting a specimen.
editor note: Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
editor note: Philly2013: A specimen collection can have as part a material entity acquisition, such as ordering from a bank. The distinction is that specimen collection necessarily involves the creation of a specimen role. However ordering cell lines cells from ATCC for use in an investigation is NOT a specimen collection, because the cell lines already have a specimen role.
editor note: Philly2013: The specimen_role for the specimen is created during the specimen collection process.
editor note: label changed to 'specimen collection process' on 10/27/2014, details see tracker: http://sourceforge.net/p/obi/obi-terms/716/
definition editor: Bjoern Peters
alternative term: specimen collection
curator note: 5/31/2012: This process is not necessarily an acquisition, as specimens may be collected from materials already in posession
curator note: 6/9/09: used at workshop
imported from: http://purl.obolibrary.org/obo/obi.owl

container
type: Class
subclass of: device
editor preferred label: container
has curation status: IAO_0000123
definition: A device that can be used to restrict the location of material entities over time
editor note: 03/21/2010: Added to allow classification of children (similar to what we want to do for 'measurement device'. Lookint at what classifies here, we may want to reconsider a contain function assigned to a part of an entity is necessarily also a function of the whole (e.g. is a centrifuge a container because it has test tubes as parts?)
definition editor: PERSON: Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

device
type: Class
subclass of: processed material
editor preferred label: device
example of usage: A voltmeter is a measurement device which is intended to perform some measure function.
example of usage: An autoclave is a device that sterlizes instruments or contaminated waste by applying high temperature and pressure.
has curation status: IAO_0000122
definition: A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.
editor note: 2012-12-17 JAO: In common lab usage, there is a distinction made between devices and reagents that is difficult to model. Therefore we have chosen to specifically exclude reagents from the definition of "device", and are enumerating the types of roles that a reagent can perform. 2013-6-5 MHB: The following clarifications are outcomes of the May 2013 Philly Workshop. Reagents are distinguished from devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in some chemical interaction or reaction during the realization of their experimental role. By contrast, devices do not participate in such chemical reactions/interactions. Note that there are cases where devices use reagent components during their operation, where the reagent-device distinction is less clear. For example: (1) An HPLC machine is considered a device, but has a column that holds a stationary phase resin as an operational component. This resin qualifies as a device if it participates purely in size exclusion, but bears a reagent role that is realized in the running of a column if it interacts electrostatically or chemically with the evaluant. The container the resin is in (“the column”) considered alone is a device. So the entire column as well as the entire HPLC machine are devices that have a reagent as an operating part. (2) A pH meter is a device, but its electrode component bears a reagent role in virtue of its interacting directly with the evaluant in execution of an assay. (3) A gel running box is a device that has a metallic lead as a component that participates in a chemical reaction with the running buffer when a charge is passed through it. This metallic lead is considered to have a reagent role as a component of this device realized in the running of a gel. In the examples above, a reagent is an operational component of a device, but the device itself does not realize a reagent role (as bearing a reagent…
definition editor: PERSON: Helen Parkinson
alternative term: instrument
definition source: OBI development call 2012-12-17.
imported from: http://purl.obolibrary.org/obo/obi.owl

dose specification
type: Class
subclass of: IAO_0000033
editor preferred label: dose specification
example of usage: a protocol specifying to administer 1 ml of vaccine to a mouse
has curation status: IAO_0000123
definition: a directive information entity that describes the dose that will be administered to a target
imported from: http://purl.obolibrary.org/obo/obi.owl

gene knock out
type: Class
subclass of: genetic transformation
editor preferred label: gene knock out
has curation status: IAO_0000120
definition: a genetic transformation that renders a gene non-functional, e.g. due to a point mutation, or the removal of all, or part of, the gene using recombinant methods.
definition editor: PERSON: Chris Stoeckert, Jie Zheng
definition source: MO_771 gene_knock_out
imported from: http://purl.obolibrary.org/obo/obi.owl

transfection
type: Class
subclass of: genetic transformation
editor preferred label: transfection
has curation status: IAO_0000120
definition: a genetic transformation which relies on the use of physical, electrical and chemical phenomena to introduce DNA or RNA into a cell
definition editor: PERSON: Chris Stoeckert, Jie Zheng
definition source: MO_366 transfection
imported from: http://purl.obolibrary.org/obo/obi.owl

half maximal effective concentration (EC50)
type: Class
subclass of: IAO_0000032
editor preferred label: half maximal effective concentration (EC50)
example of usage: Determining the potentency of a drug / antibody / toxicant by measuring a graded dose response curve, and determining the concentration of the compound where 50% of its maximal effect is observed.
has curation status: IAO_0000120
definition: half maximal effective concentration (EC50) is a scalar measurement datum corresponding to the concentration of a compound which induces a response halfway between the baseline and maximum after some specified exposure time.
definition editor: Bjoern Peters; Randi Vita
definition source: wikipedia
imported from: http://purl.obolibrary.org/obo/obi.owl

half maximal inhibitory concentration (IC50)
type: Class
subclass of: IAO_0000032
editor preferred label: half maximal inhibitory concentration (IC50)
example of usage: Interpolating that at a dose of IC50=12 nM, half of the binding of a comptetitive ligand is inhibited.
has curation status: IAO_0000120
definition: Half maximal inhibitory concentration (IC50) is a scalar measurement datum that measures the effectiveness of a compound to competitively inhibit a given process, and corresponds to the concentration of the compound at which it reaches half of its maximum inhibitory effect.
definition editor: Bjoern Peters; Randi Vita
definition source: wikipedia
imported from: http://purl.obolibrary.org/obo/obi.owl

ex vivo design
type: Class
subclass of: study design
editor preferred label: ex vivo design
has curation status: IAO_0000120
definition: A study design where all or part of an organism is removed and studied in vitro, e.g. part of a mouse is removed and cultured in vitro. A cell culture with an established cell line is an in vitro experiment.
definition editor: Person: Chris Stoeckert, Jie Zheng
definition source: MO_808 ex_vivo_design
imported from: http://purl.obolibrary.org/obo/obi.owl

in vitro design
type: Class
subclass of: study design
editor preferred label: in vitro design
has curation status: IAO_0000120
definition: A study design that is done in a test tube or a culture dish, e.g. A bacterial invasion assay in an established cell culture.
definition editor: Person: Chris Stoeckert, Jie Zheng
definition source: MO_347 in_vitro_design
imported from: http://purl.obolibrary.org/obo/obi.owl

tissue specimen
type: Class
subclass of: specimen
editor preferred label: tissue specimen
has curation status: IAO_0000122
definition: A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm).
definition editor: PERSON: Chris Stoeckert, Jie Zheng
definition source: MO_954 organism_part
imported from: http://purl.obolibrary.org/obo/obi.owl

mass value specification
type: Class
subclass of: scalar value specification
editor preferred label: mass value specification
has curation status: IAO_0000123
definition: A value specification that specifies the mass of some thing.
definition editor: PERSON:Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

scalar value specification
type: Class
subclass of: value specification
editor preferred label: scalar value specification
has curation status: IAO_0000123
definition: A value specification that consists of two parts: a numeral and a unit label
definition editor: PERSON:Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

value specification
type: Class
subclass of: IAO_0000030
editor preferred label: value specification
example of usage: The value of 'positive' in a classification scheme of "positive or negative"; the value of '20g' on the quantitative scale of mass.
has curation status: IAO_0000122
definition: An information content entity that specifies a value within a classification scheme or on a quantitative scale.
editor note: This term is currently a descendant of 'information content entity', which requires that it 'is about' something. A value specification of '20g' for a measurement data item of the mass of a particular mouse 'is about' the mass of that mouse. However there are cases where a value specification is not clearly about any particular. In the future we may change 'value specification' to remove the 'is about' requirement.
definition editor: PERSON:Bjoern Peters
imported from: http://purl.obolibrary.org/obo/obi.owl

organism
type: Class
subclass of: BFO_0000040
editor preferred label: organism
example of usage: animal
example of usage: fungus
example of usage: plant
example of usage: virus
has curation status: IAO_0000122
definition: A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.
editor note: 10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')
editor note: 13-02-2009: OBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus. This issue is outside the scope of OBI.
definition editor: GROUP: OBI Biomaterial Branch
definition source: WEB: http://en.wikipedia.org/wiki/Organism
imported from: http://purl.obolibrary.org/obo/obi.owl

specimen
type: Class
subclass of: BFO_0000040
editor preferred label: specimen
example of usage: Biobanking of blood taken and stored in a freezer for potential future investigations stores specimen.
has curation status: IAO_0000122
definition: A material entity that has the specimen role.
editor note: Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
definition editor: PERSON: James Malone
definition editor: PERSON: Philippe Rocca-Serra
definition source: GROUP: OBI Biomaterial Branch
imported from: http://purl.obolibrary.org/obo/obi.owl

cultured cell population
type: Class
subclass of: processed material
editor preferred label: cultured cell population
example of usage: A cultured cell population applied in an experiment: "293 cells expressing TrkA were serum-starved for 18 hours and then neurotrophins were added for 10 min before cell harvest." (Lee, Ramee, et al. "Regulation of cell survival by secreted proneurotrophins." Science 294.5548 (2001): 1945-1948). A cultured cell population maintained in vitro: "Rat cortical neurons from 15 day embryos are grown in dissociated cell culture and maintained in vitro for 8–12 weeks" (Dichter, Marc A. "Rat cortical neurons in cell culture: culture methods, cell morphology, electrophysiology, and synapse formation." Brain Research 149.2 (1978): 279-293).
has curation status: IAO_0000120
definition: A processed material comprised of a collection of cultured cells that has been continuously maintained together in culture and shares a common propagation history.
editor note: 2013-6-5 MHB: This OBI class was formerly called 'cell culture', but label changed and definition updated following CLO alignment efforts in spring 2013, during which the intent of this class was clarified to refer to portions of a culture or line rather than a complete cell culture or line.
definition editor: PERSON:Matthew Brush
alternative term: cell culture sample
definition source: PERSON:Matthew Brush
imported from: http://purl.obolibrary.org/obo/obi.owl
comment: The extent of a 'cultured cell population' is restricted only in that all cell members must share a propagation history (ie be derived through a common lineage of passages from an initial culture). In being defined in this way, this class can be used to refer to the populations that researchers actually use in the practice of science - ie are the inputs to culturing, experimentation, and sharing. The cells in such populations will be a relatively uniform population as they have experienced similar selective pressures due to their continuous co-propagation. And this population will also have a single passage number, again owing to their common passaging history. Cultured cell populations represent only a collection of cells (ie do not include media, culture dishes, etc), and include populations of cultured unicellular organisms or cultured multicellular organism cells. They can exist under active culture, stored in a quiescent state for future use, or applied experimentally.

observation design
type: Class
subclass of: study design
editor preferred label: observation design
example of usage: PMID: 12387964.Lancet. 2002 Oct 12;360(9340):1144-9.Deficiency of antibacterial peptides in patients with morbus Kostmann: an observation study.
has curation status: IAO_0000125
definition: observation design is a study design in which subjects are monitored in the absence of any active intervention by experimentalists.
definition editor: Philippe Rocca-Serra
definition source: OBI branch derived
imported from: http://purl.obolibrary.org/obo/obi.owl

centrifugation
type: Class
subclass of: material component separation
editor preferred label: centrifugation
example of usage: PMID: 18428461.Purification of oligodendrocytes and their progenitors using immunomagnetic separation and Percoll gradient centrifugation. Curr Protoc Neurosci. 2001 May;Chapter 3:Unit 3.12.
has curation status: IAO_0000120
definition: centrifugation is a process separating molecules by size or density using centrifugal forces generated by a spinning rotor. G-forces of several hundred thousand times gravity are generated in ultracentrifugation
definition editor: Philippe Rocca-Serra
definition source: adapted from http://www.fao.org/DOCREP/003/X3910E/X3910E06.htm
imported from: http://purl.obolibrary.org/obo/obi.owl

group randomization
type: Class
subclass of: group assignment
type: NamedIndividual
definition source: adapted from wikipedia [http://en.wikipedia.org/wiki/Randomization]
has curation status: IAO_0000120
imported from: http://purl.obolibrary.org/obo/obi.owl
editor preferred label: group randomization
example of usage: PMID: 18349405. Randomization reveals unexpected acute leukemias in Southwest Oncology Group prostate cancer trial. J Clin Oncol. 2008 Mar 20;26(9):1532-6.
definition: A group assignment which relies on chance to assign materials to a group of materials in order to avoid bias in experimental set up.
definition editor: Philippe Rocca-Serra

study design
type: Class
subclass of: IAO_0000104
editor preferred label: study design
example of usage: a matched pairs study design describes criteria by which subjects are identified as pairs which then undergo the same protocols, and the data generated is analyzed by comparing the differences between the paired subjects, which constitute the results of the executed study design.
has curation status: IAO_0000122
definition: A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution.
editor note: Editor note: there is at least an implicit restriction on the kind of data transformations that can be done based on the measured data available.
definition editor: PERSON: Chris Stoeckert
alternative term: experimental design
curator note: rediscussed at length (MC/JF/BP). 12/9/08). The definition was clarified to differentiate it from protocol.
imported from: http://purl.obolibrary.org/obo/obi.owl

clinical study design
type: Class
subclass of: study design
editor preferred label: clinical study design
example of usage: PMID: 17655677.J Cardiovasc Electrophysiol. 2007 Aug;18(9):965-71.Biventricular versus right ventricular pacing in patients with AV block (BLOCK HF): clinical study design and rationale.
has curation status: IAO_0000125
definition: Plan for the precise procedure to be followed in a clinical trial, including planned and actual timing of events, choice of control group, method of allocating treatments, blinding methods; assigns a subject to pass through one or more epochs in the course of a trial. Specific design elements, e.g., crossover, parallel; dose-escalation [Modified from Pocock, Clinical Trials: A Practical Approach]
editor note: The definition needs to be extended to other things than simply patients
definition editor: PlanAndPlannedProcess Branch
definition source: Clinical Research Glossary Version 4.0 CDICS glossary group
imported from: http://purl.obolibrary.org/obo/obi.owl

parallel group design
type: Class
subclass of: study design
editor preferred label: parallel group design
example of usage: PMID: 17408389-Purpose: Proliferative vitreoretinopathy (PVR) is the most important reason for blindness following retinal detachment. Presently, vitreous tamponades such as gas or silicone oil cannot contact the lower part of the retina. A heavier-than-water tamponade displaces the inflammatory and PVR-stimulating environment from the inferior area of the retina. The Heavy Silicone Oil versus Standard Silicone Oil Study (HSO Study) is designed to answer the question of whether a heavier-than-water tamponade improves the prognosis of eyes with PVR of the lower retina. Methods: The HSO Study is a multicentre, randomized, prospective controlled clinical trial comparing two endotamponades within a two-arm parallel group design. Patients with inferiorly and posteriorly located PVR are randomized to either heavy silicone oil or standard silicone oil as a tamponading agent. Three hundred and fifty consecutive patients are recruited per group. After intraoperative re-attachment, patients are randomized to either standard silicone oil (1000 cSt or 5000 cSt) or Densiron((R)) as a tamponading agent. The main endpoint criteria are complete retinal attachment at 12 months and change of visual acuity (VA) 12 months postoperatively compared with the preoperative VA. Secondary endpoints include complete retinal attachment before endotamponade removal, quality of life analysis and the number of retina affecting re-operation within 1 year of follow-up. Results: The design and early recruitment phase of the study are described. Conclusions: The results of this study will uncover whether or not heavy silicone oil improves the prognosis of eyes with PVR.
has curation status: IAO_0000125
definition: A parallel group design or independent measure design is a study design which uses unique experimental unit each experimental group, in other word no two individuals are shared between experimental groups, hence also known as parallel group design. Subjects of a treatment group receive a unique combination of independent variable values making up a treatment
definition editor: Philippe Rocca-Serra
alternative term: independent measure design
definition source: http://www.holah.karoo.net/experimentaldesigns.htm
imported from: http://purl.obolibrary.org/obo/obi.owl

material component separation
type: Class
subclass of: material processing
editor preferred label: material component separation
example of usage: Using a cell sorter to separate a mixture of T cells into two fractions; one with surface receptor CD8 and the other lacking the receptor, or purification
has curation status: IAO_0000122
definition: a material processing in which components of an input material become segregated in space
definition editor: Bjoern Peters
definition source: IEDB
imported from: http://purl.obolibrary.org/obo/obi.owl

group assignment
type: Class
subclass of: OBI_0000011
editor preferred label: group assignment
example of usage: Assigning' to be treated with active ingredient role' to an organism during group assignment. The group is those organisms that have the same role in the context of an investigation
has curation status: IAO_0000122
definition: group assignment is a process which has an organism as specified input and during which a role is assigned
definition editor: Philippe Rocca-Serra
alternative term: cohort assignment
alternative term: study assignment
definition source: OBI Plan
imported from: http://purl.obolibrary.org/obo/obi.owl

genetic transformation
type: Class
subclass of: material processing
editor preferred label: genetic transformation
example of usage: The transduction of E. coli through the introduction of a plasmid encoding for M. avium p35
has curation status: IAO_0000122
definition: the introduction. alteration or integration of genetic material into a cell or organism
definition editor: PERSON:Kevin Clancy
alternative term: genetic modification
definition source: OBI branch derived
imported from: http://purl.obolibrary.org/obo/obi.owl

cell pellet
type: Class
subclass of: processed material
editor preferred label: cell pellet
example of usage: Detection of fetal DNA in a cell pellet after centrifugation of mountant. J Forensic Sci. 2003 Jan;48(1):135-6. PMID: 12570214
has curation status: IAO_0000120
definition: A material entity which results from the aggregation of cells produced by the application of centrifugal force to a liquid containing cells in suspension
definition editor: PERSON: Helen Parkinson
definition editor: PERSON: Philippe Rocca-Serra
definition source: GROUP: CEBS
definition source: GROUP: OBI Biomaterial Branch
imported from: http://purl.obolibrary.org/obo/obi.owl

bodily process
type: Class
subclass of: BFO_0000015
definition editor: Albert Goldfain
curator note: creation date: 2009-06-23T11:53:49Z
imported from: http://purl.obolibrary.org/obo/ogms.owl

pathological bodily process
type: Class
subclass of: bodily process
definition: A bodily process that is clinically abnormal.
definition editor: Albert Goldfain
definition source: http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
curator note: creation date: 2009-06-23T11:54:29Z
imported from: http://purl.obolibrary.org/obo/ogms.owl

treatment
type: Class
subclass of: OBI_0000011
definition: A processual entity whose completion is hypothesized (by a healthcare provider) to alleviate the signs and symptoms associated with a disorder
definition editor: Albert Goldfain
definition source: http://code.google.com/p/ogms/issues/detail
curator note: creation date: 2010-03-31T04:51:11Z
imported from: http://purl.obolibrary.org/obo/dron.owl

multidrug resistance protein 1
type: Class
subclass of: protein
editor preferred label: p-glycoprotein

NADPH--cytochrome P450 reductase
type: Class
subclass of: protein
definition: A protein that is a translation product of the human POR gene or a 1:1 ortholog thereof.
imported from: http://purl.obolibrary.org/obo/pr.owl
has_exact_synonym: P450R
has_exact_synonym: POR
has_obo_namespace: protein
has_related_synonym: CPR
has_related_synonym: CYPOR
id: PR:000013030
comment: Category=gene.

solute carrier organic anion transporter family member 1B1
type: Class
subclass of: protein
definition: A solute carrier organic anion transporter family member that is a translation product of the human SLCO1B1 gene or a 1:1 ortholog thereof.
imported from: http://purl.obolibrary.org/obo/pr/pr-non-classified.owl
has_broad_synonym: LST-1
has_broad_synonym: liver-specific organic anion transporter 1
has_exact_synonym: OATP-2
has_exact_synonym: OATP-C
has_exact_synonym: SLCO1B1
has_exact_synonym: solute carrier family 21 member 6
has_obo_namespace: protein
has_related_synonym: LST1
has_related_synonym: OATP2
has_related_synonym: OATPC
has_related_synonym: SLC21A6
has_related_synonym: sodium-independent organic anion-transporting polypeptide 2
id: PR:000015223
comment: Category=gene.

solute carrier organic anion transporter family member 1B3
type: Class
subclass of: protein
definition: A solute carrier organic anion transporter family member that is a translation product of the human SLCO1B3 gene or a 1:1 ortholog thereof.
imported from: http://purl.obolibrary.org/obo/pr/pr-non-classified.owl
has_alternative_id: PR:000015969
has_broad_synonym: LST-1
has_broad_synonym: liver-specific organic anion transporter 1
has_exact_synonym: LST-2
has_exact_synonym: OATP-8
has_exact_synonym: SLC21A6
has_exact_synonym: SLCO1B3
has_exact_synonym: liver-specific organic anion transporter 2
has_exact_synonym: organic anion transporter 8
has_exact_synonym: organic anion-transporting polypeptide 8
has_exact_synonym: solute carrier family 21 member 10
has_exact_synonym: solute carrier family 21 member 8
has_obo_namespace: protein
has_related_synonym: LST2
has_related_synonym: OATP8
has_related_synonym: SLC21A8
has_related_synonym: Slc21a10
has_related_synonym: Slco1b2
id: PR:000015224
comment: Category=gene.

area under curve
type: Class
subclass of: IAO_0000109
example of usage: PMID:12892658 "Two formulas for computation of the area under the curve represent measures of total hormone concentration versus time-dependent change."
definition: Area under curve is a measurement datum which corresponds to the surface define by the x-axis and bound by the line graph represented in a 2 dimensional plot resulting from an integration or integrative calculus. The interpretation of this measurement datum depends on the variables plotted in the graph
editor note: PRS: submit 'integral calculus' as a kind of data transformation in OBI:DT branch
definition editor: Orlaith Burke, Philippe Rocca-Serra, Alejandra Gonzalez-Beltran

material anatomical entity
type: Class
subclass of: BFO_0000040
definition: Anatomical entity that has mass.
imported from: http://purl.obolibrary.org/obo/uberon.owl
database_cross_reference: AAO:0010264
database_cross_reference: AEO:0000006
database_cross_reference: BILA:0000006
database_cross_reference: CARO:0000006
database_cross_reference: EHDAA2:0003006
database_cross_reference: FBbt:00007016
database_cross_reference: FMA:67165
database_cross_reference: HAO:0000006
database_cross_reference: TAO:0001836
database_cross_reference: TGMA:0001826
database_cross_reference: VHOG:0001721
has_obo_namespace: uberon
id: UBERON:0000465
in_subset: upper level

anatomical system
type: Class
subclass of: material anatomical entity
definition: Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function.
imported from: http://purl.obolibrary.org/obo/uberon.owl
has_broad_synonym: system
database_cross_reference: Organ system
database_cross_reference: http://linkedlifedata.com/resource/umls/id/C0460002
database_cross_reference: Organ System
database_cross_reference: birnlex 14
database_cross_reference: http://www.snomedbrowser.com/Codes/Details/278195005
database_cross_reference: AAO:0000007
database_cross_reference: AEO:0000011
database_cross_reference: BILA:0000011
database_cross_reference: BSA:0000049
database_cross_reference: CALOHA:TS-2088
database_cross_reference: CARO:0000011
database_cross_reference: EHDAA2:0003011
database_cross_reference: EHDAA:392
database_cross_reference: EMAPA:16103
database_cross_reference: EV:0100000
database_cross_reference: FBbt:00004856
database_cross_reference: FMA:7149
database_cross_reference: HAO:0000011
database_cross_reference: MA:0000003
database_cross_reference: OpenCyc:Mx4rCWM0QCtDEdyAAADggVbxzQ
database_cross_reference: TAO:0001439
database_cross_reference: TGMA:0001831
database_cross_reference: UMLS:C0460002
database_cross_reference: VHOG:0001725
database_cross_reference: WBbt:0005746
database_cross_reference: WBbt:0005763
database_cross_reference: XAO:0003002
database_cross_reference: ZFA:0001439
database_cross_reference: galen:AnatomicalSystem
has_exact_synonym: body system
has_exact_synonym: connected anatomical system
has_exact_synonym: organ system
has_obo_namespace: uberon
has_related_synonym: anatomical systems
id: UBERON:0000467
in_subset: pheno slim
in_subset: uberon slim
in_subset: upper level

digestive system
type: Class
subclass of: anatomical system
imported from: http://www.ebi.ac.uk/efo/efo.owl
external_definition: An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]
has_relational_adjective: digestive
AAO definition citation: AAO:0000129
BILA definition citation: BILA:0000082
BTO definition citation: BTO:0000058
CALOHA definition citation: CALOHA:TS-1293
EFO definition citation: EFO:0000793
EV definition citation: EV:0100056
f bbt definition citation: FBbt:00005055
FMA definition citation: FMA:7152
GAID definition citation: GAID:278
MAT definition citation: MAT:0000018
MA definition citation: MA:0002431
MESH definition citation: MESH:A03
MIAA definition citation: MIAA:0000018
NCI thesaurus definition citation: NCI_Thesaurus:Digestive_System
SNOMEDCT definition citation: SNOMEDCT:278859004
TADS definition citation: TADS:0000170
TAO definition citation: TAO:0000339
w bbt definition citation: WBbt:0005748
wikipedia definition citation: Wikipedia:Digestive_system
XAO definition citation: XAO:0000125
ZFA definition citation: ZFA:0000339
alternative_term: alimentary system
alternative_term: alimentary tract
alternative_term: gastrointestinal system
alternative_term: gut
definition: Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes.
galen definition citation: galen:DigestiveSystem
has_obo_namespace: uberon
id: UBERON:0001007
in_subset: efo slim
in_subset: uberon slim
in_subset: vertebrate core

unit
type: Class
subclass of: IAO_0000030
definition: A unit of measurement is a standardized quantity of a physical quality.
imported from: http://purl.obolibrary.org/obo/uo.owl
created by: george gkoutos
has_obo_namespace: unit.ontology
id: UO:0000000

dimensionless unit
type: Class
subclass of: unit
definition: A unit which is a standard measure of physical quantity consisting of only a numerical number without any units.
imported from: http://purl.obolibrary.org/obo/uo.owl
created by: george gkoutos
has_obo_namespace: unit.ontology
id: UO:0000186
in_subset: unit group slim

percent
type: Class
subclass of: ratio
definition: A dimensionless ratio unit which denotes numbers as fractions of 100.
imported from: http://purl.obolibrary.org/obo/uo.owl
created by: george gkoutos
has_exact_synonym: %
has_obo_namespace: unit.ontology
id: UO:0000187
in_subset: unit group slim

ratio
type: Class
subclass of: dimensionless unit
definition: A dimensionless unit which denotes an amount or magnitude of one quantity relative to another.
imported from: http://purl.obolibrary.org/obo/uo.owl
created by: george gkoutos
has_obo_namespace: unit.ontology
id: UO:0000190
in_subset: unit group slim

dose quantification specification
type: Class
subclass of: IAO_0000030
has curation status: IAO_0000123
definition: An information content entity that specifies how a dose is quantified in a dose administration.
imported from: http://purl.obolibrary.org/obo/PDRO/PDRO.owl
elucidation: This part of a prescription usually specifies a fixed amount (like '50 mg' or '500 mL'), but may instead specify a rate in some situations, e.g., in ongiong IV perfusions, where the total dose that will be administered in a single dose is unkown until the administration has ended. In either situation, the dose quantification specification is what enables the calculation of the quantity of active ingredient or drug product in the dose that is administered

active ingredient quantification specification
type: Class
subclass of: dose quantification specification
has curation status: IAO_0000123
definition: A dose quantification specification that quantifies a dose by referring to the quantity of active ingredient administered in a dose administration.
imported from: http://purl.obolibrary.org/obo/PDRO/PDRO.owl

drug product quantification specification
type: Class
subclass of: dose quantification specification
has curation status: IAO_0000123
definition: A dose quantification specification that quantifies a dose by referring to the quantity of drug product administered in a dose administration.
imported from: http://purl.obolibrary.org/obo/PDRO/PDRO.owl

genotyping
type: Class
subclass of: assay
imported from: http://www.ebi.ac.uk/efo/efo.owl
array express label: Genotyping
NCI thesaurus definition citation: NCIt:C45447
definition: An assay in which variation in the genome is analysed
definition citation: ArrayExpress production team
definition editor: James Malone

comment: true