]> 04-11-2016 A biomedical ontology in the area of vaccine adverse events. Erica Marcos Jiangan Xie OVAE is a biomedical ontology in the area of vaccine adverse events. OVAE is an extension of the community-based Ontology of Adverse Events (OAE). OVAE: Ontology of Vaccine Adverse Events OWL-DL Vision Release: 1.0.34 Yongqun "Oliver" He (YH) BFO OWL specification label BFO OWL specification label BFO OWL specification label Really of interest to developers only Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification. BFO CLIF specification label BFO CLIF specification label Person:Alan Ruttenberg BFO CLIF specification label Really of interest to developers only Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2 editor preferred term editor preferred term editor preferred term~editor preferred label editor preferred label editor preferred term~editor preferred label PERSON:Daniel Schober editor preferred label editor preferred term GROUP:OBI:<http://purl.obolibrary.org/obo/obi> The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English) editor preferred term example of usage example of usage A phrase describing how a class name should be used. May also include other kinds of examples that facilitate immediate understanding of a class semantics, such as widely known prototypical subclasses or instances of the class. Although essential for high level terms, examples for low level terms (e.g., Affymetrix HU133 array) are not GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober example example of usage has curation status has curation status OBI_0000281 PERSON:Alan Ruttenberg PERSON:Bill Bug PERSON:Melanie Courtot has curation status definition textual definition definition definition definition textual definition definition GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions. definition editor note editor note editor note 1 IAO:0000116 editor_note editor_note uberon An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology. GROUP:OBI:<http://purl.obfoundry.org/obo/obi> PERSON:Daniel Schober editor note term editor definition editor definition editor term editor 20110707, MC: label update to term editor and definition modified accordingly. See http://code.google.com/p/information-artifact-ontology/issues/detail?id=115. GROUP:OBI:<http://purl.obolibrary.org/obo/obi> Name of editor entering the definition in the file. The definition editor is a point of contact for information regarding the term. The definition editor may be, but is not always, the author of the definition, which may have been worked upon by several people Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people PERSON:Daniel Schober definition editor term editor alternative term alternative term An alternative name for a class or property which means the same thing as the preferred name (semantically equivalent) GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober alternative term definition source definition source Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Daniel Schober definition source formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007 curator notes curator note curator note 1 IAO:0000232 curator_notes curator_notes uberon An administrative note of use for a curator but of no use for a user PERSON:Alan Ruttenberg curator note imported from imported from For external terms/classes, the ontology from which the term was imported GROUP:OBI:<http://purl.obolibrary.org/obo/obi> PERSON:Alan Ruttenberg PERSON:Melanie Courtot imported from expand expression to expand assertion to elucidation elucidation Person:Barry Smith Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms elucidation person:Alan Ruttenberg has associated axiom(nl) has associated axiom(nl) An axiom associated with a term expressed using natural language Person:Alan Ruttenberg Person:Alan Ruttenberg has associated axiom(nl) has associated axiom(fol) has associated axiom(fol) An axiom expressed in first order logic using CLIF syntax Person:Alan Ruttenberg Person:Alan Ruttenberg has associated axiom(fol) Chinese translation YH, JX a chinese translation represents a chinese translation of the existing term. adverse event outcome The AE 'cough AE' has the 'label of AE outcome' of 'cough'; 'infection AE' has the 'label of AE outcom' of 'infection'. an annotation property that represents the label of an adverse event label of adverse event outcome Yongqun Oliver He, Jiangan Hardy Xie organism NCBITaxon ID The NCBITaxon ontology ID of an organism. Oliver He, Yue Liu temporal interpretation https://code.google.com/p/obo-relations/wiki/ROAndTime https://github.com/oborel/obo-relations/wiki/ROAndTime An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context. never in taxon x never in taxon T if and only if T is a class, and x does not instantiate the class expression "in taxon some T". Note that this is a shortcut relation, and should be used as a hasValue restriction in OWL. ?X DisjointWith RO_0002162 some ?Y Chris Mungall tooth SubClassOf 'never in taxon' value 'Aves' taxonomic class assertion An assertion that holds between an ontology class and an organism taxon class, which is intepreted to yield some relationship between instances of the ontology class and the taxon. dubious_for_taxon 1 1 RO:0002174 S dubious_for_taxon T if it is probably the case that no instances of S can be found in any instance of T. dubious_for_taxon dubious_for_taxon this relation lacks a strong logical interpretation, but can be used in place of never_in_taxon where it is desirable to state that the definition of the class is too strict for the taxon under consideration, but placing a never_in_taxon link would result in a chain of inconsistencies that will take time to resolve. Example: metencephalon in teleost uberon present_in_taxon 1 1 RO:0002175 S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S applicable for taxon present_in_taxon present_in_taxon uberon logical macro assertion https://github.com/oborel/obo-relations/wiki/ShortcutRelations An assertion that involves at least one OWL object that is intended to be expanded into one or more logical axioms. The logical expansion can yield axioms expressed using any formal logical system, including, but not limited to OWL2-DL. logical macro assertion on a class A logical macro assertion whose domain is an IRI for a class The domain for this class can be considered to be owl:Class, but we cannot assert this in OWL2-DL logical macro assertion on a property A logical macro assertion whose domain is an IRI for a property logical macro assertion on an object property logical macro assertion on an annotation property is direct form of Chris Mungall relation p is the direct form of relation q iff p is a subPropertyOf q, p does not have the Transitive characteristic, q does have the Transitive characteristic, and for all x, y: x q y -> exists z1, z2, ..., zn such that x p z1 ... z2n y If we have the annotation P is-direct-form-of Q, and we have inverses P' and Q', then it follows that P' is-direct-form-of Q' external_definition 1 An alternate textual definition for a class taken unmodified from an external source. This definition may have been used to derive a generalized definition for the new class. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000001 external_definition external_definition uberon axiom_lost_from_external_ontology 1 A textual description of an axiom loss in this ontology compared to an external ontology. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000002 axiom_lost_from_external_ontology axiom_lost_from_external_ontology uberon homology_notes 1 Notes on the homology status of this class. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000003 homology_notes homology_notes uberon external_comment 1 An alternate comment for a class taken unmodified from an external source. Note that obo format only allows a single comment for a class, and does not provide a structured means of adding provenance info. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000005 external_comment external_comment uberon implements_design_pattern 1 UBPROP:0000006 implements_design_pattern implements_design_pattern uberon has_relational_adjective 1 UBPROP:0000007 Used to connect a class to an adjectival form of its label. For example, a class with label 'intestine' may have a relational adjective 'intestinal'. has_relational_adjective has_relational_adjective uberon taxon_notes 1 Notes on the how instances of this class vary across species. UBPROP:0000008 taxon_notes taxon_notes uberon function_notes 1 Notes on the evolved function of instances of this class. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000009 function_notes function_notes uberon structure_notes 1 Notes on the structure, composition or histology of instances of this class. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000010 structure_notes structure_notes uberon development_notes 1 Notes on the ontogenic development of instances of this class. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000011 development_notes development_notes uberon external_ontology_notes 1 Notes on how similar or equivalent classes are represented in other ontologies. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000012 external_ontology_notes external_ontology_notes uberon terminology_notes 1 Notes on how lexical conventions regarding this class, in particular any issues that may arise due to homonyny or synonymy. This annotation property may be replaced with an annotation property from an external ontology such as IAO UBPROP:0000013 terminology_notes terminology_notes uberon is count of 1 UBPROP:0000100 is_count_of is_count_of uberon preceding element is 1 A property used in conjunction with repeated_element_number to indicate an axis and directionality along that axis. If P preceding_element_is R, and P is_count_of S, and X P N, and X' P N+1, then it follows that every X R some X', and the class expression [S and R some X' and inv(R) some X] is empty (i.e. X is followed by X', with no intermediates) UBPROP:0000101 preceding_element_is preceding_element_is uberon phalanx number 1 Most land mammals including humans have a 2-3-3-3-3 formula in both the hands (or paws) and feet. Primitive reptiles typically had the formula 2-3-4-4-5, and this pattern, with some modification, remained in many later reptiles and in the mammal-like reptiles. The phalangeal formula in the flippers of cetaceans (marine mammals) is 2-12-8-1 UBPROP:0000105 phalanx_number phalanx_number uberon x phalanx_number N if and only if (i) x is a phalanx, and (ii) x is phalanx number N in a series of phalanges repeated along an prixomo-distal axis, with phalanx_number 1 being the proximalmost phalanx. Note that in humans, the distalmost phalanx has phlanax_number 3, except in ray_number 1, where the distalmost has phalanx_number 2 has_rank has_rank A metadata relation between a class and its taxonomic rank (eg species, family) ncbi_taxonomy eco subset CUMBO developmental_classification A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. EFO slim derived from the union of EHDAA2 and EMAPA - still to be checked functional_classification Subset consisting of classes creating for grouping purposes A grouping class that depends on an assumption of homology between subclasses classes that have some inconsistency with FMA somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads abstract class brought in to group ontology classes but not informative organs, excluding individual muscles and skeletal elements Phenotype slim Uberon slim - subset that excludes obscure terms and deep compositional terms abstract upper-level terms not directly useful for analysis core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO contributor 1 dc-contributor dc-contributor uberon creator Source Source subset_property has_alternative_id has_alternative_id has_broad_synonym has_broad_synonym database_cross_reference database_cross_reference has_exact_synonym has_exact_synonym has_narrow_synonym has_narrow_synonym has_obo_namespace has_obo_namespace has_related_synonym has_related_synonym in_subset in_subset shorthand shorthand label depicted_by 1 foaf-depicted_by foaf-depicted_by uberon part of part of BFO:0000050 part_of part_of uberon 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. 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 a core relation that holds between a part and its whole http://www.obofoundry.org/ro/#OBO_REL:part_of is part of my brain is part of my body (continuant parthood, two material entities) my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity) part_of this day is part of this year (occurrent parthood) has part has part BFO:0000051 has_part has_part uberon 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. 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 a core relation that holds between a whole and its part has part has_part my body has part my brain (continuant parthood, two material entities) my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity) this year has part this day (occurrent parthood) inheres in at all times inheresInAt BFO2 Reference: independent continuant that is not a spatial region inheres-in_at BFO2 Reference: specifically dependent continuant Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'inheres in at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'inheres in@en(x,y,t)'. (iff (inheresInAt a b t) (and (DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002] BFO 2 Reference: Inherence is a subrelation of s-depends_on which holds between a dependent continuant and an independent continuant that is not a spatial region. Since dependent continuants cannot migrate from one independent continuant bearer to another, it follows that if b s-depends_on independent continuant c at some time, then b s-depends_on c at all times at which a exists. Inherence is in this sense redundantly time-indexed.For example, consider the particular instance of openness inhering in my mouth at t as I prepare to take a bite out of a donut, followed by a closedness at t+1 when I bite the donut and start chewing. The openness instance is then shortlived, and to say that it s-depends_on my mouth at all times at which this openness exists, means: at all times during this short life. Every time you make a fist, you make a new (instance of the universal) fist. (Every time your hand has the fist-shaped quality, there is created a new instance of the universal fist-shaped quality.) b inheres_in c at t =Def. b is a dependent continuant & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [051-002]) realized in Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process [copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003]) is realized by realized in realized_in this disease is realized in this disease course this fragility is realized in this shattering this investigator role is realized in this investigation realizes Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process realizes this disease course realizes this disease this investigation realizes this investigator role this shattering realizes this fragility to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003]) concretized by at some time [copied from inverse property 'concretizes at some time'] You may concretize a recipe that you find in a cookbook by turning it into a plan which exists as a realizable dependent continuant in your head. concretized-by_st [copied from inverse property 'concretizes at some time'] You may concretize a piece of software by installing it in your computer [copied from inverse property 'concretizes at some time'] b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002]) [copied from inverse property 'concretizes at some time'] you may concretize a poem as a pattern of memory traces in your head [copied from inverse property 'concretizes at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'concretizes at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'concretizes@en'(x,y,t) preceded_by preceded by BFO:0000062 X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X) is preceded by preceded_by preceded_by takes place after uberon 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. http://www.obofoundry.org/ro/#OBO_REL:preceded_by is preceded by preceded by preceded_by 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. precedes precedes BFO:0000063 precedes precedes uberon precedes 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. occurs in Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t occurs-in occurs in occursIn b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t [XXX-001 occurs_in unfolds in unfolds_in contains process Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t site of specifically depends on at all times (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001] BFO2 Reference: specifically dependent continuant\; process; process boundary s-depends-on_at (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002] (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002] A pain s-depends_on the organism that is experiencing the pain BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28 If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002]) a gait s-depends_on the walking object. (All at some specific time.) if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002]) one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell reciprocal s-dependence between occurrents: a process of buying and the associated process of selling specificallyDependsOn (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'specifically depends on at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'specifically depends on@en(x,y,t)'. (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002] BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20 BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place. If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001]) If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001]) To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64 a shape s-depends_on the shaped object an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002]) one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball the one-sided dependence of an occurrent on an independent continuant: handwave on a hand the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45 the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45 the two-sided reciprocal s-dependence of the roles of husband and wife [20 occupies spatial region at some time located-at-r_st (forall (x y r_1 t) (if (and (occupiesSpatialRegionAt x r_1 t) (continuantPartOfAt y x t)) (exists (r_2) (and (continuantPartOfAt r_2 r_1 t) (occupiesSpatialRegionAt y r_2 t))))) // axiom label in BFO2 CLIF: [043-001] BFO2 Reference: independent continuant Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t) (forall (x r t) (if (occupiesSpatialRegionAt x r t) (and (SpatialRegion r) (IndependentContinuant x)))) // axiom label in BFO2 CLIF: [041-002] BFO2 Reference: spatial region (forall (r t) (if (Region r) (occupiesSpatialRegionAt r r t))) // axiom label in BFO2 CLIF: [042-002] b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002]) every region r is occupies_spatial_region r at all times. (axiom label in BFO2 Reference: [042-002]) if b occupies_spatial_region r at t & b continuant_part_of b at t, then there is some r which is continuant_part_of r at t such that b occupies_spatial_region r at t. (axiom label in BFO2 Reference: [043-001]) occupiesSpatialRegionAt exists at BFO2 Reference: entity b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002]) existsAt BFO2 Reference: temporal region exists-at has occurrent part [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. [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]) [copied from inverse property 'part of occurrent'] Mary’s 5th birthday occurrent_part_of Mary’s life [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. b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001]) o-has-part (iff (hasOccurrentPart a b) (occurrentPartOf b a)) // axiom label in BFO2 CLIF: [007-001] [copied from inverse property 'part of occurrent'] BFO2 Reference: occurrent hasOccurrentPart [copied from inverse property 'part of occurrent'] the first set of the tennis match occurrent_part_of the tennis match. has proper occurrent part o-has-ppart hasProperOccurrentPart [copied from inverse property 'proper part of occurrent'] b proper_occurrent_part_of c =Def. b occurrent_part_of c & b and c are not identical. (axiom label in BFO2 Reference: [005-001]) b has_proper_occurrent_part c = Def. c proper_occurrent_part_of b. [XXX-001 has spatial occupant at some time r-location-of_st [copied from inverse property 'occupies spatial region at some time'] b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002]) [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: independent continuant [copied from inverse property 'occupies spatial region at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t) [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: spatial region has spatiotemporal occupant [copied from inverse property 'occupies spatiotemporal region'] BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region. occupied-by [copied from inverse property 'occupies spatiotemporal region'] p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003]) occupies spatiotemporal region occupiesSpatiotemporalRegion BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region. occupies p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003]) part of occurrent BFO2 Reference: occurrent occurrentPartOf o-part-of (forall (x y t) (if (and (occurrentPartOf x y t) (not (= x y))) (exists (z) (and (occurrentPartOf z y t) (not (exists (w) (and (occurrentPartOf w x t) (occurrentPartOf w z t)))))))) // axiom label in BFO2 CLIF: [124-001] (forall (x y t) (if (and (occurrentPartOf x y t) (occurrentPartOf y x t)) (= x y))) // axiom label in BFO2 CLIF: [123-001] [copied from inverse property 'has occurrent part'] b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001]) (forall (x) (if (Occurrent x) (occurrentPartOf x x))) // axiom label in BFO2 CLIF: [113-002] (forall (x y z) (if (and (occurrentPartOf x y) (occurrentPartOf y z)) (occurrentPartOf x z))) // axiom label in BFO2 CLIF: [112-001] (forall (x y t) (if (exists (v) (and (occurrentPartOf v x t) (occurrentPartOf v y t))) (exists (z) (forall (u w) (iff (iff (occurrentPartOf w u t) (and (occurrentPartOf w x t) (occurrentPartOf w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [125-001] 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. Mary’s 5th birthday occurrent_part_of Mary’s life The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football. b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002]) occurrent_part_of is antisymmetric. (axiom label in BFO2 Reference: [123-001]) occurrent_part_of is reflexive (every occurrent entity is an occurrent_part_of itself). (axiom label in BFO2 Reference: [113-002]) occurrent_part_of is transitive. (axiom label in BFO2 Reference: [112-001]) occurrent_part_of satisfies unique product. (axiom label in BFO2 Reference: [125-001]) occurrent_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [124-001]) the first set of the tennis match occurrent_part_of the tennis match. temporal part of (iff (properTemporalPartOf a b) (and (temporalPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [116-001] (forall (x y) (if (properTemporalPartOf x y) (exists (z) (and (properTemporalPartOf z y) (not (exists (w) (and (temporalPartOf w x) (temporalPartOf w z)))))))) // axiom label in BFO2 CLIF: [117-002] b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003]) temporalPartOf t-part-of (iff (temporalPartOf a b) (and (occurrentPartOf a b) (exists (t) (and (TemporalRegion t) (occupiesSpatioTemporalRegion a t))) (forall (c t_1) (if (and (Occurrent c) (occupiesSpatioTemporalRegion c t_1) (occurrentPartOf t_1 r)) (iff (occurrentPartOf c a) (occurrentPartOf c b)))))) // axiom label in BFO2 CLIF: [078-003] b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001]) if b proper_temporal_part_of c, then there is some d which is a proper_temporal_part_of c and which shares no parts with b. (axiom label in BFO2 Reference: [117-002]) the 4th year of your life is a temporal part of your life\. The first quarter of a game of football is a temporal part of the whole game\. The process of your heart beating from 4pm to 5pm today is a temporal part of the entire process of your heart beating.\ The 4th year of your life is a temporal part of your life the process boundary which separates the 3rd and 4th years of your life. your heart beating from 4pm to 5pm today is a temporal part of the process of your heart beating projects onto spatial region at some time st-projects-onto-s_st spatial projection of spatiotemporal at some time s-projection-of-st_st projects onto temporal region st-projects-onto-t temporal projection of spatiotemporal t-projection-of-st occupies temporal region spans occupiesTemporalRegion p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001]) has temporal occupant [copied from inverse property 'occupies temporal region'] p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001]) span-of spanOf during which exists [copied from inverse property 'exists at'] BFO2 Reference: entity during-which-exists [copied from inverse property 'exists at'] BFO2 Reference: temporal region [copied from inverse property 'exists at'] b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002]) specifically depends on at some time s-depends-on_st BFO2 Reference: specifically dependent continuant\; process; process boundary (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001] (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'specifically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'specifically depends on@en'(x,y,t) (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001] (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002] (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002] A pain s-depends_on the organism that is experiencing the pain BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28 BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20 BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place. If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001]) If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001]) If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002]) To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64 a gait s-depends_on the walking object. (All at some specific time.) a shape s-depends_on the shaped object an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002]) if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002]) one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat reciprocal s-dependence between occurrents: a process of buying and the associated process of selling specificallyDependsOn one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball the one-sided dependence of an occurrent on an independent continuant: handwave on a hand the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45 the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45 the two-sided reciprocal s-dependence of the roles of husband and wife [20 part of continuant at some time (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002] [copied from inverse property 'has continuant part at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t) BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. [copied from inverse property 'has continuant part at some time'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001] (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001] (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002] (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001] (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) c-part-of_st 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. BFO2 Reference: continuant (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation continuantPartOfAt Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t) b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001]) continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002]) continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001]) continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001]) continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001]) if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002]) the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. has continuant part at some time [copied from inverse property 'part of continuant at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t) [copied from inverse property 'part of continuant at some time'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) [copied from inverse property 'part of continuant at some time'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001] c-has-part_st Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t) [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuant [copied from inverse property 'part of continuant at some time'] 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. [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. hasContinuantPartAt [copied from inverse property 'part of continuant at some time'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. [copied from inverse property 'part of continuant at some time'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) part of continuant at all times that whole exists [copied from inverse property 'has continuant part at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has continuant part@en(x,y,t)'. This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times' forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t) [copied from inverse property 'has continuant part at all times'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001]) c-part-of-object_at has continuant part at all times that part exists [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuant [copied from inverse property 'part of continuant at all times'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists. c-has-part-object_at forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t) [copied from inverse property 'part of continuant at all times'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001]) [copied from inverse property 'part of continuant at all times'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times' [copied from inverse property 'part of continuant at all times'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001]) [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region. [copied from inverse property 'part of continuant at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'part of continuant@en(x,y,t)'. [copied from inverse property 'part of continuant at all times'] 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. anterior_to 2009-07-31T02:15:46Z BSPO:0000096 anterior_to anterior_to cjm uberon x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer distal_to BSPO:0000097 distal_to distal_to uberon x distal_to y iff x is further along the proximo-distal axis than y, towards the appendage tip. A proximo-distal axis extends from tip of an appendage (distal) to where it joins the body (proximal). dorsal_to BSPO:0000098 dorsal_to dorsal_to uberon x dorsal_to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly). posterior_to BSPO:0000099 caudal_to posterior_to posterior_to uberon x posterior_to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail. proximal_to BSPO:0000100 proximal_to proximal_to uberon x proximal_to y iff x is closer to the point of attachment with the body than y. ventral_to BSPO:0000102 uberon ventral_to ventral_to x ventral_to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly). deep_to BSPO:0000107 Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines. deep_to deep_to uberon superficial_to BSPO:0000108 Near the outer surface of the organism. Thus, skin is superficial to the muscle layer. superficial_to superficial_to uberon in_left_side_of BSPO:0000120 X in_left_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the left portion. https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern in_left_side_of in_left_side_of uberon in_right_side_of BSPO:0000121 X in_right_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the right portion. https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern in_right_side_of in_right_side_of uberon in_anterior_side_of BSPO:0000123 X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the anterior portion. in_anterior_side_of in_anterior_side_of uberon in_proximal_side_of BSPO:0000124 X proximal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the proximal portion. in_proximal_side_of in_proximal_side_of uberon in_distal_side_of BSPO:0000125 X distal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the distal portion. in_distal_side_of in_distal_side_of uberon in_lateral_side_of BSPO:0000126 X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern in_lateral_side_of in_lateral_side_of uberon proximalmost_part_of BSPO:0001106 X proximalmost_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y proximalmost_part_of proximalmost_part_of uberon is evidence of This represents a relation between two adverse events AE1 and AE2. However, AE1 may be an evidence of another adverse event AE3, and a dfferent adverse event AE4 may also be an evidence of the same AE2. SS, YH, YL An electrocardiogram qt prolonged AE is_evidence_of arrhythmia AE; arrhythmia AE is_evidence_of cardiomyopathy AE; fever AE is_evidence_of inflammation AE; fever AE is_evidence_of viral infection AE; plural effusion AE is_evidence_of cardiac disorder AE. has participant quality an object property that represents a relation between a process and a quality, in which the process has a participant that has the quality. An adverse event has a participant quality, such as a hyperkalemia AE has a participatn quality blood potassium increased. Yongqun He adverse event occurs in a 'occurs in' relation that is applied at the adverse event setting and indicates where an adverse event occurs in. Yongqun He is_specified_input_of PERSON:Bjoern Peters 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. Alan Ruttenberg is_specified_input_of 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 is_manufactured_by Alan Ruttenberg Liju Fan c is_manufactured_by o means that there was a process p in which c was built in which a person, or set of people or machines did the work(bore the "Manufacturer Role", and those people/and or machines were members or of directed by the organization to do this. has_make has_manufacturer http://www.affymetrix.com/products/arrays/specific/hgu133.affx is_manufactered_by http://www.affymetrix.com/ (if we decide to use these URIs for the actual entities) is_manufactured_by is_specified_output_of PERSON:Bjoern Peters 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. Alan Ruttenberg is_specified_output_of achieves_planned_objective A cell sorting process achieves the objective specification 'material separation objective' BP, AR, PPPB branch PPPB branch derived This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process. achieves_planned_objective modified according to email thread from 1/23/09 in accordince with DT and PPPB branch is genome of organism a 'part of continuant at some time' relation that incides a genome belongs to a organism. Yongqun He, Bin Zhao is gene of organism Oliver He, Yue Liu a relation between a gene and the organism where this gene belongs to the organism in nature. It does not include a foreign gene that is transferred to an organism by a genetic engineering method. occurs in population an vaccine adverse event 'occurs in population' human vaccinee population is equivalent to say: 'occurs in' human vaccinee 'part of' human vaccine population. an 'occurs in' relation that is a shortcut relation combining the 'occurs in' relation in an specific term which is part of a population. Yongqun He participates in a relation between a continuant and a process, in which the continuant is somehow involved in the process participates in participates_in this blood clot participates in this blood coagulation this input material (or this output material) participates in this process this investigator participates in this investigation has participant 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. a relation between a process and a continuant, in which the continuant is somehow involved in the process has participant http://www.obofoundry.org/ro/#OBO_REL:has_participant has_participant this blood coagulation has participant this blood clot this investigation has participant this investigator this process has participant this input material (or this output material) concretizes A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant). A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant. An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process). has function A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists. a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence has_function this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function) has quality A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist. a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence has_quality this apple has quality this red color has role A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists. a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence has_role this person has role this investigator role (more colloquially: this person has this role of investigator) location_of RO:0001015 location_of location_of uberon located_in located in RO:0001025 located_in located_in uberon http://www.obofoundry.org/ro/#OBO_REL:located_in Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime a relation between two independent continuants, the target and the location, in which the target is entirely within the location located in located_in my brain is located in my head this rat is located in this cage has boundary RO:0002002 has_boundary has_boundary uberon bounding layer of A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. RO:0002007 bounding_layer_of bounding_layer_of uberon before or simultaneous with <= David Osumi-Sutherland Primitive instance level timing relation between events simultaneous_with simultaneous with RO:0002082 Relation between occurrents, shares start and end boundaries. coincides_with is_equal_to simultaneous_with simultaneous_with uberon David Osumi-Sutherland t1 simultaneous_with t2 iff:= t1 before_or_simultaneous_with t2 and not (t1 before t2) ends after David Osumi-Sutherland X ends_after Y iff: end(Y) before_or_simultaneous_with end(X) immediately_preceded_by immediately preceded by A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]. RO:0002087 X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y) directly preceded by immediately_preceded_by immediately_preceded_by is directly preceded by is immediately preceded by starts_at_end_of uberon starts_at_end_of David Osumi-Sutherland X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y) immediately precedes ends_at_start_of meets David Osumi-Sutherland X immediately_precedes_Y iff: end(X) simultaneous_with start(Y) starts during David Osumi-Sutherland X starts_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (start(X) before_or_simultaneous_with end(Y)) io happens during X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y)) d during David Osumi-Sutherland ends during David Osumi-Sutherland o overlaps X ends_during Y iff: ((start(Y) before_or_simultaneous_with end(X)) AND end(X) before_or_simultaneous_with end(Y). overlaps http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y) x overlaps y if and only if there exists some z such that x has part z and z part of y continuous_with RO:0002150 continuous_with continuous_with uberon homologous_to RO:0002158 homologous_to homologous_to uberon connected to Binary relationship: x connected_to y if and only if there exists some z such that z connects x and y in a ternary connected_to(x,y,z) relationship. Connection does not imply overlaps. RO:0002170 connected_to connected_to uberon connects Binary relationship: z connects x if and only if there exists some y such that z connects x and y in a ternary connected_to(x,y,z) relationship. RO:0002176 connects connects this is currently used for both structural relationships (such as between a valve and the chamber it connects) and abstract relationships (anatomical lines and the entities they connect) uberon develops_from RO:0002202 develops_from develops_from uberon develops_into RO:0002203 develops_into develops_into uberon surrounded_by RO:0002219 surrounded_by surrounded_by uberon x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y adjacent_to RO:0002220 adjacent_to adjacent_to uberon x adjacent_to y iff: x and y share a boundary surrounds RO:0002221 inverse of surrounded_by surrounds surrounds uberon temporally related to https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 Chris Mungall 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. A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. starts RO:0002223 Relation between occurrents, shares a start boundary with. starts starts uberon starts with starts with RO:0002224 starts_with starts_with uberon started by 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. Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor Chris Mungall ends RO:0002229 Relation between occurrents, shares an end boundary with. ends ends finishes uberon ends with ends with RO:0002230 ends_with ends_with uberon Chris Mungall finished by 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. has developmental contribution from RO:0002254 has_developmental_contribution_from has_developmental_contribution_from uberon developmentally_induced_by RO:0002256 developmentally_induced_by developmentally_induced_by sources for developmentally_induced_by relationships in Uberon: Developmental Biology, Gilbert, 8th edition, figure 6.5(F) t1 developmentally_induced_by t2 if there is a process of organ induction (GO:0001759) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor tissue type T to T', where T' develops_from T. uberon developmentally preceded by RO:0002258 developmentally_preceded_by developmentally_preceded_by uberon developmentally_replaces RO:0002285 developmentally_replaces developmentally_replaces uberon mereotopologically related to A mereological relationship or a topological relationship Chris Mungall Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships has member RO:0002351 has_member has_member uberon has potential to developmentally contribute to RO:0002385 has_potential_to_developmentally_contribute_to has_potential_to_developmentally_contribute_to uberon x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y has potential to develop into RO:0002387 has_potential_to_develop_into has_potential_to_develop_into uberon x has the potential to develop into y iff x develops into y or if x is capable of developing into y contributes to morphology of RO:0002433 contributes_to_morphology_of contributes_to_morphology_of uberon composed primarily of RO:0002473 UBREL:0000002 composed_primarily_of composed_primarily_of uberon x composed_primarily_of y iff: more than half of the mass of x is made from parts of y existence starts during BFO:0000068 RO:0002488 Relation between continuant c and occurrent s, such that every instance of c comes into existing during some s. begins_to_exist_during existence_starts_during existence_starts_during uberon existence starts with RO:0002489 Relation between continuant and occurrent, such that c comes into existence at the start of p. existence_starts_with existence_starts_with uberon existence ends during BFO:0000069 RO:0002492 Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely. ceases_to_exist_during existence_ends_during existence_ends_during uberon existence ends with RO:0002493 Relation between continuant and occurrent, such that c ceases to exist at the end of p. existence_ends_with existence_ends_with uberon transformation of RO:0002494 transformation_of transformation_of transforms from uberon immediate transformation of RO:0002495 direct_transformation_of immediate_transformation_of immediate_transformation_of immediately transforms from uberon existence starts during or after RO:0002496 existence_starts_during_or_after existence_starts_during_or_after uberon existence ends during or before RO:0002497 existence_ends_during_or_before existence_ends_during_or_before uberon has material contribution from RO:0002507 has_material_contribution_from has_material_contribution_from uberon has skeleton A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision. RO:0002551 has sekeletal support has supporting framework has_skeleton has_skeleton uberon luminal space of RO:0002572 luminal_space_of luminal_space_of uberon skeleton of RO:0002576 skeleton_of skeleton_of uberon produces RO:0003000 produces produces uberon produced_by RO:0003001 produced_by produced_by uberon has vaccine contraindication This relation may be replaced by has_vaccine_allergen. We need to determine if any vaccine contraindicator is not a vaccine allergen. YH has_vaccine_contraindication is a relation that specifies contraindication of a vaccine. has vaccine allergen a object property that specifies a relation between a vaccine and a vaccine allergen YH vaccinated in route an object property that specifies a relation between a vaccine and a vaccinate route is_distributed_by is_distributed_by is a relation that specifies a company that distributes a product (e.g., vaccine). The company is very likely not the manufacturer of the product. YH, ZX vaccine immunization for host Yongqun He YL vaccine immunization against microbe Yongqun He anteriorly connected to anteriorly_connected_to uberon x anteriorly_connected_to y iff the anterior part of x is connected to y. i.e. x connected_to y and x posterior_to y. channel for carries channel_for uberon conduit for conduit_for uberon x is a conduit for y iff y passes through the lumen of x. distally connected to distally_connected_to uberon x distally_connected_to y iff the distal part of x is connected to y. i.e. x connected_to y and x proximal_to y. evolved_from Status: experimental evolved_from uberon existence starts and ends during existence_starts_and_ends_during uberon extends_fibers_into extends_fibers_into uberon in_central_side_of X in_central_side Y <=> if Y is subdivided into left and right portions around some median divisor, all parts of X are closer to the median divisor than the outermost lateral sides. https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern in_central_side_of uberon posteriorly connected to posteriorly_connected_to uberon x posteriorly_connected_to y iff the posterior part of x is connected to y. i.e. x connected_to y and x anterior_to y. protects protects uberon proximally connected to proximally_connected_to uberon x proximally_connected_to y iff the proximal part of x is connected to y. i.e. x connected_to y and x distal_to y. subdivision of placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B subdivision_of uberon transitively anteriorly connected to . transitively_anteriorly_connected_to uberon transitively_connected to transitively_connected_to uberon transitively distally connected to . transitively_distally_connected_to uberon transitively proximally connected to . transitively_proximally_connected_to uberon has VAE occurrence a data property that indicates a vaccinee having an occurrence of a specific VAE of a particular data value that is in the range of 0 and 1. Yongqun He has age in year Yongqun He a data property that represents the age with the unit of year. entity entity entity BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81 Entity An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001]) Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf Julius Caesar Verdi’s Requiem entity the Second World War your body mass index continuant continuant Continuant (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002]) continuant (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240 Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants continuant if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001]) if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002]) if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002]) occurrent (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame. (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] An entity that has temporal parts and that happens, unfolds or develops through time. An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002]) BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players. Occurrent Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process. occurrent Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001]) b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001]) occurrent independent continuant IndependentContinuant (forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001]) For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002]) a leg a molecule an atom an organism ic a chair a heart a spatial region an orchestra. b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002]) independent continuant the bottom right portion of a human torso the interior of your mouth dependent continuant A continuant that is either dependent on one or other independent continuant bearers or inheres in or is borne by other entities. spatial region true true (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] s-region BFO 2 Reference: Spatial regions do not participate in processes. Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional. SpatialRegion (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001]) All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001]) temporal region true true (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002]) Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional TemporalRegion t-region (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001]) All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001]) spatiotemporal region true true st-region (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001]) Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002]) SpatiotemporalRegion (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001]) Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001]) Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001]) Every spatiotemporal region occupies_spatiotemporal_region itself. the spatiotemporal region occupied by a human life the spatiotemporal region occupied by a process of cellular meiosis. the spatiotemporal region occupied by the development of a cancer tumor process (iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. process Process BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war) a process of cell-division, \ a beating of the heart a process of meiosis a process of sleeping p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003]) process the course of a disease the flight of a bird the life of an organism your process of aging. disposition (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] Disposition (forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type [89 BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type. an atom of element X has the disposition to decay to an atom of element Y disposition If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002]) b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002]) certain people have a predisposition to colon cancer children are innately disposed to categorize objects in certain ways. the cell wall is disposed to filter chemicals in endocitosis and exocitosis the cell wall is disposed to filter chemicals in endocytosis and exocytosis realizable entity A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances. All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002]) RealizableEntity realizable (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002]) realizable entity the disposition of this piece of metal to conduct electricity. the disposition of your blood to coagulate the function of your reproductive organs the role of being a doctor the role of this boundary to delineate where Utah and Colorado meet quality (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] quality Quality (forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001]) a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001]) the ambient temperature of this portion of air the color of a tomato the length of the circumference of your waist the mass of this piece of gold. the shape of your nose the shape of your nostril specifically dependent continuant (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] (iff (RelationalSpecificallyDependentContinuant a) (and (SpecificallyDependentContinuant a) (forall (t) (exists (b c) (and (not (SpatialRegion b)) (not (SpatialRegion c)) (not (= b c)) (not (exists (d) (and (continuantPartOfAt d b t) (continuantPartOfAt d c t)))) (specificallyDependsOnAt a b t) (specificallyDependsOnAt a c t)))))) // axiom label in BFO2 CLIF: [131-004] SpecificallyDependentContinuant A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc. b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n &gt; 1 independent continuants c1, … cn which are not spatial regions are such that for all 1 i &lt; j n, ci and cj share no common parts, are such that for each 1 i n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004]) of one-sided specifically dependent continuants: the mass of this tomato sdc A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003]) of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates. specifically dependent continuant the disposition of this fish to decay the function of this heart: to pump blood the mutual dependence of proton donors and acceptors in chemical reactions [79 the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction the pink color of a medium rare piece of grilled filet mignon at its center the role of being a doctor the shape of this hole. the smell of this portion of mozzarella role A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts. Role role (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives. John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married. b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001]) role the priest role the role of a boundary to demarcate two neighboring administrative territories the role of a building in serving as a military target the role of a stone in marking a property boundary the role of subject in a clinical trial the student role three-dimensional spatial region ThreeDimensionalSpatialRegion 3d-s-region (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001]) a cube-shaped region of space a sphere-shaped region of space, site (forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002] Manhattan Canyon) site Site a hole in the interior of a portion of cheese a rabbit hole an air traffic control region defined in the airspace above an airport b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002]) the Grand Canyon the Piazza San Marco the cockpit of an aircraft the hold of a ship the interior of a kangaroo pouch the interior of the trunk of your car the interior of your bedroom the interior of your office the interior of your refrigerator the lumen of your gut your left nostril (a fiat part – the opening – of your left nasal cavity) generically dependent continuant gdc (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] GenericallyDependentContinuant A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time. The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity. b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001]) generically dependent continuant the pdf file on your laptop, the pdf file that is a copy thereof on my laptop the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule. function (forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001] Function A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001]) BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc. function the function of a hammer to drive in nails the function of a heart pacemaker to regulate the beating of a heart through electricity the function of amylase in saliva to break down starch into sugar process boundary (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002] (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001] Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002]) p-boundary ProcessBoundary p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001]) the boundary between the 2nd and 3rd year of your life. material entity material (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002] (forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002] A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002]) MaterialEntity An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60 BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity. BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here. Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002]) a flame a forest fire a human being a hurricane a photon a puff of smoke a sea wave a tornado an aggregate of human beings. an energy wave an epidemic every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002]) material entity the undetached arm of a human being immaterial entity BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10 immaterial ImmaterialEntity zero-dimensional temporal region (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001] ZeroDimensionalTemporalRegion 0d-t-region A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001]) a temporal region that is occupied by a process boundary right now temporal instant. the moment at which a child is born the moment at which a finger is detached in an industrial accident the moment of death. gross anatomical part Anatomical structure that is part of a multicellular organism and is at the gross anatomical level, e.g. above the level of a cell. Included are portions of organism substances such as blood, multi-cell-part structures such as axon tracts, acellular anatomical structures such as hair, and organism subdivisions such as head. Excluded is the whole organism and more granular parts of the organism, such as atoms, molecules, macromolecular complexes and cells. gross anatomical part formaldehyde Aldeide formica Beilstein:1209228 CH2O CHEBI:14274 CHEBI:16842 CHEBI:24077 CHEBI:337763 CHEBI:5142 ChEMBL:7381846 ChemIDplus:50-00-0 Chlodithan Chlodithane CiteXplore:110589 CiteXplore:11094105 CiteXplore:11688455 CiteXplore:12101431 CiteXplore:12429629 CiteXplore:12686735 CiteXplore:15091529 CiteXplore:15189269 CiteXplore:15450713 CiteXplore:15810952 CiteXplore:15893897 CiteXplore:15914300 CiteXplore:15975255 CiteXplore:16001656 CiteXplore:16136465 CiteXplore:16149025 CiteXplore:16280667 CiteXplore:16423181 CiteXplore:16481239 CiteXplore:16551731 CiteXplore:17618393 CiteXplore:18837732 CiteXplore:2432751 CiteXplore:25042713 CiteXplore:7548723 CiteXplore:7689168 CiteXplore:7896413 CiteXplore:8204010 CiteXplore:8747965 CiteXplore:9048644 CiteXplore:9686972 DrugBank:DB03843 FORMALDEHYDE FORMALIN Fannoform Formaldehyd Formaldehyde Formalin Formalina Formaline Formalith Formic aldehyde Formol Gmelin:445 HMDB:HMDB01426 InChI=1S/CH2O/c1-2/h1H2 KEGG COMPOUND:50-00-0 KEGG COMPOUND:C00067 KEGG DRUG:D00017 MetaCyc:FORMALDEHYDE Methaldehyde Methanal Methylene glycol Methylene oxide NIST Chemistry WebBook:50-00-0 Oxomethane Oxomethylene PDBeChem:FLH PDBeChem:FOR Paraform Reaxys:1209228 The simplest aldehyde. UM-BBD:c0122 WSFSSNUMVMOOMR-UHFFFAOYSA-N Wikipedia:Formaldehyde [H]C([H])=O chebi_ontology formaldehyde lactose (+)-lactose (2R,3S,4S,5R,6S)-2-(hydroxymethyl)-6-[(2R,3R,4S,5R,6S)-4,5,6-trihydroxy-2-(hydroxymethyl)oxan-3-yl]oxy-oxane-3,4,5-triol (2R,3S,4S,5R,6S)-2-(hydroxymethyl)-6-[(2R,3R,4S,5R,6S)-4,5,6-trihydroxy-2-(hydroxymethyl)tetrahydropyran-3-yl]oxy-tetrahydropyran-3,4,5-triol (2R,3S,4S,5R,6S)-2-methylol-6-[(2R,3R,4S,5R,6S)-4,5,6-trihydroxy-2-methylol-tetrahydropyran-3-yl]oxy-tetrahydropyran-3,4,5-triol (Gal)1 (Glc)1 1-beta-D-Galactopyranosyl-4-D-glucopyranose 4-(beta-D-galactosido)-D-glucose 4-O-beta-D-galactopyranosyl-D-glucose A disaccharide, found most notably in milk, that consists of D-galactose and D-glucose fragments bonded through a beta-1->4 glycosidic linkage. The glucose fragment can be in either the alpha- or beta-pyranose form, whereas the galactose fragment can only have the beta-pyranose form. Beilstein:1292745 C12H22O11 CHEBI:10296 CHEBI:10380 CHEBI:14497 CHEBI:17716 CHEBI:22460 CHEBI:22760 CHEBI:25005 CHEBI:27755 CHEBI:613009 ChEMBL:19053747 ChemIDplus:63-42-3 CiteXplore:1292745 CiteXplore:17329833 CiteXplore:18300214 CiteXplore:19846069 CiteXplore:19913595 CiteXplore:20094999 CiteXplore:20503067 CiteXplore:20699559 CiteXplore:20873837 CiteXplore:20961532 CiteXplore:21403918 CiteXplore:2432147 CiteXplore:2456994 CiteXplore:6194884 CiteXplore:7574700 D-lactose GUBGYTABKSRVRQ-QKKXKWKRSA-N Galbeta1-4-Glc Gmelin:882872 InChI=1S/C12H22O11/c13-1-3-5(15)6(16)9(19)12(22-3)23-10-4(2-14)21-11(20)8(18)7(10)17/h3-20H,1-2H2/t3-,4-,5+,6+,7-,8-,9-,10-,11?,12+/m1/s1 KEGG COMPOUND:63-42-3 KEGG COMPOUND:C00243 KEGG DRUG:D00046 KEGG GLYCAN:G10504 KNApSAcK:C00001136 Lac Laktobiose Laktose Milchzucker Milk sugar NIST Chemistry WebBook:63-42-3 OC[C@H]1O[C@@H](O[C@@H]2[C@@H](CO)OC(O)[C@H](O)[C@H]2O)[C@H](O)[C@@H](O)[C@H]1O Reaxys:1292745 beta-D-Gal-(1->4)-D-Glc beta-D-Galp-(1->4)-D-Glcp beta-D-galactopyranosyl-(1->4)-D-glucopyranose beta-Gal1,4-Glc chebi_ontology lactobiose lactose milk sugar molecular entity . Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity. CHEBI:23367 chebi_ontology entidad molecular entidades moleculares entite moleculaire molecular entities molecular entity molekulare Entitaet chemical entity . A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances. CHEBI:24431 chebi_ontology chemical entity grouped_by_chemistry glucitol Beilstein:1721909 C6H14O6 CHEBI:15093 CHEBI:26724 CHEBI:26726 CHEBI:30911 CHEBI:33795 CHEBI:33796 CHEBI:9201 Gmelin:83165 Sorbitol Wikipedia:Sorbitol chebi_ontology glucitol gulitol rel-(2R,3R,4R,5S)-hexane-1,2,3,4,5,6-hexol sorbitol sorbitols dextran (1,6-alpha-D-Glucosyl)m (1,6-alpha-D-Glucosyl)m+1 (1,6-alpha-D-Glucosyl)n (1,6-alpha-D-Glucosyl)n+1 1,6-alpha-D-Glucan A (1->6)-alpha-D-glucan which has extra branching consisting of (1->2), (1->3) or (1->4) linkages. CHEBI:52071 ChemIDplus:9004-54-0 CiteXplore:8154046 Dextran 40 Dextran 70 Dextran 75 KEGG COMPOUND:9004-54-0 KEGG COMPOUND:C00372 KEGG DRUG:D00060 KEGG DRUG:D06541 KEGG GLYCAN:G10502 chebi_ontology dextran dextrane dextrano dextrans dextranum neomycin A broad-spectrum highly toxic antibiotic or mixture of antibiotics produced by a streptomyces (Streptomyces fradiae) and used medically especially to treat local infections. C22H41N5O13R2.C12H26N4O6 CHEBI:7507 DrugBank:DB00994 KEGG COMPOUND:1404-04-2 KEGG COMPOUND:C00384 KEGG DRUG:D08260 NC[C@H]1O[C@H](O[C@@H]2[C@@H](N)C[C@@H](N)[C@H](O)[C@H]2[*])[C@H](N)[C@@H](O)[C@@H]1O Neomycin chebi_ontology objective specification 2009-03-16: original definition when imported from OBI read: "objective is an non realizable information entity which can serve as that proper part of a plan towards which the realization of the plan is directed." 2014-03-31: In the example of usage ("In the protocol of a ChIP assay the objective specification says to identify protein and DNA interaction") there is a protocol which is the ChIP assay protocol. In addition to being concretized on paper, the protocol can be concretized as a realizable entity, such as a plan that inheres in a person. The objective specification is the part that says that some protein and DNA interactions are identified. This is a specification of a process endpoint: the boundary in the process before which they are not identified and after which they are. During the realization of the plan, the goal is to get to the point of having the interactions, and participants in the realization of the plan try to do that. Answers the question, why did you do this experiment? In the protocol of a ChIP assay the objective specification says to identify protein and DNA interaction. OBI Plan and Planned Process/Roles Branch OBI_0000217 PERSON: Alan Ruttenberg PERSON: Barry Smith PERSON: Bjoern Peters PERSON: Jennifer Fostel a directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved. goal specification objective specification information content entity 2014-03-10: The use of "thing" is intended to be general enough to include universals and configurations (see https://groups.google.com/d/msg/information-ontology/GBxvYZCk1oc/-L6B5fSBBTQJ). A generically dependent continuant that is about some thing. Examples of information content entites include journal articles, data, graphical layouts, and graphs. OBI_0000142 PERSON: Chris Stoeckert information content entity directive information entity 2009-03-16: provenance: a term realizable information entity was proposed for OBI (OBI_0000337) , edited by the PlanAndPlannedProcess branch. Original definition was "is the specification of a process that can be concretized and realized by an actor" with alternative term "instruction".It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term. 2013-05-30 Alan Ruttenberg: What differentiates a directive information entity from an information concretization is that it can have concretizations that are either qualities or realizable entities. The concretizations that are realizable entities are created when an individual chooses to take up the direction, i.e. has the intention to (try to) realize it. 8/6/2009 Alan Ruttenberg: Changed label from "information entity about a realizable" after discussions at ICBO An information content entity whose concretizations indicate to their bearer how to realize them in a process. PERSON: Alan Ruttenberg PERSON: Bjoern Peters Werner pushed back on calling it realizable information entity as it isn't realizable. However this name isn't right either. An example would be a recipe. The realizable entity would be a plan, but the information entity isn't about the plan, it, once concretized, *is* the plan. -Alan directive information entity Viruses GC_ID:1 Vira Viridae ncbi_taxonomy viruses Poxviridae GC_ID:1 ncbi_taxonomy Chordopoxvirinae GC_ID:1 ncbi_taxonomy Variola virus GC_ID:1 NCBITaxon:12871 ncbi_taxonomy small pox virus smallpox smallpox virus variola virus VAR H5N1 subtype GC_ID:1 H5N1 ncbi_taxonomy Herpesviridae GC_ID:1 ncbi_taxonomy Alphaherpesvirinae GC_ID:1 ncbi_taxonomy Varicellovirus GC_ID:1 ncbi_taxonomy Human herpesvirus 3 GC_ID:1 HHV-3 Human alphaherpesvirus 3 VZV Varicella Zoster Virus Varicella-zoster virus ncbi_taxonomy varicella zoster virus VZV varicella-zoster virus VZV Hepatitis B virus GC_ID:1 HBV Human hepatitis B virus hepatitis B virus (HBV) hepatitis B virus HBV hepatitis B virus, HBV human hepatitis B virus HBV ncbi_taxonomy Adenoviridae GC_ID:1 ncbi_taxonomy Human papillomavirus GC_ID:1 Human Papilloma Virus human papillomavirus HPV ncbi_taxonomy Reoviridae GC_ID:1 ncbi_taxonomy Rotavirus GC_ID:1 Rotaviruses ncbi_taxonomy Togaviridae GC_ID:1 ncbi_taxonomy Rubella virus GC_ID:1 ncbi_taxonomy Flaviviridae Flavivirus (arbovirus group B) GC_ID:1 ncbi_taxonomy Flavivirus GC_ID:1 arboviruses group B ncbi_taxonomy Japanese encephalitis virus group GC_ID:1 Japanese encephalitis viruses ncbi_taxonomy Japanese encephalitis virus GC_ID:1 Japanese encephalitis Japanese encephalitis (JE) virus Japanese encephalitis virus JE Japanese encephalitis virus JEV ncbi_taxonomy Yellow fever virus Flavivirus febricis GC_ID:1 YFV ncbi_taxonomy yellow fever virus YFV Mononegavirales GC_ID:1 ncbi_taxonomy negative-sense genome single-stranded RNA viruses Paramyxoviridae GC_ID:1 ncbi_taxonomy Paramyxovirinae GC_ID:1 ncbi_taxonomy Mumps virus GC_ID:1 ncbi_taxonomy Morbillivirus GC_ID:1 Morbilliviruses ncbi_taxonomy Measles virus Cell-associated subacute sclerosing panencephalitis GC_ID:1 NCBITaxon:11230 Subacute sclerosing panencephalitis virus measles virus MV ncbi_taxonomy rougeole virus rubeola virus subacute sclerose panencephalitis virus subacute sclerosing panencephalitis virus, SSPEV Rhabdoviridae GC_ID:1 PMID:16186241 ncbi_taxonomy Rabies virus GC_ID:1 ncbi_taxonomy Orthomyxoviridae GC_ID:1 ncbi_taxonomy Influenza A virus FLUAV GC_ID:1 Influenza virus type A influenza A virus INF A ncbi_taxonomy Euteleostomi GC_ID:1 NCBITaxon:40673 bony vertebrates ncbi_taxonomy Picornaviridae GC_ID:1 Picormavirus Picornavirus ncbi_taxonomy Human poliovirus 1 GC_ID:1 HPV-1 Human poliovirus type 1 PV1 Poliovirus type 1 ncbi_taxonomy poliovirus type 1 PV1 Human poliovirus 2 GC_ID:1 HPV-2 Human Poliovirus type 2 Poliovirus type 2 ncbi_taxonomy Human poliovirus 3 GC_ID:1 HPV-3 Human poliovirus type 3 Poliovirus type 3 ncbi_taxonomy poliovirus type 3 P3 Hepatitis A virus GC_ID:1 ncbi_taxonomy Proteobacteria GC_ID:11 PMID:11321122 PMID:11542017 PMID:11837318 PMID:16280474 ncbi_taxonomy proteobacteria purple bacteria purple bacteria and relatives purple non-sulfur bacteria purple photosynthetic bacteria purple photosynthetic bacteria and relatives Gammaproteobacteria GC_ID:11 Gammaproteobacteria Garrity et al. 2005 PMID:16280474 Proteobacteria gamma subdivision Purple bacteria, gamma subdivision g-proteobacteria gamma proteobacteria gamma subdivision gamma subgroup ncbi_taxonomy Firmicutes Bacillus/Clostridium group Clostridium group firmicutes Firmacutes GC_ID:11 Gram positive bacteria Gram-positive bacteria Low G+C firmicutes NCBITaxon:31968 PMID:10555317 PMID:11034484 PMID:11542017 PMID:15143038 clostridial firmicutes firmicutes low G+C Gram-positive bacteria low GC Gram+ ncbi_taxonomy Streptococcus GC_ID:11 PMID:10555340 PMID:14657115 PMID:1720654 PMID:7537076 PMID:8995803 ncbi_taxonomy Streptococcus pneumoniae Diplococcus pneumoniae GC_ID:11 Micrococcus pneumoniae ncbi_taxonomy Bacillales Bacillus/Staphylococcus group GC_ID:11 ncbi_taxonomy Human enterovirus C GC_ID:1 NCBITaxon:138953 Poliovirus ncbi_taxonomy Bacillus anthracis Bacillus cereus var. anthracis Bacteridium anthracis GC_ID:11 PMID:8123566 anthrax anthrax bacterium ncbi_taxonomy Clostridium GC_ID:11 ncbi_taxonomy Clostridium tetani Bacillus tetani GC_ID:11 ncbi_taxonomy Papillomaviridae GC_ID:1 PMID:20206957 Papillomavirus ncbi_taxonomy Corynebacterium diphtheriae Bacillus diphtheriae Bacterium diphtheriae GC_ID:11 Microsporon diphthericum Microsporon diphtheriticum Mycobacterium diphtheriae PMID:7729671 Pacinia loeffleri ncbi_taxonomy Influenzavirus A GC_ID:1 ncbi_taxonomy Influenzavirus B GC_ID:1 ncbi_taxonomy Bacteria GC_ID:11 Monera PMID:10425795 PMID:10425796 PMID:10425797 PMID:10490293 PMID:10843050 PMID:10939651 PMID:10939673 PMID:10939677 PMID:11211268 PMID:11321083 PMID:11321113 PMID:11411719 PMID:11540071 PMID:11542017 PMID:11542087 PMID:11760965 PMID:12054223 PMID:2112744 PMID:270744 PMID:8123559 PMID:8590690 PMID:9103655 PMID:9336922 Procaryotae Prokaryota Prokaryotae bacteria eubacteria ncbi_taxonomy not Bacteria Haeckel 1894 prokaryote prokaryotes Eukaryota Eucarya Eucaryotae Eukarya Eukaryotae GC_ID:1 PMID:23020233 eucaryotes eukaryotes eukaryotes ncbi_taxonomy Betaproteobacteria 'Betaproteobacteria' GC_ID:11 Proteobacteria beta subdivision Purple bacteria, beta subdivision b-proteobacteria beta proteobacteria beta subdivision beta subgroup ncbi_taxonomy Euarchontoglires GC_ID:1 PMID:11214319 PMID:12082125 PMID:12878460 PMID:15522813 ncbi_taxonomy Simiiformes Anthropoidea GC_ID:1 ncbi_taxonomy Amniota GC_ID:1 amniotes ncbi_taxonomy Opisthokonta Fungi/Metazoa group GC_ID:1 ncbi_taxonomy opisthokonts Bilateria GC_ID:1 ncbi_taxonomy unclassified Papillomaviridae GC_ID:1 ncbi_taxonomy dsDNA viruses, no RNA stage GC_ID:1 ncbi_taxonomy Retro-transcribing viruses GC_ID:1 Retroid viruses ncbi_taxonomy ssRNA positive-strand viruses, no DNA stage GC_ID:1 ncbi_taxonomy ssRNA negative-strand viruses GC_ID:1 ncbi_taxonomy dsRNA viruses GC_ID:1 dsRNA nonenveloped viruses ncbi_taxonomy Mammalia GC_ID:1 mammals mammals ncbi_taxonomy ssRNA viruses GC_ID:1 ncbi_taxonomy Neisseria meningitidis Diplokokkus intracellularis meningitidis GC_ID:11 Micrococcus intracellularis Micrococcus meningitidis Micrococcus meningitidis cerebrospinalis Neisseria meningitidis. Neisseria weichselbaumii ncbi_taxonomy Bordetella Bordetella Moreno-Lopez 1952 (Approved Lists 1980) emend. Von Wintzingerode et al. 2001 GC_ID:11 PMID:11491321 ncbi_taxonomy Bordetella pertussis Bacterium tussis-convulsivae GC_ID:11 Haemophilus pertussis Hemophilus pertussis Microbe de la coqueluche PMID:8240949 ncbi_taxonomy Enterobacteriaceae Enterobacteraceae Enterobacteraceae (ex Lapage 1979) Lapage 1982, fam. nov., nom. rev. Enterobacteriaceae (ex Rahn 1937) Ewing et al. 1980, fam. nov., nom. rev. Enterobacteriaceae Rahn 1937 GC_ID:11 PMID:10555323 PMID:10555334 PMID:16166704 gamma-3 proteobacteria ncbi_taxonomy Dintheria GC_ID:1 ncbi_taxonomy Salmonella GC_ID:11 PMID:10319519 PMID:10939679 PMID:12072558 PMID:15653929 PMID:15653930 PMID:3231714 PMID:9731304 Samonella ncbi_taxonomy Salmonella enterica subsp. enterica GC_ID:11 NCBITaxon:149049 PMID:15653929 PMID:15653930 PMID:7149525 Salmonella cholerae-suis subsp. cholerae-suis Salmonella choleraesuis subsp. choleraesuis Salmonella enterica I Salmonella enterica subsp. I ncbi_taxonomy Sedoreovirinae GC_ID:1 ncbi_taxonomy Pasteurellaceae GC_ID:11 PMID:10843050 PMID:15280320 PMID:15388716 PMID:17220461 PMID:2223605 Pasteurellaceae Pohl 1981 ncbi_taxonomy Haemophilus GC_ID:11 Haemophilus Winslow et al. 1917 PMID:1736960 ncbi_taxonomy Haemophilus influenzae Bacterium influenzae Coccobacillus pfeifferi GC_ID:11 Haemophilus meningitidis Influenza-bacillus Mycobacterium influenzae ncbi_taxonomy Burkholderiales 'Burkholderiales' Burkholderia/Oxalobacter/Ralstonia group GC_ID:11 ncbi_taxonomy Corynebacterineae GC_ID:11 NCBITaxon:1761 PMID:11837321 PMID:1736962 PMID:19244447 ncbi_taxonomy Craniata <chordata> Craniata GC_ID:1 ncbi_taxonomy Salmonella enterica subsp. enterica serovar Typhi Bacillus typhi Bacterium (subgen. Eberthella) typhi GC_ID:11 NCBITaxon:41530 NCBITaxon:601 NCBITaxon:72667 PMID:10319519 PMID:10758910 PMID:15653930 PMID:16558776 PMID:9336938 Salmonella choleraesuis serovar Typhi Salmonella choleraesuis typhi Salmonella enterica ser. typhi Salmonella enterica serotype Typhi Salmonella enterica serovar Typhi Salmonella typhi ncbi_taxonomy Bacilli Bacillus/Lactobacillus/Streptococcus group Firmibacteria GC_ID:11 PMID:20212322 ncbi_taxonomy Eutheria GC_ID:1 Placentalia eutherian mammals ncbi_taxonomy placental mammals placentals placentals Homo sapiens GC_ID:1 human man ncbi_taxonomy adverse event Melanie Courtot and YH: More work is needed on how to restrict the scope of a term to be an 'adverse event', notably regarding temporal association. When is an appropirate time interval between a medical intervention and an adverse event observed? One week, one month, one year, or a lifetime? For some well-studied medical interventions (e.g., administration of many vaccines or drugs), we probably have a general idea. For many new interventions, we don't know much. In OAE, this issue is associated with defining the 'adverse event incubation time'. AE YH: There has been discussion regarding whether the term 'side effect' is an alternative term for 'adverse event'. In AERO, the term 'AERO:adverse event' represents a subset of those adverse events for which causality has been established. In OAE, an adverse event for which causality has been established is called 'causal adverse event'. 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. YH: The main scope of OAE includes: (1) represent terms and relations in the area of adverse events, (2) assess possible associations between an adverse event and a medical intervention, particularly, identify any causal effect of a medical intervention to an adverse event; and (2) understand the mechanism (including molecular mechanisms) of causal adverse events. WEB: http://www.ncbi.nlm.nih.gov/pubmed/25093068 The OAE official website is: http://www.oae-ontology.org/. WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm adverse reaction YH: An adverse event is a process that has specified output of some adverse medical outcome (e.g., symptom, sign or accident) after a medical intervention (or process) (e.g., administration of drug or vaccine). The medical intervention can be an administration of a drug, a vaccine (i.e., vaccination), or a special nutritional product (for example, dietary supplement, infant formula, medical food), surgery, or usage of a medical device. WEB: http://en.wikipedia.org/wiki/Adverse_event YH: An adverse event is possibly induced by the medical intervention. It can be caused by the medical intervention, or may not be caused by the medical intervention. One ultimate goal (or the goal in clinics) of study adverse events is to assess if the adverse event outcome is due to the medical intervention. Yongqun He medical intervention medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury. YH WEB: http://wiki.answers.com/Q/What_is_medical_intervention vaccine adverse event an adverse event that occurs after a vaccination. YH musculoskeletal or connective tissue AE an adverse event that has an outcome of abnormal sign in a musculoskeletal or connective tissue. YH, RR, JX WEB: http://www.cdc.gov/niosh/programs/msd/ MedDRA: 10028395 musculoskeletal and connective tissue disorder AE A musculoskeletal disorder is an injury or disorder of the muscles, nerves, tendons, joints, cartilage, or supporting structures of the upper or lower limbs, neck, or lower back that are caused, precipitated, or exacerbated by sudden exertion or prolonged exposure to physical factors such as repetition, force, vibration, or awkward posture CTCAE: E13872 fatigue AE MedDRA: 10016256 (fatigue); MedDRA: 10024264 (lethargy) NCIt: C3036 lethargy AE HPO: HP_0003388 WEB: http://en.wikipedia.org/wiki/Fatigue_%28medical%29 SIDER: C0015672 CTCAE: E11098 SS, YH a behavior and neurological AE that has an outcome of fatigue, which is a state of awareness describing a range of afflictions, usually associated with physical and/or mental weakness, though varying from a general state of lethargy to a specific work-induced burning sensation within one's muscles. Physical fatigue is the inability to continue functioning at the level of one's normal abilities. contraindication Yongqun He, Sirarat Sarntivijai, Mathias Brochhausen, William Hogan, ‎Philip E. Empey 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. http://en.wikipedia.org/wiki/Contraindication clinical laboratory test Rebecca Racz, Yongqun He WEB: http://labmed.ascpjournals.org/content/40/2/105.full medical laboratory test a planned process that is specifically a test conducted in a clinical laboratory. cardiac disorder AE HPO: HP_0001627 a cardiovascular disorder AE that has a cardiac disorder outcome. SS, YH MedDRA (SOC) : 10007541 SIDER: C0018799 MedDRA (PT): 10061024 WEB: Primary Source: http://medical-dictionary.thefreedictionary.com/heart+disease Secondary Source: http://www.ncbi.nlm.nih.gov/pubmed/23091623 hair, skin or nail AE YH, SS, JX an adverse event that occurs in hair, skin, or nail. hair, skin, and nail AE hair AE YH, SS a hair, skin, and nail AE that occurs in hair. nail AE a hair, skin, and nail AE that occurs in nail. YH, SS inconsolable crying AE MedDRA: 10065283 a crying abnormal AE that has an outcome of abnormal inconsolable crying in a patient YH unusual high-pitched crying AE YH a crying abnormal AE that has an outcome of abnormal unusual high-pitched crying in a patient prolonged crying AE a crying abnormal AE that has an outcome of abnormal prolonged crying in a patient YH medical intervention site AE application site reaction MedDRA: 10003055 an adverse event that occurs in the site of a medical intervention (e.g., vaccination injection site). YH medical intervention site a site that is used for a medical intervention YH convulsion AE MedDRA ID: 10010904 convulsion AE is a muscle adverse event that results in a medical condition where body muscles contract and relax rapidly and repeatedly, resulting in an uncontrolled shaking of the body HPO: HP_0001250 WEB: http://en.wikipedia.org/wiki/Convulsion SIDER: C0009951 SS, YH injection-site induration AE WEB: http://wordnetweb.princeton.edu/perl/webwn?s=induration injection-site induration AE is an skin AE that results in hardening or thickening of tissue at the physical injection site SS, YH injection-site pruritus AE WEB: http://medical-dictionary.thefreedictionary.com/pruritus SS, YH injection-site pruritus AE is an pruritus AE that results in an unpleasant sensation that evokes the desire or reflex to scratch at the physical area of injection MedDRA: 10022093 WEB: http://en.wikipedia.org/wiki/Itch injection-site rash AE SS, YH WEB: http://en.wikipedia.org/wiki/Rash injection-site rash AE is a rash AE that results in a change of the skin which affects its color, appearance or texture at the physical injection site injection-site warmth AE injection-site warmth AE is a homeostasis AE that results in feeling of warmth at the physical injection site SS, YH joint swelling AE SIDER: C0152031 SS, YH HPO: HP_0005833 MedDRA ID: 10023232 A joint disorder AE that has an outcome of joint swelling, which is a joint disorder that results in a buildup of fluid in the soft tissue surrounding the joint WEB: http://www.nlm.nih.gov/medlineplus/ency/article/003262.htm lymphadenitis AE SS, YH HPO: HP_0002840 SIDER: C0024205 WEB: http://en.wikipedia.org/wiki/Lymphadenopathy A lymphadenopathy AE that results in swollen/enlarged lymph nodes muscular weakness AE HPO: HP_0001324 a muscle AE that has an outcome of muscular weakness AE (i.e., lack of muscle strength). MedDRA ID: 10028372 SS, YH SIDER: C0151786 WEB: http://en.wikipedia.org/wiki/Muscular_weakness musculoskeletal stiffness AE SIDER: C0948525 MedDRA ID: 10052904 SS, YH a sensory capability AE that has an outcome of a sensation of stiffness in muscles and skeleton HPO: HP_0003552 nasal congestion AE WEB: http://en.wikipedia.org/wiki/Nasal_congestion nasal congestion AE is a respiratory system AE that results in a blockage of the nasal passages usually due to membranes lining the nose becoming swollen from inflamed blood vessels SIDER: C0027424 SS, YH MedDRA: 10028735 HPO: HP_0001742 nasopharyngitis AE a respiratory system inflammation AE which has an outcome of nasopharyngitis, a respiratory system inflammation that results in common cold, a contagious, viral infectious disease of the upper respiratory system SIDER: C0027441 SS, YH common cold AE WEB: http://en.wikipedia.org/wiki/Nasopharyngitis a respiratory system inflammation AE which has an outcome of nasopharyngitis, a respiratory system inflammation that results in common cold, a contagious, viral infectious disease of the upper respiratory system HPO: HP_0002087 otitis media AE NCIt: C34885 SIDER: C0029882 SS, YH an ear disorder AE which has an outcome of otitis media that results in inflammation of the middle ear, or middle ear infection CTCAE: E11477 WEB: http://en.wikipedia.org/wiki/Otitis_media HPO: HP_0008623 pharyngitis AE SS, YH WEB: http://en.wikipedia.org/wiki/Pharyngitis pharyngitis AE is a digestive system AE that results in an inflammation of the throat or pharynx SIDER: C0031350 NCIt: C26851 CTCAE: E11525 HPO: HP_0100776 MedDRA ID: 10034835 pharyngolaryngeal pain AE a pain AE that shows a pain in sinus and throat SS, YH, MW MedDRA: 10034844 WEB: http://www.wordinfo.info/words/index/info/view_unit/1631/ HPO: HP_0010833 SIDER: C0858635 rhinitis AE runny nose MedDRA: 10028116 WEB: http://en.wikipedia.org/wiki/Rhinitis SIDER: C0035455 WEB: http://medical-dictionary.thefreedictionary.com/rhinitis HPO: HP_0002257 SS, YH rhinitis AE is a respiratory system inflammation characterized by runny nose,irritation and inflammation of some internal areas of the nose rhinorrhea AE SS, YH rhinorrhoea AE WEB: http://en.wikipedia.org/wiki/Rhinorrhoea rhinorrhoea AE is a respiratory system AE that results in runny nose, an unusually significant amount of nasal fluid upper respiratory tract infection AE SS, YH CTCAE: E11604 NCIt: C35650 an infection AE is a respiratory system AE that results in illnesses caused by an acute infection which involves the upper respiratory tract: nose, sinuses, pharynx or larynx SIDER: C0041912 URI, URTI HPO: HP_0002788 WEB: http://en.wikipedia.org/wiki/Upper_respiratory_tract_infection fever AE YH, SS Axelrod YK1, Diringer MN. Temperature management in acute neurologic disorders. Neurol Clin. 2008 May;26(2):585-603, xi. doi: 10.1016/j.ncl.2008.02.005. PMID: 18514828. WEB: http://en.wikipedia.org/wiki/Pyrexia febrile response MedDRA: 10037660 an abnormal body temperature AE which has an outcome of fever MedDRA: 10005911 CTCAE: E11102 body temperature increased AE pyrexia AE NCIt: C3038 Fever is a frequent medical sign that describes an increase in internal body temperature to levels above normal. Fever is characterized as a temporary elevation in the body's thermoregulatory set-point, usually by about 1-2 °F). rash AE YH SIDER: C0015230 URL: http://en.wikipedia.org/wiki/Rash MedDRA: 10037844 Drug-induced rash is the most commonly reported drug reaction. URL: http://www.webmd.com/skin-problems-and-treatments/guide/common-rashes Wick JY. Drug-induced rash: nuisance or threat? Consult Pharm. 2013 Mar;28(3):160-6. PMID: 23462025. a skin AE that shows the symptom of rash, i.e., an abnormal change in skin color, appearance, or texture. A rash may cause the skin to change color, itch, become warm, bumpy, dry, cracked or blistered, swell and may be painful. HPO: HP_0000988 infection AE YH, JX MedDRA: 10021789 change of name from 'infection adverse event' to 'infectious adverse event' on 09/23/13 for a better clinical relevance, move 'infection adverse event' as an alternative term - SS an adverse event that has an outcome of a pathogen infection, i.e., an infection caused by a pathogen such as a virus, bacterium, or parasite. infection infectious adverse event WEB: http://medical-dictionary.thefreedictionary.com/infection syndrome AE An AE that has an outcome of syndrome. Syndrome is the association of several clinically recognizable features, signs (observed by a physician), symptoms (reported by the patient), phenomena or characteristics that often occur together, so that the presence of one feature alerts the physician to the presence of the others. YH injection-site AE injection site AE YH, JX, SS MDR: 10022095 injection-site AE is an AE that occurs in an injection site (e.g., during vaccination). CTCAE: E11138 NCIt: C3508 injection-site adverse event injection-site reaction local reaction AE injection-site edema AE an edema AE which occurs at the injection site. In this case, a collection of fluid at the injection site is found. injection-site oedema AE YH, RR injection-site swelling AE WEB: http://www.uptodate.com/contents/edema-swelling-beyond-the-basics MedDRA: 10053425 injection-site pain AE a pain AE that occurs in an injection site of a medical intervention MedDRA: 10022086 YH injection-site mass AE YH, SS injection site nodule AE an injection-site AE that display an injection-site mass injection-site mass is a mass at physical injection site pruritus AE NCIt:C3344 SIDER: C0033774 WEB: http://www.ncbi.nlm.nih.gov/sites/entrez?db=mesh&cmd=DetailsSearch&term=pruritus+generalised&log$=activity CTCAE:E13686 itching MedDRA:10037087 YH, SS, MW pruritus generalised AE itch Pruritus is an itch (Latin: pruritus), i.e., an unpleasant sensation that evokes the desire or reflex to scratch. HPO: HP_0000989 a skin adverse event that has an outcome of pruritus pain AE CTCAE: E11167 SIDER: C0030193 HPO: HP_0010833 NCIt: C3303 a sensory capability AE that has an outcome of pain in a patient YH myalgia AE SIDER: C0231528 MedDRA:10028411 NCIt:C27009 YH, MW HPO: HP_0003326 muscle pain AE CTCAE:E12485 a pain AE that has outcome of myalgia. Myalgia means "muscle pain" and is a symptom of many diseases and disorders. urticaria AE SIDER: C0042109 Urticaria AE is a rash AE notable for dark red, raised, itchy bumps. MedDRA:10046735 YH, MW hives CTCAE:E13746 HPO: HP_0001025 NCIt:C3432 headache AE SIDER: C0018681 MedDRA: 10019211 a pain AE that has an outcome of headache HPO: HP_0002315 YH, MW respiratory system AE I created this term and make it to be an umbrella term for different disorder terms related to respiratory system. --Oliver He YH an AE that occurs in respiratory system. abnormal blood pressure AE MP: MP_0000230 a cardiovascular disorder AE that has an outcome of abnormal blood pressure, representing altered tension of the blood within the systemic arteries asthenia AE HPO: HP_0001324 MedDRA ID: 10003549 YH SIDER: C0004093 a muscle adverse event which has an outcome of asthenia, which is a medical term denoting symptoms of physical weakness and loss of strength. muscle ache AE a muscle pain AE that has an outcome of muscle ache. YH arthralgia AE An joint disorder AE that has an outcome of arthralgia. Arthralgia means joint pain. It is a symptom of injury, infection, illnesses (in particular arthritis) or an allergic reaction to medication. According to MeSH, the term "arthralgia" should only be used when the condition is non-inflammatory, and the term "arthritis" should be used when the condition is inflammatory. CTCAE:E12374 NCIt:C50464 SIDER: C0003862 YH, MW HPO: HP_0002829 MedDRA:10003239 dizziness AE HPO: HP_0002321 YH, SS, MW a sensory capability AE that has an outcome of dizziness Dizziness describes a number of subjective symptoms, which the patient may describe as feelings of lightheadedness, floating, wooziness, giddiness, confusion, disorientation or loss of balance. Medical terms include vertigo, disequilibrium, pre-syncope or syncoptic episode. Causes may stem from a variety of failures of equilibrioception, hypotension, cerebral hypoxia or a reaction to environmental chemicals or drugs. CTCAE:E12631 NCIt:C37943 MedDRA ID: 10013573 SIDER: C0012833 malaise AE YH HPO: HP_0002321 MDR: 10025482 CTCAE: E11152 NCIt: C3832 Malaise is a feeling of general discomfort or uneasiness, an "out of sorts" feeling. Malaise is often the first indication of an infection or other disease. Vaccination may induce malaise. SIDER: C0231218 a sensory capability AE that has an outcome of malaise somnolence AE CTCAE:E12814 HPO: HP_0001262 drowsiness a behavior and neurological AE that has an outcome of somnolence MedDRA:10041349 Somnolence (or "drowsiness") is a state of near-sleep, a strong desire for sleep, or sleeping for unusually long periods (c.f. hypersomnia). SIDER: C2830004 YH, SS, MW NCIt:C26754 crying abnormal AE MedDRA: 10011469 YH a behavior and neurological AE that has an outcome of abnormal crying in a patient chills AE feeling cold AE MedDRA: 10008531 YH CTCAE: E11074 SIDER: C0085593 Chills refers to feeling cold after an exposure to a cold environment. The word can also refer to an episode of shivering, accompanied by paleness and feeling cold. HPO: HP_0001945 a sensory capability AE that has an outcome of chills NCIt: C35143 anorexia AE decreased appetite AE YH, MW HPO: HP_0002039 a gustatory system AE which demonstrates a decreased sensation of appetite. MedDRA: 10002649 (anorexia nervosa); MedDRA: 10061428 (decreased appetite); MedDRA: 10002646 (anorexia). WEB: http://www.mayoclinic.org/diseases-conditions/anorexia/basics/definition/con-20033002 anorexia nervosa AE SIDER: C0003123 cough AE WEB: http://medical-dictionary.thefreedictionary.com/cough YH, SS, MW coughing AE cough WEB: http://www.nlm.nih.gov/medlineplus/cough.html an abnormal respiration AE that shows a sudden and often repetitively occurring reflex to keep the throat and airways clear CTCAE:E13364 NCIt:C37935 MedDRA:10011224 flu syndrome AE YH NCIt: C78302 CTCAE: E11108 flu-like symptom AE a syndrome AE that has an outcome of a flu syndrome AE and occurs after a medical intervention. syncope AE SIDER: C0039070 MedDRA: 10024855 a sensory capability AE that has an outcome of loss of consciousness, fainting WEB: http://en.wikipedia.org/wiki/Unconsciousness fainting Syncope is the medical term for fainting, a sudden, usually temporary, loss of consciousness. MedDRA:10042772 NCIt:C35053 CTCAE:E12832 YH, SS, MW HPO: HP_0001279 WEB: http://en.wikipedia.org/wiki/Syncope_%28medicine%29 abdominal pain AE WEB: http://en.wikipedia.org/wiki/Abdominal_pain HPO: HP_0002027 SIDER: C0000737 YH, SS According to the Vaccine Adverse Event Reporting System (VAERS), 'abdominal pain' is an adverse event that was mentioned in 2,254 VAERS reports (1.8%) during1991-2001 (Reference: PMID: 12825543). a pain AE that is observed in abdominal cavity MedDRA ID: 10000081 hypertension AE MedDRA: 10005750 NCIt:C3117 HPO: HP_0000822 blood pressure increased SIDER: C0020538 CTCAE:E13785 WEB: http://www.ncbi.nlm.nih.gov/pubmed/21722707 YH, SS, MW an abnormal blood pressure AE that has an outcome of sustained high blood pressure at a level that is likely to result in cardiovascular disease and/or other pathological states MedDRA:10020772 MP: MP_0000231 skin nodule AE YH According to the Vaccine Adverse Event Reporting System (VAERS), 'skin nodule' was mentioned in 1,134 VAERS reports (0.9%) during1991-2001 (Reference: PMID: 12825543). a skin adverse event that has an outcome of skin nodule HPO: HP_0200036 SIDER: C0037287 hemorrhage AE WEB: http://medical-dictionary.thefreedictionary.com/hemorrhage haemorrhage AE bleeding AE MP: MP_0001914 a cardiovascular disorder AE that has an outcome of hemorrhage loss of blood from the vascular compartment to the exterior or into nonvascular body space as a result of rupture or severance of the blood vessels MedDRA: 10055798 lung AE MedDRA: 10025082 YH SIDER: C0024115 lung disorder AE a respiratory system AE which has an outcome of lung disorder HPO: HP_0006552 muscle AE a musculoskeletal system AE that occurs in muscle. YH digestive system AE YH an AE that occurs in digestive system. joint disorder AE a musculoskeletal system AE which has an outcome of joint disorder YH gastrointestinal disorder AE SIDER: C0017178 According to the Vaccine Adverse Event Reporting System (VAERS), 'gastrointestinal disorder' is an adverse event that was mentioned in 449 VAERS reports (0.3%) during1991-2001 (Reference: PMID: 12825543). a digestive system AE which has an outcome of a gastrointestinal disorder YH HPO: HP_0011024 ear AE an AE that occurs in ear. SIDER: C0013447 ear disorder AE YH HPO: HP_0000598 immune system AE According to the Vaccine Adverse Event Reporting System (VAERS), 'immune system disorder' was mentioned in 292 VAERS reports (0.2%) during1991-2001 (Reference: PMID: 12825543). HPO: HP_0002715 YH SIDER: C0021053 immune system disorder AE an AE that occurs in immune system. acute brain syndrome AE a syndrome AE that has an outcome of an acute brain syndrome AE and occurs after a medical intervention. YH cardiovascular AE HPO: HP_0001626 SIDER: C0007222 MedDRA ID: 10007649 YH an AE that occurs in cardiovascular system. cardiovascular disorder AE sore throat AE a respiratory system AE which has an outcome of sore throat YH, MW MedDRA: 10041367 skin AE WEB: http://www.thefreedictionary.com/skin+disorder a hair, skin, and nail AE that occurs in skin. YH MedDRA: 10040831 abnormal fluid regulation AE MP: MP_0001784 a homeostasis AE which has an outcome of abnormal fluid regulation, which is any anomaly in the control of intracellular and/or extracellular fluid hypotension AE HPO: HP_0002615 NCIt:C3128 MedDRA: 10005734 YH, MW MedDRA:10021097 CTCAE:E13791 blood pressure decreased, low blood pressure MP: MP_0001596 an abnormal blood pressure AE that has an outcome of sustained low blood pressure at a level that is likely to result in cardiovascular disease and/or other pathological states SIDER: C0020649 abnormal digestion AE MP: MP_0001664 a digestive system AE which has an outcome of abnormal digestion, which is an altered ability of the mechanical, chemical, and enzymatic processes of the body to convert ingested food into material suitable for assimilation for synthesis of tissues or liberation of energy homeostasis AE an AE that occurs in the homeostasis system. anomaly in the processes involved in the maintenance of an internal equilibrium of various functions and chemical or protein composition of the fluids and tissues MP: MP_0001764 edema AE MP: MP_0001785 WEB: http://en.wikipedia.org/wiki/Oedema MedDRA: 10030095 MedDRA: 10016807 an abnormal fluid regulation AE which has an outcome of edema, which is an accumulation of an excessive amount of watery fluid in cells or intercellular tissues oedema, swelling, dropsy MedDRA: 10042674 WEB: http://en.wikipedia.org/wiki/Swelling_(medical) inflammation AE SIDER: C0021368 SS, YH HPO: HP_0007891 MedDRA: 10061218 WEB: http://en.wikipedia.org/wiki/Inflammation MP: MP_0001846 an immune system disorder AE that results in complex biological response of vascular tissues to harmful stimuli, such as pathogens, damaged cells, or irritants. Inflammation is a protective attempt by the organism to remove the injurious stimuli as well as initiate the healing process for the tissue greater than expected response to injury, infection, or insult. respiratory system inflammation AE MP: MP_0002405 an inflammation AE which has an outcome of respiratory system inflammation, the local accumulation of fluid, plasma proteins, and leukocytes in the respiratory system vasculitis AE NCIt:C26912 MP: MP_0001864 CTCAE:E13837 YH, MW HPO: HP_0002633 an inflammation AE that has an outcome of vasculitis, which is an inflammation of a blood or lymph vessel SIDER: C0042384 MedDRA:10047115 It's an inflammation. abnormal respiration AE Not sure if it is same as respiratory system disorder or abnormal respiration. --Oliver He MP: MP_0001943 According to the Vaccine Adverse Event Reporting System (VAERS), 'respiratory disorder' is an adverse event that was mentioned in 556 VAERS reports (0.4%) during1991-2001 (Reference: PMID: 12825543). a respiratory system AE which has an outcome of abnormal respiration, an anomaly in the movement of gases into and out of the lung gustatory system AE MP: MP_0001985 YH, JX an adverse event that occurs in a gustatory system behavioral and neurological AE WEB: http://www.psychguides.com/guides/behavioral-disorder-symptoms-causes-and-effects/ YH, JX any anomaly in the actions, reactions, or performance of an organism in response to external or internal stimuli compared to controls behavior AE disruptive behavioral disorder AE MP: MP_0004924 an adverse event that has an outcome of an abnormal behavior and neurological phenotype. behavioral AE behavioral disorder AE movement disorder AE HPO: HP_0100022 SIDER: C0026650 MP: MP_0002066 MedDRA ID: 10028035 a behavior and neurological AE that has an outcome of altered ability to coordinate voluntary movement or repetitive, compulsive movements sensory capability AE MP: MP_0002067 a behavior and neurological AE that has an outcome of inability or altered ability to respond to a sensory stimulus hypersensitivity AE MedDRA: 10020751 MedDRA ID: 10020751 Hypersensitivity AE is a immune system AE that is a set of undesirable reactions produced by the normal immune system, including allergies and autoimmunity. These reactions may be damaging, uncomfortable, or occasionally fatal. JX, LW, YH MP: MP_0002148 HPO: HP_0100326 WEB: http://en.wikipedia.org/wiki/Hypersensitivity hypersensitivity reaction AE 超敏反应 SIDER: C0020517 nausea AE MedDRA: 10028813 MP: MP_0003259; MDR: 10028813 HPO: HP_0002018 MedDRA ID: 10028813 SIDER: C0027497 an abnormal digestion AE which has an outcome of nausea, a gastric discomfort associated with the inclination to vomit vomiting AE NCIt: C3442 regurgitation AE MedDRA ID: 10047700 MedDRA: 10047700 SIDER: C0042963 MP: MP_0003260; MDR: 10047700 CTCAE: E11068 HPO: HP_0002013 an abnormal digestion AE which has an outcome of vomiting, the retrograde expulsion of gastric contents through the oral cavity abnormal defecation AE MP: MP_0003866 a digestive system AE that has an outcome of abnormal defecation, an anomaly in the production and excretion of feces diarrhea AE MedDRA: 10012735 diarrhoea AE MP: MP_0005036 WEB: http://medical-dictionary.thefreedictionary.com/diarrhea an abnormal defecation AE that has an outcome of diarrhea, which is abnormally frequent discharge of semi-solid or fluid fecal matter from the bowel abnormal body temperature AE MP: MP_0005535 a homeostasis AE whic has an outcome of abnomal body temperature, which is a deviation in the level of heat natural to a living being ecchymosis AE MP: MP_0009276 MedDRA ID: 10014080 HPO: HP_0000978 a hemorrhage AE that has an outcome of ecchymosis SIDER: C0013491 an ecchymosis is a spot caused by loss of blood from a vessel; it implies a larger size than a petechiae, and has a more diffuse border than purpura; an ecchymosis can be caused by a bruise (which implies trauma), but can also be caused by bleeding diathesis low-grade fever AE WEB: http://www.toyourhealth.com/mpacms/tyh/article.php?id=1521 The low-grade level of fever is beneficial. With most microbes/"bugs" that a child will be exposed to, this fever will assist the body in repelling the invader. YH low-grade fever AE is a fever adverse event with a temperature between 100° F and 102.2° F (37.8° C and 39° C). musculoskeletal pain AE MedDRA ID: 10028391 Musculoskeletal pain is pain that affects the muscles, ligaments and tendons, along with the bones. WEB: http://www.webmd.com/pain-management/guide/musculoskeletal-pain a pain AE that has an outcome of musculoskeletal pain HPO: HP_0003326 SS, YH SIDER: C0026858 injection-site erythema AE SS, YH MedDRA: 10022061 injection-site erythema AE is an erythema AE that results in redness of skin, caused by hyperermia of the capillaries in the lower layers of the skin at the physical area of injection WEB: http://en.wikipedia.org/wiki/Erythema WEB: http://medical-dictionary.thefreedictionary.com/erythema erythema AE reddish skin SIDER: C0041834 MedDRA ID: 10015150 Erythema AE is a skin adverse event that showns redness of the skin caused by hyperemia of the capillaries in the lower layers of the skin. MP:0001190 WEB: http://en.wikipedia.org/wiki/Erythema HPO: HP_0010783 MedDRA: 10015150 SS, YH hematoma AE NCIt: C37921 SS, YH MedDRA ID: 10018852; MedDRA ID: 10019428 CTCAE: E11666 an cardiovascular adverse event that is a collection of blood outside the blood vessels, generally the result of hemorrhage, or more specifically, internal bleeding. It is commonly called a bruise. SIDER: C0018944 YH: MedDRA ID: 10018852 is for "haematoma"; MedDRA ID: 10019428 is for "hematoma". WEB: http://en.wikipedia.org/wiki/Hematoma HPO: HP_0001892 ecchymoses AE bruise AE haematoma AE vasodilatation AE a cardiovascular disorder AE which has an outcome of vasodilatation, which refers to the widening of blood vessels resulting from relaxation of smooth muscle cells within the vessel walls, particularly in the large arteries, smaller arterioles and large veins. WEB: http://en.wikipedia.org/wiki/Vasodilation SS, YH HPO: HP_0004927 SIDER: C0595862 bronchospasm AE HPO: HP_0002099 SIDER: C0006266 CTCAE:E13352 DJ, SS, YH, MW a lung disorder AE that has an outcome of a sudden constriction of the muscles in the walls of the bronchioles MedDRA:10006482 WEB: http://medical-dictionary.thefreedictionary.com/bronchospasm NCIt:C34439 cardiac failure AE DJ, SS, YH heart failure NCIt: C50577 a cardiovascular disorder AE that results in the inability of the heart to provide sufficient pump action to distribute blood flow to meet the needs of the body WEB: http://medical-dictionary.thefreedictionary.com/cardiac+failure SIDER: C0018801 MedDRA: 10007554 HPO: HP_0001635 CTCAE: E10124 cardiomyopathy AE WEB: https://en.wikipedia.org/wiki/Cardiomyopathy DJ, SS, YH a cardiovascular disorder AE that has an outcome of deterioration of the function of the myocardium, usually leads to heart failure SIDER: C0878544 HPO: HP_0001638 MedDRA: 10007636 WEB: http://medical-dictionary.thefreedictionary.com/cardiomyopathy irritability AE SZ, DJ, SS, YH SIDER: C0022107 MedDRA: 10022998 HPO: HP_0000737 Behavior and Neurological AE that results in the patient being easily annoyed/irritated NCIt: C50623 CTCAE: E11144 feverish (subjective) AE localized edema AE SIDER: C0013609 CTCAE: E11148 NCIt: C78437 HPO: HP_0000969 SZ, DJ, SS, YH localised oedema AE WEB: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1115975/ an edema AE occuring in a specific region MedDRA: 10048961 localised edema AE lymphadenopathy AE HPO: HP_0002716 SIDER: C0497156 SZ, SS, YH WEB: http://medical-dictionary.thefreedictionary.com/lymphadenopathy an immune system disorder AE that has an outcome of lymphadenopathy, which is a term meaning "disease of the lymph nodes" . It is generally a disease or inflammation of the lymph nodes, could be due to infection, auto-immune disease or malignancy MedDRA: 10025197 sleep disorder AE SIDER: C0851578 MedDRA: 10040984 a behavior and neurological AE that results in irregular sleep patterns SZ, SS, YH WEB: http://medical-dictionary.thefreedictionary.com/sleep+disorder HPO: HP_0002360 injection-site redness AE YH an injection-site AE that display an redness in the injection-site injection-site tenderness AE MedDRA: 10043224 a sensory capability AE that shows up skin tenderness and occurs in an injection site of a medical intervention YH arm motion limitation AE YH a movement disorder AE that has an outcome of arm motion limitation injection-site muscular soreness AE a sensory capability AE that shows up muscular soreness at the injection site of a medical intervention MedDRA: 10028332 YH sleepiness AE YH a sleep disorder AE that shows up sleepiness (Sluggish from sleep, inactive, quiet). MedDRA: 10041014 mild hypersensitivity AE YH a hypersensitivity AE that is mild. injection-site arm edema AE an injection-site edema AE that occurs in the arm. YH restlessness AE a psychiatric disorder AE that shows restlessness NCIt:C74533 YH, MW UMLS_CUI: C0085631 MedDRA:10038743 CTCAE:E12960 WEB: http://dictionary.reference.com/browse/restlessness induration with tenderness AE a sensory capability AE that results in a sensation of induration with tenderness. YH fussiness AE YH a sensory capability AE that results in a sensation of fussiness decreased sleep AE YH a sleep disorder AE that shows decreased sleep increased sleep AE a sleep disorder AE that shows increased sleep YH joint pain AE YH a pain AE that occurs at a joint tiredness AE This term appears to be a synonym to the 'fatigue AE'. Tiredness AE is a sensory capability AE that results in a sensation of tiredness. hypodynamia AE 疲劳/乏力 MedDRA: 10043890 JX, LW, YH severity of adverse event AE severity YH, SS a process quality that represents the level of severity of an adverse event. psychiatric disorder AE WEB: http://en.wikipedia.org/wiki/Mental_disorder a behavior and neurological AE that has an outcome of a mental illness or psychiatiric disorder. The mental illness is a mental or behavioral pattern or anomaly that causes either suffering or an impaired ability to function in ordinary life (disability), and which is not developmentally or socially normative. MedDRA ID: 10037175 YH, Izabela Birsanescu mental disorder AE AE severity G1 AE severity Grade 1 CTCAE4: E10005 (Grade 1 Adverse Event) YH, SS a severity of AE that shows asymptomatic, or involves mild or minor symptoms, or is of marginal clinical relevance, or consists of clinical or diagnostic observations alone, or where intervention is not indicated, or where only non-prescription intervention is indicated. Note the AE severity Grade 1 equals to CTCAE G1 AE severity. Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_1_Adverse_Event AE severity G2 a severity of AE for which only minimal, local, or noninvasive intervention (e.g. packing, cautery) is indicated, or that limits instrumental activities of daily living (ADLs, e.g., shopping, laundry, transportation, or ability to conduct finances). Note the AE severity Grade 2 equals to CTCAE G2 AE severity. Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_2_Adverse_Event YH, SS CTCAE4: E10006 (Grade 2 Adverse Event) AE severity Grade 2 AE severity G3 Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_3_Adverse_Event AE severity Grade 3 YH, SS CTCAE4: E10007 (Grade 3 Adverse Event) Note the AE severity Grade 3 equals to CTCAE G3 AE severity. a severity of AE that shows an outcome which is medically significant but not life-threatening; or for which inpatient care or prolongation of hospitalization are indicated; or that is an important medical event that does not result in hospitalization, but may jeopardize the patient or may require intervention either to prevent hospitalization, to prevent the AE from becoming life-threatening or causing death; or that is disabling; or that results in persistent or significant disability, incapacity, or limitation of self care activities of daily living (ADLs, getting in and out of bed, dressing, eating, getting around inside, bathing, or using the toilet). AE severity G4 AE severity Grade 4 Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_4_Adverse_Event a severity of AE that has life-threatening consequences, for which urgent intervention is indicated, that puts the patient is at risk of death at the time of the event if immediate intervention is not undertaken, or that causes blindness or deafness (need to decide if unilateral or bilateral). Note the AE severity Grade 4 equals to CTCAE G4 AE severity. CTCAE4: E10008 (Grade 4 Adverse Event) YH, SS AE severity G5 Note the AE severity Grade 5 equals to CTCAE G5 AE severity. YH, SS AE severity Grade 5 Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_5_Adverse_Event CTCAE4: E10009 (Grade 5 Adverse Event) a severity of AE that results in death. local AE an adverse event that occurs locally in a certain location. This is different from the systematci adverse event that occurs throughout the systemtic circulation. YH, JX URL: https://en.wikipedia.org/wiki/Adverse_drug_reaction behavior abnormal quality YH, JX a behavioral quality where the behavior in an organism is abnormal. WEB: https://en.wikipedia.org/wiki/Abnormality_(behavior) planned process 'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.) 6/11/9: Edited at workshop. Used to include: is initiated by an agent Bjoern Peters Injecting mice with a vaccine in order to test its efficacy branch derived A processual entity that realizes a plan which is the concretization of a plan specification. This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call) planned process processed material Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples Is a material entity that is created or changed during material processing. PERSON: Alan Ruttenberg processed material organization GROUP: OBI PERSON: Alan Ruttenberg PERSON: Bjoern Peters PERSON: Philippe Rocca-Serra PERSON: Susanna Sansone An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members. PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods. organization material to be added role 9 March 09 from discussion with PA branch OBI Role Branch drug added to a buffer contained in a tube; substance injected into an animal; material to be added role material to be added role is a protocol participant role realized by a material which is added into a material bearing the target of material addition role in a material addition process target of material addition role 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. GROUP: Role Branch OBI peritoneum of an animal receiving an interperitoneal injection; solution in a tube receiving additional material; location of absorbed material following a dermal application. target of material addition role is a role realized by an entity into which a material is added in a material addition process target of material addition role host role 30 Mar09 submitted by vaccine community 30Mar09 virus reproducing inside a cell; bacteria causing a disease, host can be harmed or not. we want to avoid a cat sitting on my lap and an animal care technician; these are not examples or hosts; dental cares = on tooth, but part of outer layer of tooth, so covered by "within" in the definition GROUP: Role Branch In biology, a host is an organism that harbors a virus or parasite, or a mutual or commensal symbiont, typically providing nourishment and shelter. http://en.wikipedia.org/wiki/Host_(biology) 30 March 09 OBI host role host role is a role played by an organism and realized by providing nourishment, shelter or a means of reproduction to another organism within the organism playing the host role http://en.wikipedia.org/wiki/Host_(biology) organism 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') GROUP: OBI Biomaterial Branch 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. WEB: http://en.wikipedia.org/wiki/Organism animal fungus organism plant virus administering substance in vivo 2009-11-10. Tracker: https://sourceforge.net/tracker/?func=detail&aid=2893050&group_id=177891&atid=886178 A process by which a substance is intentionally given to an organism resulting in exposure of the organism to that substance. Balb/c mice received an intracameral or subconjunctival injection of trinitrophenylated spleen cells Person:Bjoern Peters Bjoern Peters Different routes and means of administration should go as children underneath this IEDB administering substance in vivo injecting mice with 10 ug morphine intranasally, a patient taking two pills of 1 mg aspirin orally needs roles such as perturber and perturbee (children of input role). Perturb is too strong. Host might be the name for one role. Others considered: Doner, Donated, Acceptor. genome Book: Eugene Nester, Denise Anderson, C. Evans Roberts, Jr., Microbiology (Companion Site): A Human Perspective, 7th Edition. Mcgraw Hill, October 18, 2011. ISBN-13: 978-0073375311 A genome is a material entity that represents the entirety of an organism's hereditary information. The genome includes both the genes and the non-coding sequences of the DNA and RNA. Oliver He WEB: http://en.wikipedia.org/wiki/Genome gene A gene is a material entity that represents the entire DNA sequence required for synthesis of a functional protein or RNA molecule. Oliver He WEB: http://www.ncbi.nlm.nih.gov/books/NBK21640/ In addition to the coding regions (exons), a gene includes transcription-control regions and sometimes introns. Although the majority of genes encode proteins, some encode tRNAs, rRNAs, and other types of RNA. genome of Bacteria 2 The genome of an organism of Bacteria Yue Liu, Bin Zhao, Oliver He genome of Proteobacteria 1224 The genome of an organism of Proteobacteria Yue Liu, Bin Zhao, Oliver He gene of Bacteria 2 A gene of an organism of Bacteria Yue Liu, Bin Zhao, Oliver He gene of Proteobacteria 1224 A gene of an organism of Proteobacteria Yue Liu, Bin Zhao, Oliver He bodily process Albert Goldfain creation date: 2009-06-23T11:53:49Z pathological bodily process Albert Goldfain http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf A bodily process that is clinically abnormal. creation date: 2009-06-23T11:54:29Z bacterial vaccine adverse event a vaccine adverse event that is associated with administration of a bacterial vaccine Yongqun He virus vaccine adverse event Yongqun He a vaccine adverse event that is associated with administration of a virus vaccine parasite vaccine adverse event Yongqun He a vaccine adverse event that is associated with administration of a parasite vaccine fugal vaccine adverse event Yongqun He a vaccine adverse event that is associated with administration of a fungal vaccine cancer vaccine adverse event a vaccine adverse event that is associated with administration of a cancer vaccine Yongqun He bacterial and viral combination vaccine adverse event Yongqun He a vaccine adverse event that is associated with administration of a bacterial and viral combination vaccine adverse event associated with Diphtheria & Tetanus Toxoids Absorbed Yongqun He, Erica Marcos Engerix-B vaccine adverse event Yongqun He, Erica Marcos Flublok vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Flublok. Yongqun He, Erica Marcos Fluarix vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluarix. Yongqun He, Erica Marcos Fluarix Quadrivalent vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluarix Quadrivalent vaccine. Yongqun He, Erica Marcos Flucelvax vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Flucelvax. Yongqun He, Erica Marcos Flulaval vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Flulaval. Yongqun He, Erica Marcos FluMist Quadrivalent vaccine adverse event Yongqun He, Erica Marcos An influenza vaccine adverse event that is associated with the administration of FluMist Quadrivalent vaccine. Fluvirin vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluvirin. Yongqun He, Erica Marcos Fluzone vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluzone. Yongqun He, Erica Marcos Fluzone High-Dose vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluzone High-dose vaccine. Yongqun He, Erica Marcos Fluzone Intradermal vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Fluzone intradermal vaccine. Yongqun He, Erica Marcos Gardasil vaccine adverse event Yongqun He, Erica Marcos Havrix vaccine adverse event Yongqun He, Erica Marcos Hiberix vaccine adverse event Yongqun He, Erica Marcos Imovax Rabies vaccine adverse event Yongqun He, Erica Marcos Infanrix vaccine adverse event Yongqun He, Erica Marcos Influenza Virus Vaccine H5N1 vaccine adverse event An influenza vaccine adverse event that is associated with the administration of Influenza virus vaccine H5N1 vaccine. Yongqun He, Erica Marcos IPOL vaccine adverse event Yongqun He, Erica Marcos Ixiaro vaccine adverse event Yongqun He, Erica Marcos JE-Vax vaccine adverse event Yongqun He, Erica Marcos Kinrix vaccine adverse event Yongqun He, Erica Marcos Menactra vaccine adverse event Yongqun He, Erica Marcos MenHibrix vaccine adverse event Yongqun He, Erica Marcos Menomune-A/C/Y/W-135 vaccine adverse event Yongqun He, Erica Marcos Menveo vaccine adverse event Yongqun He, Erica Marcos Meruvax II vaccine adverse event Yongqun He, Erica Marcos Pediarix vaccine adverse event Yongqun He, Erica Marcos PedvaxHIB vaccine adverse event Yongqun He, Erica Marcos Pentacel vaccine adverse event Yongqun He, Erica Marcos Pneumovax 23 vaccine adverse event Yongqun He, Erica Marcos Prevnar vaccine adverse event Yongqun He, Erica Marcos Prevnar 13 vaccine adverse event Yongqun He, Erica Marcos ProQuad vaccine adverse event Yongqun He, Erica Marcos RabAvert vaccine adverse event Yongqun He, Erica Marcos Recombivax HB vaccine adverse event Yongqun He, Erica Marcos Rotarix vaccine adverse event Yongqun He, Erica Marcos RotaTeq vaccine adverse event Yongqun He, Erica Marcos Tenivac vaccine adverse event Yongqun He, Erica Marcos adverse event associated with Tetanus and Diptheria Toxoids Absorbed by MA Biological Yongqun He, Erica Marcos Tetanus Toxoid (boost only) vaccine adverse event Yongqun He Tetanus Toxoid Absorbed vaccine adverse event Yongqun He, Erica Marcos Tripedia vaccine adverse event Yongqun He, Erica Marcos Twinrix vaccine adverse event Yongqun He, Erica Marcos Typhim Vi vaccine adverse event Yongqun He, Erica Marcos Vaqta vaccine adverse event Yongqun He, Erica Marcos Varivax vaccine adverse event Yongqun He, Erica Marcos Vivotif vaccine adverse event Yongqun He, Erica Marcos YF-Vax vaccine adverse event Yongqun He, Erica Marcos Zostavax vaccine adverse event Yongqun He, Erica Marcos Agriflu vaccine adverse event Yongqun He, Erica Marcos An influenza vaccine adverse event that is associated with the administration of Agriflu. Biothrax vaccine adverse event Yongqun He, Erica Marcos Flublok-associated muscle pain AE 0.11 50 64 A Flublok vaccine adverse event that is associated with an administration of Flublok and displays a muscle pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM336020.pdf Yongqun He, Jiangan Xie Boostrix vaccine adverse event Yongqun He, Erica Marcos Cervarix vaccine adverse event Yongqun He, Erica Marcos Comvax vaccine adverse event Yongqun He, Erica Marcos Daptacel vaccine adverse event Yongqun He, Erica Marcos Decavac vaccine adverse event Yongqun He, Erica Marcos influenza vaccine adverse event Yongqun He a virus vaccine adverse event that is associated with administration of an influenza virus vaccine Haemophilus vaccine adverse event a bacterial adverse event that is associated with administration of a Haemophilus vaccine Yongqun He adenovirus vaccine adverse event Yongqun He a virus vaccine adverse event that is associated with administration of an adenovirus vaccine adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral an adenovirus vaccine adverse event that is associated with administration of an adenovirus vaccine Adenovirus Type 4 and Type 7 Vaccine, Live, Oral Yongqun He human papillomavirus vaccine adverse event a virus vaccine adverse event that is associated with administration of a human papillomavirus vaccine Yongqun He Bacillus anthracis vaccine adverse event a bacterial adverse event that is associated with administration of a Bacillus anthracis vaccine Yongqun He Streptococcus pneumoniae vaccine adverse event Yongqun He, Erica Marcos Neisseria meningitidis vaccine adverse event Yongqun He, Erica Marcos diphtheria vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of diphtheria vaccine Diphtheria-Tetanus vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus vaccine Diphtheria-Tetanus-Pertussis vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus-Pertussis vaccine Diphtheria-Tetanus-Poliovirus vaccine adverse event a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus-Poliovirus vaccine Yongqun He Diphtheria-Tetanus-Pertussis-Poliovirus vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus-Pertussis-Poliovirus vaccine Diphtheria-Tetanus-Pertussis-Poliovirus-Haemophilus b vaccine adverse event a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus-Pertussis-Poliovirus-Haemophilus b vaccine Yongqun He Diphtheria-Tetanus-Pertussis-Poliovirus-Hepatitis B vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of Diphtheria-Tetanus-Pertussis-Poliovirus-Hepatitis B vaccine Salmonella vaccine adverse event Yongqun He a bacterial vaccine adverse event that is associated with administration of Salmonella vaccine Haemophilus b and Hepatitis B vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Haemophilus b and Hepatitis B vaccine Hepatitis A virus vaccine adverse event a viral vaccine adverse event that is associated with administration of Hepatitis A virus vaccine Yongqun He Hepatitis A&B vaccine adverse event a viral vaccine adverse event that is associated with administration of Hepatitis A&B vaccine Yongqun He Hepatitis B virus vaccine adverse event a viral vaccine adverse event that is associated with administration of Hepatitis B virus vaccine Yongqun He Herpesvirus vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Herpesvirus vaccine Japanese encephalitis virus vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Japanese encephalitis virus vaccine Measles virus vaccine adverse event a viral vaccine adverse event that is associated with administration of Measles virus vaccine Yongqun He Measles-Mumps-Rubella-Vericella vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Measles-Mumps-Rubella-Vericella vaccine Poliovirus vaccine adverse event a viral vaccine adverse event that is associated with administration of Poliovirus vaccine Yongqun He smallpox vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of smallpox vaccine Rabies vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Rabies vaccine Rotavirus vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Rotavirus vaccine Rubella vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Rubella vaccine Yellow fever vaccine adverse event Yongqun He a viral vaccine adverse event that is associated with administration of Yellow fever vaccine Afluria-associated injection-site pain AE 0.1 65 0.4 18 64 0.6 17 5 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Yongqun He, Erica Marcos A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an injection-site pain AE Afluria-associated injection-site redness AE 0.2 17 5 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an injection-site redness AE Afluria-associated local swelling AE 0.1 17 5 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an local swelling AE Yongqun He, Erica Marcos Afluria-associated headache AE 0.2 18 64 0.2 17 5 A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an headache AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Afluria-associated myalgia AE 0.2 17 5 A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an myalgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Yongqun He, Erica Marcos Afluria-associated malaise AE 0.1 17 5 0.2 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Yongqun He, Erica Marcos A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an malaise AE Afluria-associated fever AE 0.1 17 5 A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an fever AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Afluria-associated injection-site tenderness AE 0.3 65 0.6 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Yongqun He, Erica Marcos A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an injection-site tenderness AE Afluria-associated muscle ache AE 0.2 18 64 A Afluria vaccine adverse event that is associated with an administration of Afluria and displays an muscle ache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM263239.pdf Yongqun He, Erica Marcos Agriflu-associated injection-site pain AE 0.1 18 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM192127.pdf A Afluria vaccine adverse event that is associated with an administration of Agriflu and displays an injection-site pain AE Agriflu-associated headache AE 0.1 18 A Afluria vaccine adverse event that is associated with an administration of Agriflu and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM192127.pdf Yongqun He, Erica Marcos Agriflu-associated myalgia AE 0.1 18 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM192127.pdf A Afluria vaccine adverse event that is associated with an administration of Agriflu and displays an myalgia AE Agriflu-associated malaise AE 0.1 18 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM192127.pdf A Afluria vaccine adverse event that is associated with an administration of Agriflu and displays an malaise AE Yongqun He, Erica Marcos Flulaval-associated injection-site pain AE 18 0.51 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an injection-site pain AE Flulaval-associated injection-site redness AE 18 0.13 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an injection-site redness AE Flulaval-associated local swelling AE 18 0.11 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an local swelling AE Yongqun He, Erica Marcos Flulaval-associated fatigue AE 18 0.2 Yongqun He, Erica Marcos A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an fatigue AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf Flulaval-associated headache AE 18 0.18 A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an headache AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf Flulaval-associated myalgia AE 18 0.18 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112904.pdf Yongqun He, Erica Marcos A Flulaval vaccine adverse event that is associated with an administration of Flulaval and displays an myalgia AE Fluarix-associated drowsiness 5 3 0.17 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an drowsiness Yongqun He, Erica Marcos Fluarix-associated irritability AE 5 3 0.17 A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an irritability AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Fluarix-associated decreased appetite AE 5 3 0.16 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Yongqun He, Erica Marcos A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an decreased appetite AE Fluarix-associated arthralgia AE 6 7 0.1 A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an arthralgia AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Fluarix-associated gastrointestinal disorder AE 6 7 0.1 A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an gastrointestinal disorder AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Fluarix-associated injection-site redness AE 17 3 0.23 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Yongqun He, Erica Marcos A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an injection-site redness AE Fluarix-associated local swelling AE 17 3 0.19 Yongqun He, Erica Marcos A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an local swelling AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Fluarix-associated injection-site pain AE 18 0.36 17 3 0.44 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an injection-site pain AE Yongqun He, Erica Marcos Fluarix-associated muscle ache AE 18 0.16 6 7 0.18 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an muscle ache AE Fluarix-associated headache AE 18 0.16 6 7 0.16 A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Yongqun He, Erica Marcos Fluarix-associated fatigue AE 18 0.16 6 7 0.2 A Flulaval vaccine adverse event that is associated with an administration of Fluarix and displays an fatigue AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM335392.pdf Flublok-associated injection-site pain AE 0.19 65 0.32 50 64 0.37 49 18 A Flublok vaccine adverse event that is associated with an administration of Flublok and displays an injection-site pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM336020.pdf Yongqun He, Erica Marcos Flublok-associated headache AE 0.10 65 0.15 49 18 0.15 50 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM336020.pdf Yongqun He, Erica Marcos A Flublok vaccine adverse event that is associated with an administration of Flublok and displays a headache AE Flublok-associated fatigue AE 0.13 50 64 0.13 65 0.15 49 18 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM336020.pdf Yongqun He, Erica Marcos, Jiangan Xie A Flublok vaccine adverse event that is associated with an administration of Flublok and displays a fatigue AE Flublok-associated myalgia AE 0.11 49 18 A Flublok vaccine adverse event that is associated with an administration of Flublok and displays a myalgia AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM336020.pdf Flucelvax-associated injection-site pain AE 18 64 0.28 Yongqun He, Erica Marcos A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an injection-site pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf Flucelvax-associated myalgia AE 18 64 0.11 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf Yongqun He, Erica Marcos A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an myalgia AE Flucelvax-associated injection-site erythema AE 18 64 0.13 65 0.1 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf Yongqun He, Erica Marcos A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an injection-site erythema AE Flucelvax-associated fatigue AE 18 64 0.12 65 0.11 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an fatigue AE Flucelvax-associated headache AE 18 64 0.16 65 0.1 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf Yongqun He, Erica Marcos A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an headache AE Flucelvax-associated malaise AE 18 0.1 A Flucelvax vaccine adverse event that is associated with an administration of Flucelvax and displays an malaise AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM329134.pdf Fluvirin-associated mild hypersensitity AE Yongqun He, Erica Marcos A Fluvirin vaccine adverse event that is associated with an administration of Fluvirin and displays an mild hypersensitity AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM123694.pdf Fluvirin-associated flu-like syndrome AE 4 A Fluvirin vaccine adverse event that is associated with an administration of Fluvirin and displays an flu-like syndrome AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM123694.pdf Yongqun He, Erica Marcos Fluzone-associated injection-site tenderness AE 0.5 8 0.5 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Yongqun He, Erica Marcos A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an injection-site tenderness AE Fluzone-associated injection-site redness AE 0.25 8 0.5 A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an injection-site redness AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Fluzone-associated irritability AE 0.25 2.9 0.5 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Yongqun He, Erica Marcos A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an irritability AE Fluzone-associated drowsiness 0.25 2.9 0.5 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an drowsiness Yongqun He, Erica Marcos Fluzone-associated myalgia AE 0.2 8 3 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an myalgia AE Fluzone-associated injection-site pain AE 0.5 18 64 A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an injection-site pain AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Fluzone-associated headache AE 0.3 18 64 Yongqun He, Erica Marcos A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Fluzone-associated myalgia AE 0.3 18 64 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an myalgia AE Fluzone-associated injection-site pain AE 0.2 65 Yongqun He, Erica Marcos A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an injection-site pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Fluzone-associated headache AE 0.1 65 A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Yongqun He, Erica Marcos Fluzone-associated myalgia AE 0.1 65 A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an myalgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf Yongqun He, Erica Marcos Fluzone-associated malaise AE 0.1 65 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305089.pdf A Fluzone vaccine adverse event that is associated with an administration of Fluzone and displays an malaise AE Yongqun He, Erica Marcos Fluzone High-Dose-associated injection-site pain AE 0.3 65 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305079.pdf A Fluzone High-Dose vaccine adverse event that is associated with an administration of Fluzone High-Dose and displays an injection-site pain AE Yongqun He, Erica Marcos Fluzone High-Dose-associated headache AE 0.1 65 Yongqun He, Erica Marcos A Fluzone High-Dose vaccine adverse event that is associated with an administration of Fluzone High-Dose and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305079.pdf Fluzone High-Dose-associated myalgia AE 0.1 65 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305079.pdf Yongqun He, Erica Marcos A Fluzone High-Dose vaccine adverse event that is associated with an administration of Fluzone High-Dose and displays an myalgia AE Fluzone High-Dose-associated erythema AE 0.1 65 Yongqun He, Erica Marcos A Fluzone High-Dose vaccine adverse event that is associated with an administration of Fluzone High-Dose and displays an erythema AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305079.pdf Fluzone High-Dose-associated malaise AE 0.1 65 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305079.pdf Yongqun He, Erica Marcos A Fluzone High-Dose vaccine adverse event that is associated with an administration of Fluzone High-Dose and displays an malaise AE Fluzone Intradermal-associated injection-site erythema AE 0.75 18 64 A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an injection-site erythema AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf Fluzone Intradermal-associated injection-site induration AE 0.5 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf Yongqun He, Erica Marcos A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an injection-site induration AE Fluzone Intradermal-associated local swelling AE 0.5 18 64 Yongqun He, Erica Marcos A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an local swelling AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf Fluzone Intradermal-associated injection-site pain AE 0.5 18 64 A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an injection-site pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf Yongqun He, Erica Marcos Fluzone Intradermal-associated OAE_0000373 0.4 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an OAE_0000373 Yongqun He, Erica Marcos Fluzone Intradermal-associated headache AE 0.2 18 64 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an headache AE Fluzone Intradermal-associated myalgia AE 0.2 18 64 A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an myalgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf Yongqun He, Erica Marcos Fluzone Intradermal-associated malaise AE 0.2 18 64 Yongqun He, Erica Marcos A Fluzone Intradermal vaccine adverse event that is associated with an administration of Fluzone Intradermal and displays an malaise AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM305080.pdf FluMist-associated fever AE 0.1 6 2 A FluMist vaccine adverse event that is associated with an administration of FluMist and displays an fever AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM123743.pdf Yongqun He, Erica Marcos FluMist-associated nasal congestion AE 0.1 49 2 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM123743.pdf Yongqun He, Erica Marcos A FluMist vaccine adverse event that is associated with an administration of FluMist and displays an nasal congestion AE FluMist-associated sore throat AE 0.1 49 18 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM123743.pdf Yongqun He, Erica Marcos A FluMist vaccine adverse event that is associated with an administration of FluMist and displays an sore throat AE FluMist Quadrivalent-associated nasal congestion AE 49 18 0.44 17 2 0.32 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM294307.pdf Yongqun He, Erica Marcos A FluMist Quadrivalent vaccine adverse event that is associated with an administration of FluMist Quadrivalent and displays an nasal congestion AE FluMist Quadrivalent-associated fever AE 17 2 0.07 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of FluMist Quadrivalent and displays an fever AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM294307.pdf Yongqun He, Erica Marcos FluMist Quadrivalent-associated sore throat AE 49 18 0.19 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of FluMist Quadrivalent and displays an sore throat AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM294307.pdf Yongqun He, Erica Marcos Fluarix Quadrivalent-associated injection-site pain AE 18 0.36 17 3 0.44 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an injection-site pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Yongqun He, Erica Marcos Fluarix Quadrivalent-associated injection-site redness AE 17 3 0.23 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an injection-site redness AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Yongqun He, Erica Marcos Fluarix Quadrivalent-associated local swelling AE 17 3 0.19 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an local swelling AE Fluarix Quadrivalent-associated drowsiness 5 3 0.17 Yongqun He, Erica Marcos A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an drowsiness WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Fluarix Quadrivalent-associated irritability AE 5 3 0.17 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an irritability AE Yongqun He, Erica Marcos Fluarix Quadrivalent-associated decreased appetite AE 5 3 0.16 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Yongqun He, Erica Marcos A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an decreased appetite AE Fluarix Quadrivalent-associated fatigue AE 18 0.16 17 6 0.2 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an fatigue AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Fluarix Quadrivalent-associated muscle ache AE 18 0.16 17 6 0.18 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an muscle ache AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Fluarix Quadrivalent-associated headache AE 6 0.16 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an headache AE Yongqun He, Erica Marcos Fluarix Quadrivalent-associated arthralgia AE 17 6 0.1 A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an arthralgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Yongqun He, Erica Marcos Fluarix Quadrivalent-associated gastrointestinal disorder AE A FluMist Quadrivalent vaccine adverse event that is associated with an administration of Fluarix Quadrivalent and displays an gastrointestinal disorder AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM220624.pdf Influenza Virus Vaccine H5N1-associated injection-site pain AE 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112836.pdf Yongqun He, Erica Marcos A Influenza Virus Vaccine H5N1 vaccine adverse event that is associated with an administration of Influenza Virus Vaccine H5N1 and displays an injection-site pain AE Influenza Virus Vaccine H5N1-associated headache AE 18 64 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112836.pdf A Influenza Virus Vaccine H5N1 vaccine adverse event that is associated with an administration of Influenza Virus Vaccine H5N1 and displays an headache AE Influenza Virus Vaccine H5N1-associated malaise AE 18 64 Yongqun He, Erica Marcos A Influenza Virus Vaccine H5N1 vaccine adverse event that is associated with an administration of Influenza Virus Vaccine H5N1 and displays an malaise AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112836.pdf Influenza Virus Vaccine H5N1-associated myalgia AE 18 64 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM112836.pdf Yongqun He, Erica Marcos A Influenza Virus Vaccine H5N1 vaccine adverse event that is associated with an administration of Influenza Virus Vaccine H5N1 and displays an myalgia AE Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated upper respiratory tract infection AE 0.05 50 17 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an upper respiratory tract infection AE Yongqun He, Erica Marcos Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated headache AE 0.05 50 17 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an headache AE Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated nasal congestion AE 0.05 50 17 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Yongqun He, Erica Marcos A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an nasal congestion AE Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated pharyngolaryngeal pain AE 0.05 50 17 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an pharyngolaryngeal pain AE Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated cough 0.05 50 17 A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an cough WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Yongqun He, Erica Marcos Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated arthralgia AE 0.05 50 17 Yongqun He, Erica Marcos A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an arthralgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated nausea AE 0.05 50 17 A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an nausea AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated abdominal pain AE 0.05 50 17 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an abdominal pain AE Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated diarrhea AE 0.05 50 17 A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an diarrhea AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Yongqun He, Erica Marcos Adenovirus Type 4 and Type 7 Vaccine, Live, Oral-associated vomiting AE 0.05 50 17 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM247515.pdf Yongqun He, Erica Marcos A adverse event associated with Adenovirus Type 4 and Type 7 Vaccine, Live, Oral that is associated with an administration of Adenovirus Type 4 and Type 7 Vaccine, Live, Oral and displays an vomiting AE Biothrax-associated injection-site tenderness AE 0.1 65 18 Yongqun He, Erica Marcos A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an injection-site tenderness AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf Biothrax-associated injection-site pain AE 0.1 65 18 A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an injection-site pain AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf Biothrax-associated injection-site erythema AE 0.1 65 18 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an injection-site erythema AE Yongqun He, Erica Marcos Biothrax-associated injection-site edema AE 0.1 65 18 A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an injection-site edema AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf Biothrax-associated arm motion limitation AE 0.1 65 18 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an arm motion limitation AE Biothrax-associated muscle ache AE 0.05 65 18 A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an muscle ache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf Yongqun He, Erica Marcos Biothrax-associated fatigue AE 0.05 65 18 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an fatigue AE Biothrax-associated headache AE 0.05 65 18 Yongqun He, Erica Marcos A Biothrax vaccine adverse event that is associated with an administration of Biothrax and displays an headache AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/BloodBloodProducts/ApprovedProducts/LicensedProductsBLAs/UCM074923.pdf Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated injection-site redness AE 6 0 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an injection-site redness AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated injection-site warmth AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an injection-site warmth AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated injection-site edema AE 6 0 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an injection-site edema AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated injection-site induration AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an injection-site induration AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated local swelling AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an local swelling AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated urticaria AE 6 0 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an urticaria AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated injection-site rash AE 6 0 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an injection-site rash AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated malaise AE 6 0 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an malaise AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated fever AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an fever AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated pain AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an pain AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated hypotension AE 6 0 Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an hypotension AE Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated nausea AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an nausea AE Yongqun He, Erica Marcos WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Diphtheria & Tetanus Toxoids Absorbed (for pediatric use)-associated arthralgia AE 6 0 A adverse event associated with Diphtheria & Tetanus Toxoids Absorbed that is associated with an administration of Diphtheria & Tetanus Toxoids Absorbed and displays an arthralgia AE WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101500.pdf Yongqun He, Erica Marcos Tripedia-associated injection-site redness AE 0.17 6 0.1896 WEB: http://www.fda.gov/downloads/BiologicsBloodVaccines/Vaccines/ApprovedProducts/UCM101580.pdf Yongqun He, Erica Marcos A Tripedia vaccine adverse event that is associated with an administration of Tripedia and displays an injection-site redness AE Tripedia-associated local swelling AE 0.17 6