Ontology for Scientific Evidence and Provenance Information

IRI:
http://purl.obolibrary.org/obo/sepio.owl
Version IRI:
http://purl.obolibrary.org/obo/sepio/releases/2023-06-13/sepio.owl
Current version :
2023-06-13
Contributors :
https://orcid.org/0000-0002-1048-5019
Other visualisation :
Ontology source - WebVowl

Table of Content

  1. Classes
  2. Object Properties
  3. Data Properties
  4. Named Individuals
  5. Annotation Properties
  6. General Axioms
  7. SWRL Rules
  8. Namespace Declarations

Classes

action specificationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000077

has super-classes
directive information entityc
has partop some action specificationc

Activityc back to ToC or Class ToC

IRI: http://www.w3.org/ns/prov#Activity

has super-classes
processc
has participantop some continuantc
activity_datedp some date time
has sub-classes
completely executed planned processc
is in range of
evidence_has_supporting_activityop

Agentc back to ToC or Class ToC

IRI: http://www.w3.org/ns/prov#Agent

Agents typically persons, organizations, or software that perform tasks, including making assertions, or generating information used as evidence. In the execution of such tasks, an 'agent role' is realized that inheres in the agent.
is equivalent to
capable ofop some contributionc
has super-classes
material entityc
capable ofop some contributionc
has sub-classes
Groupc, Personc, SoftwareAgentc
is in range of
has_agentop, has_contributorop, performed_forop

algorithmc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000064

has super-classes
plan specificationc

anatomical entityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/CARO_0000000

Following BFO, material anatomical entities may have immaterial parts (the lumen of your stomach is part of your stomach). The granularity limit follows the limits set by the Gene Ontology on the granularity limit for GO:cellular_component. Note that substances produced by an organism (sweat, feaces, urine) do not need to be part of an organism to qualify as an anatomical structure.
has super-classes
independent continuantc
is in domain of
has developmental contribution fromop, has developmental potential involvingop
is in range of
has developmental contribution fromop, has developmental potential involvingop

approver rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000155

has super-classes
assessor rolec

assayc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000070

has super-classes
research activityc
has specified inputop some material entityc and (has characteristicop some evaluant rolec)
has specified outputop some measurement datumc and (is_aboutop some material entityc and (has characteristicop some evaluant rolec))
has sub-classes
binding assayc, protein localization assayc

assertionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000001

Assertions as defined in SEPIO are the result of some logical inference made based on the interpretation of evidence. They put forth a proposition that may or may not be true - the validity of which ultimately rests on the quantity, quality, diversity, and concordance of evidence supporting it. Statements directly reporting study results or observations are not considered assertions in this sense, as they merely report what was observed or recorded, but do not rely on a leap of logical inference (see 'study finding').
has super-classes
statementc
output ofop some assertion processc
has_evidence_lineop some evidence linec
asserts_propositionop some propositionc
is in domain of
asserted_conclusionop, assertion_has_objectop, assertion_has_predicateop, assertion_has_subjectop, asserts_propositionop, date_validateddp
is in range of
proposition_asserted_inop

assertion methodc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000037

Assertion methods can be informal guidlines or heuristics that support manual evaluation of evidence, e.g. the ACMG Variant Classification Guidelines. Assertion methods can also be formally encoded as algorithms that allow computational or statistical analysis of data as evidence in support of making an assertion - e.g. multifactorial analysis algorithms that operate on specified data to generate a quantitative score indicating the validity of a particular proposition.
has super-classes
plan specificationc
specified_creation_ofop some assertionc

assertion processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000003

An assertion process includes the processes of interpreting data and evaluating it as evidence for the validity of a proposition. They are affected by a particular agents on a particular occasions, and can be specified by assertion methods or guidelines.
has super-classes
completely executed planned processc
has inputop some evidence linec
has outputop some assertionc
has sub-classes
drawing a conclusion based on datac

assessor rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000154

has super-classes
contributor rolec
has sub-classes
approver rolec

associationc back to ToC or Class ToC

IRI: http://purl.org/oban/association

has super-classes
propositionc
is in domain of
association has objectop, association has predicateop, association has subjectop

binding assayc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0001146

has super-classes
assayc

biological_processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/GO_0008150

Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.

case-control clinical studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000071

has super-classes
observational clinical studyc

cell-based in vivo studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000076

has super-classes
in vivo studyc

characteristicc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000020

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
continuantc
inverse has characteristicop some thingc
part ofop only characteristicc
has partop only characteristicc
has sub-classes
information representationc, qualityc, qualityc, realizablec
is in range of
has characteristicop, realizesop
is disjoint with
independent continuantc, generically dependent continuantc

clinical studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000067

has super-classes
primary research studyc
has sub-classes
interventional clinical studyc, observational clinical studyc

completely executed planned processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000011

has super-classes
planned processc
Activityc
realizesop some planc
has_agentop some Agentc
has sub-classes
assertion processc, contributionc, research activityc
is in domain of
has specified inputop, has specified outputop

Conceptc back to ToC or Class ToC

IRI: http://www.w3.org/2004/02/skos/core#Concept

has super-classes
skos termsc

confidence levelc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000187

has super-classes
measurement datumc
is_aboutop some information content entityc
is in range of
has_confidence_levelop

continuantc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000002

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
entityc
part ofop only continuantc
has sub-classes
characteristicc, generically dependent continuantc, independent continuantc
is in domain of
causal relation between entitiesop, causally influencesop, datedp, date_evaluateddp, date_modifieddp, date_submitteddp, developmentally preceded byop, participates inop
is in range of
causal relation between entitiesop, causally influencesop, developmentally preceded byop, has participantop
is disjoint with
occurrentc

contributionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000158

Contribution instances organize information about who, when, where, how (e.g. what roles were played), and on whose behalf these actions were performed. The scope of a Contribution instance includes only the actions of a single agent in contributing to a particular artifact - which may be performed in one continuous effort, or multiple discrete sessions of work. The contributing agent can be a single individual, or an organization of multiple individuals acting together.
has super-classes
completely executed planned processc
realizesop some contributor rolec
has_agentop exactly 1 Agentc
is in domain of
performed_forop
is in range of
qualified_contributionop

contributor rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000048

In the context of evidence and proveannce, agents are persons, groups, organizations, or software that are responsible for making assertions or generating the evidence and data that support them.
has super-classes
rolec
has sub-classes
assessor rolec, creator rolec, curator rolec

creator rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000153

has super-classes
contributor rolec

curationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000131

has super-classes
research activityc

curation status specificationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000078

is equivalent to
{ example to be eventually removed , metadata complete , organizational term , ready for release , metadata incomplete , uncurated , pending final vetting , to be replaced with external ontology term , requires discussion }
has super-classes
data about an ontology partc
has members
example to be eventually removedni, metadata completeni, metadata incompleteni, organizational termni, pending final vettingni, ready for releaseni, requires discussionni, to be replaced with external ontology termni, uncuratedni

curation-based studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000081

has super-classes
secondary research studyc

curator rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000156

has super-classes
contributor rolec

data about an ontology partc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000102

has super-classes
data itemc
has sub-classes
curation status specificationc, denotator typec, obsolescence reason specificationc

data itemc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000027

has super-classes
information content entityc
has sub-classes
data about an ontology partc, measurement datumc, measurement datumc, statisticc

data setc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000100

has super-classes
information content entityc
has sub-classes
study data setc

databasec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/ERO_0001716

has super-classes
information content entityc

denotator typec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000409

is equivalent to
{ universal , defined class , named class expression }
has super-classes
data about an ontology partc
has members
defined classni, named class expressionni, universalni

directive information entityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000033

has super-classes
information content entityc
has sub-classes
action specificationc, objective specificationc, plan specificationc

dispositionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000016

has super-classes
realizablec
has sub-classes
functionc
is in range of
has dispositionop
is disjoint with
rolec

documentc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000310

has super-classes
information content entityc
has sub-classes
patentc, publicationc, recordc, reportc
is in domain of
expressesop
is in range of
evidence_has_supporting_referenceop, is_expressed_inop

drawing a conclusion based on datac back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000338

has super-classes
assertion processc

entityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000001

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has sub-classes
continuantc, occurrentc, propositionc

evaluant rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000119

has super-classes
rolec

evidence directionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000402

is equivalent to
{ supporting , disputing , inconclusive }
has super-classes
measurement datumc
is in range of
evidence_directionop
has members
disputingni, inconclusiveni, supportingni

evidence itemc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000149

'Evidence Item' is a broad term covering any information interpreted as evidence in the act of making an assertion. Classes representing different types of evidence items are imported here from ontologies such as OBI, IAO, and STATO, and include: - measured data values - derived data values such as statistical calculations and confidence measures - figures presenting or describing such data - author statements representing summaries of or conclusions drawn from such data - established facts in a field of research Note that publications and reports are considered separately from 'evidence items', as a they *contain* information (data values, figures author statements) that can be used as evidence. But on its own a publication or report is merely a proxy for this information.
is equivalent to
information content entityc and (evidence_item_forop some evidence linec)
has super-classes
information content entityc
has_roleop some evidence rolec
evidence_item_forop some evidence linec
is in domain of
evidence_item_forop
is in range of
has_evidenceop, has_evidence_itemop

evidence linec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000002

An evidence line is created through the interpretation of one or more pieces of information that collectively support a meaningful argument for or against a proposition. To qualify as an Evidence Line, this argument must be independently significant as evidence - i.e. it must be capable of affecting the probability of accepting the target proposition as true. This does not mean, however, that it is independently sufficient to establish belief in the proposition, as additional evidence lines may be required to ultimately accept the proposition as true. For example, in the ACMG framework for variant interpretations establishes "absence in population databases" as a type of evidence line that can argue for the pathogenicty of a particular variant. But this argument alone is not considered sufficient to establish a variant's pathogencity, as the other types of evidence are additionally required to establish the truth of this Proposition (e.g. a line of evidence demonstrating the variant to have a deleterious effect on protein function, or showing it to segregate with disease features in a family tree).
has super-classes
information content entityc
has_evidence_itemop some evidence itemc
evidence_line_strengthop some evidence strengthc
evidence_directionop some evidence directionc
is in domain of
evidence_directionop, evidence_has_supporting_activityop, evidence_has_supporting_referenceop, evidence_line_strengthop, evidence_line_strength_scoredp, has_evidence_itemop, is evidence with support fromop
is in range of
evidence_item_forop, has_evidence_lineop

evidence qualityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000414

The quality of an evidence item is a measure of the rigor applied in performing the study and anlysis tasks used to produce it. Higher quality studies will have carefully defined controls, and be replicated numerous times to ensure reproducibility. Other factors that are often used as secondary indicators of the quality of research data include the quality of the journal in which it is published, and the reputation of the lab or institution performing the study. Evidence qualitty is an important factor in assessing the overall strength of evidence it may produce.
has super-classes
measurement datumc

evidence rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000148

has super-classes
rolec

evidence strengthc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000133

The strength of a line of evidence typically depends on the *type* and *quality* of the study(ies) that generate its supporting evidence items. 1. Type of Study: In a particular domain of research, certain types of studies are commonly held to produce data that is more meaningful and reliable than others, as evidence for a particular type of assertion. These more reliable studies tend to draw on experimental systems that more accurately replicate the natural phenomenon being studied, and experimental designs that reduce confounding variables and biases. For example, in vivo studies of gene function provide stronger evidence than in vitro systems that may not replicate all aspects of the biology of a living system, and randomized controlled clinical trials are held to be more reliable than retrospective or case control studies that are more susceptible to confounding factors. 2. Quality of Study: A given study can be performed to varying degrees of rigor and comprehensiveness, irrespective of the type of study it represents. This is another important factor in assessing the overall strength of evidence it may produce. Higher quality studies will have carefully defined controls, and be replicated numerous times to ensure reproducibility. Other factors that are often used as secondary indicators of the quality of research data include the quality of the journal in which it is published, and the reputation of the lab or institution performing the study. In SEPIO, the notion of evidence quality is captured in an attribute separate from the notion of evidence strength. And the notion of study type can be represented in the type assigned to a study instance, or the evidence code used to type an evidence line (which are often based on the type of study that produced the evidence data). Evidence strength typically relies on assessment of one or both of these more fundamental attributes of evidence.
has super-classes
measurement datumc
is_aboutop some evidence linec
is in range of
evidence_line_strengthop, has_evidence_levelop

experimental model studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000072

has super-classes
primary research studyc
has sub-classes
in vitro studyc, in vivo studyc

figurec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000308

MHB: A figure is a graphical presentation of information created as a vehicle to share with an audience, e.g. in a publication or report. Figures may include raw and/or summarized/derived data, or diagrammatic abstractions of results, conclusions, or hypotheses. Figures often present data in a form that is summarized or abstracted for human consumption, using graphical conventions that may sacrifice detail of underlying data for ease or understanding.
has super-classes
information content entityc

functionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000034

has super-classes
dispositionc
is in domain of
function ofop
is in range of
has functionop

generically dependent continuantc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000031

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
continuantc
part ofop only generically dependent continuantc
has sub-classes
information content entityc
is disjoint with
independent continuantc, characteristicc

Groupc back to ToC or Class ToC

IRI: http://xmlns.com/foaf/0.1/Group

The Group class represents a collection of individual agents (and may itself play the role of a Agent, ie. something that can perform actions). This concept is intentionally quite broad, covering informal and ad-hoc groups, long-lived communities, organizational groups within a workplace, etc. Some such groups may have associated characteristics which could be captured in RDF (perhaps a homepage, name, mailing list etc.).
has super-classes
Agentc
has sub-classes
Organizationc

historyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000182

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

hypothesisc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000432

A hypothesis is another type of statement that, like an assertion, can be supported by evidence. It puts forward a possible fact as true, but does not express an agents belief in this fact. Rather, it is a possible fact whose truth will be explored via reasoning or experimentation.
has super-classes
statementc

in vitro studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000073

has super-classes
experimental model studyc

in vivo studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000074

has super-classes
experimental model studyc
has sub-classes
cell-based in vivo studyc, organism-based in vivo studyc, tissue-based in vivo studyc

independent continuantc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000004

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
continuantc
part ofop only independent continuantc
has sub-classes
anatomical entityc, material entityc
is in domain of
capable ofop, develops fromop, has dispositionop, has functionop, has roleop
is in range of
develops fromop
is disjoint with
characteristicc, generically dependent continuantc

information content entityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000030

ICEs are abstract entities that convey information about things in the world. ICEs represent the information encoded in physical artifacts such as photographs, books, or digital storage medium (as opposed to the physical medium itself). A particular ICE can be encoded simultaneously in many physical or digital mediums and formats. For example, only one instance of the first edition of "War and Peace" exists as an ICE, representing information conveyed in this work. But many instances of "War and Peace" exist at the level of their physical concretizations in printed books or digital devices.
has super-classes
generically dependent continuantc
is_aboutop some entityc
created_byop some Agentc
inverse concretizesop some information representationc
datedp exactly 1
has sub-classes
data itemc, data setc, databasec, directive information entityc, documentc, evidence itemc, evidence linec, figurec, statementc, tablec
is in domain of
has_confidence_levelop, has_confidence_scoredp, information_qualityop, is_aboutop
is in range of
describes_study_dataop, has_evidence_from_sourceop, sourceop

information representationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000120

Pier 'representational entity'
is equivalent to
concretizesop some information content entityc
has super-classes
characteristicc
concretizesop some information content entityc
has sub-classes
planc

interventional clinical studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000069

has super-classes
clinical studyc

investigationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000066

has super-classes
research activityc

journal articlec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000013

has super-classes
publicationc

kinase activityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/GO_0016301

Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.
has super-classes
molecular_functionc
is kinase activityop

literature-based studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000080

has super-classes
secondary research studyc

material entityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000040

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
independent continuantc
has sub-classes
Agentc, physical information carrierc
is in domain of
causal relation between material entity and a processop, directly negatively regulates activity ofop, directly positively regulates activity ofop, directly regulates activity ofop, interacts withop, regulates activity ofop
is in range of
directly negatively regulates activity ofop, directly positively regulates activity ofop, directly regulates activity ofop, interacts withop, realized in response to stimulusop, regulates activity ofop

measurement datumc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000121

has super-classes
data itemc

measurement datumc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000109

has super-classes
data itemc
has sub-classes
confidence levelc, evidence directionc, evidence qualityc, evidence strengthc

molecular_functionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/GO_0003674

Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.
has sub-classes
kinase activityc

objective specificationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000005

has super-classes
directive information entityc

observational clinical studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000070

has super-classes
clinical studyc
has sub-classes
case-control clinical studyc, patient phenotyping studyc, provider interpretationc

obsolescence reason specificationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000225

is equivalent to
{ failed exploratory term , placeholder removed , terms merged , term imported , term split , out of scope }
has super-classes
data about an ontology partc
has members
failed exploratory termni, out of scopeni, placeholder removedni, term importedni, term splitni, terms mergedni

obsolete software agentc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000157

has super-classes
obsolete classc

obsolete_automated assertion processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000056

Ultimately even automated assertions require a human agent to set a confidence threshhold that determines when a computational output (e.g. a sequence similarity p-value) justifies an assesrtion being made.
has super-classes
obsolete classc

obsolete_data tablec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000185

has super-classes
obsolete classc

obsolete_evidence datac back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000181

Instances of this class can include elemental 'data items' such as experimental measurements or derived statistical calculations or scores (e.g. a 548.5 mg/dl blood glucose level, or a 1.3951e-24 p-value), data sets containing several such values and possibly metadata about them, or tables/figures that render such data for human consumption. The notion of 'evidence data' is meant to be contrasted with the notion of an 'evidence statement', which is a statement used as evidence. (Statements here are logical sentences with truth value that are typically supported by interpretation of more fundamental data).
has super-classes
obsolete classc

obsolete_evidence statementc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000180

Evidence Statements can be 'findings' that summarize data and outcomes from a particular study, or evidence-based 'assertions' that make a broader claim, as inferred from the interpretation and evaluation of previously generated information.
has super-classes
obsolete classc

obsolete_manual assertion processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000055

has super-classes
obsolete classc

obsolete_methodc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000385

An information content entity that specifies instructions for how a particular objective can be achieved.
has super-classes
obsolete classc

obsolete_observationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000175

An observation reflects only what an agent observed or device recorded. It is therefore considered a matter of fact, rather than a propositional assertion that may or may not be true. This does not mean that the observations or recordings were necessarily accurate or correct - only that they were indeed made by an agent. For example, the observation that "I counted six ducks in the pond" is a matter of fact, even if there are actually seven because I missed one that was hiding in the reeds.
has super-classes
obsolete classc

obsolete_opinionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000401

Opinions are matters of subjective judgement or taste, and typically not able to be scientifically validated as objectively true based on empirical evidence. In this way, they are distinct from statements that have inherent truth value.
has super-classes
obsolete classc

obsolete_ratioc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/STATO_0000184

has super-classes
obsolete classc

obsolete_study groupc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000127

has super-classes
obsolete classc

occurrentc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000003

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
entityc
part ofop only occurrentc
has sub-classes
processc
is in domain of
causal relation between processesop, has participantop, preceded byop, precedesop, temporally related toop
is in range of
causal relation between processesop, participates inop, preceded byop, precedesop, temporally related toop
is disjoint with
continuantc

organism-based in vivo studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000078

has super-classes
in vivo studyc

Organizationc back to ToC or Class ToC

IRI: http://www.w3.org/ns/prov#Organization

has super-classes
Groupc

p-valuec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000175

has super-classes
statisticc

patentc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000313

has super-classes
documentc

patient case studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000143

has super-classes
primary research studyc

patient phenotyping studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000186

Source: ClinVar (" 'Phenotyping only' is intended for variants that are submitted to ClinVar to provide individual observations with detailed phenotype data, such as submissions from clinicians or patient registries, without an interpretation from the submitter. The interpretation from the testing laboratory may be provided in a separate field.") ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/release_notes/20170803_data_release_notes.pdf
has super-classes
observational clinical studyc

Personc back to ToC or Class ToC

IRI: http://www.w3.org/ns/prov#Person

has super-classes
Agentc

physical information carrierc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000122

is equivalent to
has characteristicop some concretizesop some information content entityc
has super-classes
material entityc
has characteristicop some concretizesop some information content entityc

planc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000260

has super-classes
realizablec
information representationc
concretizesop some plan specificationc
inverse realizesop only planned processc

plan specificationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000104

has super-classes
directive information entityc
has partop some action specificationc
has sub-classes
algorithmc, assertion methodc, protocolc
is in domain of
specified_creation_ofop
is in range of
was_specified_byop

planned processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/COB_0000082

has super-classes
processc
intended to realizeop some planc
realizesop some contributor rolec
has sub-classes
completely executed planned processc

primary research studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000066

has super-classes
research studyc
has sub-classes
clinical studyc, experimental model studyc, patient case studyc

processc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000015

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
occurrentc
part ofop only processc
has sub-classes
Activityc, historyc, planned processc
is in domain of
activity_datedp, has component processop, has inputop, has participantop, realizesop, realizesop, regulated byop, regulatesop, regulates characteristicop, start_datedp
is in range of
capable ofop, causal relation between material entity and a processop, has component processop, realized inop, realized in response toop, regulated byop, regulatesop

propositionc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000000

The notion of a proposition, and its relationship to an assertion, derives from the domain of logic and philosophy [12]. Propositions are abstract entities that, like numbers, are independent of space and time. They represent only the meaning that is expressed in a particular agent’s assertion, and are ‘sharable’ in that the same proposition can be expressed in many different assertions. Propositions are primary bearers of truth value, in that they are true or false. From http://plato.stanford.edu/entries/propositions/: "Propositions are the sharable objects of the attitudes and the primary bearers of truth and falsity. This stipulation rules out certain candidates for propositions, including thought- and utterance-tokens, which presumably are not sharable, and concrete events or facts, which presumably cannot be false."
has super-classes
entityc
has sub-classes
associationc
is in domain of
proposition_asserted_inop, strongly_contradictsop
is in range of
asserts_propositionop, strongly_contradictsop

protein localization assayc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0002165

has super-classes
assayc

protocolc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000272

has super-classes
plan specificationc

provenancec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000058

For scientific assertions/claims, this is the process history leading to the asseertion being made, including processes through which evidence is evaluated, and processes through which information used as evidence is created. The transitive nature of provenance means that the provenance history of informtion used as supporting data becomes provenance for an assertion that uses this information as evidence. Provenance metadata describes these processes, including accounts of who conducted these processes, what entities participated in them, and when/where they occurred.
has super-classes
historyc

provider interpretationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000258

Source: ClinVar (" 'Provider interpretation' is intended for variants that were interpreted by a clinical provider. For example, the clinician may reclassify the variant using detailed patient phenotype information that was unavailable to the testing laborator") ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/release_notes/20170803_data_release_notes.pdf
has super-classes
observational clinical studyc

publicationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000311

has super-classes
documentc
has sub-classes
journal articlec

qualityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000019

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
characteristicc
part ofop only qualityc
is in range of
has qualityop
is disjoint with
realizablec

qualityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/PATO_0000001

has super-classes
characteristicc
is in range of
regulates characteristicop

realizablec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000017

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
characteristicc
part ofop only realizablec
has sub-classes
dispositionc, planc, rolec
is in domain of
realized inop, realized in response toop, realized in response to stimulusop
is in range of
realizesop, realizesop
is disjoint with
qualityc

recommendationc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000431

Recommendations are another type of statement besides assertions that can be supported by evidence. They don't put forth a proposed facts as true, but instead describe a recommended action on the foundation of evidence that it will be beneficial.
has super-classes
statementc

recordc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_000383

'Record' here is broadly defined to include any document holding (typically) structured information about a particular entity. This can include individual records from a database or knowledgebase that hold information about the subject of the record. Specific examples include: - A single row of a table in a relational database. - A JSON or XML document holding information describing some entity. - A VCF File describing varaints in a patient, or a single row in this VCF file describinng a particular variant. - A Uniprot knowldgebase record describing the BRCA2 protein (http://www.uniprot.org/uniprot/P51587) - A ClinVar knwoledgebase record describing an assertion about the pathogenicity of the NM_000059.3(BRCA2):c.10G>T variant (https://www.ncbi.nlm.nih.gov/clinvar/variation/51063/) - An EHR record for a hospital patient.
has super-classes
documentc

reference population data studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000102

has super-classes
secondary research studyc

reportc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000088

has super-classes
documentc

research activityc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000004

Data generation process are typically experimental studies or observations, but can include any process generating information used to evaluate a claim. This is an organizational class that groups more specific types of such processes that are most commonly used in generating data used as evidence to support claims. These processes produce informational artifacts such as measured data values, derived statistical calculations and confidence measures, or statements representing summaries or conclusions drawn from such data.
has super-classes
completely executed planned processc
has outputop some information content entityc
has sub-classes
assayc, curationc, investigationc, research studyc

research studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000125

A research study is considered broadly to be any scientific activity aimed at answering a research question. Studies can be simple or complex, depending on the scope of the question being explored and the extent of resources deployed in doing so. They may include a full research investigation, a set of experiments, or a single experiment or assay. Regardless, that act of summarizing any results as a finding statement is considered part of the study.
has super-classes
research activityc
has sub-classes
primary research studyc, secondary research studyc

resource rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000049

In the context of evidence and provenance for scientific claims, resources are entities that are used by agents to facilitate processes aimed at the generation of assertions or the evidence and data that support them. Examples include instruments, reagents, model systems, software, and protocols.
has super-classes
rolec

rolec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000023

is defined by
http://purl.obolibrary.org/obo/bfo.owl
has super-classes
realizablec
has sub-classes
contributor rolec, evaluant rolec, evidence rolec, resource rolec
is in range of
has roleop
is disjoint with
dispositionc

secondary research studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000079

has super-classes
research studyc
has sub-classes
curation-based studyc, literature-based studyc, reference population data studyc

skos termsc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000340

has sub-classes
Conceptc

SoftwareAgentc back to ToC or Class ToC

IRI: http://www.w3.org/ns/prov#SoftwareAgent

Software agents are autonomous computer programs that carries out tasks. They designed to execute algorithm(s) that receive some input information and direct its processing to achieve a specified goal. Artificial intelligence is not required to be considered a software agent - only that it can autonomously execute programmed tasks.
has super-classes
Agentc
has partop some algorithmc

standard errorc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000235

has super-classes
statisticc

statementc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000174

From https://en.wikipedia.org/wiki/Statement_(logic) (2017-06-21): "A statement is a declarative sentence that bears truth value, in that it can be either true or false. This definition derives from the domain of logic, where a statement is either (a) a meaningful declarative sentence that is either true or false, or (b) that which a true or false declarative sentence asserts. In the latter case, a statement is distinct from a sentence in that a sentence is only one formulation of a statement, whereas there may be many other formulations expressing the same statement . . . In (this treatment), "statement" is introduced in order to distinguish a sentence from its informational content. A statement is regarded as the information content of an information-bearing sentence. Thus, a sentence is related to the statement it bears like a numeral to the number it refers to. Statements are abstract logical entities, while sentences are grammatical entities." ---- Note that the definition in (b) describes something closer to the notion of a 'Proposition' as defined in SEPIO?
has super-classes
information content entityc
authored_byop some Agentc
has sub-classes
assertionc, hypothesisc, recommendationc, study findingc

statisticc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/STATO_0000039

has super-classes
data itemc
has sub-classes
p-valuec, standard errorc, z-scorec

study data setc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000400

The data items comprising a study data set may include primary measurements, derived calculations, metadata about study participants and methods, or parameters of execution. A research study is considered broadly to be any scientific activity aimed at answering a research question. Studies can be simple or complex, depending on the scope of the question being explored and the extent of resources deployed in doing so. They may include a full research investigation, a set of experiments, or a single experiment or assay.
has super-classes
data setc

study findingc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000173

A study finding is a statement that summarizes the immediate results of a particular experiment or study. It describes only what was directly observed, measured, or calculated, and optionally the experimental context of these observations. It does not describe more general conclusions that may have been inferred from such results. As such, the scope of what a finding describes is limited to the direct participants in the study - i.e. it is about only the instances observed or measured in the study. It makes no broader inference or conclusion about types or classes to which these instances belong. This is not to say that the onserved findings are necessarily accurate or correct - only that they were indeed made in a particular study. For example, the finding that "Sequencing of DNA from patient X revealed an A->T mutation at position 2143 in gene Y" is a matter of fact - this was the outcome of the assay, even if the finding is an artifact of low sequencing coverage. Metadata about the finding (e.g. sequencing methods/reagents used, coverage or read depth) are recoded so users can judge for themselves whether the objectively reported finding accurtely reflects the biology it describes.
has super-classes
statementc
output ofop some research studyc
is in domain of
describes_study_dataop

tablec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000306

MHB: A figure depicting a tabular representation of data, typically created to highlight a particular aspect or view of a larger data set. They may include derived statistical measures summarizing the primary data. The concept described here represents a tables generated for purposes of documentation or publication of results, as opposed to database tables defined as structures for primary storage of source data in some information system.
has super-classes
information content entityc

tissue-based in vivo studyc back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000077

has super-classes
in vivo studyc

z-scorec back to ToC or Class ToC

IRI: http://purl.obolibrary.org/obo/STATO_0000104

has super-classes
statisticc

Object Properties

acts upstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002263

has super-properties
acts upstream of or withinop
has sub-properties
acts upstream of, negative effectop, acts upstream of, positive effectop, involved in regulation ofop
has sub-property chains
enablesop o causally upstream ofop

acts upstream of or withinop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002264

has super-properties
causal agent in processop
has sub-properties
acts upstream ofop, acts upstream of or within, negative effectop, acts upstream of or within, positive effectop, involved in or involved in regulation ofop
has sub-property chains
enablesop o causally upstream of or withinop

acts upstream of or within, negative effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004033

has super-properties
acts upstream of or withinop
has sub-properties
acts upstream of, negative effectop
has sub-property chains
enablesop o causally upstream of or within, negative effectop

acts upstream of or within, positive effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004032

has super-properties
acts upstream of or withinop
has sub-properties
acts upstream of, positive effectop
has sub-property chains
enablesop o causally upstream of or within, positive effectop

acts upstream of, negative effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004035

has super-properties
acts upstream ofop
acts upstream of or within, negative effectop
has sub-property chains
enablesop o causally upstream of, negative effectop

acts upstream of, positive effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004034

has super-properties
acts upstream ofop
acts upstream of or within, positive effectop
has sub-property chains
enablesop o causally upstream of, positive effectop

aligns_withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000116

has super-properties
has_compatabilityop
has sub-properties
is_consistent_withop, is_equilavent_toop

asserted_conclusionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000197

has domain
assertionc

assertion_has_objectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000027

Propositional statements can be represented in RDF as directional subject-predicate-object (S-P-O) triples. RDF reification vocabularies such as OBAN create named individuals in a graph that represent such S-P-O propositional statements. In OBAN, these are called 'associations', and the semantics of these associations can be represented using properties that link it to the subject, predicate, and object of the triple it represents. As a proposition-level entity, a particular association can be expressed in more than one assertion made by different agents, or at different times. The meaning of an assertion can be captured through its link to an association whose meaning is formally specified as described above (e.g. :assertion1 is_asserted_in :association1, :association1 has_object :thing1). The assertion_has_object property allows more direct specification of assertion meaning, bypassing an association and pointing directly to the object of the reified triple. In this sense, it is a shortcut relation over two more fundamental properties (is_asserted_in o association_has_object). This property is useful when a particular dataset wants to describe statements at the level of assertions rather than propositions, and formally describe assertion semantics without needed to represent an proposition-level association.
has super-properties
obsolete propertyop
has domain
assertionc
has sub-property chains
asserts_propositionop o assertion_has_objectop

assertion_has_predicateop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000028

Propositional statements can be represented in RDF as directional subject-predicate-object (S-P-O) triples. RDF reification vocabularies such as OBAN create named individuals in a graph that represent such S-P-O propositional statements. In OBAN, these are called 'associations', and the semantics of these associations can be represented using properties that link it to the subject, predicate, and object of the triple it represents. As a proposition-level entity, a particular association can be expressed in more than one assertion made by different agents, or at different times. The meaning of an assertion can be captured through its link to an association whose meaning is formally specified as described above (e.g. :assertion1 is_asserted_in :association1, :association1 has_predicate :thing1). The assertion_has_predicate property allows more direct specification of assertion meaning, bypassing an association and pointing directly to the predicate of the reified triple. In this sense, it is a shortcut relation over two more fundamental properties (is_asserted_in o association_has_predicate). This property is useful when a particular dataset wants to describe statements at the level of assertions rather than propositions, and formally describe assertion semantics without needed to represent an proposition-level association.
has super-properties
obsolete propertyop
has domain
assertionc
has sub-property chains
asserts_propositionop o association has predicateop

assertion_has_subjectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000026

Propositional statements can be represented in RDF as directional subject-predicate-object (S-P-O) triples. RDF reification vocabularies such as OBAN create named individuals in a graph that represent such S-P-O propositional statements. In OBAN, these are called 'associations', and the semantics of these associations can be represented using properties that link it to the subject, predicate, and object of the triple it represents. As a proposition-level entity, a particular association can be expressed in more than one assertion made by different agents, or at different times. The meaning of an assertion can be captured through its link to an association whose meaning is formally specified as described above (e.g. :assertion1 is_asserted_in :association1, :association1 has_subject :thing1). The assertion_has_subject property allows more direct specification of assertion meaning, bypassing an association and pointing directly to the subject of the reified triple. In this sense, it is a shortcut relation over two more fundamental properties (is_asserted_in o association_has_subject). This property is useful when a particular dataset wants to describe statements at the level of assertions rather than propositions, and formally describe assertion semantics without needed to represent an proposition-level association.
has super-properties
obsolete propertyop
has domain
assertionc
has sub-property chains
asserts_propositionop o association has subjectop

asserts_propositionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000030

In practice, SEPIO recommends that data is captured at the assertion level, and post-processed as needed to aggregate assertions making the same claim under a single proposition using this property.
has domain
assertionc
has range
propositionc
is inverse of
proposition_asserted_inop

association has objectop back to ToC or Object Property ToC

IRI: http://purl.org/oban/association_has_object

has super-properties
has_objectop
has domain
associationc

association has predicateop back to ToC or Object Property ToC

IRI: http://purl.org/oban/association_has_predicate

has super-properties
has_predicateop
has domain
associationc

association has subjectop back to ToC or Object Property ToC

IRI: http://purl.org/oban/association_has_subject

has super-properties
has_subjectop
has domain
associationc

Authored byop back to ToC or Object Property ToC

IRI: http://purl.org/pav/authoredBy

An agent that originated or gave existence to the work that is expressed by the digital resource. The author of the content of a resource may be different from the creator of the resource representation (although they are often the same). See pav:createdBy for a discussion. pav:authoredBy is more specific than its superproperty dct:creator - which might or might not be interpreted to also cover the creation of the representation of the artifact. The author is usually not a software agent (which would be indicated with pav:createdWith, pav:createdBy or pav:importedBy), unless the software actually authored the content itself; for instance an artificial intelligence algorithm which authored a piece of music or a machine learning algorithm that authored a classification of a tumor sample. The date of authoring can be expressed using pav:authoredOn - note however in the case of multiple authors that there is no relationship in PAV identifying which agent contributed when or what. If capturing such lineage is desired, it should be additionally expressed using PROV relationships like prov:qualifiedAttribution or prov:wasGeneratedBy.
has super-properties
obsolete propertyop

authored_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000130

In the case that the information artifact is an assertion, the responsible agent is the one who originally generated an assertion based on their evaluation of relevant evidence. If more than one agent is involved in this process, we may consider them collectively as a group or organization representing a single agent.
has super-properties
has_contributorop

capable ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002215

has super-properties
capable of part ofop
has sub-properties
enablesop
has domain
independent continuantc
has range
processc

capable of negatively regulatingop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002597

has super-properties
capable of regulatingop
has sub-property chains
capable ofop o negatively regulatesop

capable of part ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002216

has super-properties
functionally related toop
causal agent in processop
has sub-properties
capable ofop
has sub-property chains
capable ofop o part ofop

capable of positively regulatingop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002598

has super-properties
capable of regulatingop
has sub-property chains
capable ofop o positively regulatesop

capable of regulatingop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002596

has super-properties
causal agent in processop
has sub-properties
capable of negatively regulatingop, capable of positively regulatingop
has sub-property chains
capable ofop o regulatesop

causal agent in processop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002500

has super-properties
causal relation between material entity and a processop
has sub-properties
acts upstream of or withinop, capable of part ofop, capable of regulatingop, involved in or involved in regulation ofop
is inverse of
process has causal agentop

causal relation between entitiesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002506

has super-properties
causally related toop
has sub-properties
causally influenced byop, causally influencesop
has domain
continuantc
has range
continuantc

causal relation between material entity and a processop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002595

has super-properties
causally related toop
has sub-properties
causal agent in processop, has part structure that is capable ofop
has domain
material entityc
has range
processc

causal relation between processesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002501

has super-properties
causally related toop
has sub-properties
causally downstream of or withinop, causally upstream of or withinop
has domain
occurrentc
has range
occurrentc

causally downstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002404

has super-properties
preceded byop
causally downstream of or withinop
has sub-properties
immediately causally downstream ofop
is inverse of
causally upstream ofop

causally downstream of or withinop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002427

has characteristics : transitive

has super-properties
causal relation between processesop
has sub-properties
causally downstream ofop, regulated byop
is inverse of
causally upstream of or withinop

causally influenced byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002559

has super-properties
causal relation between entitiesop
is inverse of
causally influencesop

causally influencesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002566

has super-properties
causal relation between entitiesop
has sub-properties
regulates activity ofop
has domain
continuantc
has range
continuantc
is inverse of
causally influenced byop
has sub-property chains
enablesop o causally upstream ofop o has inputop
enablesop o causally upstream ofop o enabled byop

causally related toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002410

has sub-properties
causal relation between entitiesop, causal relation between material entity and a processop, causal relation between processesop, process has causal agentop, realized in response toop, realized in response to stimulusop, regulates characteristicop

causally upstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002411

has characteristics : transitive

has super-properties
precedesop
causally upstream of or withinop
has sub-properties
causally upstream of, negative effectop, causally upstream of, positive effectop, immediately causally upstream ofop, indirectly causally upstream ofop, regulatesop
is inverse of
causally downstream ofop

causally upstream of or withinop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002418

has characteristics : transitive

has super-properties
causal relation between processesop
has sub-properties
causally upstream ofop, causally upstream of or within, negative effectop, causally upstream of or within, positive effectop
is inverse of
causally downstream of or withinop

causally upstream of or within, negative effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004046

has super-properties
causally upstream of or withinop
has sub-properties
causally upstream of, negative effectop

causally upstream of or within, positive effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004047

has super-properties
causally upstream of or withinop
has sub-properties
causally upstream of, positive effectop

causally upstream of, negative effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002305

has super-properties
causally upstream ofop
causally upstream of or within, negative effectop
has sub-properties
negatively regulatesop

causally upstream of, positive effectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002304

holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y
has super-properties
causally upstream ofop
causally upstream of or within, positive effectop
has sub-properties
positively regulatesop

characteristic ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000052

Note that this relation was previously called "inheres in", but was changed to be called "characteristic of" because BFO2 uses "inheres in" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing.

has characteristics : functional

has super-properties
characteristic of part ofop
has sub-properties
disposition ofop, function ofop, quality ofop, role ofop
is inverse of
has characteristicop

characteristic of part ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002314

has super-properties
depends onop
has sub-properties
characteristic ofop
has sub-property chains
characteristic ofop o part ofop
characteristic of part ofop o part ofop

concretizesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/COB_0000078

is inverse of
is concretized asop

conflicts_withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000115

has super-properties
has_compatabilityop
has sub-properties
contradictsop, strongly_contradictsop

contradictsop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000101

has super-properties
conflicts_withop

contributes_toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000188

A relation between an agent and an entity toward which the agent made a contribution.
is inverse of
has_contributorop

Created byop back to ToC or Object Property ToC

IRI: http://purl.org/pav/createdBy

An agent primary responsible for making the digital artifact or resource representation. This property is distinct from forming the content, which is indicated with pav:contributedBy or its subproperties; pav:authoredBy, which identifies who authored the knowledge expressed by this resource; and pav:curatedBy, which identifies who curated the knowledge into its current form. pav:createdBy is more specific than its superproperty dct:creator - which might or might not be interpreted to cover this creator. For instance, the author wrote 'this species has bigger wings than normal' in his log book. The curator, going through the log book and identifying important knowledge, formalizes this as 'locus perculus has wingspan > 0.5m'. The creator enters this knowledge as a digital resource in the knowledge system, thus creating the digital artifact (say as JSON, RDF, XML or HTML). A different example is a news article. pav:authoredBy indicates the journalist who wrote the article. pav:contributedBy can indicate the artist who added an illustration. pav:curatedBy can indicate the editor who made the article conform to the news paper's style. pav:createdBy can indicate who put the article on the web site. The software tool used by the creator to make the digital resource (say Protege, Wordpress or OpenOffice) can be indicated with pav:createdWith. The date the digital resource was created can be indicated with pav:createdOn. The location the agent was at when creating the digital resource can be made using pav:createdAt.
has super-properties
obsolete propertyop
has sub-property chains
output ofop o has_agentop

created_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000387

With respect to information resources, this property is used to capture a creator of a particular representation/manifestation of the information content - e.g. as a web resource or digital artifact. To describe the creator of the information content carried by such a digital artifact or resource, us the 'authored_by' property.
has super-properties
has_contributorop

Curated byop back to ToC or Object Property ToC

IRI: http://purl.org/pav/curatedBy

has super-properties
obsolete propertyop

depends onop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002502

has sub-properties
characteristic of part ofop

Derived fromop back to ToC or Object Property ToC

IRI: http://purl.org/pav/derivedFrom

Derived from a different resource. Derivation conserns itself with derived knowledge. If this resource has the same content as the other resource, but has simply been transcribed to fit a different model (like XML -> RDF or SQL -> CVS), use pav:importedFrom. If a resource was simply retrieved, use pav:retrievedFrom. If the content has however been further refined or modified, pav:derivedFrom should be used. Details about who performed the derivation (e.g. who did the refining or modifications) may be indicated with pav:contributedBy and its subproperties.
has super-properties
sourceop

describes_study_dataop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000257

has super-properties
is_aboutop
has domain
study findingc
has range
information content entityc

developmentally contributes toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002255

has super-properties
developmentally succeeded byop
has potential to developmentally contribute toop
is inverse of
has developmental contribution fromop
has sub-property chains
develops intoop o part ofop

developmentally preceded byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002258

This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from
has super-properties
developmentally related toop
has sub-properties
develops fromop, has developmental contribution fromop
has domain
continuantc
has range
continuantc
is inverse of
developmentally succeeded byop

developmentally related toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002324

has sub-properties
developmentally preceded byop, has developmental potential involvingop

developmentally succeeded byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002286

has super-properties
has developmental potential involvingop
has sub-properties
developmentally contributes toop, develops intoop
is inverse of
developmentally preceded byop

develops fromop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002202

This is the transitive form of the develops from relation

has characteristics : transitive

has super-properties
developmentally preceded byop
has domain
independent continuantc
has range
independent continuantc
is inverse of
develops intoop

develops intoop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002203

has characteristics : transitive

has super-properties
developmentally succeeded byop
has potential to develop intoop
has potential to directly develop intoop
is inverse of
develops fromop

device utilizes materialop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0017001

has sub-property chains
capable ofop o has inputop

directly negatively regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002023

has super-properties
directly regulated byop
is inverse of
directly negatively regulatesop

directly negatively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002630

has super-properties
negatively regulatesop
directly regulatesop
is inverse of
directly negatively regulated byop

directly negatively regulates activity ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002449

has super-properties
directly regulates activity ofop
has domain
material entityc
has range
material entityc
has sub-property chains
enablesop o directly negatively regulatesop o enabled byop

directly positively regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002024

has super-properties
directly regulated byop
is inverse of
directly positively regulatesop

directly positively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002629

has super-properties
positively regulatesop
directly regulatesop
is inverse of
directly positively regulated byop

directly positively regulates activity ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002450

has super-properties
directly regulates activity ofop
has domain
material entityc
has range
material entityc
has sub-property chains
enablesop o directly positively regulatesop o enabled byop

directly regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002022

Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2.
has super-properties
regulated byop
has sub-properties
directly negatively regulated byop, directly positively regulated byop
is inverse of
directly regulatesop

directly regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002578

has super-properties
regulatesop
immediately causally upstream ofop
has sub-properties
directly negatively regulatesop, directly positively regulatesop
is inverse of
directly regulated byop

directly regulates activity ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002448

has super-properties
molecularly interacts withop
regulates activity ofop
has sub-properties
directly negatively regulates activity ofop, directly positively regulates activity ofop
has domain
material entityc
has range
material entityc
has sub-property chains
enablesop o regulatesop o enabled byop

disposition ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000092

This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020.
has super-properties
characteristic ofop
is inverse of
has dispositionop

enabled byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002333

has super-properties
has participantop
functionally related toop
is inverse of
enablesop

enablesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002327

has super-properties
capable ofop
is inverse of
enabled byop
has sub-property chains
enablesop o has partop
enablesop o has component activityop

enables subfunctionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004031

has super-properties
functionally related toop
has sub-property chains
enablesop o has partop

ends afterop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002086

X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)

has characteristics : transitive

has super-properties
temporally related toop
has sub-properties
preceded byop

evaluated_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000140

has super-properties
has_contributorop

evidence_directionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000183

has domain
evidence linec
has range
evidence directionc

evidence_has_supporting_activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000085

has super-properties
is evidence with support fromop
has domain
evidence linec
has range
Activityc
has sub-property chains
has_evidence_itemop o output ofop

evidence_has_supporting_referenceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000124

has super-properties
is evidence with support fromop
has domain
evidence linec
has range
documentc

evidence_item_forop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000376

has domain
evidence itemc
has range
evidence linec
is inverse of
has_evidence_itemop

evidence_line_strengthop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000132

has domain
evidence linec
has range
evidence strengthc

executed byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/COB_0000016

is inverse of
executesop

executesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/STATO_0000102

is inverse of
executed byop
has sub-property chains
realizesop o concretizesop

ExploratoryObjectPropertyop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000406

has sub-properties
has_compatabilityop, measures_parameterop

expressesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000109

has domain
documentc
has range
propositionc or assertionc
is inverse of
is_expressed_inop

function ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000079

This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020.
has super-properties
characteristic ofop
has domain
functionc
is inverse of
has functionop

functionally related toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002328

has sub-properties
capable of part ofop, enabled byop, enables subfunctionop, has part structure that is capable ofop, input ofop, involved in or involved in regulation ofop, output ofop, part of structure that is capable ofop

has characteristicop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000053

has characteristics : inverse functional

has sub-properties
has dispositionop, has functionop, has qualityop, has roleop
has range
characteristicc
is inverse of
characteristic ofop

has componentop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002180

has super-properties
has partop
has sub-properties
has component processop

has component activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002017

A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B.
has super-properties
has component processop
has sub-properties
has effector activityop, has regulatory component activityop

has component processop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002018

has super-properties
has componentop
has sub-properties
has component activityop
has domain
processc
has range
processc

has developmental contribution fromop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002254

has super-properties
developmentally preceded byop
has domain
anatomical entityc
has range
anatomical entityc
is inverse of
developmentally contributes toop
has sub-property chains
has partop o develops fromop

has developmental potential involvingop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002384

has super-properties
developmentally related toop
has sub-properties
developmentally succeeded byop, has potential to develop intoop, has potential to developmentally contribute toop
has domain
anatomical entityc
has range
anatomical entityc

has dispositionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000091

has super-properties
has characteristicop
has domain
independent continuantc
has range
dispositionc
is inverse of
disposition ofop

has effector activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002025

This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations.

has characteristics : functional

has super-properties
has component activityop

has functionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000085

has super-properties
has characteristicop
has domain
independent continuantc
has range
functionc
is inverse of
function ofop

has inputop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002233

has super-properties
has participantop
has domain
processc
is inverse of
input ofop

has memberop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002351

has characteristics : irreflexive

has super-properties
has partop
is inverse of
member ofop

has negative regulatory component activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002014

By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'.
has super-properties
has regulatory component activityop
negatively regulated byop

has outputop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002234

has super-properties
has participantop
is inverse of
output ofop

has partop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000051

has characteristics : transitive

has super-properties
overlapsop
has sub-properties
has componentop, has memberop
is inverse of
part ofop

has part structure that is capable ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002584

has super-properties
functionally related toop
causal relation between material entity and a processop
has sub-property chains
has partop o capable ofop

has participantop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000057

has sub-properties
enabled byop, has inputop, has outputop, has specified inputop, has specified outputop, has_agentop
has domain
occurrentc
processc
has range
continuantc
is inverse of
participates inop
has sub-property chains
has partop o realizesop o characteristic ofop
has partop o has participantop

has positive regulatory component activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002015

By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'.
has super-properties
has regulatory component activityop
positively regulated byop

has potential to develop intoop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002387

has super-properties
has developmental potential involvingop
has sub-properties
develops intoop, has potential to directly develop intoop

has potential to developmentally contribute toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002385

has super-properties
has developmental potential involvingop
has sub-properties
developmentally contributes toop

has potential to directly develop intoop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002388

has super-properties
has potential to develop intoop
has sub-properties
develops intoop

has qualityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000086

has super-properties
has characteristicop
has range
qualityc
is inverse of
quality ofop

has regulatory component activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002013

has super-properties
has component activityop
regulated byop
has sub-properties
has negative regulatory component activityop, has positive regulatory component activityop

has roleop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000087

has super-properties
has characteristicop
has domain
independent continuantc
has range
rolec
is inverse of
role ofop

has specified inputop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000293

has super-properties
has participantop
has domain
completely executed planned processc
is inverse of
is specified input ofop

has specified outputop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000299

has super-properties
has participantop
has domain
completely executed planned processc
is inverse of
is specified output ofop

has_agentop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000017

has super-properties
has participantop
has range
Agentc

has_compatabilityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000113

has super-properties
ExploratoryObjectPropertyop
has sub-properties
aligns_withop, conflicts_withop, is_inconsistent_withop

has_confidence_levelop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000167

Confidence in an information entity can mean different things for different types of information. For example, for assertions this reflects the confidence an agent has that the proposition it puts forth is true. For things like data items, it reflects the confidence an agent has that the data accurately reflects the aspect of reality its was intended to measure.
has domain
information content entityc
has range
confidence levelc

has_contributorop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000150

has sub-properties
authored_byop, created_byop, evaluated_byop, validated_byop
has range
Agentc
is inverse of
contributes_toop

has_disputing_evidenceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000441

has super-properties
has_evidenceop

has_disputing_evidence_from_sourceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000439

has super-properties
has_evidence_from_sourceop

has_disputing_evidence_lineop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000008

has super-properties
has_evidence_lineop
has sub-property chains
strongly_contradictsop o has_supporting_evidence_lineop

has_evidenceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000189

This relation can be used to link an assertion directly to evidence items that support it. Evidence items are typically organized into 'evidence lines' that group them according to the argument(s) to which they contribute. This shortcut relation supports use cases where it is desirable to elide over this level of organization and create direct links from an assertion to the fundamental pieces of information that represent evidence supporting it. A property chain (has_evidence_line o has_evidence_item -> has_evidence_with_item) is defined that can be used to infer this direct edge, facilitating interoperability between data sets that do and don't implement evidence lines to organize evidence items.
has sub-properties
has_disputing_evidenceop, has_supporting_evidenceop
has domain
propositionc or assertionc
has range
evidence itemc
has sub-property chains
has_evidence_lineop o has_evidence_itemop

has_evidence_from_sourceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000145

This is a shortcut relation to be used when publications are referenced as providing support for an assertion, but it is not clear how many evidence lines are described across these publications. In such cases, discrete evidence lines cannot be created, and the has_evidence_from_source relation is used to directly link the assertion to publications providing some form of evidence information.
has sub-properties
has_disputing_evidence_from_sourceop, has_supporting_evidence_from_sourceop
has domain
propositionc or assertionc
has range
information content entityc
has sub-property chains
has_evidence_lineop o has_evidence_itemop o is_described_byop
has_evidence_lineop o has_evidence_itemop o sourceop

has_evidence_itemop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000084

has super-properties
is evidence with support fromop
has domain
evidence linec
has range
evidence itemc
is inverse of
evidence_item_forop
has sub-property chains
has_evidence_itemop o describes_study_dataop

has_evidence_levelop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000146

This relation links an assertion or proposition directly to some indicator of the strength of the total evidence supporting it. It is used when there is not enough information to create evidence line(s) for the assertion, but the source provides some indication of the strength of the evidence supporting it. Note that this is different than the notion of statement confidence, which describes how confident an agent is that a statement is true. Confidence may depend on factors in addition to the strength of the evidence (e.g. who made the prior probability that the asserted proposition could be true, who made the assertion and when, etc.)
has domain
propositionc or assertionc
has range
evidence strengthc

has_evidence_lineop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000006

has sub-properties
has_disputing_evidence_lineop, has_inconclusive_evidence_lineop, has_supporting_evidence_lineop
has domain
propositionc or assertionc
has range
evidence linec
is inverse of
is_evidence_line_forop

has_evidence_of_typeop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000398

Relation expands to has_evidence_line o rdf:type -> has_evidence_type

has_inconclusive_evidence_lineop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000009

A relation between a proposition and information that does not conclusively support or contradict its validity, based on evaluation of some agent.
has super-properties
has_evidence_lineop
has sub-property chains
is_equilavent_toop o has_inconclusive_evidence_lineop

has_objectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000390

has super-properties
is_aboutop
has sub-properties
association has objectop

has_predicateop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000389

has super-properties
is_aboutop
has sub-properties
association has predicateop

has_qualifierop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000144

has super-properties
is_aboutop
has domain
propositionc or statementc

has_roleop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000046

has_subjectop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000388

has super-properties
is_aboutop
has sub-properties
association has subjectop

has_supporting_evidenceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000440

has super-properties
has_evidenceop

has_supporting_evidence_from_sourceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000438

has super-properties
has_evidence_from_sourceop

has_supporting_evidence_lineop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000007

has super-properties
has_evidence_lineop
has sub-property chains
is_equilavent_toop o has_supporting_evidence_lineop

helper property (not for use in curation)op back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002464

has sub-properties
interaction relation helper propertyop

immediately causally downstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002405

has super-properties
immediately preceded byop
causally downstream ofop
is inverse of
immediately causally upstream ofop

immediately causally upstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002412

has super-properties
immediately precedesop
causally upstream ofop
has sub-properties
directly regulatesop
is inverse of
immediately causally downstream ofop

immediately preceded byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002087

X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)
has super-properties
preceded byop
has sub-properties
immediately causally downstream ofop
is inverse of
immediately precedesop

immediately precedesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002090

X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)
has super-properties
precedesop
has sub-properties
immediately causally upstream ofop
is inverse of
immediately preceded byop

Imported fromop back to ToC or Object Property ToC

IRI: http://purl.org/pav/importedFrom

has super-properties
sourceop

indirectly causally upstream ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0012011

has super-properties
causally upstream ofop
has sub-properties
indirectly regulatesop

indirectly negatively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002409

has characteristics : transitive

has super-properties
negatively regulatesop
indirectly regulatesop
has sub-property chains
indirectly negatively regulatesop o directly negatively regulatesop
directly negatively regulatesop o indirectly negatively regulatesop
directly negatively regulatesop o directly negatively regulatesop

indirectly positively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002407

has characteristics : transitive

has super-properties
positively regulatesop
indirectly regulatesop
has sub-property chains
indirectly positively regulatesop o directly positively regulatesop
indirectly negatively regulatesop o indirectly negatively regulatesop
directly positively regulatesop o indirectly positively regulatesop
directly positively regulatesop o directly positively regulatesop

indirectly regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0012012

has super-properties
regulatesop
indirectly causally upstream ofop
has sub-properties
indirectly negatively regulatesop, indirectly positively regulatesop

information_qualityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000415

has domain
information content entityc

input ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002352

has super-properties
participates inop
functionally related toop
is inverse of
has inputop

intended to realizeop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/COB_0000081

interaction relation helper propertyop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002563

has super-properties
helper property (not for use in curation)op
has sub-properties
molecular interaction relation helper propertyop

interacts withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002434

has characteristics : symmetric

has sub-properties
molecularly interacts withop
has domain
material entityc
has range
material entityc

involved inop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002331

has super-properties
participates inop
involved in or involved in regulation ofop
has sub-property chains
enablesop o part ofop
involved inop o part ofop

involved in negative regulation ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002430

has super-properties
involved in regulation ofop
has sub-property chains
enablesop o negatively regulatesop
involved inop o negatively regulatesop

involved in or involved in regulation ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002431

has super-properties
acts upstream of or withinop
functionally related toop
causal agent in processop
has sub-properties
involved inop, involved in regulation ofop

involved in positive regulation ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002429

has super-properties
involved in regulation ofop
has sub-property chains
enablesop o positively regulatesop
involved inop o positively regulatesop

involved in regulation ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002428

has super-properties
acts upstream ofop
involved in or involved in regulation ofop
has sub-properties
involved in negative regulation ofop, involved in positive regulation ofop
has sub-property chains
enablesop o regulatesop
involved inop o regulatesop

is concretized asop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000058

is inverse of
concretizesop

is evidence with support fromop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002614

In the Gene Ontology association model, this corresponds to the With/From field
has super-properties
related via evidence or inference toop
has sub-properties
evidence_has_supporting_activityop, evidence_has_supporting_referenceop, has_evidence_itemop
has domain
evidence linec

is kinase activityop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002481

has super-properties
molecular interaction relation helper propertyop

is specified input ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000295

has super-properties
participates inop
is inverse of
has specified inputop

is specified output ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/OBI_0000312

has super-properties
participates inop
is inverse of
has specified outputop

is_aboutop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000136

has sub-properties
describes_study_dataop, has_objectop, has_predicateop, has_qualifierop, has_subjectop
has domain
information content entityc

is_consistent_withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000099

has characteristics : symmetric

has super-properties
aligns_withop

is_described_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000178

is_equilavent_toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000098

has characteristics : symmetric

has super-properties
aligns_withop

is_evidence_line_forop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000427

is inverse of
has_evidence_lineop

is_expressed_inop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000108

has domain
propositionc or statementc
has range
documentc
is inverse of
expressesop

is_inconsistent_withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000126

has super-properties
has_compatabilityop

measures_parameterop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000114

has super-properties
ExploratoryObjectPropertyop

member ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002350

has super-properties
part ofop
is inverse of
has memberop

mereotopologically related toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002323

has sub-properties
overlapsop

molecular interaction relation helper propertyop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002564

has super-properties
interaction relation helper propertyop
has sub-properties
is kinase activityop

molecularly interacts withop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002436

has characteristics : symmetric

has super-properties
interacts withop
has sub-properties
directly regulates activity ofop, phosphorylatesop

negatively regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002335

has super-properties
regulated byop
has sub-properties
has negative regulatory component activityop
is inverse of
negatively regulatesop

negatively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002212

has super-properties
regulatesop
causally upstream of, negative effectop
has sub-properties
directly negatively regulatesop, indirectly negatively regulatesop
is inverse of
negatively regulated byop

negatively regulates characteristicop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0019002

has super-properties
regulates characteristicop
has sub-property chains
negatively regulatesop o positively regulates characteristicop
positively regulatesop o negatively regulates characteristicop

obsolete_evidence_assessed_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000152

has super-properties
obsolete propertyop

obsolete_has_quantifierop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000232

has super-properties
obsolete propertyop

output ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002353

has super-properties
participates inop
functionally related toop
is inverse of
has outputop

overlapsop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002131

has characteristics : symmetric

has super-properties
mereotopologically related toop
has sub-properties
has partop, part ofop
has sub-property chains
part ofop o part ofop
has partop o part ofop
has partop o overlapsop
overlapsop o part ofop

part ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000050

has characteristics : transitive

has super-properties
overlapsop
has sub-properties
member ofop
is inverse of
has partop

part of structure that is capable ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002329

has super-properties
functionally related toop
has sub-property chains
part ofop o capable ofop

participates inop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000056

has sub-properties
input ofop, involved inop, is specified input ofop, is specified output ofop, output ofop
has domain
continuantc
has range
occurrentc
is inverse of
has participantop

performed_forop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000169

has domain
contributionc
has range
Agentc

phosphorylatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002447

has super-properties
molecularly interacts withop

positively regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002336

has super-properties
regulated byop
has sub-properties
has positive regulatory component activityop
is inverse of
positively regulatesop

positively regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002213

has characteristics : transitive

has super-properties
regulatesop
causally upstream of, positive effectop
has sub-properties
directly positively regulatesop, indirectly positively regulatesop
is inverse of
positively regulated byop
has sub-property chains
negatively regulatesop o negatively regulatesop

positively regulates characteristicop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0019001

has super-properties
regulates characteristicop
has sub-property chains
positively regulatesop o positively regulates characteristicop

preceded byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000062

has characteristics : transitive

has super-properties
ends afterop
has sub-properties
causally downstream ofop, immediately preceded byop
has domain
occurrentc
has range
occurrentc
is inverse of
precedesop
has sub-property chains
part ofop o preceded byop

precedesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000063

has characteristics : transitive

has super-properties
temporally related toop
has sub-properties
causally upstream ofop, immediately precedesop
has domain
occurrentc
has range
occurrentc
is inverse of
preceded byop
has sub-property chains
part ofop o precedesop

process has causal agentop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002608

has super-properties
causally related toop
is inverse of
causal agent in processop

proposition_asserted_inop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000015

A particular proposition can be asserted in more than one assertion - in cases where assertions made by different agents, or on different occasions, put forth the same proposition as true.
has domain
propositionc
has range
assertionc
is inverse of
asserts_propositionop

provided_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000437

Note that this property connects a resource to an agent, not to some other information resource from which it came (e.g. another database or an API from which the resource in question was obtained). Use the 'source' property to capture this type of relationship.

qualified_contributionop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000159

Analogous to PROV qualified Attribution - use to capture additional information about the contribution made by an agent, such as a role they played, or organization on behalf of which the contribution was made.
has range
contributionc

quality ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000080

This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020.
has super-properties
characteristic ofop
is inverse of
has qualityop

realized inop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000054

is defined by
http://purl.obolibrary.org/obo/bfo.owl
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
has domain
realizablec
has range
processc
is inverse of
realizesop, realizesop

realized in response toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0009501

has super-properties
causally related toop
has domain
realizablec
has range
processc
has sub-property chains
realized inop o causally downstream ofop

realized in response to stimulusop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004028

has super-properties
causally related toop
has domain
realizablec
has range
material entityc
has sub-property chains
realized in response toop o has inputop

realizesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000055

is defined by
http://purl.obolibrary.org/obo/iao.owl
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
has super-properties
top object property
has domain
processc
has range
realizablec
characteristicc
is inverse of
realized inop

realizesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/COB_0000087

has domain
processc
has range
realizablec
is inverse of
realized inop

referenceop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000442

regulated byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002334

has characteristics : transitive

has super-properties
causally downstream of or withinop
has sub-properties
directly regulated byop, has regulatory component activityop, negatively regulated byop, positively regulated byop
has domain
processc
has range
processc
is inverse of
regulatesop

regulatesop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002211

has characteristics : transitive

has super-properties
causally upstream ofop
has sub-properties
directly regulatesop, indirectly regulatesop, negatively regulatesop, positively regulatesop
has domain
processc
has range
processc
is inverse of
regulated byop
has sub-property chains
regulatesop o has effector activityop
directly regulatesop o directly regulatesop

regulates activity ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0011002

has super-properties
causally influencesop
has sub-properties
directly regulates activity ofop
has domain
material entityc
has range
material entityc

regulates characteristicop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0019000

has super-properties
causally related toop
has sub-properties
negatively regulates characteristicop, positively regulates characteristicop
has domain
processc
has range
qualityc
has sub-property chains
regulatesop o regulates characteristicop

related via evidence or inference toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002616

has sub-properties
is evidence with support fromop

Retrieved fromop back to ToC or Object Property ToC

IRI: http://purl.org/pav/retrievedFrom

The URI where a resource has been retrieved from. The retrieving agent is usually a software entity, which has done the retrieval from the original source without performing any transcription. Retrieval indicates that this resource has the same representation as the original resource. If the resource has been somewhat transformed, use pav:importedFrom instead. The time of the retrieval should be indicated using pav:retrievedOn. The agent may be indicated with pav:retrievedBy.
has super-properties
sourceop

role ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0000081

This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020.
has super-properties
characteristic ofop
is inverse of
has roleop

Source accessed atop back to ToC or Object Property ToC

IRI: http://purl.org/pav/sourceAccessedAt

The resource is related to a given source which was accessed or consulted (but not retrieved, imported or derived from). This access can be detailed with pav:sourceAccessedBy and pav:sourceAccessedOn. For instance, a curator (pav:curatedBy) might have consulted figures in a published paper to confirm that a dataset was correctly pav:importedFrom the paper's supplementary CSV file. Another example: I can access the page for tomorrow weather in Boston (http://www.weather.com/weather/tomorrow/Boston+MA+02143) and I can blog ‘tomorrow is going to be nice’. The source does not make any claims about the nice weather, that is my interpretation; therefore the blog post has pav:sourceAccessedAt the weather page.
has super-properties
obsolete propertyop

specified_creation_ofop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000407

has domain
plan specificationc
is inverse of
was_specified_byop

strongly_contradictsop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000100

Relation between two propositions that make opposing claims (e.g. proposition1 holds that variant1 is pathogenic for disease1, and proposition2 holds that variant1 is benign for disease1).

has characteristics : symmetric

has super-properties
conflicts_withop
has domain
propositionc
has range
propositionc

temporally related toop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002222

A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations.
has sub-properties
ends afterop, precedesop
has domain
occurrentc
has range
occurrentc

validated_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000151

has super-properties
has_contributorop

was_specified_byop back to ToC or Object Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000041

In SEPIO, this property is most often used to link an assertion (the generated artifact) to an 'assertion method' that may specified how it was created. This assertion method may describe what types of data may be used as evidence, what weight to give a particular type of evidence, and how to combine different lines of evidence in generating the final assertion.
has range
plan specificationc
is inverse of
specified_creation_ofop

Data Properties

activity_datedp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000160

has sub-properties
end_datedp, start_datedp
has domain
processc
has range
date time

activity_locationdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000433

datedp back to ToC or Data Property ToC

IRI: http://purl.org/dc/terms/date

has sub-properties
date_authoreddp, date_createddp, date_evaluateddp, date_modifieddp, date_submitteddp, date_updateddp, date_validateddp
has domain
continuantc
has range
date time

date_authoreddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000135

has super-properties
datedp

date_createddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000436

has super-properties
datedp

date_created_afterdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000384

has super-properties
ExploratoryDataPropertydp

date_created_beforedp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000105

has super-properties
ExploratoryDataPropertydp

date_evaluateddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000040

Evaluating an artifact does not involve its modification - however the suggestion of alterations can be a separate outcome of an evaluation. If the artifact is modified by the agent during or subsequent to the evaluation, this date can be captured using the date_modified property.
has super-properties
datedp
has domain
continuantc

date_modifieddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000036

Examples of modification include adding or removing content to/from a document, updating information in a data record, fixing errors in a manuscript, etc. The important thing is that the modification retains the identity of the artifact.
has super-properties
datedp
has domain
continuantc

date_submitteddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000051

has super-properties
datedp
has domain
continuantc

date_updateddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000164

has super-properties
datedp

date_validateddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000165

has super-properties
datedp
has domain
assertionc

digital object identifier (doi)dp back to ToC or Data Property ToC

IRI: http://purl.org/ontology/bibo/doi

has super-properties
identifierdp

end_datedp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000161

has super-properties
activity_datedp

evidence_line_strength_scoredp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000429

has domain
evidence linec

ExploratoryDataPropertydp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000434

has sub-properties
date_created_afterdp, date_created_beforedp

has_confidence_scoredp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000168

The 'confidence score' property does not only include statistical measures such as p-values that explicitly indicate a level of confidence. It also includes any quantitative score against which a threshold for making an assertion is defined - where the distance of this score from this threshold can be interpreted as an indicator of how much confidence we might have that the asserted conclusion is true. For example, many silico prediction tools such as SIFT interrogate biological sequence data to calculate a score that reflects the likelihood that a particular sequence variant negatively impacts gene product function. A variant is interpreted to be 'Tolerated', 'Damaging', or 'Deleterious' based on how its score compares against pre-defined thresholds. Here, we may have less confidence that a variant with a score just above the 'Damaging' threshold is truly damaging, versus a variant whose score is well above the threshold.
has sub-properties
probabilistic quantifierdp
has domain
information content entityc

has_textual_partdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000123

Relation between a report and a string of text that it contains

has_urldp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/ERO_0000480

has_valuedp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/STATO_0000129

identifierdp back to ToC or Data Property ToC

IRI: http://purl.org/dc/terms/identifier

has sub-properties
digital object identifier (doi)dp

namedp back to ToC or Data Property ToC

IRI: http://xmlns.com/foaf/0.1/name

obsolete_date_createddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000021

obsolete_date_curateddp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000162

ObsoleteDataPropertydp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000435

probabilistic quantifierdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000419

has super-properties
has_confidence_scoredp

start_datedp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000063

has super-properties
activity_datedp
has domain
processc

statement qualifierdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000346

Most commonly used with a "NOT" value to negate a statement - i.e. indicate that the claim implied by its strucuted representation is not true. For example, the negation qualifier on the following OBAN-style association would make the claim that BRCA2 is NOT linked to the phenotype 'abnormal lymphocyte count': <:assertion1> a OBAN:association; OBAN:association_has_object HP_0040088 (abnormal lymphocyte count); OBAN:association_has_predicate RO:0002200 (has_phenotype); OBAN:association_has_subject HGNC:1101 (BRCA2); SEPIO:0000346(quallifier) "NOT".

statement quantifierdp back to ToC or Data Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000231

versiondp back to ToC or Data Property ToC

IRI: http://purl.org/pav/version

The version number of a resource. This is a freetext string, typical values are "1.5" or "21". The URI identifying the previous version can be provided using prov:previousVersion. This property is normally used in a functional way, although PAV does not formally restrict this.

Named Individuals

defined classni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000420

belongs to
denotator typec

disputingni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000404

belongs to
evidence directionc

example to be eventually removedni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000002

belongs to
curation status specificationc

failed exploratory termni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000103

belongs to
obsolescence reason specificationc

inconclusiveni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000405

belongs to
evidence directionc

metadata completeni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000120

belongs to
curation status specificationc

metadata incompleteni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000123

belongs to
curation status specificationc

named class expressionni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000421

belongs to
denotator typec

organizational termni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000121

belongs to
curation status specificationc

out of scopeni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/OMO_0001000

belongs to
obsolescence reason specificationc

pending final vettingni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000125

belongs to
curation status specificationc

placeholder removedni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000226

belongs to
obsolescence reason specificationc

ready for releaseni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000122

belongs to
curation status specificationc

requires discussionni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000428

belongs to
curation status specificationc

supportingni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000403

belongs to
evidence directionc

term importedni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000228

belongs to
obsolescence reason specificationc

term splitni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000229

belongs to
obsolescence reason specificationc

terms mergedni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000227

belongs to
obsolescence reason specificationc

to be replaced with external ontology termni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000423

belongs to
curation status specificationc

uncuratedni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000124

belongs to
curation status specificationc

universalni back to ToC or Named Individual ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000410

belongs to
denotator typec

Annotation Properties

alternative labelap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000118

is defined by
http://purl.obolibrary.org/obo/iao.owl
Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related).
has sub-properties
sepio_preferred_labelap

b f o 0000179ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000179

b f o 0000180ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/BFO_0000180

c o b based onap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/COB_based_on

close matchap back to ToC or Annotation Property ToC

IRI: http://www.w3.org/2004/02/skos/core#closeMatch

commentap back to ToC or Annotation Property ToC

IRI: http://www.w3.org/2000/01/rdf-schema#comment

considerap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000052

contributorap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/elements/1.1/contributor

contributorap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/contributor

created byap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#created_by

creation dateap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#creation_date

creatorap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/creator

curator noteap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000232

is defined by
http://purl.obolibrary.org/obo/iao.owl

database_cross_referenceap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#hasDbXref

default languageap back to ToC or Annotation Property ToC

IRI: http://protege.stanford.edu/plugins/owl/protege#defaultLanguage

definitionap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000115

is defined by
http://purl.obolibrary.org/obo/iao.owl

definition sourceap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000119

is defined by
http://purl.obolibrary.org/obo/iao.owl

deprecatedap back to ToC or Annotation Property ToC

IRI: http://www.w3.org/2002/07/owl#deprecated

descriptionap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/elements/1.1/description

has range
string
is also defined as
data property

descriptionap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/description

Description may include but is not limited to: an abstract, a table of contents, a graphical representation, or a free-text account of the resource."

eco subsetap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/ro/subsets#ro-eco

has super-properties
subset propertyap

editor noteap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000116

is defined by
http://purl.obolibrary.org/obo/iao.owl

editor preferred termap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000111

is defined by
http://purl.obolibrary.org/obo/iao.owl

example of usageap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000112

is defined by
http://purl.obolibrary.org/obo/iao.owl

has broad synonymap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym

has curation statusap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000114

has exact synonymap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#hasExactSynonym

has obsolescence reasonap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000231

has related synonymap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym

homepageap back to ToC or Annotation Property ToC

IRI: http://xmlns.com/foaf/0.1/homepage

i a o 0000233ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000233

i a o 0000234ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000234

i a o 0000424ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000424

i a o 0000589ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000589

i a o 0000600ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000600

i a o 0000601ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000601

i a o 0000602ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000602

i a o 0010000ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0010000

idap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#id

imported fromap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000412

is defined by
http://purl.obolibrary.org/obo/iao.owl

in_subsetap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#inSubset

in_value_setap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000337

is a defining property chain axiomap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002581

is a defining property chain axiom where second argument is reflexiveap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002582

is rule enabledap back to ToC or Annotation Property ToC

IRI: http://swrl.stanford.edu/ontologies/3.3/swrla.owl#isRuleEnabled

is_shortcutap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000399

has range
boolean

labelap back to ToC or Annotation Property ToC

IRI: http://www.w3.org/2000/01/rdf-schema#label

licenseap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/elements/1.1/license

licenseap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/license

mboxap back to ToC or Annotation Property ToC

IRI: http://xmlns.com/foaf/0.1/mbox

r o 0001900ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0001900

r o 0002259ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002259

has super-properties
subset propertyap

r o 0002575ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002575

r o 0002579ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0002579

r o 0004049ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004049

r o 0004050ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0004050

r o 0040042ap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/RO_0040042

SEPIO_editor_noteap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000061

Used to capture development notes and design decisions or questions. All annotations using this property should be removed before publishing / releasing the ontology to the public (but ideally retained in some place as valuable documentation).

sepio_preferred_labelap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000386

has super-properties
alternative labelap

sourceap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/elements/1.1/source

sourceap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/source

has range
information content entityc
is also defined as
object property

subset propertyap back to ToC or Annotation Property ToC

IRI: http://www.geneontology.org/formats/oboInOwl#SubsetProperty

has sub-properties
eco subsetap, r o 0002259ap, valid for go annotation extensionap, valid for go gp2termap, valid for go ontologyap, valid for gocamap

term editorap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0000117

is defined by
http://purl.obolibrary.org/obo/iao.owl

term replaced byap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/IAO_0100001

Add as annotation triples in the granting ontology

titleap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/elements/1.1/title

titleap back to ToC or Annotation Property ToC

IRI: http://purl.org/dc/terms/title

is also defined as
data property

usage noteap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/SEPIO_0000184

valid for go annotation extensionap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension

has super-properties
subset propertyap

valid for go gp2termap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/valid_for_go_gp2term

has super-properties
subset propertyap

valid for go ontologyap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/valid_for_go_ontology

has super-properties
subset propertyap

valid for gocamap back to ToC or Annotation Property ToC

IRI: http://purl.obolibrary.org/obo/valid_for_gocam

has super-properties
subset propertyap

General Axioms

General Subclass Definition back to ToC

causally influencesop some material entityc is subclass of

(participates inop some causally upstream of or withinop some processc) or (capable ofop some participates inop some causally upstream of or withinop some processc)

SWRL rules

Rule #1back to ToC

has componentop(?w,?p) , processc(?w) , processc(?p) -> has component processop(?w,?p)

Rule #2back to ToC

dispositionc(?d) , has characteristicop(?e,?d) -> has dispositionop(?e,?d)

Rule #3back to ToC

qualityc(?d) , has characteristicop(?e,?d) -> has qualityop(?e,?d)

Rule #4back to ToC

rolec(?d) , has characteristicop(?e,?d) -> has roleop(?e,?d)

Rule #5back to ToC

functionc(?d) , has characteristicop(?e,?d) -> has functionop(?e,?d)

Rule #6back to ToC

enablesop(?z,?y) , directly regulatesop(?x,?y) , molecular_functionc(?x) , molecular_functionc(?y) -> has inputop(?x,?z)

Rule #7back to ToC

molecular_functionc(?y) , enablesop(?x,?y) , has partop(?y,?z) -> enablesop(?x,?z)

Rule #8back to ToC

biological_processc(?z) , part ofop(?y,?z) , enablesop(?x,?y) -> involved inop(?x,?z)

Rule #9back to ToC

directly regulatesop(?a1,?a2) , kinase activityc(?a1) , enabled byop(?a1,?g1) , enabled byop(?a2,?g2) -> phosphorylatesop(?g1,?g2)

Rule #10back to ToC

input ofop(?B,?C) , enabled byop(?A,?B) , has regulatory component activityop(?D,?C) -> directly regulatesop(?A,?D)

Rule #11back to ToC

input ofop(?B,?C) , enabled byop(?A,?B) , has negative regulatory component activityop(?D,?C) -> directly negatively regulatesop(?A,?D)

Rule #12back to ToC

input ofop(?B,?C) , enabled byop(?A,?B) , has positive regulatory component activityop(?D,?C) -> directly positively regulatesop(?A,?D)

Rule #13back to ToC

has effector activityop(?mf,?eff) , has inputop(?eff,?in) -> has inputop(?mf,?in)

Rule #14back to ToC

has effector activityop(?mf,?eff) , has inputop(?mf,?in) -> has inputop(?eff,?in)

Rule #15back to ToC

directly regulatesop(?mf,?mf2) , has effector activityop(?mf,?eff) -> directly regulatesop(?eff,?mf2)

Rule #16back to ToC

has effector activityop(?mf,?eff) , directly positively regulatesop(?mf,?mf2) -> directly positively regulatesop(?eff,?mf2)

Rule #17back to ToC

directly negatively regulatesop(?mf,?mf2) , has effector activityop(?mf,?eff) -> directly negatively regulatesop(?eff,?mf2)

Rule #18back to ToC

overlapsop(?x,?y) , causally downstream ofop(?x,?y) -> nothing(?y) , nothing(?x)

Rule #19back to ToC

overlapsop(?x,?y) , causally upstream ofop(?x,?y) -> nothing(?y) , nothing(?x)

Rule #20back to ToC

regulatesop(?p,?q) , indirectly causally upstream ofop(?p,?q) -> indirectly regulatesop(?p,?q)

Rule #21back to ToC

negatively regulatesop(?x,?y) , positively regulatesop(?y,?z) -> negatively regulatesop(?x,?z)

Rule #22back to ToC

negatively regulatesop(?y,?z) , positively regulatesop(?x,?y) -> negatively regulatesop(?x,?z)

Rule #23back to ToC

negatively regulatesop(?x,?y) , negatively regulates characteristicop(?y,?z) -> positively regulates characteristicop(?x,?z)

Rule #24back to ToC

causally upstream ofop(?y,?z) , acts upstream of or withinop(?x,?y) -> acts upstream ofop(?x,?z)

Rule #25back to ToC

causally upstream ofop(?p,?q) , causally upstream ofop(?q,?u) -> indirectly causally upstream ofop(?p,?u)

Namespace Declarations back to ToC

default namespace
http://purl.obolibrary.org/obo/sepio.owl#
2023-06-13
http://purl.obolibrary.org/obo/sepio/releases/2023-06-13/
axiom
http://purl.obolibrary.org/obo/bfo/axiom/
bibo
http://purl.org/ontology/bibo/
dc
http://purl.org/dc/elements/1.1/
docs
http://purl.obolibrary.org/obo/ro/docs/
foaf
http://xmlns.com/foaf/0.1/
index-php
http://wiki.geneontology.org/index.php/
oban
http://purl.org/oban/
obo
http://purl.obolibrary.org/obo/
oboInOwl
http://www.geneontology.org/formats/oboInOwl#
orcid-org
https://orcid.org/
owl
http://www.w3.org/2002/07/owl#
papers
http://www.referent-tracking.com/_RTU/papers/
pav
http://purl.org/pav/
protege
http://protege.stanford.edu/plugins/owl/protege#
prov
http://www.w3.org/ns/prov#
pubmed
http://www.ncbi.nlm.nih.gov/pubmed/
rdf
http://www.w3.org/1999/02/22-rdf-syntax-ns#
rdfs
http://www.w3.org/2000/01/rdf-schema#
ro-owl
http://purl.obolibrary.org/obo/ro.owl#
skos
http://www.w3.org/2004/02/skos/core#
subsets
http://purl.obolibrary.org/obo/ro/subsets#
swrl
http://www.w3.org/2003/11/swrl#
swrla
http://swrl.stanford.edu/ontologies/3.3/swrla.owl#
swrlb
http://www.w3.org/2003/11/swrlb#
terms
http://purl.org/dc/terms/
wiki
http://ontologydesignpatterns.org/wiki/
xsd
http://www.w3.org/2001/XMLSchema#

This HTML document was obtained by processing the OWL ontology source code through LODE, Live OWL Documentation Environment, developed by Silvio Peroni .