Annotation
literal: Giorgio A. Ubbiali

Annotation
literal: SCO is a middle-level ontology, representing the major theoretical challenges to sustainability: 1) The polysemy of the term sustainability. 2) The relationship between sustainability and sustainable development. 3) The complexity underlying sustainability. SCO aims to play a pivotal role in harmonizing and integrating top-level and domain ontologies regarding sustainability.

Annotation
literal: L'ontologia fondazionale della sostenibilità @it

Annotation
literal: L'ontologie fondationnelle de la durabilité @fr

Annotation
literal: Sustainability Core Ontology (SCO)

Annotation
literal: Ubbiali, G. A., Borghini, A., & Lange, M. C. (2024). Ontologies for Sustainability: Theoretical Challenges. https://doi.org/10.31219/osf.io/z8uqr

Annotation
literal: The SCO Structured Vocabulary (SV) constitutes the prior version of this resources. SCO SV is available on GitHub at the following link: https://github.com/gioUbbiali/Sustainability-Core-Ontology.git

Annotation
literal: 2024-09-17

Annotation
literal: Version 1.0.0.

Annotation
literal: Currently, this resource includes labels and definitions in the following three natural languages: English, Italian, and French. In the next version of this resource, the creator intends to also encompass Italian and French translations of the remaining pieces of information as well as to cover other natural languages.

Annotation
literal: The current version of SCO does not cover classes and object properties accounting for systems granularity, scales, and levels. A deeper representation of system change and behaviors is equally required. These themes will be topics of inclusion in the next version of this resource.

Annotation
literal: The current version of this resource does not include semi-formal natural language definitions or First Order Logics definitions. In the next version of this resource, the creator intends to also include them.

Annotation
literal: The most recent version of this file is available on GitHub at the following link: https://github.com/gioUbbiali/Sustainability-Core-Ontology.git

EquivalentClasses
annotation:
  literal: Discussion with subject matter experts is required to revise this axiom with regard to the “represents” object property. This was the most appropriate object property among those pertaining to OBO-Foundry and compliant ontologies to use in constructing this axiom. Nevertheless, implementations seem necessary to deepen the characterization, for instance with regard to representing and measuring the complex system of interest.. Revisions may regard adapting this object property or even further creating a new ad hoc object property. The CCO object properties “describes” and “is measurement of” appear other interesting options. http://www.ontologyrepository.com/CommonCoreOntologies/describes http://www.ontologyrepository.com/CommonCoreOntologies/is_a_measurement_of
object intersection of: Class
object intersection of: ObjectSomeValuesFrom

SubClassOf
annotation:
  literal: To amend this axiom in case worth is associated with some object aggregate that is part of the complex system or complex system environment of interest. To extend this axiom to also cover the "object aggregate" class.
object intersection of: Class
object intersection of: ObjectSomeValuesFrom
  object union of: Class

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: In the original definition, INO developers define this class with respect to interactors involved in the interaction process. INO includes the classes “interactor” and “interactor role” (see SeeAlso note). Here, we generalize this definition, excluding reference to interactors. In the context of SCO, we aim to provide users with an upper-level class that generally points to the involvement of material entities in an interaction process mutually influencing each other. We suggest not using this class directly but, instead, extending SCO-provided subclasses as needed. We wish users to classify interactions according to whether they occur among system components, among system environment components, or between system and system environment components. Original definition: “Interaction is a processual entity that has two or more participants (i.e., interactors) that have an effect upon one another.”

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: interaction

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: interaction @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: interazione @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: http://purl.obolibrary.org/obo/INO_0000015 http://purl.obolibrary.org/obo/INO_0000016

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: A process that has at least two material entities as participants that have an effect upon one another.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: Un processo che ha almeno due entità materiali come partecipanti, aventi un effetto l’una sull’altra. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000001
literal: Un processus qui a au moins deux entités matérielles comme participants, ayant un effet l’une sur l’autre. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: This class aims to be the starting point for developing a representation of system change. Future SCO implementations will provide additional classes and object properties addressing system behaviors, system processes, system scales and levels, and related themes. Related axioms must be revised accordingly.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: développement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: sviluppo del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: system development

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: A process whose specific outcome is the progression of a system over time from an initial condition to a later condition.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: Un processo il cui specifico risultato è la progressione di un sistema nel tempo da una condizione iniziale a una condizione successiva. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
literal: Un processus dont le résultat spécifique est la progression d’un système dans le temps, depuis une condition initiale à une condition suivante. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000002
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: indicator information

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: il valore dell'indicatore @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: indicator value

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: la valeur de l’indicateur @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: See the comments under the corresponding "indicator" class.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: http://purl.unep.org/sdg/SDGIO_00000000 http://purl.unep.org/sdg/SDGIO_00000001 http://purl.unep.org/sdg/SDGIO_00000003

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: A representational information content entity that generically depends on some indicator and is about, providing insights into, the complex system to which the indicator belongs.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: Un contenu représentatif d’information qui dépend de façon générique d’un indicateur et qui concerne, fournissant des indications/renseignements, sur le système complexe auquel l’indicateur appartient. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
literal: Un contenuto informativo rappresentativo che genericamente dipende da un indicatore e riguarda, fornisce informazioni sul, complesso sistema a cui l'indicatore appartiene. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000003
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: contenu informatif de la perspective @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: contenuto informativo della prospettiva @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: perspective information content entity

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: An information content entity that generically depends on some complex system component or complex system environment component and is about the perspective (that concretizes it) of that complex system component or complex system environment component.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: Un contenu d’information qui dépend de façon générique d’une composante de système complexe ou d’une composant d’environnement de système complexe et qui concerne la perspective (qui le concrétise) de cette composante de système complexe ou de cette composante environnement de système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
literal: Un contenuto informativo che dipende genericamente da una componente del sistema complesso o da una componente dell'ambiente del sistema complesso e riguarda la prospettiva (che lo concretizza) di tale componente del sistema complesso o dell’ambiente del sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000004
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: contenu informatif de la valeur @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: contenuto informativo del valore @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: worth information content entity

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: An information content entity that generically depends on a complex system or a complex system environment (or some part(s) of them) and is about the worth (that concretizes it) that some complex system component or complex system environment component recognizes that that complex system or complex system environment (or some part(s) of them) bearer.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: Un contenu d’information qui dépend de façon générique d’un système complexe ou de l’environnement de système complexe (ou une ou plus parties de ceux-ci) et qui concerne la valeur (qui le concrétise) qu’une composante de système complexe ou de son environnement reconnaît d’avoir à ce système complexe-là ou à ce-t-environnement de système complexe-là (ou une ou plus parties de celux-ci). @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
literal: Un contenuto informativo che dipende genericamente dal sistema complesso o dall'ambiente del sistema complesso (o una o più parti di essi) e riguarda il valore (che lo concretizza) che una componente del sistema complesso del suo ambiente riconosce di avere a quel sistema complesso o ambiente del sistema complesso (o una o più parti di essi). @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000005
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: system context

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: See the comment under the "system" class.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: ambiente del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: environnement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: system environment

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: A material entity that surrounds and is distinct and disjoint from a system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: Un'entità materiale che circonda ed è distinta e disgiunta da un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
literal: Une entité matérielle qui entourne et qui est distincte et disjointe d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000006
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: relation among system components, interconnection among system components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: Interaction entre les composantes de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: interaction among system components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: interazione tra le componenti del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: An interaction that occurs among at least two system components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: Une interaction qui se produit entre au moins deux composantes de système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
literal: Un’interazione che avviene tra almeno due componenti del sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000007
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: relation among system environment components, interconnection among system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: interaction among system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: interaction entre les composantes de l’environnement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: interazione tra le componenti dell’ambiente di sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: An interaction that occurs among at least two system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: Une interaction qui se produit entre au moins deux composantes de l’environnement d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
literal: Un’interazione che avviene tra almeno due componenti dell’ambiente di un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000008
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: relation between system components and the system environment, interconnection between system components and the system environment

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: Interaction entre les composantes de système et les composantes de l’environnement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: interaction between system components and system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: interazione tra le componenti del sistema e le componenti de l'ambiente del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: An interaction that occurs between at least one system component and one system environment component where the latter belongs to the system environment of the system to which the system component belongs.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: Une interaction qui se produit entre au moins une composante d’un système et au moins une composante de l’environnement du système auquel la composante de système appartient. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
literal: Un’interazione che avviene tra almeno una componente di un sistema e almeno un componente dell’ ambiente del sistema a cui la componente del sistema appartiene. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000009
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: complex system development

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: développement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: sviluppo del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: Le développement d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: Lo sviluppo di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
literal: The system development of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000010
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: historie de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: storia del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: system history

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: La storia di un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: L’histoire d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
literal: The history of a system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000011
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: complex system context

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: ambiente del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: complex system environment

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: environnement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: A system environment that surrounds and is distinct and disjoint from a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: Un ambiente del sistema che circonda ed è distinto e disgiunto da un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
literal: Un environnement de système qui entourne et qui est distinct et disjoint d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000012
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: system element

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: system variable

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: componente del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: conposante de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: system component

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: A material entity that belongs to a system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: Un'entità materiale che appartiene a un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
literal: Une entité matérielle qui appartient à un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000013
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: system environment element

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: system environment variable

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: componente dell' ambiente del systema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: conposante de l'environnement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: system environment component

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: A material entity that belongs to a system environment.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: Un'entità materiale che appartiene all’ambiente di un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
literal: Une entité matérielle qui appartient à l’environnement d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000014
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: Ubbiali, G. A., Borghini, A., & Lange, M. C. (2024). Ontologies for Sustainability: Theoretical Challenges. https://doi.org/10.31219/osf.io/z8uqr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: socio-ecological system, social-ecological system

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: complex system

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: IOBC: http://purl.jp/bio/4/id/200906033993517889 IOBC: http://purl.jp/bio/4/id/201406059151625127 EnvThes: http://vocabs.lter-europe.net/EnvThes/21908 I2SV: https://i2insights.org/index/integration-and-implementation-sciences-vocabulary#complex-systems

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: A system whose system components interact dynamically and nonlinearly, causing the emergence of a collective nontrivial and self-organized behavior. No internal/external centralized controls are required.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: Un sistema le cui componenti interagiscono dinamicamente e non linearmente, causando l’emergere di un comportamento collettivo, non banale e auto-organizzato. Non è richiesto nessun controllo centralizzato, né interno né esterno. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
literal: Un système dont les composantes interagissent dynamiquement et non linéairement, causant l’émergence d’un comportement collectif, non trivial et auto-organisé. Aucun contrôle interne ou externe centralisé n’est requis. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000015
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: SCO currently accounts for perspectives of complex system components and complex system environment components because the focus of this ontology is on complex systems. Future versions of this ontology may explore extending reference more broadly to systems.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: perspective

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: perspective @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: prospettiva @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
IRI: /SCO_0000039

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: A disposition whose realization leads the complex system component or the complex system environment component to (re)position itself within and regarding the complex system or complex system environment it belongs to (or a part of it) and possibly act accordingly.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: Una disposizione la cui realizzazione porta la componente del sistema complesso o la componente dell’ambiente del sistema complesso a (ri)posizionarsi nel e rispetto al sistema complesso o all’ ambiente del sistema complesso a cui appartiene (o parte di esso) ed eventualmente ad agire di conseguenza. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
literal: Une disposition dont la réalisation conduit la composante de système complexe ou la composante de l’environnement du système complexe à se (re)positionner dans et par rapport au système complexe ou à l’environnement du système complexe auquel elle appartient (ou d’une partie de celui-ci) et, éventuellement, à agir en conséquence. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000016
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: To distinguish and account for indicators according to the perspectives of different complex systems (and environment) components, we suggest proceeding following the indications provided under the “according to the perspective” annotation property. In this case, regarding the subclasses to create, we recommend establishing axioms restricting to this class.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: indicateur (rôle) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: indicator-role

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: ruolo di indicatore @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: See the comments under the corresponding "indicator" class.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: A role whose realization leads the complex system component to be recognized as a carrier of an indicator value, by some complex system component or complex system environment component according to its/their perspective.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: Un rôle dont la réalisation conduit la composante de système complexe à être reconnu comme porteuse d’une valeur de l’indicateur, par quelque composante de système complexe ou de son l’environnement, selon sa/leur propre perspective. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
literal: un ruolo la cui realizzazione porta la componente del sistema complesso ad essere riconosciuto come portatore di un valore dell’indicatore, da parte di qualche componente del sistema complesso o del suo ambiente, secondo la propria prospettiva. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000017
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: ruolo di parte interessata (stakeholder) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: rôle de partie prenante (stakeholder) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: stakeholder-role

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: A role whose realization leads the complex system component to be recognized as a bearer, in the belonging complex system, of at least one role (different from the role of stakeholder) and/or disposition (primarily a disposition to benefit/be damaged as being part of that complex system).

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: Un ruolo la cui realizzazione porta la componente del sistema complesso ad essere riconosciuta come detentrice, nel sistema complesso a cui appartiene, di almeno un ruolo (diverso dal ruolo di stakeholder) e/o disposizione (in primo luogo una predisposizione a beneficiare/essere danneggiata in quanto parte di tale sistema complesso). @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
literal: Un rôle dont la réalisation conduit la composante du système complexe à être reconnue, dans le système complexe auquel elle appartient, comme porteuse d’au moins un rôle (différent du rôle de partie prenante) et/ou d’une disposition (principalement une disposition à bénéficier ou à être endommagé parce qu’elle fait partie de ce système complexe). @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000018
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: value

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: Due to the SCO focus on complex systems, the worth-role class have been designed referring specifically to complex systems. Nevertheless, future implementations may broaden the space of application to also systems. Implementations may equally deepen this representation, detailing and elucidating the distinction and connection between worth and value(s).

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: To distinguish and account for what is considered worthy of value for different complex systems (and environment) components according to proper perspectives,we suggest proceeding following the indications provided under the “according to the perspective” annotation property. In this case, regarding the subclasses to create, we recommend establishing axioms restricting to this class.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: Valeur (sens donner de la valeur) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: valore (senso dare valore) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: worth-role

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: (related) http://humanbehaviourchange.org/ontology/BCIO_006063

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: A role whose realization leads the complex system or the complex system environment (or some part(s) of them) to be recognized to bearer relevance by some complex system component or complex system environment component according to its/their perspective.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: Un ruolo la cui realizzazione porta il sistema complesso o l'ambiente del sistema complesso (o una o più delle parti di essi) ad essere riconosciuto come rilevante da parte di qualche componente del sistema complesso o del suo ambiente, secondo la propria prospettiva. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
literal: Un rôle dont la réalisation conduit le système complexe ou l’environnement de système complexe (ou une ou plus parties de ceux-ci) à être reconnu comme significatif par quelque composante de système complexe ou de son l’environnement, selon sa/leur propre perspective. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000019
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: relation between complex system components and complex system environment components, interconnection between complex system components and complex system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: Interaction entre les composantes de système complexe et les composantes de environnement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: interaction between complex system components and complex system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: interazione tra le componenti del sistema complesso e le componenti dell’ambiente del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: An interaction that occurs between at least one complex system component and one complex system environment component where the latter belongs to the complex system environment of the complex system to which the complex system component belongs.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: Une interaction qui se produit entre au moins une composante d’un système complexe et au moins une composante de l’environnement du système complexe auquel la composante de système complexe appartient. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
literal: Un’interazione che avviene tra almeno una componente di un sistema complesso e almeno una componente dell’ambiente del sistema complesso a cui la componente del sistema complesso appartiene. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000020
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: relation among complex system environment components, interconnection among complex system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: interaction among complex system environment components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: interaction entre les composants de l’environnement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: interazione tra le componenti dell’ambiente di sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: An interaction that occurs among at least two complex system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: Une interaction qui se produit entre au moins deux composantes de l’environnement d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
literal: Un’interazione che avviene tra almeno due componenti dell’ambiente di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000021
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: relation among complex system components, interconnection among complex system components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: Interaction entre les composantes de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: interaction among complex system components

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: interazione tra le componenti del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: An interaction that occurs among at least two system components of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: Une interaction qui se produit entre au moins deux composantes de système d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
literal: Un’interazione che avviene tra almeno due componenti del sistema di un sistema complesso.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000022
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: complex system history

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: historie de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: storia del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: La storia del sistema di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: L’historique de système d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
literal: The system history of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000023
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: Future SCO implementations may deal with representing system environment boudaries.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: confine del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: frontière de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: system boundary

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: A fiat surface of a system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: Una superficie fiat di un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000024
literal: Une surface fiat d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: Future SCO implementations may consider including classes also covering spatial region for the system environment.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: regione spaziale del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: région d’espace de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: system spatial region

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: A three-dimensional spatial region of a system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: Una regione di spazio tridimensionale di un sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
literal: Une région d’espace tridimensionnelle d’un système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000025
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: complex system environment element

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: complex system environment variable

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: complex system environment component

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: componente dell' ambiente del systema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: conposante de l'environnement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: A system evironment component that belongs to the system environment of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: Una componente dell'ambiente di sistema che appartiene all’ambiente di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
literal: Une composante de l'environnement de système qui appartient à l’environnement d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000026
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: agent de l’environnement de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: agente dell’ambiente del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: system environnement agent

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
IRI: /SCO_0000037

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
IRI: /SCO_0000038

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: See information under the "has agent at t" property.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: A system environment component that is an agent in an interaction among system environment components or in an interaction between system components and system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: Una componente dell’ambiente del sistema che è un agente in un'interazione tra le componenti dell'ambiente del sistema o in un'interazione tra componenti del sistema e le componenti dell'ambiente del sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
literal: Une composante de l’environnement de système qui est un agent dans une interaction entre les composantes de l’environnement du système ou dans une interaction entre les composantes de système et les composants de l’environnement de système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000027
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: complex system element

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: complex system variable

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: complex system component

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: componente del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: conposante de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: A system component that belongs to a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: Una componente del sistema che appartiene a un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
literal: Une composante de système qui appartient à un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000028
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: agent de système @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: agente del sistema @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: system agent

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
IRI: /SCO_0000037

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
IRI: /SCO_0000038

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: See information under the "has agent at t" property.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: A system component that is an agent in an interaction among system components or in an interaction between system components and system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: Una componente di sistema che è un agente in un'interazione tra le componenti del sistema o in un'interazione tra le componenti di sistema e le componenti dell'ambiente di sistema. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
literal: Une composante de système qui est un agent dans une interaction entre les composantes de l’environnement du système ou dans une interaction entre les composantes de système et les composants de l’environnement de système. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000029
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: complex system stakeholder perspective, system stakeholder perspective

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: Prospettiva di parte interessata (stakeholder) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: perspective de partie prenante (stakeholder) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: stakeholder perspective

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: A perspective that is bearered by a stakeholder.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: Una prospettiva che è detenuta da una parte interessata (stakeholder). @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
literal: Une perspective qui est détenue par une partie prenante (stakeholder). @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000030
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: complex system boundary

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: confine del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: frontière de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: A system boundary of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: Un confine del sistema di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
literal: Une frontière de système d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000031
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: complex system spatial region

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: regione spaziale del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: région d’espace de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: A system spatial region of a complex system.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: Una regione di spazio del sistema di un sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
literal: Une région d’espace de système d’un système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000032
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: agent de l’environnement de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: agente dell’ambiente del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: complex system environment agent

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
IRI: /SCO_0000037

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
IRI: /SCO_0000038

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: See information under the "has agent at t" property.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: A complex system environment component that is an agent in an interaction among complex system environment components or in an interaction between complex system components and complex system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: Una componente dell’ambiente del sistema complesso che è un agente in un'interazione tra componenti dell’ambiente del sistema complesso o in un'interazione tra le componenti del sistema complesso e le componenti dell’ambiente del sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
literal: Une composante de l’environnement de système complexe qui est un agent dans une interaction entre les composantes de l’environnement de système complexe ou dans une interaction entre les composantes de système complexe et les composantes de l’environnement de système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000033
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: agent de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: agente del sistema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: complex system agent

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
IRI: /SCO_0000037

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
IRI: /SCO_0000038

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: See information under the "has agent at t" property.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: A complex system component that is an agent in an interaction among complex system components or in an interaction between complex system components and complex system environment components.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: Una componente del sistema complesso che è un agente in un'interazione tra le componenti del sistema complesso o in un'interazione tra le componenti del sistema complesso e le componenti dell’ambiente del sistema complesso. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
literal: Une composante de système complexe qui est un agent dans une interaction entre les composantes de système complexe ou dans une interaction entre les composantes de système complexe et les composantes de l’environnement de système complexe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000034
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: complex system indicator

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: system indicator

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: Due to the SCO focus on complex systems, indicator classes have been designed referring specifically to complex systems. Nevertheless, future implementations may broaden the space of application to also systems.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: SCO indicator classes have been designed referring to the characterization of sustainable development indicators (SDGs indicators) proposed by SDGIO. we aimed to deepen this characterization and establish upper-level classes for SDGIO ones.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: indicateur @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: indicator

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: indicatore @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: A complex system component with an indicator role.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: La componente del sistema complesso con un ruolo d’indicatore. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
literal: Une composante de système complexe ayant un rôle d’indicateur. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000035
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: complex system stakeholder, system stakeholder

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: parte interessata (stakeholder) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: partie prenante (stakeholder) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: stakeholder

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: A complex system component with a stakeholder role.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: Una componente del sistema complesso con un ruolo di stakeholder. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
literal: Une composante du système complexe avec un rôle de partie prenante. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000036
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: Common Core Ontologies (CC) provide corresponding properties for this and the “agent at time t” relations. See “see also” annotation”. As these relations apply specifically to the CCO “Agent” class and lack reference to time, the SCO creator decided to establish SCO's own versions of these relations, directly referring to the original source. See “adapted from” annotation.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: Future implementations may involve the introduction of an “act within the system” class, to deepen the characterization of system agency. Insights to implementation may come from the following CCO classes: http://www.ontologyrepository.com/CommonCoreOntologies/Act http://www.ontologyrepository.com/CommonCoreOntologies/IntentionalAct http://www.ontologyrepository.com/CommonCoreOntologies/Agent http://www.ontologyrepository.com/CommonCoreOntologies/AgentCapability The aim is to align SCO and CCO “agent” classes in order to have a shared theory of agency.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: a un agent au temps t @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: ha un agente al tempo t @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: has agent at time t

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: http://www.ontologyrepository.com/CommonCoreOntologies/agent_in http://www.ontologyrepository.com/CommonCoreOntologies/has_agent

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: A primitive relation between a process x, a continuant y, and a time at which y is causally active in x.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: Una relazione primitiva tra un processo x, un continuante y e un tempo t a cui y è causalmente attivo in x. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
literal: Une relation primitive entre un processus x, un continuant y et un temps t auquel y est causalement actif en x. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000037
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: agent en au temps t @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: agent in at time t

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: agente in al tempo t @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: See information under the inverse "has agent at t" property.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: A primitive relation between a continuant x, a process y, and a time at which x is causally active in y.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: Una relazione primitiva tra un continuante x, un processo y e un tempo t a cui x è causalmente attivo in y. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
literal: Une relation primitive entre un continuant x, un processus y et un temps t auquel x est causalement actif en y. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000038
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000039
literal: We envisage using this annotation property to highlight (indirectly) the grounding of certain entities on perspectives and characterize them according to the embraced perspective(s). Here, it is provided an explicative example. Let’s consider that two users, A and B, endorse two different perspectives on sustainability, perspective A and perspective B. These perspectives lead to considering different complex system components as stakeholders of the complex system of interest. (This is an explicative example. It could also be the case that there is just one single user who wants to characterize the same entity according to two perspectives on sustainability, or who wants to provide an additional characterization according to a different perspective than the one previously covered.) We suggest proceeding as follows. First, the class “perspective” can be instantiated with two “perspective” individuals, “perspective A” and “perspective B”. These “perspective” individuals will provide descriptions and other relevant information regarding users’ perspectives. Then, two subclasses, “stakeholder – A” and “stakeholder – B”, can be added to the class “stakeholder”. These classes could be created manually and further populated with further subclasses and/or individuals. Alternatively, they can be created by adding SPARQL query results to the ontology, directly as classes or as classes equivalent to some new classes manually created. Subclasses “stakeholder – A” and “stakeholder – B” will cover stakeholders according to the two different user perspectives. Finally, this annotation property can be used to annotate these two subclasses with the corresponding individual “perspective A” and “perspective B”. In proceeding as such, we can highlight the grounding of the role of stakeholder (entity) on perspective (entity) and provide stakeholder characterizations according to the two user perspectives. This procedure supports establishing indirectly the grounding of certain entities o…

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000039
literal: according to the perspective

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000039
literal: secondo la prospettiva @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000039
literal: selon la perspective @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: contenu informatif de la perspective de partie prenante (stakeholder) @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: contenuto informativo della prospettiva di parte interessata (stakeholder) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: stakeholder perspective information content entity

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: A perspective information content entity of a stakeholder perspective.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: Un contenu informatif de la perspective d’une perspective de partie prenante (stakeholder). @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
literal: Un contenuto informativo della prospettiva di una prospettiva di parte interessata (stakeholder). @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000040
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000041
literal: Do not use this class directly. This class is constructed as a grouping for complex system properties, such as emergence and self-organization, in order to facilitate class retrieval and visualization.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000041
literal: complex system property

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000041
literal: proprietà del systema complesso @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000041
literal: propriété de système complexe @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000041
abbreviated IRI: AnnotationVocabulary:Released

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: This class should be amended according to SCO implementations regarding system scales, levels, and change.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: emergence

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: emergenza (proprietà emergenti) @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: émergence (propriété émergentes @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: A quality that inherits in a complex system by virtue of how the complex system behavior and properties at a macroscopic level are nontrivially envisaged from those at a more microscopic one.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: Una qualità che il sistema complesso esibisce in virtù del fatto che il comportamento del sistema complesso e le sue proprietà a un livello macroscopico sono non-trivialmente predicibili da quelli a livello più microscopico. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
literal: Une qualité qu’un système complexe exhibe en vertu du fait que le comportement du système complexe et ses propriétés à un niveau macroscopique sont non-trivialement prédictibles à partir de ceux aux niveaux plus microscopiques. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000042
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: This class should be amended according to SCO implementations regarding system scales, levels, and change.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: auto-organisation @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: auto-organizzazione @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: self-organization

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: A quality that inherits in a complex system by virtue of how the complex system components spontaneously arrange, globally generating macroscopic and microscopic structures and behaviors, without any internal and/or external controls.

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: Una qualità che il sistema complesso esibisce in virtù del fatto che le componenti del sistema complesso si organizzino spontaneamente, generando globalmente strutture e comportamenti macroscopici e microscopici, senza alcun controllo interno e/o esterno. @it

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
literal: Une qualité qu’un système complexe exhibe en vertu du fait que les composantes du système complexe s’organisent spontanément, générant globalement des structures et comportements macroscopiques et microscopiques, sans aucun contrôle interne et/ou externe. @fr

AnnotationAssertion
IRI: http://gioUbbiali.github.io/sco/SCO_0000043
abbreviated IRI: AnnotationVocabulary:Provisional

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000002
literal: An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000003
literal: An entity that has temporal parts and that happens, unfolds or develops through time.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000004
literal: b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000015
literal: p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000017
literal: A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000020
literal: b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000023
literal: A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000031
literal: b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000040
literal: An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: is part of

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: my brain is part of my body (continuant parthood, two material entities)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: this day is part of this year (occurrent parthood)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: a core relation that holds between a part and its whole

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.) A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000050
literal: part_of

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: has part

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: my body has part my brain (continuant parthood, two material entities)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: this year has part this day (occurrent parthood)

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: a core relation that holds between a whole and its part

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.) A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000051
literal: has_part

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: realized in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: this disease is realized in this disease course

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: this fragility is realized in this shattering

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: this investigator role is realized in this investigation

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: is realized by

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: realized_in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000054
literal: [copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000055
literal: realizes

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000055
literal: this disease course realizes this disease

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000055
literal: this investigation realizes this investigator role

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000055
literal: this shattering realizes this fragility

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000055
literal: to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000062
literal: preceded by

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000062
literal: x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000062
literal: An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000062
literal: is preceded by

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000062
literal: preceded_by

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000063
literal: precedes

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000063
literal: x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000066
literal: occurs in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000066
literal: b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000066
literal: occurs_in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000066
literal: unfolds in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000066
literal: unfolds_in

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000067
literal: site of

AnnotationAssertion
abbreviated IRI: bfo:BFO_0000067
literal: [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t

AnnotationAssertion
annotation:
  literal: CARO:mah
abbreviated IRI: bfo:CL_0000000
literal: A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.

AnnotationAssertion
abbreviated IRI: bfo:CL_0000000
literal: A material entity that has a plasma membrane and results from cellular division.

AnnotationAssertion
annotation:
  literal: ISBN:0721662544
abbreviated IRI: bfo:CL_0000101
literal: Any neuron having a sensory function; an afferent neuron conveying sensory impulses.

AnnotationAssertion
annotation:
  literal: MESH:D009474
annotation:
  literal: http://en.wikipedia.org/wiki/Neuron
abbreviated IRI: bfo:CL_0000540
literal: The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system.

AnnotationAssertion
abbreviated IRI: bfo:CL_0000540
literal: nerve cell

AnnotationAssertion
abbreviated IRI: bfo:COB_0001000
literal: A process during which an organism comes into contact with another entity.

AnnotationAssertion
annotation:
  literal: DOI:10.1186/2041-1480-4-43
abbreviated IRI: bfo:ENVO_01000254
literal: A system which has the disposition to environ one or more material entities.

AnnotationAssertion
abbreviated IRI: bfo:ENVO_01000254
literal: environment

AnnotationAssertion
annotation:
  literal: EnvO:EnvO
abbreviated IRI: bfo:ENVO_01000739
literal: An environmental system which can sustain and allow the growth of an ecological population.

AnnotationAssertion
abbreviated IRI: bfo:ENVO_01003004
literal: A relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist through the separation or transformation of a part of the old entity, and the new entity inherits a significant portion of the matter belonging to that part of the old entity.

AnnotationAssertion
annotation:
  literal: GOC:pdt
abbreviated IRI: bfo:GO_0003674
literal: A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.

AnnotationAssertion
abbreviated IRI: bfo:GO_0003674
literal: molecular function

AnnotationAssertion
annotation:
  literal: GOC:BioGRID
annotation:
  literal: GOC:jh2
annotation:
  literal: PMID:9635407
abbreviated IRI: bfo:GO_0004842
literal: Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y = Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: E2

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: E3

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: ubiquitin conjugating enzyme activity

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: ubiquitin ligase activity

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: ubiquitin protein ligase activity

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: ubiquitin protein-ligase activity

AnnotationAssertion
abbreviated IRI: bfo:GO_0004842
literal: ubiquitin-conjugating enzyme activity

AnnotationAssertion
annotation:
  literal: GOC:go_curators
abbreviated IRI: bfo:GO_0005634
literal: A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

AnnotationAssertion
abbreviated IRI: bfo:GO_0005634
literal: cell nucleus

AnnotationAssertion
annotation:
  literal: GOC:al
annotation:
  literal: GOC:mah
annotation:
  literal: GOC:vw
annotation:
  literal: PMID:15030757
abbreviated IRI: bfo:GO_0005634
literal: horsetail nucleus

AnnotationAssertion
annotation:
  literal: GOC:pdt
abbreviated IRI: bfo:GO_0008150
literal: A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.

AnnotationAssertion
abbreviated IRI: bfo:GO_0008150
literal: A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective.

AnnotationAssertion
abbreviated IRI: bfo:GO_0008150
literal: biological process

AnnotationAssertion
abbreviated IRI: bfo:GO_0008150
literal: physiological process

AnnotationAssertion
abbreviated IRI: bfo:GO_0008150
literal: single organism process

AnnotationAssertion
abbreviated IRI: bfo:GO_0008150
literal: single-organism process

AnnotationAssertion
annotation:
  literal: ISBN:0198506732
abbreviated IRI: bfo:GO_0016301
literal: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.

AnnotationAssertion
abbreviated IRI: bfo:GO_0016301
literal: phosphokinase activity

AnnotationAssertion
annotation:
  literal: GOC:ai
abbreviated IRI: bfo:GO_0019107
literal: Catalysis of the transfer of a myristoyl (CH3-[CH2]12-CO-) group to an acceptor molecule.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000002
literal: example to be eventually removed

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000027
literal: data item

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000030
literal: information content entity

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: curation status specification

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: PERSON:Bill Bug

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000078
literal: OBI_0000266

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000102
literal: data about an ontology part

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000102
literal: Data about an ontology part is a data item about a part of an ontology, for example a term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000102
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000103
literal: failed exploratory term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000103
literal: The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000103
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
literal: editor preferred term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
literal: The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000111
literal: editor preferred term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: example of usage

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: example of usage

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000112
literal: example of usage

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000113
literal: in branch

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000113
literal: An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000113
literal: GROUP:OBI

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000113
literal: OBI_0000277

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000114
literal: has curation status

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000114
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000114
literal: PERSON:Bill Bug

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000114
literal: PERSON:Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000114
literal: has curation status

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: definition

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: 2012-04-05: Barry Smith The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible. Can you fix to something like: A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property. Alan Ruttenberg Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. On the specifics of the proposed definition: We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
abbreviated IRI: bfo:iao.owl

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: definition

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: definition

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000115
literal: textual definition

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
literal: editor note

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
literal: An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
literal: GROUP:OBI:<http://purl.obofoundry.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000116
literal: editor note

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: term editor

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: 20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000117
literal: term editor

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: alternative label

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: OBO Operations committee

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: 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).

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000118
literal: alternative label

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: definition source

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: PERSON:Daniel Schober

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000119
literal: definition source

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000120
literal: metadata complete

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000120
literal: Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000121
literal: organizational term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000121
literal: Term created to ease viewing/sort terms for development purpose, and will not be included in a release

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000122
literal: ready for release

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000122
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000122
literal: Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking "ready_for_release" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed "ready_for_release" will also derived from a chain of ancestor classes that are also "ready_for_release."

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000123
literal: metadata incomplete

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000123
literal: Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000124
literal: uncurated

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000124
literal: Nothing done yet beyond assigning a unique class ID and proposing a preferred term.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000125
literal: pending final vetting

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000125
literal: All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000224
literal: Core is an instance of a grouping of terms from an ontology or ontologies. It is used by the ontology to identify main classes.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000224
literal: PERSON: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000224
literal: PERSON: Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
literal: obsolescence reason specification

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
literal: The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
literal: The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
literal: PERSON: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000225
literal: PERSON: Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000226
literal: placeholder removed

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000227
literal: terms merged

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000227
literal: An editor note should explain what were the merged terms and the reason for the merge.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000228
literal: term imported

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000228
literal: This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000229
literal: term split

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000229
literal: This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000231
literal: has obsolescence reason

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000231
literal: Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000231
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000231
literal: PERSON:Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
literal: curator note

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
literal: An administrative note of use for a curator but of no use for a user

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
abbreviated IRI: bfo:iao.owl

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000232
literal: curator note

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: term tracker item

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: An IRI or similar locator for a request or discussion of an ontology term.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: The 'tracker item' can associate a tracker with a specific ontology term.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000233
literal: term tracker item

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000234
literal: ontology term requester

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000234
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000234
literal: The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000234
literal: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000234
literal: Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000409
literal: denotator type

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000409
literal: The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are "natural kinds" and the latter arbitrary collections of entities.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000409
literal: A denotator type indicates how a term should be interpreted from an ontological perspective.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000409
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000409
literal: Barry Smith, Werner Ceusters

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000410
literal: universal

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000410
literal: Hard to give a definition for. Intuitively a "natural kind" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000410
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000410
literal: A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000411
literal: is denotator type

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000411
literal: Relates an class defined in an ontology, to the type of it's denotator

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000411
literal: In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000411
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
literal: imported from

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
literal: For external terms/classes, the ontology from which the term was imported

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
literal: PERSON:Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000412
literal: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000420
literal: defined class

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000420
literal: A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000420
literal: "definitions", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000420
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000421
literal: named class expression

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000421
literal: A named class expression is a logical expression that is given a name. The name can be used in place of the expression.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000421
literal: named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000421
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000423
literal: to be replaced with external ontology term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000423
literal: Terms with this status should eventually replaced with a term from another ontology.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000423
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000423
literal: group:OBI

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000424
literal: expand expression to

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000424
literal: ObjectProperty: RO_0002104 Label: has plasma membrane part Annotations: IAO_0000424 "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000424
literal: A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000424
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000424
literal: expand expression to

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000425
literal: expand assertion to

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000425
literal: ObjectProperty: RO??? Label: spatially disjoint from Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000425
literal: A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000425
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000426
literal: first order logic expression

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000426
literal: An assertion that holds between an OWL Object Property and a string or literal, where the value of the string or literal is a Common Logic sentence of collection of sentences that define the Object Property.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000426
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000427
literal: antisymmetric property

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000427
literal: part_of antisymmetric property xsd:true

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000427
literal: Use boolean value xsd:true to indicate that the property is an antisymmetric property

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000427
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000428
literal: requires discussion

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000428
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000428
literal: A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000428
literal: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000428
literal: group:OBI

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: OBO foundry unique label

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: An alternative name for a class or property which is unique across the OBO Foundry.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools .

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: PERSON:Bjoern Peters

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: PERSON:Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: PERSON:Melanie Courtot

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000589
literal: GROUP:OBO Foundry <http://obofoundry.org/>

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000596
literal: has ID digit count

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000596
literal: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000596
literal: Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix" annotation property value concatenated with an integer in the id range (left padded with "0"s to make this many digits)

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000596
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000597
literal: has ID range allocated

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000597
literal: Datatype: idrange:1 Annotations: 'has ID range allocated to': "Chris Mungall" EquivalentTo: xsd:integer[> 2151 , <= 2300]

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000597
literal: Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000597
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000598
literal: has ID policy for

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000598
literal: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000598
literal: Relating an ontology used to record id policy to the ontology namespace whose policy it manages

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000598
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000599
literal: has ID prefix

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000599
literal: Ontology: <http://purl.obolibrary.org/obo/ro/idrange/> Annotations: 'has ID prefix': "http://purl.obolibrary.org/obo/RO_" 'has ID digit count' : 7, rdfs:label "RO id policy" 'has ID policy for': "RO"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000599
literal: Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with "0"s to make this many digits) to construct an ID for a term being created.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000599
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000600
literal: elucidation

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000600
literal: person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000600
literal: Person:Barry Smith

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000600
literal: Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000600
literal: elucidation

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000601
literal: has associated axiom(nl)

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000601
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000601
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000601
literal: An axiom associated with a term expressed using natural language

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000602
literal: has associated axiom(fol)

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000602
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000602
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000602
literal: An axiom expressed in first order logic using CLIF syntax

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000603
literal: is allocated id range

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000603
literal: Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. "IAO_0020000-IAO_0020999"

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000603
literal: PERSON:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000700
literal: has ontology root term

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000700
literal: Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0000700
literal: Nicolas Matentzoglu

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006011
literal: may be identical to

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006011
literal: A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006011
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006012
literal: scheduled for obsoletion on or after

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006012
literal: Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date.

AnnotationAssertion
abbreviated IRI: bfo:IAO_0006012
literal: Chris Mungall, Jie Zheng

AnnotationAssertion
abbreviated IRI: bfo:IAO_0010000
literal: has axiom id

AnnotationAssertion
abbreviated IRI: bfo:IAO_0010000
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0010000
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0010000
literal: A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI

AnnotationAssertion
abbreviated IRI: bfo:IAO_0100001
literal: term replaced by

AnnotationAssertion
abbreviated IRI: bfo:IAO_0100001
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:IAO_0100001
literal: Use on obsolete terms, relating the term to another term that can be used as a substitute

AnnotationAssertion
abbreviated IRI: bfo:IAO_0100001
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_0100001
literal: Person:Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000000
literal: ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000000
literal: I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000000
literal: ontology file

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000001
literal: base ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000001
literal: An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000002
literal: editors ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000002
literal: An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000002
literal: source ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000003
literal: main release ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000003
literal: An ontology module that is intended to be the primary release product and the one consumed by the majority of tools.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000003
literal: TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000004
literal: bridge ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000004
literal: An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000005
literal: import ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000005
literal: A subset ontology module that is intended to be imported from another ontology.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000005
literal: TODO: add axioms that indicate this is the output of a module extraction process.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000005
literal: import file

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000006
literal: subset ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000006
literal: An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000006
literal: ontology slim

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000006
literal: subset ontology

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000007
literal: curation subset ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000007
literal: A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000008
literal: analysis ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000008
literal: An ontology module that is intended for usage in analysis or discovery applications.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000009
literal: single layer ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000009
literal: A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000009
literal: ribbon subset

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000010
literal: exclusion subset ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000010
literal: A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000010
literal: antislim

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000011
literal: external import ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000011
literal: An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000011
literal: external import

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000012
literal: species subset ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000012
literal: A subset ontology that is crafted to either include or exclude a taxonomic grouping of species.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000012
literal: taxon subset

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000013
literal: reasoned ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000013
literal: An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000014
literal: generated ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000014
literal: An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000014
literal: TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000015
literal: template generated ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000015
literal: An ontology module that is automatically generated from a template specification and fillers for slots in that template.

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000016
literal: taxonomic bridge ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000017
literal: ontology module subsetted by expressivity

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000018
literal: obo basic subset ontology module

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000018
literal: A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools. Examples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses). An ontology is OBO Basic if and only if it has the following characteristics: DAG Unidirectional No Dangling Clauses Fully Asserted Fully Labeled No equivalence axioms Singly labeled edges No qualifier lists No disjointness axioms No owl-axioms header No imports

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000019
literal: ontology module subsetted by OWL profile

AnnotationAssertion
abbreviated IRI: bfo:IAO_8000020
literal: EL++ ontology module

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: planned process

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: planned process

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: Injecting mice with a vaccine in order to test its efficacy

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: A process that realizes a plan which is the concretization of a plan specification.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: 'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some objectives is a planned process.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: Bjoern Peters

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000011
literal: branch derived

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000047
literal: processed material

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000047
literal: Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000047
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000047
literal: Is a material entity that is created or changed during material processing.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000047
literal: PERSON: Alan Ruttenberg

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: assay

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: Assay the wavelength of light emitted by excited Neon atoms. Count of geese flying over a house.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: A planned process with the objective to produce information about the material entity that is the evaluant, by physically examining it or its proxies.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: 12/3/12: BP: the reference to the 'physical examination' is included to point out that a prediction is not an assay, as that does not require physical examiniation.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: PlanAndPlannedProcess Branch

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: measuring

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: scientific observation

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000070
literal: OBI branch derived

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000967
literal: container

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000967
abbreviated IRI: bfo:IAO_0000123

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000967
literal: A device that can be used to restrict the location of material entities over time

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000967
literal: 03/21/2010: Added to allow classification of children (similar to what we want to do for 'measurement device'. Lookint at what classifies here, we may want to reconsider a contain function assigned to a part of an entity is necessarily also a function of the whole (e.g. is a centrifuge a container because it has test tubes as parts?)

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000967
literal: PERSON: Bjoern Peters

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: device

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: A voltmeter is a measurement device which is intended to perform some measure function.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: An autoclave is a device that sterlizes instruments or contaminated waste by applying high temperature and pressure.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: 2012-12-17 JAO: In common lab usage, there is a distinction made between devices and reagents that is difficult to model. Therefore we have chosen to specifically exclude reagents from the definition of "device", and are enumerating the types of roles that a reagent can perform. 2013-6-5 MHB: The following clarifications are outcomes of the May 2013 Philly Workshop. Reagents are distinguished from devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in some chemical interaction or reaction during the realization of their experimental role. By contrast, devices do not participate in such chemical reactions/interactions. Note that there are cases where devices use reagent components during their operation, where the reagent-device distinction is less clear. For example: (1) An HPLC machine is considered a device, but has a column that holds a stationary phase resin as an operational component. This resin qualifies as a device if it participates purely in size exclusion, but bears a reagent role that is realized in the running of a column if it interacts electrostatically or chemically with the evaluant. The container the resin is in (“the column”) considered alone is a device. So the entire column as well as the entire HPLC machine are devices that have a reagent as an operating part. (2) A pH meter is a device, but its electrode component bears a reagent role in virtue of its interacting directly with the evaluant in execution of an assay. (3) A gel running box is a device that has a metallic lead as a component that participates in a chemical reaction with the running buffer when a charge is passed through it. This metallic lead is considered to have a reagent role as a component of this device realized in the running of a gel. In the examples above, a reagent is an operational component of a device, but the device itself does not realize a reagent role (as bearing a reagent…

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: PERSON: Helen Parkinson

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: instrument

AnnotationAssertion
abbreviated IRI: bfo:OBI_0000968
literal: OBI development call 2012-12-17.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: organism

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: animal

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: fungus

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: plant

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: virus

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
abbreviated IRI: bfo:IAO_0000122

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: 10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: 13-02-2009: OBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus. This issue is outside the scope of OBI.

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: GROUP: OBI Biomaterial Branch

AnnotationAssertion
abbreviated IRI: bfo:OBI_0100026
literal: WEB: http://en.wikipedia.org/wiki/Organism

AnnotationAssertion
abbreviated IRI: bfo:OGMS_0000031
literal: A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0001000
literal: The term was added to the ontology on the assumption it was in scope, but it turned out later that it was not.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0001000
literal: This obsolesence reason should be used conservatively. Typical valid examples are: un-necessary grouping classes in disease ontologies, a phenotype term added on the assumption it was a disease.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0001000
IRI: http://orcid.org/0000-0001-5208-3432

AnnotationAssertion
abbreviated IRI: bfo:OMO_0001001
literal: This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0001001
literal: OBO Operations call

AnnotationAssertion
abbreviated IRI: bfo:OMO_0002000
literal: 'part disjoint with' 'defined by construct' """ PREFIX owl: <http://www.w3.org/2002/07/owl#> PREFIX : <http://example.org/ CONSTRUCT { [ a owl:Restriction ; owl:onProperty :part_of ; owl:someValuesFrom ?a ; owl:disjointWith [ a owl:Restriction ; owl:onProperty :part_of ; owl:someValuesFrom ?b ] ] } WHERE { ?a :part_disjoint_with ?b . }

AnnotationAssertion
abbreviated IRI: bfo:OMO_0002000
literal: Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0002000
IRI: https://github.com/ontodev/robot/issues/963

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003000
literal: CHEBI:26523 (reactive oxygen species) has an exact synonym (ROS), which is of type OMO:0003000 (abbreviation)

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003000
literal: A synonym type for describing abbreviations or initalisms

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003001
literal: A synonym type for describing ambiguous synonyms

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003002
literal: A synonym type for describing dubious synonyms

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003003
literal: EFO:0006346 (severe cutaneous adverse reaction) has an exact synonym (scar), which is of the type OMO:0003003 (layperson synonym)

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003003
literal: A synonym type for describing layperson or colloquial synonyms

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003004
literal: CHEBI:23367 (molecular entity) has an exact synonym (molecular entities), which is of the type OMO:0003004 (plural form)

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003004
literal: A synonym type for describing pluralization synonyms

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003005
literal: CHEBI:16189 (sulfate) has an exact synonym (sulphate), which is of the type OMO:0003005 (UK spelling synonym)

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003005
literal: A synonym type for describing UK spelling variants

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003006
literal: A synonym type for common misspellings

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003007
literal: A synonym type for misnomers, i.e., a synonym that is not technically correct but is commonly used anyway

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003008
literal: MAPT, the gene that encodes the Tau protein, has a previous name DDPAC. Note: in this case, the name type is more specifically the gene symbol.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003008
literal: A synonym type for names that have been used as primary labels in the past.

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003009
literal: The legal name for Harvard University (https://ror.org/03vek6s52) is President and Fellows of Harvard College

AnnotationAssertion
abbreviated IRI: bfo:OMO_0003009
literal: A synonym type for the legal entity name

AnnotationAssertion
annotation:
  literal: PATOC:GVG
abbreviated IRI: bfo:PATO_0000001
literal: A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities

AnnotationAssertion
annotation:
  literal: WordNet:WordNet
abbreviated IRI: bfo:PATO_0000402
literal: A branchiness quality inhering in a bearer by virtue of the bearer's having branches.

AnnotationAssertion
abbreviated IRI: bfo:PATO_0000402
literal: ramified

AnnotationAssertion
abbreviated IRI: bfo:PATO_0000402
literal: ramiform

AnnotationAssertion
annotation:
  literal: ISBN:0881923214
abbreviated IRI: bfo:PATO_0001199
literal: A shape quality inhering in a bearer by virtue of the bearer's being narrow, with the two opposite margins parallel.

AnnotationAssertion
annotation:
  literal: PATOC:nw
abbreviated IRI: bfo:PATO_0001470
literal: A quality inhering in a bearer by virtue of the bearer's magnitude in respect to a related entity.

AnnotationAssertion
abbreviated IRI: bfo:PATO_0001470
literal: proportion

AnnotationAssertion
abbreviated IRI: bfo:PATO_0001470
literal: proportionality

AnnotationAssertion
abbreviated IRI: bfo:PATO_0001470
literal: quotient

AnnotationAssertion
abbreviated IRI: bfo:PATO_0001470
literal: ratio

AnnotationAssertion
abbreviated IRI: bfo:PATO_0001470
literal: rate

AnnotationAssertion
annotation:
  literal: PATOC:GVG
abbreviated IRI: bfo:PATO_0002124
literal: A quality inhering in a bearer by virtue of the bearer's processing the form of a thin plate sheet or layer.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: inheres in

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: this fragility is a characteristic of this vase

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: this red color is a characteristic of this apple

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: inheres_in

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: 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.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000052
literal: characteristic of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: bearer of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: this apple is bearer of this red color

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: this vase is bearer of this fragility

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: Inverse of characteristic_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: bearer_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: is bearer of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000053
literal: has characteristic

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: participates in

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: this blood clot participates in this blood coagulation

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: this input material (or this output material) participates in this process

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: this investigator participates in this investigation

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: a relation between a continuant and a process, in which the continuant is somehow involved in the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0000056
literal: participates_in

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: has participant

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: this blood coagulation has participant this blood clot

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: this investigation has participant this investigator

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: this process has participant this input material (or this output material)

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: a relation between a process and a continuant, in which the continuant is somehow involved in the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000057
literal: has_participant

AnnotationAssertion
abbreviated IRI: bfo:RO_0000058
literal: A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).

AnnotationAssertion
abbreviated IRI: bfo:RO_0000058
literal: An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).

AnnotationAssertion
abbreviated IRI: bfo:RO_0000058
literal: A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000059
literal: A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).

AnnotationAssertion
abbreviated IRI: bfo:RO_0000059
literal: An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).

AnnotationAssertion
abbreviated IRI: bfo:RO_0000059
literal: A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: this catalysis function is a function of this enzyme

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: function_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: is function of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: 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.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000079
literal: function of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: this red color is a quality of this apple

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: A quality inheres in its bearer at all times for which the quality exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: is quality of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: quality_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: 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.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000080
literal: quality of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: this investigator role is a role of this person

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: is role of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: role_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: 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.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000081
literal: role of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000085
literal: this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)

AnnotationAssertion
abbreviated IRI: bfo:RO_0000085
literal: a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000085
literal: A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000085
literal: has_function

AnnotationAssertion
abbreviated IRI: bfo:RO_0000085
literal: has function

AnnotationAssertion
abbreviated IRI: bfo:RO_0000086
literal: this apple has quality this red color

AnnotationAssertion
abbreviated IRI: bfo:RO_0000086
literal: a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000086
literal: A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000086
literal: has_quality

AnnotationAssertion
abbreviated IRI: bfo:RO_0000086
literal: has quality

AnnotationAssertion
abbreviated IRI: bfo:RO_0000087
literal: this person has role this investigator role (more colloquially: this person has this role of investigator)

AnnotationAssertion
abbreviated IRI: bfo:RO_0000087
literal: a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000087
literal: A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000087
literal: has_role

AnnotationAssertion
abbreviated IRI: bfo:RO_0000087
literal: has role

AnnotationAssertion
abbreviated IRI: bfo:RO_0000091
literal: a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence

AnnotationAssertion
abbreviated IRI: bfo:RO_0000091
literal: has disposition

AnnotationAssertion
abbreviated IRI: bfo:RO_0000092
literal: inverse of has disposition

AnnotationAssertion
abbreviated IRI: bfo:RO_0000092
abbreviated IRI: bfo:RO_0002259

AnnotationAssertion
abbreviated IRI: bfo:RO_0000092
literal: 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.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000092
literal: disposition of

AnnotationAssertion
abbreviated IRI: bfo:RO_0000300
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0000300
literal: OBSOLETE A relation that holds between two neurons connected directly via a synapse, or indirectly via a series of synaptically connected neurons.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000300
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0000301
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0000301
literal: OBSOLETE A relation that holds between a neuron that is synapsed_to another neuron or a neuron that is connected indirectly to another by a chain of neurons, each synapsed_to the next, in which the direction is from the last to the first.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000301
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0000302
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0000302
literal: OBSOLETE A relation that holds between a neuron that is synapsed_by another neuron or a neuron that is connected indirectly to another by a chain of neurons, each synapsed_by the next, in which the direction is from the last to the first.

AnnotationAssertion
abbreviated IRI: bfo:RO_0000302
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
literal: this cell derives from this parent cell (cell division)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
literal: this nucleus derives from this parent nucleus (nuclear division)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
literal: a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
literal: This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001000
literal: derives_from

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
literal: this parent cell derives into this cell (cell division)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
literal: this parent nucleus derives into this nucleus (nuclear division)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
literal: a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
literal: This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001001
literal: derives_into

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: is location of

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: my head is the location of my brain

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: this cage is the location of this rat

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: a relation between two independent continuants, the location and the target, in which the target is entirely within the location

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/

AnnotationAssertion
abbreviated IRI: bfo:RO_0001015
literal: location_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0001018
literal: contained in

AnnotationAssertion
abbreviated IRI: bfo:RO_0001018
literal: Containment is location not involving parthood, and arises only where some immaterial continuant is involved.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001018
literal: Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. The containment relation on the instance level can then be defined (see definition):

AnnotationAssertion
abbreviated IRI: bfo:RO_0001018
literal: contained_in

AnnotationAssertion
abbreviated IRI: bfo:RO_0001019
literal: contains

AnnotationAssertion
abbreviated IRI: bfo:RO_0001020
literal: penicillin (CHEBI:17334) is allergic trigger for penicillin allergy (DOID:0060520)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001020
literal: A relation between a material entity and a condition (a phenotype or disease) of a host, in which the material entity is not part of the host, and is considered harmless to non-allergic hosts, and the condition results in pathological processes that include an abnormally strong immune response against the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001021
literal: A relation between a material entity and a condition (a phenotype or disease) of a host, in which the material entity is part of the host itself, and the condition results in pathological processes that include an abnormally strong immune response against the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001022
literal: penicillin allergy (DOID:0060520) has allergic trigger penicillin (CHEBI:17334)

AnnotationAssertion
abbreviated IRI: bfo:RO_0001022
literal: A relation between a condition (a phenotype or disease) of a host and a material entity, in which the material entity is not part of the host, and is considered harmless to non-allergic hosts, and the condition results in pathological processes that include an abnormally strong immune response against the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001023
literal: A relation between a condition (a phenotype or disease) of a host and a material entity, in which the material entity is part of the host itself, and the condition results in pathological processes that include an abnormally strong immune response against the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001900
literal: An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context.

AnnotationAssertion
abbreviated IRI: bfo:RO_0001900
literal: temporal interpretation

AnnotationAssertion
abbreviated IRI: bfo:RO_0001900
IRI: http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/

AnnotationAssertion
abbreviated IRI: bfo:RO_0001901
literal: ## Elucidation This is used when the statement/axiom is assumed to hold true 'eternally' ## How to interpret (informal) First the "atemporal" FOL is derived from the OWL using the standard interpretation. This axiom is temporalized by embedding the axiom within a for-all-times quantified sentence. The t argument is added to all instantiation predicates and predicates that use this relation. ## Example Class: nucleus SubClassOf: part_of some cell forall t : forall n : instance_of(n,Nucleus,t) implies exists c : instance_of(c,Cell,t) part_of(n,c,t) ## Notes This interpretation is *not* the same as an at-all-times relation

AnnotationAssertion
abbreviated IRI: bfo:RO_0001902
literal: ## Elucidation This is used when the first-order logic form of the relation is binary, and takes no temporal argument. ## Example: Class: limb SubClassOf: develops_from some lateral-plate-mesoderm forall t, t2: forall x : instance_of(x,Limb,t) implies exists y : instance_of(y,LPM,t2) develops_from(x,y)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: the surface of my skin is a 2D boundary of my body

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: 2D_boundary_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: boundary of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: is 2D boundary of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: is boundary of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002000
literal: surface of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002001
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002001
literal: May be obsoleted, see https://github.com/oborel/obo-relations/issues/260

AnnotationAssertion
abbreviated IRI: bfo:RO_0002001
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: my body has 2D boundary the surface of my skin

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: has boundary

AnnotationAssertion
abbreviated IRI: bfo:RO_0002002
literal: has_2D_boundary

AnnotationAssertion
abbreviated IRI: bfo:RO_0002003
literal: A relation that holds between two neurons that are electrically coupled via gap junctions.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002003
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002004
literal: The relationship that holds between a trachea or tracheole and an antomical structure that is contained in (and so provides an oxygen supply to).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002004
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002005
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002006
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002007
literal: X outer_layer_of Y iff: . X :continuant that bearer_of some PATO:laminar . X part_of Y . exists Z :surface . X has_boundary Z . Z boundary_of Y has_boundary: http://purl.obolibrary.org/obo/RO_0002002 boundary_of: http://purl.obolibrary.org/obo/RO_0002000

AnnotationAssertion
abbreviated IRI: bfo:RO_0002007
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002008
literal: A relation that holds between two linear structures that are approximately parallel to each other for their entire length and where either the two structures are adjacent to each other or one is part of the other.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002008
literal: Note from NCEAS meeting: consider changing primary label

AnnotationAssertion
abbreviated IRI: bfo:RO_0002008
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002009
literal: A relation that applies between a cell(c) and a gene(g) , where the process of 'transcription, DNA templated (GO_0006351)' is occuring in in cell c and that process has input gene g.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002009
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002010
literal: x 'regulates in other organism' y if and only if: (x is the realization of a function to exert an effect on the frequency, rate or extent of y) AND (the agents of x are produced by organism o1 and the agents of y are produced by organism o2).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002010
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002010
literal: regulates in other organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002011
literal: A relationship that holds between a process that regulates a transport process and the entity transported by that process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002011
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002012
literal: A part of relation that applies only between occurrents.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002013
literal: A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002014
literal: A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002015
literal: A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002018
literal: w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002019
literal: A relationship that holds between between a receptor and an chemical entity, typically a small molecule or peptide, that carries information between cells or compartments of a cell and which binds the receptor and regulates its effector function.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002020
literal: Holds between p and c when p is a transport process or transporter activity and the outcome of this p is to move c from one location to another.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002021
literal: A relationship between a process and a barrier, where the process occurs in a region spanning the barrier. For cellular processes the barrier is typically a membrane. Examples include transport across a membrane and membrane depolarization.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-7073-9172
abbreviated IRI: bfo:RO_0002023
literal: Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively 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 negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-7073-9172
abbreviated IRI: bfo:RO_0002024
literal: Process(P2) is directly postively regulated by process(P1) iff: P1 positively 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 positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-7073-9172
abbreviated IRI: bfo:RO_0002025
literal: A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-7073-9172
abbreviated IRI: bfo:RO_0002026
literal: A relationship that holds between two images, A and B, where: A depicts X; B depicts Y; X and Y are both of type T' C is a 2 layer image consiting of layers A and B; A and B are aligned in C according to a shared co-ordinate framework so that common features of X and Y are co-incident with each other. Note: A and B may be 2D or 3D. Examples include: the relationship between two channels collected simultaneously from a confocal microscope; the relationship between an image dpeicting X and a painted annotation layer that delineates regions of X; the relationship between the tracing of a neuron on an EM stack and the co-ordinate space of the stack; the relationship between two separately collected images that have been brought into register via some image registration software.

AnnotationAssertion
annotation:
  literal: PMID:24138933
annotation:
  literal: Wikipedia:Infant_mortality
abbreviated IRI: bfo:RO_0002029
literal: Then percentage of organisms in a population that die during some specified age range (age-specific mortality rate), minus the percentage that die in during the same age range in a wild-type population.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002081
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002081
literal: <=

AnnotationAssertion
abbreviated IRI: bfo:RO_0002082
literal: x simultaneous with y iff ω(x) = ω(y) and ω(α ) = ω(α), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point and '=' indicates the same instance in time.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002082
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002082
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002083
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002084
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002085
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002085
literal: di

AnnotationAssertion
abbreviated IRI: bfo:RO_0002086
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002087
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002087
literal: starts_at_end_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002088
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002089
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002090
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002090
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002090
literal: ends_at_start_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002090
literal: meets

AnnotationAssertion
abbreviated IRI: bfo:RO_0002091
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002091
literal: io

AnnotationAssertion
abbreviated IRI: bfo:RO_0002092
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002092
literal: d

AnnotationAssertion
abbreviated IRI: bfo:RO_0002092
literal: during

AnnotationAssertion
abbreviated IRI: bfo:RO_0002093
literal: David Osumi-Sutherland

AnnotationAssertion
abbreviated IRI: bfo:RO_0002093
literal: o

AnnotationAssertion
abbreviated IRI: bfo:RO_0002093
literal: overlaps

AnnotationAssertion
abbreviated IRI: bfo:RO_0002100
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002100
literal: Relation between a neuron and a material anatomical entity that its soma is part of.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002100
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002101
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002101
literal: relationship between a neuron and a neuron projection bundle (e.g.- tract or nerve bundle) that one or more of its projections travels through.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002101
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002101
literal: fasciculates with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002102
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002102
literal: Relation between a neuron and some structure its axon forms (chemical) synapses in.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002102
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002102
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002103
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002103
literal: Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002103
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002103
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
literal: Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814]

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
literal: Holds between a cell c and a protein complex or protein p if and only if that cell has as part a plasma_membrane[GO:0005886], and that plasma membrane has p as part.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
IRI: https://orcid.org/0000-0001-9990-8331

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
IRI: https://orcid.org/0000-0003-1617-8244

AnnotationAssertion
abbreviated IRI: bfo:RO_0002104
IRI: http://www.ncbi.nlm.nih.gov/pubmed/19243617

AnnotationAssertion
abbreviated IRI: bfo:RO_0002105
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002105
literal: A relation between a motor neuron and a muscle that it synapses to via a type Ib bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002105
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002105
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002106
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002106
literal: A relation between a motor neuron and a muscle that it synapses to via a type Is bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002106
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002106
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002107
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002107
literal: A relation between a motor neuron and a muscle that it synapses to via a type II bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002107
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002107
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002108
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002108
literal: Relation between a muscle and a motor neuron that synapses to it via a type II bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002108
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002108
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002109
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002109
literal: Relation between a muscle and a motor neuron that synapses to it via a type Ib bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002109
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002109
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002110
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002110
literal: Relation between a neuron and some structure (e.g.- a brain region) in which it receives (chemical) synaptic input.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002110
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002110
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002110
literal: synapsed in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002111
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002111
literal: has neurotransmitter

AnnotationAssertion
abbreviated IRI: bfo:RO_0002112
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002112
literal: Relation between a muscle and a motor neuron that synapses to it via a type Is bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002112
IRI: https://orcid.org/0000-0001-5948-3092

AnnotationAssertion
abbreviated IRI: bfo:RO_0002112
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002113
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002113
literal: Relation between a neuron and some structure (e.g.- a brain region) in which it receives (chemical) synaptic input.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002113
literal: synapses in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002114
literal: A relation between a motor neuron and a muscle that it synapses to via a type III bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002115
literal: Relation between a muscle and a motor neuron that synapses to it via a type III bouton.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002120
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002120
literal: Relation between a neuron and an anatomical structure (including cells) that it chemically synapses to.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002120
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002120
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002121
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002121
literal: Relation between a neuron and some structure (e.g.- a brain region) in which its dendrite receives synaptic input.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002121
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002121
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002130
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002130
literal: A general relation between a neuron and some structure in which it either chemically synapses to some target or in which it receives (chemical) synaptic input.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002130
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002130
literal: has synapse in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002131
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002131
literal: x overlaps y if and only if there exists some z such that x has part z and z part of y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002132
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002132
literal: The relation between a neuron projection bundle and a neuron projection that is fasciculated with it.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002132
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002132
literal: has fasciculating component

AnnotationAssertion
abbreviated IRI: bfo:RO_0002134
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002134
literal: Relation between a 'neuron projection bundle' and a region in which one or more of its component neuron projections either synapses to targets or receives synaptic input. T innervates some R Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002134
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002150
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002150
literal: X continuous_with Y if and only if X and Y share a fiat boundary.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002150
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002150
literal: connected to

AnnotationAssertion
abbreviated IRI: bfo:RO_0002151
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002151
literal: x partially overlaps y iff there exists some z such that z is part of x and z is part of y, and it is also the case that neither x is part of y or y is part of x

AnnotationAssertion
abbreviated IRI: bfo:RO_0002151
literal: We would like to include disjointness axioms with part_of and has_part, however this is not possible in OWL2 as these are non-simple properties and hence cannot appear in a disjointness axiom

AnnotationAssertion
abbreviated IRI: bfo:RO_0002151
literal: proper overlaps

AnnotationAssertion
abbreviated IRI: bfo:RO_0002156
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002156
literal: d derived_by_descent_from a if d is specified by some genetic program that is sequence-inherited-from a genetic program that specifies a.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002156
literal: ancestral_stucture_of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002156
literal: evolutionarily_descended_from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002157
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002157
literal: inverse of derived by descent from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002158
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002158
literal: two individual entities d1 and d2 stand in a shares_ancestor_with relation if and only if there exists some a such that d1 derived_by_descent_from a and d2 derived_by_descent_from a.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002159
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
literal: lactation SubClassOf 'only in taxon' some 'Mammalia'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
literal: x only in taxon y if and only if x is in taxon y, and there is no other organism z such that y!=z a and x is in taxon z.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
literal: The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g. 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
IRI: http://www.ncbi.nlm.nih.gov/pubmed/17921072

AnnotationAssertion
abbreviated IRI: bfo:RO_0002160
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20973947

AnnotationAssertion
abbreviated IRI: bfo:RO_0002161
literal: tooth SubClassOf 'never in taxon' value 'Aves'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002161
literal: x never in taxon T if and only if T is a class, and x does not instantiate the class expression "in taxon some T". Note that this is a shortcut relation, and should be used as a hasValue restriction in OWL.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002161
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002161
IRI: http://www.ncbi.nlm.nih.gov/pubmed/17921072

AnnotationAssertion
abbreviated IRI: bfo:RO_0002161
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20973947

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
literal: x is in taxon y if an only if y is an organism, and the relationship between x and y is one of: part of (reflexive), developmentally preceded by, derives from, secreted by, expressed.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
IRI: https://orcid.org/0000-0001-9227-417X

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
IRI: http://www.ncbi.nlm.nih.gov/pubmed/17921072

AnnotationAssertion
abbreviated IRI: bfo:RO_0002162
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20973947

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: A is spatially_disjoint_from B if and only if they have no parts in common

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: BFO_0000051 exactly 0 (BFO_0000050 some ?Y)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
abbreviated IRI: bfo:RO_0001901

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
IRI: http://purl.obolibrary.org/obo/ro/subsets#ro-eco

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: spatially disjoint from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002163
literal: https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern

AnnotationAssertion
abbreviated IRI: bfo:RO_0002170
literal: a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002170
literal: a is connected to b if and only if a and b are discrete structure, and there exists some connecting structure c, such that c connects a and b

AnnotationAssertion
abbreviated IRI: bfo:RO_0002170
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002171
literal: A is mutually_spatially_disjoint_with B if both A and B are classes, and there exists no p such that p is part_of some A and p is part_of some B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002171
literal: non-overlapping with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002171
literal: shares no parts with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002171
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002172
literal: An assertion that holds between an ontology class and an organism taxon class, which is intepreted to yield some relationship between instances of the ontology class and the taxon.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002173
literal: S ambiguous_for_taxon T if the class S does not have a clear referent in taxon T. An example would be the class 'manual digit 1', which encompasses a homology hypotheses that is accepted for some species (e.g. human and mouse), but does not have a clear referent in Aves - the referent is dependent on the hypothesis embraced, and also on the ontogenetic stage. [PHENOSCPAE:asilomar_mtg]

AnnotationAssertion
abbreviated IRI: bfo:RO_0002174
literal: S dubious_for_taxon T if it is probably the case that no instances of S can be found in any instance of T.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002174
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002174
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002175
literal: S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S

AnnotationAssertion
abbreviated IRI: bfo:RO_0002175
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002175
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002176
literal: The M8 connects Glasgow and Edinburgh

AnnotationAssertion
abbreviated IRI: bfo:RO_0002176
literal: a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002176
literal: c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002176
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002177
literal: a is attached to part of b if a is attached to b, or a is attached to some p, where p is part of b.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002178
literal: Relation between an arterial structure and another structure, where the arterial structure acts as a conduit channeling fluid, substance or energy.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002178
literal: Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between an artery and an anatomical structure

AnnotationAssertion
abbreviated IRI: bfo:RO_0002178
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002179
literal: Relation between an collecting structure and another structure, where the collecting structure acts as a conduit channeling fluid, substance or energy away from the other structure.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002179
literal: Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between a vein and an anatomical structure

AnnotationAssertion
abbreviated IRI: bfo:RO_0002179
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002180
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002180
literal: w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002180
literal: The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002200
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002200
literal: A relationship that holds between a biological entity and a phenotype. Here a phenotype is construed broadly as any kind of quality of an organism part, a collection of these qualities, or a change in quality or qualities (e.g. abnormally increased temperature). The subject of this relationship can be an organism (where the organism has the phenotype, i.e. the qualities inhere in parts of this organism), a genomic entity such as a gene or genotype (if modifications of the gene or the genotype causes the phenotype), or a condition such as a disease (such that if the condition inheres in an organism, then the organism has the phenotype).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002200
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002201
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002201
literal: inverse of has phenotype

AnnotationAssertion
abbreviated IRI: bfo:RO_0002201
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
literal: x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
IRI: https://orcid.org/0000-0001-9114-8737

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002202
IRI: https://orcid.org/0000-0003-1980-3228

AnnotationAssertion
abbreviated IRI: bfo:RO_0002203
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002203
literal: inverse of develops from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002203
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002203
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002203
IRI: https://orcid.org/0000-0003-1980-3228

AnnotationAssertion
abbreviated IRI: bfo:RO_0002204
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002204
literal: definition "x has gene product of y if and only if y is a gene (SO:0000704) that participates in some gene expression process (GO:0010467) where the output of that process is either y or something that is ribosomally translated from x"

AnnotationAssertion
abbreviated IRI: bfo:RO_0002204
literal: We would like to be able to express the rule: if t transcribed from g, and t is a noncoding RNA and has an evolved function, then t has gene product g.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002204
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002205
literal: every HOTAIR lncRNA is the gene product of some HOXC gene

AnnotationAssertion
abbreviated IRI: bfo:RO_0002205
literal: every sonic hedgehog protein (PR:000014841) is the gene product of some sonic hedgehog gene

AnnotationAssertion
abbreviated IRI: bfo:RO_0002205
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002205
literal: x has gene product y if and only if x is a gene (SO:0000704) that participates in some gene expression process (GO:0010467) where the output of that process is either y or something that is ribosomally translated from y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002205
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002206
literal: 'neural crest cell' SubClassOf expresses some 'Wnt1 gene'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002206
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002206
literal: x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002206
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
literal: Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
literal: FBbt

AnnotationAssertion
abbreviated IRI: bfo:RO_0002207
literal: has developmental precursor

AnnotationAssertion
abbreviated IRI: bfo:RO_0002208
literal: A parasite that kills or sterilizes its host

AnnotationAssertion
abbreviated IRI: bfo:RO_0002209
literal: inverse of parasitoid of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002210
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002210
literal: inverse of directly develops from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002210
literal: developmental precursor of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
literal: p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
IRI: https://orcid.org/0000-0001-7476-6306

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
IRI: https://orcid.org/0000-0002-3837-8864

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
literal: GO

AnnotationAssertion
abbreviated IRI: bfo:RO_0002211
literal: false

AnnotationAssertion
abbreviated IRI: bfo:RO_0002212
literal: p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002212
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002212
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002213
literal: p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002213
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002213
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: 'human p53 protein' SubClassOf some ('has prototype' some ('participates in' some 'DNA repair'))

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: heart SubClassOf 'has prototype' some ('participates in' some 'blood circulation')

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: x has prototype y if and only if x is an instance of C and y is a prototypical instance of C. For example, every instance of heart, both normal and abnormal is related by the has prototype relation to some instance of a "canonical" heart, which participates in blood circulation.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: Experimental. In future there may be a formalization in which this relation is treated as a shortcut to some modal logic axiom. We may decide to obsolete this and adopt a more specific evolutionary relationship (e.g. evolved from)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: TODO: add homeomorphy axiom

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
literal: This property can be used to make weaker forms of certain relations by chaining an additional property. For example, we may say: retina SubClassOf has_prototype some 'detection of light'. i.e. every retina is related to a prototypical retina instance which is detecting some light. Note that this is very similar to 'capable of', but this relation affords a wider flexibility. E.g. we can make a relation between continuants.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002214
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
literal: mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
literal: osteoclast SubClassOf 'capable of' some 'bone resorption'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
literal: A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
literal: has function realized in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20123131

AnnotationAssertion
abbreviated IRI: bfo:RO_0002215
IRI: http://www.ncbi.nlm.nih.gov/pubmed/21208450

AnnotationAssertion
abbreviated IRI: bfo:RO_0002216
literal: c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002216
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002216
literal: has function in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002217
literal: OBSOLETE x actively participates in y if and only if x participates in y and x realizes some active role

AnnotationAssertion
abbreviated IRI: bfo:RO_0002217
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002217
literal: agent in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002218
literal: OBSOLETE x has participant y if and only if x realizes some active role that inheres in y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002218
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002218
literal: has agent

AnnotationAssertion
abbreviated IRI: bfo:RO_0002219
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002219
literal: x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x

AnnotationAssertion
abbreviated IRI: bfo:RO_0002219
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
annotation:
  IRI: https://github.com/jhpoelen/eol-globi-data/issues/225#issuecomment-218584934
abbreviated IRI: bfo:RO_0002220
literal: A caterpillar walking on the surface of a leaf is adjacent_to the leaf, if one of the caterpillar appendages is touching the leaf. In contrast, a butterfly flying close to a flower is not considered adjacent, unless there are any touching parts.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
literal: The epidermis layer of a vertebrate is adjacent to the dermis.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
literal: The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
literal: The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
literal: x adjacent to y if and only if x and y share a boundary.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
literal: This relation acts as a join point with BSPO

AnnotationAssertion
abbreviated IRI: bfo:RO_0002220
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002221
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002221
literal: inverse of surrounded by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002221
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002222
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002222
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002222
IRI: https://en.wikipedia.org/wiki/Allen%27s_interval_algebra

AnnotationAssertion
abbreviated IRI: bfo:RO_0002223
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002223
literal: inverse of starts with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002223
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002223
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:RO_0002223
literal: Allen

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
literal: Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
literal: x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:RO_0002224
literal: started by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002225
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002225
literal: x develops from part of y if and only if there exists some z such that x develops from z and z is part of y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002225
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002226
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002226
literal: x develops_in y if x is located in y whilst x is developing

AnnotationAssertion
abbreviated IRI: bfo:RO_0002226
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002226
literal: EHDAA2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002226
literal: Jonathan Bard, EHDAA2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002227
literal: A sub-relation of parasite-of in which the parasite that cannot complete its life cycle without a host.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002228
literal: A sub-relations of parasite-of in which the parasite that can complete its life cycle independent of a host.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002229
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002229
literal: inverse of ends with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002229
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002229
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:RO_0002230
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002230
literal: x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002230
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002230
literal: Chris Mungall

AnnotationAssertion
abbreviated IRI: bfo:RO_0002230
literal: finished by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002231
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002231
literal: x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002231
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002231
literal: starts with process that occurs in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002232
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002232
literal: x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002232
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002232
literal: ends with process that occurs in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002233
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002233
literal: p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002233
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002233
literal: consumes

AnnotationAssertion
abbreviated IRI: bfo:RO_0002234
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002234
literal: p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002234
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002234
literal: produces

AnnotationAssertion
abbreviated IRI: bfo:RO_0002235
literal: A parasite-of relationship in which the host is a plant and the parasite that attaches to the host stem (PO:0009047)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002236
literal: A parasite-of relationship in which the host is a plant and the parasite that attaches to the host root (PO:0009005)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002237
literal: A sub-relation of parasite-of in which the parasite is a plant, and the parasite is parasitic under natural conditions and is also photosynthetic to some degree. Hemiparasites may just obtain water and mineral nutrients from the host plant. Many obtain at least part of their organic nutrients from the host as well.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002238
literal: X 'has component participant' Y means X 'has participant' Y and there is a cardinality constraint that specifies the numbers of Ys.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002240
literal: A broad relationship between an exposure event or process and any entity (e.g., an organism, organism population, or an organism part) that interacts with an exposure stimulus during the exposure event.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002240
literal: ExO:0000001

AnnotationAssertion
abbreviated IRI: bfo:RO_0002241
literal: A broad relationship between an exposure event or process and any agent, stimulus, activity, or event that causes stress or tension on an organism and interacts with an exposure receptor during an exposure event.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002241
literal: ExO:0000000

AnnotationAssertion
abbreviated IRI: bfo:RO_0002242
literal: A broad relationship between an exposure event or process and a process by which the exposure stressor comes into contact with the exposure receptor

AnnotationAssertion
abbreviated IRI: bfo:RO_0002242
literal: ExO:0000055

AnnotationAssertion
abbreviated IRI: bfo:RO_0002243
literal: A broad relationship between an exposure event or process and the course takes from the source to the target.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002243
literal: http://purl.obolibrary.org/obo/ExO_0000004

AnnotationAssertion
abbreviated IRI: bfo:RO_0002244
literal: Any relationship between an exposure event or process and any other entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002245
literal: g is over-expressed in t iff g is expressed in t, and the expression level of g is increased relative to some background.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002246
literal: g is under-expressed in t iff g is expressed in t, and the expression level of g is decreased relative to some background.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002248
literal: Any portion of roundup 'has active ingredient' some glyphosate

AnnotationAssertion
abbreviated IRI: bfo:RO_0002248
literal: A relationship that holds between a substance and a chemical entity, if the chemical entity is part of the substance, and the chemical entity forms the biologically active component of the substance.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002248
literal: has active substance

AnnotationAssertion
abbreviated IRI: bfo:RO_0002248
literal: has active pharmaceutical ingredient

AnnotationAssertion
abbreviated IRI: bfo:RO_0002249
literal: inverse of has active ingredient

AnnotationAssertion
abbreviated IRI: bfo:RO_0002252
literal: In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is connecting branch of S, and B1-1 as a connecting branch of B1.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002252
literal: b connecting-branch-of s iff b is connected to s, and there exists some tree-like structure t such that the mereological sum of b plus s is either the same as t or a branching-part-of t.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002253
literal: inverse of connecting branch of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002254
literal: Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]

AnnotationAssertion
abbreviated IRI: bfo:RO_0002254
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002254
literal: x has developmental contribution from y iff x has some part z such that z develops from y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002254
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002255
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002255
literal: inverse of has developmental contribution from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002255
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
literal: t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor material anatomical entity type T to T', where T' develops_from T

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
IRI: https://orcid.org/0000-0001-9114-8737

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
IRI: https://orcid.org/0000-0002-7073-9172

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
literal: induced by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
literal: Developmental Biology, Gilbert, 8th edition, figure 6.5(F)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002256
literal: GO:0001759

AnnotationAssertion
abbreviated IRI: bfo:RO_0002257
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002257
literal: Inverse of developmentally induced by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002257
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002258
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002258
literal: Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002258
literal: false

AnnotationAssertion
abbreviated IRI: bfo:RO_0002258
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002260
literal: c has-biological-role r iff c has-role r and r is a biological role (CHEBI:24432)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002261
literal: c has-application-role r iff c has-role r and r is an application role (CHEBI:33232)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002262
literal: c has-chemical-role r iff c has-role r and r is a chemical role (CHEBI:51086)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002263
literal: A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002263
literal: c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002264
literal: A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002264
literal: c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002264
literal: affects

AnnotationAssertion
abbreviated IRI: bfo:RO_0002285
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002285
literal: x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else

AnnotationAssertion
abbreviated IRI: bfo:RO_0002285
literal: This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage

AnnotationAssertion
abbreviated IRI: bfo:RO_0002285
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002285
literal: replaces

AnnotationAssertion
abbreviated IRI: bfo:RO_0002286
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002286
literal: Inverse of developmentally preceded by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002286
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002287
literal: 'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue

AnnotationAssertion
abbreviated IRI: bfo:RO_0002287
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002287
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002291
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002291
literal: x is ubiquitously expressed in y if and only if x is expressed in y, and the majority of cells in y express x

AnnotationAssertion
abbreviated IRI: bfo:RO_0002291
literal: Revisit this term after coordinating with SO/SOM. The domain of this relation should be a sequence, as an instance of a DNA molecule is only expressed in the cell of which it is a part.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002291
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002292
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002292
literal: y expresses x if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and x was transcribed from a gene as part of the gene expression process (iii) x is a mature gene product (protein or RNA), and x was translated or otherwise processed from a transcript that was transcribed as part of the gene expression process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002292
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002293
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002293
literal: inverse of ubiquiotously expressed in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002293
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002295
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002295
literal: p results in the developmental progression of s iff p is a developmental process and s is an anatomical entity and p causes s to undergo a change in state at some point along its natural developmental cycle (this cycle starts with its formation, through the mature structure, and ends with its loss).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002295
literal: This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002295
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002296
literal: every flower development (GO:0009908) results in development of some flower (PO:0009046)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002296
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002296
literal: p 'results in development of' c if and only if p is a developmental process and p results in the state of c changing from its initial state as a primordium or anlage through its mature state and to its final state.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002296
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002296
literal: http://www.geneontology.org/GO.doc.development.shtml

AnnotationAssertion
abbreviated IRI: bfo:RO_0002297
literal: an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002297
literal: every "endocardial cushion formation" (GO:0003272) results_in_formation_of some "endocardial cushion" (UBERON:0002062)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002297
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002297
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002297
literal: GOC:mtg_berkeley_2013

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
literal: an annotation of gene X to cell morphogenesis with results_in_morphogenesis_of CL:0000540 (neuron) means that at the end of the process an input neuron has attained its shape.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
literal: tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
literal: The relationship that links an entity with the process that results in the formation and shaping of that entity over time from an immature to a mature state.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002298
literal: GOC:mtg_berkeley_2013

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
literal: an annotation of gene X to cell maturation with results_in_maturation_of CL:0000057 (fibroblast) means that the fibroblast is mature at the end of the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
literal: bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
literal: The relationship that links an entity with a process that results in the progression of the entity over time that is independent of changes in it's shape and results in an end point state of that entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002299
literal: GOC:mtg_berkeley_2013

AnnotationAssertion
abbreviated IRI: bfo:RO_0002300
literal: foramen ovale closure SubClassOf results in disappearance of foramen ovale

AnnotationAssertion
abbreviated IRI: bfo:RO_0002300
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002300
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002301
literal: every mullerian duct regression (GO:0001880) results in regression of some mullerian duct (UBERON:0003890)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002301
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0002301
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002302
literal: Inverse of 'is substance that treats'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002303
literal: Hydrozoa (NCBITaxon_6074) SubClassOf 'has habitat' some 'Hydrozoa habitat' where 'Hydrozoa habitat' SubClassOf overlaps some ('marine environment' (ENVO_00000569) and 'freshwater environment' (ENVO_01000306) and 'wetland' (ENVO_00000043)) and 'has part' some (freshwater (ENVO_00002011) or 'sea water' (ENVO_00002149)) -- http://eol.org/pages/1795/overview

AnnotationAssertion
abbreviated IRI: bfo:RO_0002303
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002303
literal: x 'has habitat' y if and only if: x is an organism, y is a habitat, and y can sustain and allow the growth of a population of xs.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002303
IRI: https://orcid.org/0000-0002-4366-3088

AnnotationAssertion
abbreviated IRI: bfo:RO_0002303
literal: adapted for living in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002304
literal: p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002305
literal: p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002309
literal: A relationship between an exposure event or process and any agent, stimulus, activity, or event that causally effects an organism and interacts with an exposure receptor during an exposure event.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002310
literal: An exposure event in which a human is exposed to particulate matter in the air. Here the exposure stimulus/stress is the particulate matter, the receptor is the airways and lungs of the human,

AnnotationAssertion
abbreviated IRI: bfo:RO_0002310
literal: An exposure event in which a plant is provided with fertilizer. The exposure receptor is the root system of the plant, the stimulus is the fertilizing chemical, the route is via the soil, possibly mediated by symbotic microbes.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002310
literal: OBSOLETE A process occurring within or in the vicinity of an organism that exerts some causal influence on the organism via the interaction between an exposure stimulus and an exposure receptor. The exposure stimulus may be a process, material entity or condition (for example, lack of nutrients). The exposure receptor can be an organism, organism population or a part of an organism.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002310
literal: This class is intended as a grouping for various domain and species-specific exposure classes. The ExO class http://purl.obolibrary.org/obo/ExO_0000002 'exposure event' assumes that all exposures involve stressors, which limits the applicability of this class to 'positive' exposures, e.g. exposing a plant to beneficial growing conditions.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002312
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002313
literal: Holds between p and c when p is a localization process (localization covers maintenance of localization as well as its establishment) and the outcome of this process is to regulate the localization of c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002313
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002313
literal: regulates localization of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
literal: q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
literal: Because part_of is transitive, inheres in is a sub-relation of characteristic of part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
literal: inheres in part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
literal: characteristic of part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002314
IRI: http://purl.obolibrary.org/obo/ro/docs/reflexivity/

AnnotationAssertion
abbreviated IRI: bfo:RO_0002315
literal: an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002315
literal: The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0002315
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002315
literal: GOC:mtg_berkeley_2013

AnnotationAssertion
abbreviated IRI: bfo:RO_0002320
literal: A relationship that holds via some environmental process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002320
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002321
literal: A relationship that is mediated in some way by the environment or environmental feature (ENVO:00002297)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002321
literal: Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6

AnnotationAssertion
abbreviated IRI: bfo:RO_0002321
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002322
literal: An experimental relation currently used to connect a feature possessed by an organism (e.g. anatomical structure, biological process, phenotype or quality) to a habitat or environment in which that feature is well suited, adapted or provides a reproductive advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002322
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002322
literal: adapted for

AnnotationAssertion
abbreviated IRI: bfo:RO_0002323
literal: A mereological relationship or a topological relationship

AnnotationAssertion
abbreviated IRI: bfo:RO_0002323
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002323
literal: Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships

AnnotationAssertion
abbreviated IRI: bfo:RO_0002323
abbreviated IRI: bfo:RO_0001901

AnnotationAssertion
abbreviated IRI: bfo:RO_0002323
literal: mereotopologically related to

AnnotationAssertion
abbreviated IRI: bfo:RO_0002324
literal: A relationship that holds between entities participating in some developmental process (GO:0032502)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002324
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002325
literal: Clp1p relocalizes from the nucleolus to the spindle and site of cell division; i.e. it is associated transiently with the spindle pole body and the contractile ring (evidence from GFP fusion). Clp1p colocalizes_with spindle pole body (GO:0005816) and contractile ring (GO:0005826)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002325
literal: a colocalizes_with b if and only if a is transiently or peripherally associated with b[GO].

AnnotationAssertion
abbreviated IRI: bfo:RO_0002325
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002326
literal: ATP citrate lyase (ACL) in Arabidopsis: it is a heterooctamer, composed of two types of subunits, ACLA and ACLB in a A(4)B(4) stoichiometry. Neither of the subunits expressed alone give ACL activity, but co-expression results in ACL activity. Both subunits contribute_to the ATP citrate lyase activity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002326
literal: Subunits of nuclear RNA polymerases: none of the individual subunits have RNA polymerase activity, yet all of these subunits contribute_to DNA-dependent RNA polymerase activity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002326
literal: eIF2: has three subunits (alpha, beta, gamma); one binds GTP; one binds RNA; the whole complex binds the ribosome (all three subunits are required for ribosome binding). So one subunit is annotated to GTP binding and one to RNA binding without qualifiers, and all three stand in the contributes_to relationship to "ribosome binding". And all three are part_of an eIF2 complex

AnnotationAssertion
abbreviated IRI: bfo:RO_0002326
literal: We would like to say if and only if exists c', p' c part_of c' and c' capable_of p and c capable_of p' and p' part_of p then c contributes_to p However, this is not possible in OWL. We instead make this relation a sub-relation of the two chains, which gives us the inference in the one direction.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002326
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: a particular instances of akt-2 enables some instance of protein kinase activity

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: c enables p iff c is capable of p and c acts to execute p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: catalyzes

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: executes

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: has

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: is catalyzing

AnnotationAssertion
abbreviated IRI: bfo:RO_0002327
literal: is executing

AnnotationAssertion
abbreviated IRI: bfo:RO_0002328
literal: A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002328
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002329
literal: this relation holds between c and p when c is part of some c', and c' is capable of p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002329
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002329
literal: false

AnnotationAssertion
abbreviated IRI: bfo:RO_0002330
literal: holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002330
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002331
literal: c involved_in p if and only if c enables some process p', and p' is part of p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002331
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002331
literal: actively involved in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002331
literal: enables part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002332
literal: every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid

AnnotationAssertion
abbreviated IRI: bfo:RO_0002332
literal: p regulates levels of c if p regulates some amount (PATO:0000070) of c

AnnotationAssertion
abbreviated IRI: bfo:RO_0002332
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002332
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002333
literal: inverse of enables

AnnotationAssertion
abbreviated IRI: bfo:RO_0002333
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002334
literal: inverse of regulates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002334
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002335
literal: inverse of negatively regulates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002335
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002336
literal: inverse of positively regulates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002336
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002337
literal: A relationship that holds via some process of localization

AnnotationAssertion
abbreviated IRI: bfo:RO_0002337
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002338
literal: This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from some initial location l to some destination.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002338
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002339
literal: This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from a an initial location to some destination l.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002339
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002340
literal: Holds between p and c when p is a transportation or localization process and the outcome of this process is to move c to a destination that is part of some s, where the start location of c is part of the region that surrounds s.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002340
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002341
literal: Holds between p and l when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that is aligned_with l

AnnotationAssertion
abbreviated IRI: bfo:RO_0002341
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002342
literal: Holds between p and m when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that crosses m.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002342
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002343
literal: 'pollen tube growth' results_in growth_of some 'pollen tube'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002343
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002344
literal: 'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002344
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002345
literal: Holds between p and c when p is a transportation or localization process and the outcome of this process is to move c to a destination that is part of some s, where the end location of c is part of the region that surrounds s.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002345
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002348
literal: an annotation of gene X to cell commitment with results_in_commitment_to CL:0000540 (neuron) means that at the end of the process an unspecified cell has been specified and determined to develop into a neuron.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002348
literal: p 'results in commitment to' c if and only if p is a developmental process and c is a cell and p results in the state of c changing such that is can only develop into a single cell type.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002348
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002349
literal: p 'results in determination of' c if and only if p is a developmental process and c is a cell and p results in the state of c changing to be determined. Once a cell becomes determined, it becomes committed to differentiate down a particular pathway regardless of its environment.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002349
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002350
literal: An organism that is a member of a population of organisms

AnnotationAssertion
abbreviated IRI: bfo:RO_0002350
literal: is member of is a mereological relation between a item and a collection.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002350
literal: is member of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002350
literal: member part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002350
literal: SIO

AnnotationAssertion
abbreviated IRI: bfo:RO_0002351
literal: has member is a mereological relation between a collection and an item.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002351
literal: SIO

AnnotationAssertion
abbreviated IRI: bfo:RO_0002352
literal: inverse of has input

AnnotationAssertion
abbreviated IRI: bfo:RO_0002352
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002353
literal: inverse of has output

AnnotationAssertion
abbreviated IRI: bfo:RO_0002353
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002354
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002355
literal: A relationship between a process and an anatomical entity such that the process contributes to the act of creating the structural organization of the anatomical entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002355
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002356
literal: The relationship linking a cell and its participation in a process that results in the fate of the cell being specified. Once specification has taken place, a cell will be committed to differentiate down a specific pathway if left in its normal environment.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002356
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002357
literal: p results in developmental induction of c if and only if p is a collection of cell-cell signaling processes that signal to a neighbouring tissue that is the precursor of the mature c, where the signaling results in the commitment to cell types necessary for the formation of c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002357
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002360
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002371
literal: a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a

AnnotationAssertion
abbreviated IRI: bfo:RO_0002371
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002372
literal: m has_muscle_origin s iff m is attached_to s, and it is the case that when m contracts, s does not move. The site of the origin tends to be more proximal and have greater mass than what the other end attaches to.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002372
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002372
literal: Wikipedia:Insertion_(anatomy)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002373
literal: m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002373
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002373
literal: Wikipedia:Insertion_(anatomy)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
literal: false

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
literal: x has_fused_element y iff: there exists some z : x has_part z, z homologous_to y, and y is a distinct element, the boundary between x and z is largely fiat

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002374
literal: has fused element

AnnotationAssertion
abbreviated IRI: bfo:RO_0002375
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002375
literal: A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002375
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: Deschutes River tributary_of Columbia River

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: inferior epigastric vein tributary_of external iliac vein

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: x tributary_of y if and only if x a channel for the flow of a substance into y, where y is larger than x. If x and y are hydrographic features, then y is the main stem of a river, or a lake or bay, but not the sea or ocean. If x and y are anatomical, then y is a vein.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: drains into

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: drains to

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: tributary channel of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: http://en.wikipedia.org/wiki/Tributary

AnnotationAssertion
abbreviated IRI: bfo:RO_0002376
literal: http://www.medindia.net/glossary/venous_tributary.htm

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
literal: Deschutes River distributary_of Little Lava Lake

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
literal: x distributary_of y if and only if x is capable of channeling the flow of a substance to y, where y channels less of the substance than x

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
literal: branch of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
literal: distributary channel of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002377
literal: http://en.wikipedia.org/wiki/Distributary

AnnotationAssertion
abbreviated IRI: bfo:RO_0002378
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002378
literal: x anabranch_of y if x is a distributary of y (i.e. it channels a from a larger flow from y) and x ultimately channels the flow back into y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002378
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002378
literal: anastomoses with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002379
literal: A lump of clay and a statue

AnnotationAssertion
abbreviated IRI: bfo:RO_0002379
literal: x spatially_coextensive_with y if and inly if x and y have the same location

AnnotationAssertion
abbreviated IRI: bfo:RO_0002379
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002380
literal: In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S

AnnotationAssertion
abbreviated IRI: bfo:RO_0002380
literal: x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002380
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002381
literal: In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, S is the main stem of T. There are no other main stems. If we were to slice off S to get a new tree T', rooted at the root of B1, then B1 would be the main stem of T'.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002381
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002381
literal: x main_stem_of y if y is a branching structure and x is a channel that traces a linear path through y, such that x has higher capacity than any other such path.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002381
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002382
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002382
literal: x proper_distributary_of y iff x distributary_of y and x does not flow back into y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002382
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002383
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002383
literal: x proper_tributary_of y iff x tributary_of y and x does not originate from y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002383
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002384
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002384
literal: x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002384
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002385
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002385
literal: x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002385
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002386
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002386
literal: x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002386
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002387
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002387
literal: x has the potential to develop into y iff x develops into y or if x is capable of developing into y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002387
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002388
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002388
literal: x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002388
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002400
literal: 'protein catabolic process' SubClassOf has_direct_input some protein

AnnotationAssertion
abbreviated IRI: bfo:RO_0002400
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002400
literal: p has direct input c iff c is a participant in p, c is present at the start of p, and the state of c is modified during p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002400
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002400
literal: directly consumes

AnnotationAssertion
abbreviated IRI: bfo:RO_0002401
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002401
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002402
literal: translation SubClassOf has_direct_output some protein

AnnotationAssertion
abbreviated IRI: bfo:RO_0002402
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002402
literal: p has direct input c iff c is a participanti n p, c is present at the end of p, and c is not present at the beginning of c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002402
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002402
literal: directly produces

AnnotationAssertion
abbreviated IRI: bfo:RO_0002403
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002403
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002404
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002404
literal: inverse of upstream of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002404
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002405
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002405
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002407
literal: p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002407
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002407
literal: indirectly activates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002409
literal: p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002409
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002409
literal: indirectly inhibits

AnnotationAssertion
annotation:
  literal: https://en.wikipedia.org/wiki/Causality
abbreviated IRI: bfo:RO_0002410
literal: relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002410
literal: This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents. To define causal relations in an activity-flow type network, we make use of 3 primitives: * Temporal: how do the intervals of the two occurrents relate? * Is the causal relation regulatory? * Is the influence positive or negative? The first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified. For the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule. For the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral. Each of these 3 primitives can be composed to yie…

AnnotationAssertion
abbreviated IRI: bfo:RO_0002410
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002411
literal: p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002411
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002412
literal: p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002412
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002413
literal: p provides input for q iff p is immediately causally upstream of q, and there exists some c such that p has_output c and q has_input c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002413
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002413
literal: directly provides input for

AnnotationAssertion
abbreviated IRI: bfo:RO_0002413
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002414
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0002414
literal: transitive form of directly_provides_input_for

AnnotationAssertion
abbreviated IRI: bfo:RO_0002414
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002416
literal: An assertion that involves at least one OWL object that is intended to be expanded into one or more logical axioms. The logical expansion can yield axioms expressed using any formal logical system, including, but not limited to OWL2-DL.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002416
literal: logical macro assertion

AnnotationAssertion
abbreviated IRI: bfo:RO_0002416
literal: http://purl.obolibrary.org/obo/ro/docs/shortcut-relations/

AnnotationAssertion
abbreviated IRI: bfo:RO_0002418
literal: p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002418
literal: We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002418
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002418
literal: influences (processual)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002418
literal: affects

AnnotationAssertion
abbreviated IRI: bfo:RO_0002419
literal: An assertion that holds between an OWL Annotation Property P and a non-negative integer N, with the interpretation: for any P(i j) it must be the case that | { k : P(i k) } | = N.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002420
literal: A logical macro assertion whose domain is an IRI for a class

AnnotationAssertion
abbreviated IRI: bfo:RO_0002420
literal: The domain for this class can be considered to be owl:Class, but we cannot assert this in OWL2-DL

AnnotationAssertion
abbreviated IRI: bfo:RO_0002421
literal: A logical macro assertion whose domain is an IRI for a property

AnnotationAssertion
abbreviated IRI: bfo:RO_0002421
literal: logical macro assertion on a property

AnnotationAssertion
abbreviated IRI: bfo:RO_0002422
literal: Used to annotate object properties to describe a logical meta-property or characteristic of the object property.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002422
literal: logical macro assertion on an object property

AnnotationAssertion
abbreviated IRI: bfo:RO_0002424
literal: false

AnnotationAssertion
abbreviated IRI: bfo:RO_0002424
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002425
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002426
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002427
literal: inverse of causally upstream of or within

AnnotationAssertion
abbreviated IRI: bfo:RO_0002427
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002427
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002428
literal: c involved in regulation of p if c is involved in some p' and p' regulates some p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002428
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002429
literal: c involved in regulation of p if c is involved in some p' and p' positively regulates some p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002429
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002430
literal: c involved in regulation of p if c is involved in some p' and p' negatively regulates some p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002430
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002431
literal: c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002431
literal: OWL does not allow defining object properties via a Union

AnnotationAssertion
abbreviated IRI: bfo:RO_0002431
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002431
literal: involved in or reguates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002432
literal: A protein that enables activity in a cytosol.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-6601-2165
annotation:
  IRI: https://orcid.org/0000-0002-7073-9172
abbreviated IRI: bfo:RO_0002432
literal: c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002432
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002432
literal: executes activity in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002432
literal: enables activity in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002433
literal: p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002433
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002434
literal: A relationship that holds between two entities in which the processes executed by the two entities are causally connected.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002434
literal: This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002434
literal: Considering relabeling as 'pairwise interacts with'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002434
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002434
literal: in pairwise interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002435
literal: An interaction that holds between two genetic entities (genes, alleles) through some genetic interaction (e.g. epistasis)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002435
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002436
literal: An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002436
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002436
literal: binds

AnnotationAssertion
abbreviated IRI: bfo:RO_0002436
literal: molecularly binds with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002437
literal: An interaction relationship in which at least one of the partners is an organism and the other is either an organism or an abiotic entity with which the organism interacts.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002437
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002437
literal: interacts with on organism level

AnnotationAssertion
abbreviated IRI: bfo:RO_0002438
literal: An interaction relationship in which the partners are related via a feeding relationship.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002438
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
literal: A wasp killing a Monarch larva in order to feed to offspring [http://www.inaturalist.org/observations/2942824]

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
literal: Baleen whale preys on krill

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
literal: An interaction relationship involving a predation process, where the subject kills the target in order to eat it or to feed to siblings, offspring or group members

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
IRI: https://orcid.org/0000-0001-7134-3324

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
IRI: https://orcid.org/0000-0003-3138-4118

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
literal: is subject of predation interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002439
literal: preys upon

AnnotationAssertion
abbreviated IRI: bfo:RO_0002440
literal: A biotic interaction in which the two organisms live together in more or less intimate association.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002440
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002440
literal: http://www.ncbi.nlm.nih.gov/pubmed/19278549

AnnotationAssertion
abbreviated IRI: bfo:RO_0002441
literal: An interaction relationship between two organisms living together in more or less intimate association in a relationship in which one benefits and the other is unaffected (GO).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002441
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002441
literal: http://www.ncbi.nlm.nih.gov/pubmed/19278549

AnnotationAssertion
abbreviated IRI: bfo:RO_0002442
literal: An interaction relationship between two organisms living together in more or less intimate association in a relationship in which both organisms benefit from each other (GO).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002442
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002442
literal: http://www.ncbi.nlm.nih.gov/pubmed/19278549

AnnotationAssertion
abbreviated IRI: bfo:RO_0002443
literal: An interaction relationship between two organisms living together in more or less intimate association in a relationship in which association is disadvantageous or destructive to one of the organisms (GO).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002443
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002443
literal: http://www.ncbi.nlm.nih.gov/pubmed/19278549

AnnotationAssertion
abbreviated IRI: bfo:RO_0002444
literal: Pediculus humanus capitis parasite of human

AnnotationAssertion
abbreviated IRI: bfo:RO_0002444
literal: A parasite-host relationship where an organism benefits at the expense of another.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002444
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002444
literal: parasitizes

AnnotationAssertion
abbreviated IRI: bfo:RO_0002444
literal: direct parasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002445
literal: Inverse of parasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002445
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002445
literal: has parasite

AnnotationAssertion
abbreviated IRI: bfo:RO_0002445
literal: parasitised by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002445
literal: directly parasitized by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002446
literal: Porifiera attaches to substrate

AnnotationAssertion
abbreviated IRI: bfo:RO_0002446
literal: A biotic interaction relationship in which one partner is an organism and the other partner is inorganic. For example, the relationship between a sponge and the substrate to which is it anchored.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002446
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002446
literal: semibiotically interacts with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002447
literal: Axiomatization to GO to be added later

AnnotationAssertion
abbreviated IRI: bfo:RO_0002447
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002447
literal: An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002448
literal: The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002448
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002448
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0002448
literal: molecularly controls

AnnotationAssertion
abbreviated IRI: bfo:RO_0002449
literal: The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002449
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002449
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0002449
literal: directly inhibits

AnnotationAssertion
abbreviated IRI: bfo:RO_0002449
literal: molecularly decreases activity of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002450
literal: The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002450
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002450
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0002450
literal: directly activates

AnnotationAssertion
abbreviated IRI: bfo:RO_0002450
literal: molecularly increases activity of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002451
literal: all dengue disease transmitted by some mosquito

AnnotationAssertion
abbreviated IRI: bfo:RO_0002451
literal: A relationship that holds between a disease and organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002451
literal: Add domain and range constraints

AnnotationAssertion
abbreviated IRI: bfo:RO_0002451
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002452
literal: A relation that holds between a disease or an organism and a phenotype

AnnotationAssertion
abbreviated IRI: bfo:RO_0002452
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002453
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002454
literal: X 'has host' y if and only if: x is an organism, y is an organism, and x can live on the surface of or within the body of y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002454
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002455
literal: Bees pollinate Flowers

AnnotationAssertion
abbreviated IRI: bfo:RO_0002455
literal: This relation is intended to be used for biotic pollination - e.g. a bee pollinating a flowering plant. Some kinds of pollination may be semibiotic - e.g. wind can have the role of pollinator. We would use a separate relation for this.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002455
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002455
literal: is subject of pollination interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002456
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002456
literal: has polinator

AnnotationAssertion
abbreviated IRI: bfo:RO_0002456
literal: is target of pollination interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002457
literal: Inverse of provides nutrients for

AnnotationAssertion
abbreviated IRI: bfo:RO_0002457
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002458
literal: inverse of preys on

AnnotationAssertion
abbreviated IRI: bfo:RO_0002458
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002458
literal: has predator

AnnotationAssertion
abbreviated IRI: bfo:RO_0002458
literal: is target of predation interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002459
literal: Anopheles is a vector for Plasmodium

AnnotationAssertion
abbreviated IRI: bfo:RO_0002459
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002459
literal: a is a vector for b if a carries and transmits an infectious pathogen b into another living organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002460
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002461
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002462
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002463
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002464
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002465
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002466
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002467
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002468
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002469
literal: A biotic interaction where a material entity provides nutrition for an organism.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002469
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002470
literal: A biotic interaction where one organism consumes a material entity through a type of mouth or other oral opening.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002470
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002470
literal: is subject of eating interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002471
literal: Inverse of eats

AnnotationAssertion
abbreviated IRI: bfo:RO_0002471
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002471
literal: eaten by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002471
literal: is target of eating interaction with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002472
literal: A relationship between a piece of evidence a and some entity b, where b is an information content entity, material entity or process, and the a supports either the existence of b, or the truth value of b.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002472
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002473
literal: 'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002473
literal: x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002473
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002473
IRI: http://www.ncbi.nlm.nih.gov/pubmed/22293552

AnnotationAssertion
abbreviated IRI: bfo:RO_0002474
literal: An assertion that holds between an OWL Object Property and a dispositional interpretation that elucidates how OWL Class Axioms or OWL Individuals that use this property are to be interpreted in a dispositional context. For example, A binds B may be interpreted as A have a mutual disposition that is realized by binding to the other one.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002475
literal: 'pectoral appendage skeleton' has no connections with 'pelvic appendage skeleton'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002475
literal: A is has_no_connections_with B if there are no parts of A or B that have a connection with the other.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002475
literal: shares no connection with

AnnotationAssertion
abbreviated IRI: bfo:RO_0002476
literal: ABal nucleus child nucleus of ABa nucleus (in C elegans)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002476
literal: c is a child nucleus of d if and only if c and d are both nuclei and parts of cells c' and d', where c' is derived from d' by mitosis and the genetic material in c is a copy of the generic material in d

AnnotationAssertion
abbreviated IRI: bfo:RO_0002476
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002477
literal: A child nucleus relationship in which the cells are part of a hermaphroditic organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002477
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002478
literal: A child nucleus relationship in which the cells are part of a male organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002478
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002479
literal: p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002479
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002480
literal: An interaction relation between x and y in which x catalyzes a reaction in which one or more ubiquitin groups are added to y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002480
literal: Axiomatization to GO to be added later

AnnotationAssertion
abbreviated IRI: bfo:RO_0002480
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002481
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002482
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002484
literal: Connects an ontology entity (class, property, etc) to a URL from which curator guidance can be obtained. This assertion is inherited in the same manner as functional annotations (e.g. for GO, over SubClassOf and part_of)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002485
literal: See notes for inverse relation

AnnotationAssertion
abbreviated IRI: bfo:RO_0002485
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002486
literal: This is an exploratory relation. The label is taken from the FMA. It needs aligned with the neuron-specific relations such as has postsynaptic terminal in.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002486
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002487
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002488
literal: x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002488
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002489
literal: x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002489
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002490
literal: x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))

AnnotationAssertion
abbreviated IRI: bfo:RO_0002490
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002491
literal: x exists during y if and only if: 1) the time point at which x begins to exist is after or equal to the time point at which y begins and 2) the time point at which x ceases to exist is before or equal to the point at which y ends. Formally: x existence starts and ends during y iff α(x) >= α(y) & α(x) <= ω(y) & ω(x) <= ω(y) & ω(x) >= α(y)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002491
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002491
literal: exists during

AnnotationAssertion
abbreviated IRI: bfo:RO_0002492
literal: x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002492
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002493
literal: x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002493
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002494
literal: x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships

AnnotationAssertion
abbreviated IRI: bfo:RO_0002494
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002495
literal: x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t

AnnotationAssertion
abbreviated IRI: bfo:RO_0002495
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002496
literal: x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002496
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002497
literal: x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002497
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002500
literal: A relationship between a material entity and a process where the material entity has some causal role that influences the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002500
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002501
literal: p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002501
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002501
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002502
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002502
literal: depends on

AnnotationAssertion
abbreviated IRI: bfo:RO_0002502
abbreviated IRI: bfo:BFO_0000169

AnnotationAssertion
abbreviated IRI: bfo:RO_0002503
literal: q towards e2 if and only if q is a relational quality such that q inheres-in some e, and e != e2 and q is dependent on e2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002503
literal: This relation is provided in order to support the use of relational qualities such as 'concentration of'; for example, the concentration of C in V is a quality that inheres in V, but pertains to C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002503
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002503
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002504
literal: brain always_present_in_taxon 'Vertebrata'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002504
literal: forelimb always_present_in_taxon Euarchontoglires

AnnotationAssertion
abbreviated IRI: bfo:RO_0002504
literal: S always_present_in_taxon T if every fully formed member of taxon T has part some S, or is an instance of S

AnnotationAssertion
abbreviated IRI: bfo:RO_0002504
literal: This is a very strong relation. Often we will not have enough evidence to know for sure that there are no species within a lineage that lack the structure - loss is common in evolution. However, there are some statements we can make with confidence - no vertebrate lineage could persist without a brain or a heart. All primates are limbed.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002504
literal: never lost in

AnnotationAssertion
abbreviated IRI: bfo:RO_0002505
literal: 'lysine biosynthetic process via diaminopimelate' SubClassOf has_intermediate some diaminopimelate

AnnotationAssertion
abbreviated IRI: bfo:RO_0002505
literal: p has intermediate c if and only if p has parts p1, p2 and p1 has output c, and p2 has input c

AnnotationAssertion
abbreviated IRI: bfo:RO_0002505
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002505
literal: has intermediate product

AnnotationAssertion
abbreviated IRI: bfo:RO_0002506
literal: The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch

AnnotationAssertion
abbreviated IRI: bfo:RO_0002506
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002506
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002507
literal: A coral reef environment is determined by a particular coral reef

AnnotationAssertion
abbreviated IRI: bfo:RO_0002507
literal: s determined by f if and only if s is a type of system, and f is a material entity that is part of s, such that f exerts a strong causal influence on the functioning of s, and the removal of f would cause the collapse of s.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002507
literal: The label for this relation is probably too general for its restricted use, where the domain is a system. It may be relabeled in future

AnnotationAssertion
abbreviated IRI: bfo:RO_0002507
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002507
IRI: http://www.ncbi.nlm.nih.gov/pubmed/24330602

AnnotationAssertion
abbreviated IRI: bfo:RO_0002508
literal: inverse of determined by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002508
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002509
literal: s 'determined by part of' w if and only if there exists some f such that (1) s 'determined by' f and (2) f part_of w, or f=w.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002509
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002510
literal: x is transcribed from y if and only if x is synthesized from template y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002510
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002510
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002511
literal: inverse of transcribed from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002511
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002511
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002512
literal: x is the ribosomal translation of y if and only if a ribosome reads x through a series of triplet codon-amino acid adaptor activities (GO:0030533) and produces y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002512
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002512
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002513
literal: inverse of ribosomal translation of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002513
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002513
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002514
literal: A relation that holds between two entities that have the property of being sequences or having sequences.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002514
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002514
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
literal: Every UTR is adjacent to a CDS of the same transcript

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
literal: Two consecutive DNA residues are sequentially adjacent

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
literal: Two exons on a processed transcript that were previously connected by an intron are adjacent

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
literal: x is sequentially adjacent to y iff x and y do not overlap and if there are no base units intervening between x and y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002515
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002516
literal: Every CDS has as a start sequence the start codon for that transcript

AnnotationAssertion
abbreviated IRI: bfo:RO_0002516
literal: x has start sequence y if the start of x is identical to the start of y, and x has y as a subsequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002516
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002516
literal: started by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002516
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002517
literal: inverse of has start sequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002517
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002517
literal: starts

AnnotationAssertion
abbreviated IRI: bfo:RO_0002517
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002518
literal: Every CDS has as an end sequence the stop codon for that transcript (note this follows from the SO definition of CDS, in which stop codons are included)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002518
literal: x has end sequence y if the end of x is identical to the end of y, and x has y as a subsequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002518
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002518
literal: ended by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002518
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002519
literal: inverse of has end sequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002519
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002519
literal: ends

AnnotationAssertion
abbreviated IRI: bfo:RO_0002519
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002520
literal: x is a consecutive sequence of y iff x has subsequence y, and all the parts of x are made of zero or more repetitions of y or sequences as the same type as y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002520
literal: In the SO paper, this was defined as an instance-type relation

AnnotationAssertion
abbreviated IRI: bfo:RO_0002520
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002520
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002521
literal: Human Shh and Mouse Shh are sequentially aligned, by cirtue of the fact that they derive from the same ancestral sequence.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002521
literal: x is sequentially aligned with if a significant portion bases of x and y correspond in terms of their base type and their relative ordering

AnnotationAssertion
abbreviated IRI: bfo:RO_0002521
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002522
literal: The genomic exons of a transcript bound the sequence of the genomic introns of the same transcript (but the introns are not subsequences of the exons)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002522
literal: x bounds the sequence of y iff the upstream-most part of x is upstream of or coincident with the upstream-most part of y, and the downstream-most part of x is downstream of or coincident with the downstream-most part of y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002522
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002523
literal: inverse of bounds sequence of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002523
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002524
literal: x has subsequence y iff all of the sequence parts of y are sequence parts of x

AnnotationAssertion
abbreviated IRI: bfo:RO_0002524
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002524
literal: contains

AnnotationAssertion
abbreviated IRI: bfo:RO_0002524
literal: http://www.ncbi.nlm.nih.gov/pubmed/20226267

AnnotationAssertion
abbreviated IRI: bfo:RO_0002525
literal: inverse of has subsequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002525
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002525
literal: contained by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002526
literal: x overlaps the sequence of y if and only if x has a subsequence z and z is a subsequence of y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002526
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002527
literal: x does not overlap the sequence of y if and only if there is no z such that x has a subsequence z and z is a subsequence of y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002527
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002527
literal: disconnected from

AnnotationAssertion
abbreviated IRI: bfo:RO_0002528
literal: inverse of downstream of sequence of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002528
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002529
literal: x is downstream of the sequence of y iff either (1) x and y have sequence units, and all units of x are downstream of all units of y, or (2) x and y are sequence units, and x is either immediately downstream of y, or transitively downstream of y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002529
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002530
literal: A 3'UTR is immediately downstream of the sequence of the CDS from the same monocistronic transcript

AnnotationAssertion
abbreviated IRI: bfo:RO_0002530
literal: x is immediately downstream of the sequence of y iff either (1) x and y have sequence units, and all units of x are downstream of all units of y, and x is sequentially adjacent to y, or (2) x and y are sequence units, in which case the immediately downstream relation is primitive and defined by context: for DNA bases, y would be adjacent and 5' to y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002530
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002531
literal: A 5'UTR is immediately upstream of the sequence of the CDS from the same monocistronic transcript

AnnotationAssertion
abbreviated IRI: bfo:RO_0002531
literal: inverse of immediately downstream of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002531
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002532
literal: Any entity that is ordered in discrete units along a linear axis.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002532
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002533
literal: Any individual unit of a collection of like units arranged in a linear order

AnnotationAssertion
abbreviated IRI: bfo:RO_0002533
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002534
literal: Any entity that can be divided into parts such that each part is an atomical unit of a sequence

AnnotationAssertion
abbreviated IRI: bfo:RO_0002534
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002539
literal: Count of number of days intervening between the start of the stage and the time of fertilization according to a reference model. Note that the first day of development has the value of 0 for this property.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002540
literal: Count of number of days intervening between the end of the stage and the time of fertilization according to a reference model. Note that the first day of development has the value of 1 for this property.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002541
literal: Count of number of years intervening between the start of the stage and the time of birth according to a reference model. Note that the first year of post-birth development has the value of 0 for this property, and the period during which the child is one year old has the value 1.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002542
literal: Count of number of years intervening between the end of the stage and the time of birth according to a reference model. Note that the first year of post-birth development has the value of 1 for this property, and the period during which the child is one year old has the value 2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002543
literal: Count of number of months intervening between the start of the stage and the time of birth according to a reference model. Note that the first month of post-birth development has the value of 0 for this property, and the period during which the child is one month old has the value 1.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002544
literal: Count of number of months intervening between the end of the stage and the time of birth according to a reference model. Note that the first month of post-birth development has the value of 1 for this property, and the period during which the child is one month old has the value 2

AnnotationAssertion
abbreviated IRI: bfo:RO_0002545
literal: Defines the start and end of a stage with a duration of 1 month, relative to either the time of fertilization or last menstrual period of the mother (to be clarified), counting from one, in terms of a reference model. Thus if month_of_gestation=3, then the stage is 2 month in.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002546
literal: A relationship between a stage class and an anatomical structure or developmental process class, in which the stage is characterized by the appearance of the structure or the occurrence of the biological process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002547
literal: Count of number of days intervening between the start of the stage and the time of coitum.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002548
literal: Count of number of days intervening between the end of the stage and the time of coitum.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002551
literal: Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002551
literal: A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002551
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002551
literal: has supporting framework

AnnotationAssertion
abbreviated IRI: bfo:RO_0002552
literal: p results in the end of s if p results in a change of state in s whereby s either ceases to exist, or s becomes functionally impaired or s has its fate committed such that it is put on a path to be degraded.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002552
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: x is a hyperparasite of y iff x is a parasite of a parasite of the target organism y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: Note that parasite-of is a diret relationship, so hyperparasite-of is not considered a sub-relation, even though hyperparasitism can be considered a form of parasitism

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: http://eol.org/schema/terms/hyperparasitoidOf

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: https://en.wikipedia.org/wiki/Hyperparasite

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: hyperparasitoid of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002553
literal: epiparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002554
literal: inverse of hyperparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002554
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002554
literal: has epiparasite

AnnotationAssertion
abbreviated IRI: bfo:RO_0002554
literal: has hyperparasite

AnnotationAssertion
abbreviated IRI: bfo:RO_0002554
literal: hyperparasitoidized by

AnnotationAssertion
abbreviated IRI: bfo:RO_0002555
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002555
literal: http://en.wikipedia.org/wiki/Allelopathy

AnnotationAssertion
abbreviated IRI: bfo:RO_0002556
literal: Inverse of has pathogen

AnnotationAssertion
abbreviated IRI: bfo:RO_0002556
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002557
literal: A host interaction where the smaller of the two members of a symbiosis causes a disease in the larger member

AnnotationAssertion
abbreviated IRI: bfo:RO_0002557
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002558
literal: inverse of is evidence for

AnnotationAssertion
abbreviated IRI: bfo:RO_0002558
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002558
IRI: http://www.ncbi.nlm.nih.gov/pubmed/25052702

AnnotationAssertion
abbreviated IRI: bfo:RO_0002559
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002559
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002560
literal: If Rel is the relational form of a process Pr, then it follow that: Rel(x,y) <-> exists p : Pr(p), x subject-partner-in p, y object-partner-in p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002561
literal: If Rel is the relational form of a process Pr, then it follow that: Rel(x,y) <-> exists p : Pr(p), x partner-in p, y partner-in p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002562
literal: R is the relational form of a process if and only if either (1) R is the symmetric relational form of a process or (2) R is the asymmetric relational form of a process

AnnotationAssertion
abbreviated IRI: bfo:RO_0002563
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002564
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002565
literal: Holds between p and c when p is locomotion process and the outcome of this process is the change of location of c

AnnotationAssertion
abbreviated IRI: bfo:RO_0002565
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002566
literal: The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002566
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002566
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0002566
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002567
literal: A relation that holds between elements of a musculoskeletal system or its analogs.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002567
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002568
literal: m1 has_muscle_antagonist m2 iff m1 has_muscle_insertion s, m2 has_muscle_insection s, m1 acts in opposition to m2, and m2 is responsible for returning the structure to its initial position.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002568
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002568
literal: Wikipedia:Antagonist_(muscle)

AnnotationAssertion
abbreviated IRI: bfo:RO_0002569
literal: inverse of branching part of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002569
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002570
literal: x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002570
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002570
literal: UBERON:cjm

AnnotationAssertion
abbreviated IRI: bfo:RO_0002571
literal: x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002571
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002571
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002572
literal: s is luminal space of x iff s is lumen_of x and s is an immaterial entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0002572
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002573
literal: A relation that holds between an attribute or a qualifier and another attribute.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002573
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002573
IRI: http://www.ncbi.nlm.nih.gov/pubmed/20064205

AnnotationAssertion
abbreviated IRI: bfo:RO_0002574
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002575
literal: relation p is the direct form of relation q iff p is a subPropertyOf q, p does not have the Transitive characteristic, q does have the Transitive characteristic, and for all x, y: x q y -> exists z1, z2, ..., zn such that x p z1 ... z2n y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002575
literal: The general property hierarchy is: "directly P" SubPropertyOf "P" Transitive(P) Where we have an annotation assertion "directly P" "is direct form of" "P"

AnnotationAssertion
abbreviated IRI: bfo:RO_0002576
literal: inverse of has skeleton

AnnotationAssertion
abbreviated IRI: bfo:RO_0002576
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: A material entity consisting of multiple components that are causally integrated.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: http://www.jbiomedsem.com/content/4/1/43

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: SCO cretor comment: RO defines the class “system” as a subclass of the “material entity” class. Nevertheless, a system is a fiat object, e.g. an object that is “delimited” according to the perspective of the stakeholder (Landgrebe and Smith 2022, p. 117,118). System delimitation determines the boundaries of the systems, but the stakeholder, however, does not create the system through this delimitation process (Landgrebe and Smith 2022, p. 117,118). As this class is extensively reused among ontologies within the OBO-Foundry context, we maintain its current hierarchical position. However, we recommend a revision of this class. There are two possible strategies to consider: 1) to reclassify this class as a subclass of “fiat object part” one or 2) to create a dedicated “fiat object” class that will be a subclass of “material entity” and the superclass for the “system” one (and related subclasses). We leave the discussion open with the intention of engaging with subject matter experts, planning that these modifications may be included in the next release of this resource. As the environment of a system corresponds to what has not been delimited as part of such a system, these considerations correspondingly also apply to the class “system environment” (at least regarding the system-system environment boundaries).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: system

AnnotationAssertion
abbreviated IRI: bfo:RO_0002577
literal: SCO creator cited reference: Landgrebe, Jobst, and Barry Smith. 2022. Why Machines Will Never Rule the World: Artificial Intelligence without Fear. Taylor & Francis. 10.4324/9781003310105

AnnotationAssertion
abbreviated IRI: bfo:RO_0002578
literal: p directly regulates q iff p is immediately causally upstream of q and p regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002578
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002578
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002579
literal: relation p is the indirect form of relation q iff p is a subPropertyOf q, and there exists some p' such that p' is the direct form of q, p' o p' -> p, and forall x,y : x q y -> either (1) x p y or (2) x p' y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002581
literal: If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL

AnnotationAssertion
abbreviated IRI: bfo:RO_0002582
literal: If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002583
literal: holds between x and y if and only if the time point at which x starts is equivalent to the time point at which y ends. Formally: iff α(x) = ω(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002584
literal: gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002584
literal: s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002584
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002585
literal: p 'results in closure of' c if and only if p is a developmental process and p results in a state of c changing from open to closed.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002586
literal: p results in breakdown of c if and only if the execution of p leads to c no longer being present at the end of p

AnnotationAssertion
abbreviated IRI: bfo:RO_0002589
literal: p results in catabolism of c if and only if p is a catabolic process, and the execution of p results in c being broken into smaller parts with energy being released.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002592
literal: p results in organization of c iff p results in the assembly, arrangement of constituent parts, or disassembly of c

AnnotationAssertion
abbreviated IRI: bfo:RO_0002593
literal: holds between x and y if and only if the time point at which x ends is equivalent to the time point at which y starts. Formally: iff ω(x) = α(y).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002594
literal: An annotation property that connects an object property to a class, where the object property is derived from or a shortcut property for the class. The exact semantics of this annotation may vary on a case by case basis.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002595
literal: A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002595
literal: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002595
IRI: https://orcid.org/0000-0002-6601-2165

AnnotationAssertion
abbreviated IRI: bfo:RO_0002595
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002596
literal: pyrethroid -> growth

AnnotationAssertion
abbreviated IRI: bfo:RO_0002596
literal: Holds between c and p if and only if c is capable of some activity a, and a regulates p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002596
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002597
literal: Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002597
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002598
literal: renin -> arteriolar smooth muscle contraction

AnnotationAssertion
abbreviated IRI: bfo:RO_0002598
literal: Holds between c and p if and only if c is capable of some activity a, and a positively regulates p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002598
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002599
literal: pazopanib -> pathological angiogenesis

AnnotationAssertion
abbreviated IRI: bfo:RO_0002599
literal: Holds between a material entity c and a pathological process p if and only if c is capable of some activity a, where a inhibits p.

AnnotationAssertion
annotation:
  literal: Usage of the term 'treats' applies when we believe there to be a an inhibitory relationship
abbreviated IRI: bfo:RO_0002599
literal: treats

AnnotationAssertion
abbreviated IRI: bfo:RO_0002599
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002600
literal: benzene -> cancer [CHEBI]

AnnotationAssertion
abbreviated IRI: bfo:RO_0002600
literal: Holds between a material entity c and a pathological process p if and only if c is capable of some activity a, where a negatively regulates p.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002600
literal: causes disease

AnnotationAssertion
abbreviated IRI: bfo:RO_0002600
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002601
literal: A shortcut relationship that holds between two entities based on their identity criteria

AnnotationAssertion
abbreviated IRI: bfo:RO_0002602
literal: A shortcut relationship between two entities x and y1, such that the intent is that the relationship is functional and inverse function, but there is no guarantee that this property holds.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002603
literal: x is approximately equivalent to y if it is the case that x is equivalent, identical or near-equivalent to y

AnnotationAssertion
abbreviated IRI: bfo:RO_0002604
literal: 'anterior end of organism' is-opposite-of 'posterior end of organism'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002604
literal: 'increase in temperature' is-opposite-of 'decrease in temperature'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002604
literal: x is the opposite of y if there exists some distance metric M, and there exists no z such as M(x,z) <= M(x,y) or M(y,z) <= M(y,x).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002605
literal: x is indistinguishable from y if there exists some distance metric M, and there exists no z such as M(x,z) <= M(x,y) or M(y,z) <= M(y,x).

AnnotationAssertion
abbreviated IRI: bfo:RO_0002606
literal: c is a substance that treats d if c is a material entity (such as a small molecule or compound) and d is a pathological process, phenotype or disease, and c is capable of some activity that negative regulates or decreases the magnitude of d.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002606
literal: treats

AnnotationAssertion
abbreviated IRI: bfo:RO_0002606
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002607
literal: c is marker for d iff the presence or occurrence of d is correlated with the presence of occurrence of c, and the observation of c is used to infer the presence or occurrence of d. Note that this does not imply that c and d are in a direct causal relationship, as it may be the case that there is a third entity e that stands in a direct causal relationship with c and d.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002607
literal: May be ceded to OBI

AnnotationAssertion
abbreviated IRI: bfo:RO_0002608
literal: Inverse of 'causal agent in process'

AnnotationAssertion
abbreviated IRI: bfo:RO_0002608
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002609
literal: A relationship that holds between two entities, where the relationship holds based on the presence or absence of statistical dependence relationship. The entities may be statistical variables, or they may be other kinds of entities such as diseases, chemical entities or processes.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002610
literal: A relationship that holds between two entities, where the entities exhibit a statistical dependence relationship. The entities may be statistical variables, or they may be other kinds of entities such as diseases, chemical entities or processes.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002612
literal: A relationship between a sentence and an instance of a piece of evidence in which the evidence supports the axiom

AnnotationAssertion
abbreviated IRI: bfo:RO_0002613
literal: A relationship between a sentence and an instance of a piece of evidence in which the evidence contradicts the axiom

AnnotationAssertion
abbreviated IRI: bfo:RO_0002614
literal: An instance of a sequence similarity evidence (ECO:0000044) that uses a homologous sequence UniProtKB:P12345 as support.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002614
literal: A relationship between a piece of evidence and an entity that plays a role in supporting that evidence.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002615
literal: Inverse of is-model-of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002617
literal: In the context of a particular project, the IRI with CURIE NCBIGene:64327 (which in this example denotes a class) is considered to be representative. This means that if we have equivalent classes with IRIs OMIM:605522, ENSEMBL:ENSG00000105983, HGNC:13243 forming an equivalence set, the NCBIGene is considered the representative member IRI. Depending on the policies of the project, the classes may be merged, or the NCBIGene IRI may be chosen as the default in a user interface context.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002617
literal: this property relates an IRI to the xsd boolean value "True" if the IRI is intended to be the representative IRI for a collection of classes that are mutually equivalent.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002626
literal: https://github.com/jhpoelen/eol-globi-data/issues/143

AnnotationAssertion
abbreviated IRI: bfo:RO_0002629
literal: p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002629
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002630
literal: p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002630
IRI: http://purl.obolibrary.org/obo/ro/docs/causal-relations

AnnotationAssertion
abbreviated IRI: bfo:RO_0002632
literal: A sub-relation of parasite-of in which the parasite lives on or in the integumental system of the host

AnnotationAssertion
abbreviated IRI: bfo:RO_0002632
IRI: https://en.wikipedia.org/wiki/Parasitism#Types

AnnotationAssertion
abbreviated IRI: bfo:RO_0002633
literal: inverse of ectoparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002634
IRI: https://en.wikipedia.org/wiki/Parasitism#Types

AnnotationAssertion
abbreviated IRI: bfo:RO_0002634
literal: A sub-relation of parasite-of in which the parasite lives inside the host, beneath the integumental system

AnnotationAssertion
abbreviated IRI: bfo:RO_0002634
literal: lives inside of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002636
literal: A sub-relation of parasite-of in which the parasite is partially an endoparasite and partially an ectoparasite

AnnotationAssertion
abbreviated IRI: bfo:RO_0002637
literal: inverse of mesoparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002638
literal: A sub-relation of endoparasite-of in which the parasite inhabits the spaces between host cells.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002638
IRI: https://en.wikipedia.org/wiki/Parasitism#Types

AnnotationAssertion
abbreviated IRI: bfo:RO_0002639
literal: inverse of intercellular endoparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002640
literal: A sub-relation of endoparasite-of in which the parasite inhabits host cells.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002640
IRI: https://en.wikipedia.org/wiki/Parasitism#Types

AnnotationAssertion
abbreviated IRI: bfo:RO_0002641
literal: inverse of intracellular endoparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0002801
literal: Two or more individuals sharing the same roost site (cave, mine, tree or tree hollow, animal burrow, leaf tent, rock crack, space in man-made structure, etc.). Individuals that are sharing a communal roost may be said to be co-roosting. The roost may be either a day roost where the individuals rest during daytime hours, or a night roost where individuals roost to feed, groom, or rest in between flights and/or foraging bouts. Communal roosting as thus defined is an umbrella term within which different specialized types -- which are not mutually exclusive -- may be recognized based on taxonomy and the temporal and spatial relationships of the individuals that are co-roosting.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002801
IRI: https://en.wikipedia.org/wiki/Communal_roosting

AnnotationAssertion
abbreviated IRI: bfo:RO_0002802
literal: An individual of species Camelus dromedarius (commonly known as dromedary camels) is a reservoir host of an individual of Middle East respiratory syndrome–related coronavirus (MERS-CoV) since at least the 1980s.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002802
literal: A relation between a host organism and a hosted organism in which the hosted organism naturally occurs in an indefinitely maintained reservoir provided by the host.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002802
IRI: https://doi.org/10.3390/v13071356

AnnotationAssertion
abbreviated IRI: bfo:RO_0002803
literal: An individual of Middle East respiratory syndrome–related coronavirus (MERS-CoV) has an individual of species Camelus dromedarius (commonly known as dromedary camels) as their reservoir host since at least the 1980s.

AnnotationAssertion
abbreviated IRI: bfo:RO_0002803
literal: inverse of reservoir host of

AnnotationAssertion
abbreviated IRI: bfo:RO_0003000
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0003000
literal: a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003000
IRI: https://orcid.org/0000-0001-9114-8737

AnnotationAssertion
abbreviated IRI: bfo:RO_0003001
abbreviated IRI: bfo:IAO_0000125

AnnotationAssertion
abbreviated IRI: bfo:RO_0003001
literal: a produced_by b iff some process that occurs_in b has_output a.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003001
IRI: https://orcid.org/0000-0001-9114-8737

AnnotationAssertion
abbreviated IRI: bfo:RO_0003002
literal: Holds between entity A (a transcription factor) and a nucleic acid B if and only if A down-regulates the expression of B. The nucleic acid can be a gene or an mRNA.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003002
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0003003
literal: Holds between entity A (a transcription factor) and nucleic acid B if and only if A up-regulates the expression of B. The nucleic acid can be a gene or mRNA.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003003
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0003301
literal: A relation between a biological, experimental, or computational artifact and an entity it is used to study, in virtue of its replicating or approximating features of the studied entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003301
IRI: https://orcid.org/0000-0002-1048-5019

AnnotationAssertion
abbreviated IRI: bfo:RO_0003301
literal: is used to study

AnnotationAssertion
abbreviated IRI: bfo:RO_0003302
literal: The genetic variant 'NM_007294.3(BRCA1):c.110C>A (p.Thr37Lys)' casues or contributes to the disease 'familial breast-ovarian cancer'. An environment of exposure to arsenic causes or contributes to the phenotype of patchy skin hyperpigmentation, and the disease 'skin cancer'.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003302
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the entity has some causal or contributing role that influences the condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003302
literal: Note that relationships of phenotypes to organisms/strains that bear them, or diseases they are manifest in, should continue to use RO:0002200 ! 'has phenotype' and RO:0002201 ! 'phenotype of'.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003303
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the entity has some causal role for the condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003304
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the entity has some contributing role that influences the condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003305
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the entity influences the severity with which a condition manifests in an individual.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003305
literal: contributes to expressivity of condition

AnnotationAssertion
abbreviated IRI: bfo:RO_0003306
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the entity influences the frequency of the condition in a population.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003306
literal: contributes to penetrance of condition

AnnotationAssertion
abbreviated IRI: bfo:RO_0003307
literal: A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure) and a condition (a phenotype or disease), where the presence of the entity reduces or eliminates some or all aspects of the condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003307
literal: is preventative for condition

AnnotationAssertion
abbreviated IRI: bfo:RO_0003308
literal: A relationship between an entity and a condition (phenotype or disease) with which it exhibits a statistical dependence relationship.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003309
literal: A relationship between an entity (e.g. a chemical, environmental exposure, or some form of genetic variation) and a condition (a phenotype or disease), where the presence of the entity worsens some or all aspects of the condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003310
literal: A relationship between a condition (a phenotype or disease) and an entity (e.g. a chemical, environmental exposure, or some form of genetic variation) where some or all aspects of the condition are reduced or eliminated by the presence of the entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0003311
literal: A relationship between a condition (a phenotype or disease) and an entity (e.g. a chemical, environmental exposure, or some form of genetic variation) where some or all aspects of the condition are worsened by the presence of the entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004007
literal: p 'has primary input ot output' c iff either (a) p 'has primary input' c or (b) p 'has primary output' c.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-6601-2165
annotation:
  literal: GOC:dph
annotation:
  literal: GOC:kva
annotation:
  literal: GOC:pt
annotation:
  literal: PMID:27812932
abbreviated IRI: bfo:RO_0004008
literal: p has primary output c if (a) p has output c and (b) the goal of process is to modify, produce, or transform c.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-6601-2165
annotation:
  literal: GOC:dph
annotation:
  literal: GOC:kva
annotation:
  literal: GOC:pt
annotation:
  literal: PMID:27812932
abbreviated IRI: bfo:RO_0004009
literal: p has primary input c if (a) p has input c and (b) the goal of process is to modify, consume, or transform c.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004011
literal: Relates a gene to condition, such that a mutation in this gene in a germ cell provides a new function of the corresponding product and that is sufficient to produce the condition and that can be passed on to offspring[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004012
literal: Relates a gene to condition, such that a mutation in this gene in a germ cell impairs the function of the corresponding product and that is sufficient to produce the condition and that can be passed on to offspring[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004013
literal: Relates a gene to condition, such that a mutation in this gene is sufficient to produce the condition and that can be passed on to offspring[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004014
literal: Relates a gene to condition, such that a mutation in this gene is sufficient to produce the condition but that cannot be passed on to offspring[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004015
literal: Relates a gene to condition, such that a mutation in this gene predisposes to the development of a condition and that is necessary but not sufficient to develop the condition[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004016
literal: Relates a gene to condition, such that a mutation in this gene partially contributes to the presentation of this condition[modified from orphanet].

AnnotationAssertion
abbreviated IRI: bfo:RO_0004020
literal: A relation that holds between the disease and a material entity where the physical basis of the disease is a disorder of that material entity that affects its function.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004021
literal: A relation that holds between the disease and a process where the physical basis of the disease disrupts execution of a key biological process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004022
literal: A relation that holds between the disease and a feature (a phenotype or other disease) where the physical basis of the disease is the feature.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004024
literal: A relationship between a disease and a process where the disease process disrupts the execution of the process.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004026
literal: A relationship between a disease and an anatomical entity where the disease has one or more features that are located in that entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004026
literal: TODO: complete range axiom once more of CARO has been mireoted in to this ontology

AnnotationAssertion
abbreviated IRI: bfo:RO_0004027
literal: A relationship between a disease and an anatomical entity where the disease is triggered by an inflammatory response to stimuli occurring in the anatomical entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0004028
literal: A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004029
literal: A relationship between a disease and some feature of that disease, where the feature is either a phenotype or an isolated disease.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004030
literal: A relationship between a disease and an anatomical structure where the material basis of the disease is some pathological change in the structure. Anatomical structure includes cellular and sub-cellular entities, such as chromosome and organelles.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004031
literal: Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004034
literal: c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive

AnnotationAssertion
abbreviated IRI: bfo:RO_0004035
literal: c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative

AnnotationAssertion
abbreviated IRI: bfo:RO_0004036
literal: true if the two properties are disjoint, according to OWL semantics. This should only be used if using a logical axiom introduces a non-simple property violation.

AnnotationAssertion
abbreviated IRI: bfo:RO_0004048
literal: Used to annotate object properties representing a causal relationship where the value indicates a direction. Should be "+", "-" or "0"

AnnotationAssertion
abbreviated IRI: bfo:RO_0007000
literal: A relation between two entities, in which one of the entities is any natural or human-influenced factor that directly or indirectly causes a change in the other entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0007001
literal: A relation between an entity and a disease of a host, in which the entity is not part of the host itself, and the condition results in pathological processes.

AnnotationAssertion
abbreviated IRI: bfo:RO_0008501
literal: An interaction relationship wherein a plant or algae is living on the outside surface of another plant.

AnnotationAssertion
abbreviated IRI: bfo:RO_0008501
literal: https://en.wikipedia.org/wiki/Epiphyte

AnnotationAssertion
abbreviated IRI: bfo:RO_0008502
literal: inverse of epiphyte of

AnnotationAssertion
abbreviated IRI: bfo:RO_0008503
literal: A sub-relation of parasite of in which a parasite steals resources from another organism, usually food or nest material

AnnotationAssertion
abbreviated IRI: bfo:RO_0008503
literal: https://en.wikipedia.org/wiki/Kleptoparasitism

AnnotationAssertion
abbreviated IRI: bfo:RO_0008504
literal: inverse of kleptoparasite of

AnnotationAssertion
abbreviated IRI: bfo:RO_0008505
literal: An interaction relationship wherein one organism creates a structure or environment that is lived in by another organism.

AnnotationAssertion
abbreviated IRI: bfo:RO_0008506
literal: An interaction relationship describing organisms that often occur together at the same time and space or in the same environment.

AnnotationAssertion
abbreviated IRI: bfo:RO_0008507
literal: An interaction relationship in which organism a lays eggs on the outside surface of organism b. Organism b is neither helped nor harmed in the process of egg laying or incubation.

AnnotationAssertion
abbreviated IRI: bfo:RO_0008508
literal: inverse of lays eggs on

AnnotationAssertion
abbreviated IRI: bfo:RO_0008509
literal: Flying foxes (Pteropus giganteus) has_roost banyan tree (Ficus benghalensis)

AnnotationAssertion
abbreviated IRI: bfo:RO_0008509
literal: x 'has roost' y if and only if: x is an organism, y is a habitat, and y can support rest behaviors x.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009001
literal: muffin 'has substance added' some 'baking soda'

AnnotationAssertion
abbreviated IRI: bfo:RO_0009001
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0009001
literal: "has substance added" is a relation existing between a (physical) entity and a substance in which the entity has had the substance added to it at some point in time.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009001
literal: The relation X 'has substance added' some Y doesn't imply that X still has Y in any detectable fashion subsequent to the addition. Water in dehydrated food or ice cubes are examples, as is food that undergoes chemical transformation. This definition should encompass recipe ingredients.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009001
IRI: https://orcid.org/0000-0002-8844-9165

AnnotationAssertion
abbreviated IRI: bfo:RO_0009002
literal: 'egg white' 'has substance removed' some 'egg yolk'

AnnotationAssertion
abbreviated IRI: bfo:RO_0009002
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0009002
literal: "has substance removed" is a relation existing between two physical entities in which the first entity has had the second entity (a substance) removed from it at some point in time.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009002
IRI: https://orcid.org/0000-0002-8844-9165

AnnotationAssertion
abbreviated IRI: bfo:RO_0009003
literal: sardines 'immersed in' some 'oil and mustard'

AnnotationAssertion
abbreviated IRI: bfo:RO_0009003
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0009003
literal: "immersed in" is a relation between a (physical) entity and a fluid substance in which the entity is wholely or substantially surrounded by the substance.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009003
IRI: https://orcid.org/0000-0002-8844-9165

AnnotationAssertion
abbreviated IRI: bfo:RO_0009004
literal: sardine has consumer some homo sapiens

AnnotationAssertion
abbreviated IRI: bfo:RO_0009004
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0009004
literal: 'has consumer' is a relation between a material entity and an organism in which the former can normally be digested or otherwise absorbed by the latter without immediate or persistent ill effect.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009004
IRI: https://orcid.org/0000-0002-8844-9165

AnnotationAssertion
abbreviated IRI: bfo:RO_0009005
literal: bread 'has primary substance added' some 'flour'

AnnotationAssertion
abbreviated IRI: bfo:RO_0009005
abbreviated IRI: bfo:IAO_0000428

AnnotationAssertion
abbreviated IRI: bfo:RO_0009005
literal: 'has primary substance added' indicates that an entity has had the given substance added to it in a proportion greater than any other added substance.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009005
IRI: https://orcid.org/0000-0002-8844-9165

AnnotationAssertion
abbreviated IRI: bfo:RO_0009006
literal: A mass measurement assay measures an material's mass characteristic. A radioactivity detection assay measures the amount of radiation (alpha, beta or gamma ray emmissions) coming from a material.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009006
literal: A relation between an assay and a characteristic, in which the assay generates a data item which is a measure of a characteristic.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009007
literal: Inverse of 'assay measures characteristic'

AnnotationAssertion
abbreviated IRI: bfo:RO_0009501
literal: A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009501
literal: An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)

AnnotationAssertion
abbreviated IRI: bfo:RO_0009501
literal: Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph.

AnnotationAssertion
abbreviated IRI: bfo:RO_0009501
literal: r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r.

AnnotationAssertion
annotation:
  IRI: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0009501
literal: triggered by process

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: Genetic information generically depend on molecules of DNA.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: The novel *War and Peace* generically depends on this copy of the novel.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: The pattern shared by chess boards generically depends on any chess board.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: The score of a symphony g-depends on a copy of the score.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: This pdf file generically depends on this server.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: A generically dependent continuant *b* generically depends on an independent continuant *c* at time *t* means: there inheres in *c* a specifically deendent continuant which concretizes *b* at *t*.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: [072-ISO]

AnnotationAssertion
abbreviated IRI: bfo:RO_0010001
literal: g-depends on

AnnotationAssertion
abbreviated IRI: bfo:RO_0010002
literal: Molecules of DNA are carriers of genetic information.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010002
literal: This copy of *War and Peace* is carrier of the novel written by Tolstoy.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010002
literal: This hard drive is carrier of these data items.

AnnotationAssertion
abbreviated IRI: bfo:RO_0010002
literal: *b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*

AnnotationAssertion
abbreviated IRI: bfo:RO_0010002
literal: [072-ISO]

AnnotationAssertion
abbreviated IRI: bfo:RO_0011002
literal: The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011002
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011003
literal: The entity A has an activity that regulates the quantity or abundance or concentration of the entity B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011003
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011004
literal: The entity A is not immediately upstream of the entity B but A has an activity that regulates an activity performed by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011004
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011007
literal: The entity A has an activity that down-regulates by repression the quantity of B. The down-regulation is due to A having an effect on an intermediate entity (typically a DNA or mRNA element) which can produce B. For example, protein A (transcription factor) indirectly decreases by repression the quantity of protein B (gene product) if and only if A negatively regulates the process of transcription or translation of a nucleic acid element that produces B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011007
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011008
literal: The entity A has an activity that up-regulates by expression the quantity of B. The up-regulation is due to A having an effect on an intermediate entity (typically a DNA or mRNA element) which can produce B. For example, protein A (transcription factor) indirectly increases by expression the quantity of protein B (gene product) if and only if A positively regulates the process of transcription or translation of a nucleic acid element that produces B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011008
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011009
literal: The entity A has an activity that directly positively regulates the quantity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011009
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011010
literal: The entity A has an activity that directly negatively regulates the quantity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011010
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011013
literal: The entity A is not immediately upstream of the entity B and has an activity that up-regulates an activity performed by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011013
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011013
literal: indirectly activates

AnnotationAssertion
abbreviated IRI: bfo:RO_0011014
literal: AKT1 destabilizes quantity of FOXO (interaction from Signor database: SIGNOR-252844)

AnnotationAssertion
abbreviated IRI: bfo:RO_0011014
literal: An entity A directly interacts with B and A has an activity that decreases the amount of an entity B by degradating it.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011014
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011015
literal: AKT1 stabilizes quantity of XIAP (interaction from Signor database: SIGNOR-119488)

AnnotationAssertion
abbreviated IRI: bfo:RO_0011015
literal: An entity A physically interacts with B and A has an activity that increases the amount of an entity B by stabilizing it.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011015
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011016
literal: The entity A is not immediately upstream of the entity B and has an activity that down-regulates an activity performed by B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011016
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011016
literal: indirectly inhibits

AnnotationAssertion
abbreviated IRI: bfo:RO_0011021
literal: The entity A, immediately upstream of B, has an activity that directly regulates the quantity of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011021
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011022
literal: The entity A is not immediately upstream of the entity B, but A has an activity that regulates the quantity or abundance or concentration of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011022
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011023
literal: The entity A does not physically interact with the entity B, and A has an activity that down-regulates the quantity or abundance or concentration of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011023
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0011024
literal: The entity A does not physically interact with the entity B, and A has an activity that up-regulates the quantity or abundance or concentration of B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0011024
IRI: https://orcid.org/0000-0003-4639-4431

AnnotationAssertion
abbreviated IRI: bfo:RO_0012000
literal: a relation between a process and a continuant, in which the process is regulated by the small molecule continuant

AnnotationAssertion
abbreviated IRI: bfo:RO_0012001
literal: a relation between a process and a continuant, in which the process is activated by the small molecule continuant

AnnotationAssertion
abbreviated IRI: bfo:RO_0012002
literal: a relation between a process and a continuant, in which the process is inhibited by the small molecule continuant

AnnotationAssertion
abbreviated IRI: bfo:RO_0012003
literal: p acts on population of c iff c' is a collection, has members of type c, and p has participant c

AnnotationAssertion
abbreviated IRI: bfo:RO_0012004
literal: a relation between a continuant and a process, in which the continuant is a small molecule that regulates the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0012005
literal: a relation between a continuant and a process, in which the continuant is a small molecule that activates the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0012006
literal: a relation between a continuant and a process, in which the continuant is a small molecule that inhibits the process

AnnotationAssertion
abbreviated IRI: bfo:RO_0012007
literal: The relationship that links anatomical entities with a process that results in the adhesion of two or more entities via the non-covalent interaction of molecules expressed in, located in, and/or adjacent to, those entities.

AnnotationAssertion
abbreviated IRI: bfo:RO_0012009
literal: p is constitutively upstream of q iff p is causally upstream of q, p is required for execution of q or a part of q, and the execution of p is approximately constant.

AnnotationAssertion
abbreviated IRI: bfo:RO_0012010
literal: p removes input for q iff p is causally upstream of q, there exists some c such that p has_input c and q has_input c, p reduces the levels of c, and c is rate limiting for execution of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0012011
literal: p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0012012
literal: p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q.

AnnotationAssertion
abbreviated IRI: bfo:RO_0012013
literal: x 'positively regulates in other organism' y if and only if: (x is the realization of a function to increase the frequency, rate or extent of y) AND (the agents of x are produced by organism o1 and the agents of y are produced by organism o2).

AnnotationAssertion
abbreviated IRI: bfo:RO_0012013
literal: positively regulates in other organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0012014
literal: x 'negatively regulates in other organism' y if and only if: (x is the realization of a function to reduce the frequency, rate or extent of y) AND (the agents of x are produced by organism o1 and the agents of y are produced by organism o2).

AnnotationAssertion
abbreviated IRI: bfo:RO_0012014
literal: negatively regulates in other organism

AnnotationAssertion
abbreviated IRI: bfo:RO_0013001
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number of input and/or output synapses in that region.

AnnotationAssertion
abbreviated IRI: bfo:RO_0013001
literal: has synaptic input or output in

AnnotationAssertion
abbreviated IRI: bfo:RO_0013002
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number of input synapses in that region.

AnnotationAssertion
abbreviated IRI: bfo:RO_0013003
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number of output synapses in that region.

AnnotationAssertion
abbreviated IRI: bfo:RO_0013004
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number of input and/or output synapses distributed throughout that region (rather than confined to a subregion).

AnnotationAssertion
abbreviated IRI: bfo:RO_0013005
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number of input synapses distributed throughout that region (rather than confined to a subregion).

AnnotationAssertion
abbreviated IRI: bfo:RO_0013006
literal: A relationship between a neuron and a region, where the neuron has a functionally relevant number output synapses distributed throughout that region (rather than confined to a subregion).

AnnotationAssertion
abbreviated IRI: bfo:RO_0013007
literal: Relation between a sensory neuron and some structure in which it receives sensory input via a sensory dendrite.

AnnotationAssertion
abbreviated IRI: bfo:RO_0013007
literal: has sensory dendrite location

AnnotationAssertion
abbreviated IRI: bfo:RO_0013007
literal: has sensory terminal in

AnnotationAssertion
abbreviated IRI: bfo:RO_0013007
literal: has sensory terminal location

AnnotationAssertion
abbreviated IRI: bfo:RO_0013008
literal: A relationship between an anatomical structure (including cells) and a neuron that has a functionally relevant number of chemical synapses to it.

AnnotationAssertion
abbreviated IRI: bfo:RO_0013009
literal: A relationship between a neuron and a cell that it has a functionally relevant number of chemical synapses to.

AnnotationAssertion
abbreviated IRI: bfo:RO_0014001
literal: A relationship between a disease and an infectious agent where the material basis of the disease is an infection with some infectious agent.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015001
literal: transcriptomically defined cell type X equivalent to ‘cell’ and (has_exemplar_data value [transcriptomic profile data])

AnnotationAssertion
abbreviated IRI: bfo:RO_0015001
literal: A relation between a material entity and some data in which the data is taken as exemplifying the material entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015001
literal: C has_exemplar_data y iff x is an instance of C and y is data about x that is taken as exemplifying of C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015001
IRI: https://orcid.org/0000-0002-5260-9315

AnnotationAssertion
abbreviated IRI: bfo:RO_0015002
IRI: https://orcid.org/0000-0002-5260-9315

AnnotationAssertion
abbreviated IRI: bfo:RO_0015003
literal: A relation between a group and another group it is part of but does not fully constitute.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015003
literal: X subcluster_of Y iff: X and Y are clusters/groups; X != Y; all members of X are also members of Y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015003
IRI: https://orcid.org/0000-0001-7258-9596

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: 'Lamp5-like Egln3_1 primary motor cortex GABAergic interneuron (Mus musculus)' subClass_of: has_characterizing_marker_set some 'NS forest marker set of Lamp5-like Egln3_1 MOp (Mouse).'; NS forest marker set of Lamp5-like Egln3_1 SubClass_of: ('has part' some 'Mouse Fbn2') and ('has part' some 'Mouse Chrna7') and ('has part' some 'Mouse Fam19a1').

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: transcriptomically defined cell type X subClass_of: (has_characterizing_marker_set some S1); S1 has_part some gene 1, S1 has_part some gene 2, S1 has_part some gene 3.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: A relation that applies between a cell type and a set of markers that can be used to uniquely identify that cell type.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: C has_characterizing_marker_set y iff: C is a cell type and y is a collection of genes or proteins whose expression is sufficient to distinguish cell type C from most or all other cell types.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: has marker gene combination

AnnotationAssertion
abbreviated IRI: bfo:RO_0015004
literal: has marker signature set

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015006
literal: q1 different_in_magnitude_relative_to q2 if and only if magnitude(q1) NOT =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale.

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015007
literal: q1 increased_in_magnitude_relative_to q2 if and only if magnitude(q1) > magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale.

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015008
literal: q1 decreased_in_magnitude_relative_to q2 if and only if magnitude(q1) < magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale.

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015009
literal: q1 similar_in_magnitude_relative_to q2 if and only if magnitude(q1) =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale.

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015011
literal: s3 has_cross_section s3 if and only if : there exists some 2d plane that intersects the bearer of s3, and the impression of s3 upon that plane has shape quality s2.

AnnotationAssertion
annotation:
  literal: https://orcid.org/0000-0002-6601-2165
abbreviated IRI: bfo:RO_0015012
literal: q1 reciprocal_of q2 if and only if : q1 and q2 are relational qualities and a phenotype e q1 e2 mutually implies a phenotype e2 q2 e.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015015
literal: 'Ly-76 high positive erythrocyte' equivalent to 'enucleate erythrocyte' and (has_high_plasma_membrane_amount some 'lymphocyte antigen 76 (mouse)')

AnnotationAssertion
annotation:
  literal: PMID:19243617
abbreviated IRI: bfo:RO_0015015
literal: A relation between a cell and molecule or complex such that every instance of the cell has a high number of instances of that molecule expressed on the cell surface.

AnnotationAssertion
abbreviated IRI: bfo:RO_0015016
literal: 'DN2b thymocyte' equivalent to 'DN2 thymocyte' and (has_low_plasma_membrane_amount some 'mast/stem cell growth factor receptor')

AnnotationAssertion
annotation:
  literal: PMID:19243617
abbreviated IRI: bfo:RO_0015016
literal: A relation between a cell and molecule or complex such that every instance of the cell has a low number of instances of that molecule expressed on the cell surface.

AnnotationAssertion
abbreviated IRI: bfo:RO_0016002
literal: A relationship that holds between an organism and a disease. Here a disease is construed broadly as a disposition to undergo pathological processes that exists in an organism because of one or more disorders in that organism.

AnnotationAssertion
abbreviated IRI: bfo:RO_0016004
literal: X has exposure medium Y if X is an exposure event (process), Y is a material entity, and the stimulus for X is transmitted or carried in Y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0016004
literal: ExO:0000083

AnnotationAssertion
abbreviated IRI: bfo:RO_0017001
literal: A diagnostic testing device utilizes a specimen.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017001
literal: X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017001
literal: utilizes

AnnotationAssertion
abbreviated IRI: bfo:RO_0017003
literal: A relation between entities in which one increases or decreases as the other does the same.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017003
literal: directly correlated with

AnnotationAssertion
abbreviated IRI: bfo:RO_0017004
literal: A relation between entities in which one increases as the other decreases.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017004
literal: inversely correlated with

AnnotationAssertion
abbreviated IRI: bfo:RO_0017005
literal: anticoagulant-containing test tube contains measured amount 5 ml of blood specimen.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017005
literal: A relation between a container and measurement datum that specifies the actual amount of material in the container.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017006
literal: anticoagulant-containing test tube has maximum capacity 10 ml.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017006
literal: A relation that relates a container to a measurement datum that specifies the maximum capacity of the container. Capacity can refer to either weight or volume.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017008
literal: biobank organization owns a specimen

AnnotationAssertion
abbreviated IRI: bfo:RO_0017008
literal: hospital owns a laboratory facility

AnnotationAssertion
abbreviated IRI: bfo:RO_0017008
literal: A primitive relation that holds between entities x and y in which y is at x's full disposal.

AnnotationAssertion
abbreviated IRI: bfo:RO_0017009
literal: freezer is owned by a biobank organization

AnnotationAssertion
abbreviated IRI: bfo:RO_0017009
literal: Inverse of the owns relation.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018001
literal: Helper relation for OWL definition of RO:0018002 myristoylates

AnnotationAssertion
abbreviated IRI: bfo:RO_0018002
literal: A molecularly-interacts-with relationship between two entities, where the subject catalyzes a myristoylation activity that takes the object as input

AnnotationAssertion
abbreviated IRI: bfo:RO_0018003
literal: inverse of myristoylates

AnnotationAssertion
abbreviated IRI: bfo:RO_0018027
literal: mibolerone (CHEBI:34849) is agonist of androgen receptor (PR:P10275)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018027
literal: a relation between a ligand (material entity) and a receptor (material entity) that implies the binding of the ligand to the receptor activates some activity of the receptor

AnnotationAssertion
abbreviated IRI: bfo:RO_0018028
literal: pimavanserin (CHEBI:133017) is inverse agonist of HTR2A (PR:P28223)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018028
literal: a relation between a ligand (material entity) and a receptor (material entity) that implies the binding of the ligand to the receptor inhibits some activity of the receptor to below basal level

AnnotationAssertion
abbreviated IRI: bfo:RO_0018029
literal: tretinoin (CHEBI:15367) is antagonist of Nuclear receptor ROR-beta (PR:Q92753)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018029
literal: a relation between a ligand (material entity) and a receptor (material entity) that implies the binding of the ligand to the receptor reduces some activity of the receptor to basal level

AnnotationAssertion
abbreviated IRI: bfo:RO_0018031
literal: pyruvate anion (CHEBI:15361) is the conjugate base of the neutral pyruvic acid (CHEBI:32816)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018031
literal: A is a direct conjugate base of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by receiving a particular proton transforms it into B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018032
literal: neutral pyruvic acid (CHEBI:32816) is the conjugate acid of the pyruvate anion (CHEBI:15361)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018032
literal: A is a direct conjugate acid of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing a particular proton transforms it into B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018033
literal: (E)-cinnamoyl-CoA(4-) (CHEBI:57252) is a deprotonated form (E)-cinnamoyl-CoA (CHEBI:10956), which involves removing four protons.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018033
literal: A is a deprotonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Base (i.e., can receive a proton) and by adding some nonzero number of protons transforms it into B. This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018034
literal: (E)-cinnamoyl-CoA (CHEBI:10956) is a protonated form of (E)-cinnamoyl-CoA(4-) (CHEBI:57252), which involves adding four protons.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018034
literal: A is a protonated form of B if and only if A is chemical entity that is a Brønsted–Lowry Acid (i.e., can give up a proton) and by removing some nonzero number of protons transforms it into B. This is a transitive relationship and follows this design pattern: https://oborel.github.io/obo-relations/direct-and-indirect-relations.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018035
literal: phenol (CHEBI:15882) and aniline (CHEBI:17296) are matched molecular pairs because they differ by one chemical transformation i.e., the replacement of aryl primary amine with aryl primary alcohol.

AnnotationAssertion
annotation:
  IRI: https://doi.org/10.1002/ddr.21045
annotation:
  IRI: https://doi.org/10.1021/jm200452d
annotation:
  IRI: https://en.wikipedia.org/wiki/Matched_molecular_pair_analysis
abbreviated IRI: bfo:RO_0018035
literal: A and B are a matched small molecular pair (MMP) if their chemical structures define by a single, relatively small, well-defined structural modification. While this is normally called "matched molecular pair" in the cheminformatics literaturel, it is labeled as "matched small molecular pair" so as to reduce confusion with peptides and other macromolecules, which are also referenced as "molecules" in some contexts. This relationship is symmetric, meaning if A is a MMP with B iff B is a MMP with A. This relationship is not transitive, meaning that A is a MMP with B and B is a MMP with C, then A is not necessarily an MMP with C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018035
literal: is MMP with

AnnotationAssertion
abbreviated IRI: bfo:RO_0018035
literal: is matched molecular pair with

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:CHEBI_38707
annotation:
  abbreviated IRI: bfo:CHEBI_38709
abbreviated IRI: bfo:RO_0018036
literal: 3-carboxy-3-mercaptopropanoate (CHEBI:38707) is tautomer of 1,2-dicarboxyethanethiolate (CHEBI:38709) because 3-carboxy-3-mercaptopropanoate is deprotonated on the carboxylic acid whereas 1,2-dicarboxyethanethiolate is deprotonated on the secondary thiol.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018036
literal: Two chemicals are tautomers if they can be readily interconverted. This commonly refers to prototropy in which a hydrogen's position is changed, such as between ketones and enols. This is also often observed in heterocyclic rings, e.g., ones containing nitrogens and/or have aryl functional groups containing heteroatoms.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018036
literal: is desmotrope of

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:CHEBI_30795
annotation:
  abbreviated IRI: bfo:CHEBI_58957
abbreviated IRI: bfo:RO_0018037
literal: carboxylatoacetyl group (CHEBI:58957) is substituent group from malonate(1-) (CHEBI:30795)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018037
literal: Group A is a substituent group from Chemical B if A represents the functional part of A and includes information about where it is connected. A is not itself a chemical with a fully formed chemical graph, but is rather a partial graph with one or more connection points that can be used to attach to another chemical graph, typically as a functionalization.

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:CHEBI_50851
annotation:
  abbreviated IRI: bfo:CHEBI_50854
abbreviated IRI: bfo:RO_0018038
literal: hydrocortamate hydrochloride (CHEBI:50854) has parent hydride hydrocortamate (CHEBI:50851)

AnnotationAssertion
abbreviated IRI: bfo:RO_0018038
literal: Chemical A has functional parent Chemical B if there is chemical transformation through which chemical B can be produced from chemical A. For example, the relationship between a salt and a freebased compound is a "has functional parent" relationship.

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:CHEBI_48557
annotation:
  abbreviated IRI: bfo:CHEBI_31472
abbreviated IRI: bfo:RO_0018039
literal: dexmedetomidine hydrochloride (CHEBI:31472) is enantiomer of levomedetomidine hydrochloride (CHEBI:48557) because the stereochemistry of the central chiral carbon is swapped.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018039
literal: Chemicals A and B are enantiomers if they share the same molecular graph except the change of the configuration of substituents around exactly one chiral center. A chemical with no chiral centers can not have an enantiomer. A chemical with multiple chiral centers can have multiple enantiomers, but its enantiomers are not themselves enantiomers (they are diastereomers).

AnnotationAssertion
abbreviated IRI: bfo:RO_0018039
literal: is optical isomer of

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:CHEBI_39106
annotation:
  abbreviated IRI: bfo:CHEBI_52083
abbreviated IRI: bfo:RO_0018040
literal: pyranine (CHEBI:52083) has parent hydride pyrene (CHEBI:39106). Pyrene is molecule with four fused benzene rings, whereas pyranine has the same core ring structure with additional sulfates.

AnnotationAssertion
abbreviated IRI: bfo:RO_0018040
literal: Chemical A has parent hydride Chemical B if there exists a molecular graphical transformation where functional groups on A are replaced with hydrogens in order to yield B.

AnnotationAssertion
abbreviated IRI: bfo:RO_0019000
literal: A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0019001
literal: A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0019002
literal: A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C.

AnnotationAssertion
abbreviated IRI: bfo:RO_0019501
literal: Relates a gene to condition, such that a variation in this gene predisposes to the development of a condition.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020101
literal: brachial artery vessel supplies blood to brachialis muscle

AnnotationAssertion
abbreviated IRI: bfo:RO_0020101
literal: x vessel supplies blood to y if and only if x is a vessel that supplies blood directly or indirectly to an anatomical structure y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020102
literal: cystic vein vessel drains blood from gallbladder

AnnotationAssertion
abbreviated IRI: bfo:RO_0020102
literal: x vessel drains blood from y if and only if x is a vessel that drains blood directly or indirectly from an anatomical structure y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020103
literal: alveolar capillary directly supplies and drains some alveolus

AnnotationAssertion
abbreviated IRI: bfo:RO_0020103
literal: x directly supplies and drains y if and only if x is a capillary, y is an anatomical entity, and x directly supplies and drains y.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020202
literal: A relationship between a ratio or proportion and its dividend.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020202
literal: has dividend

AnnotationAssertion
abbreviated IRI: bfo:RO_0020203
literal: A relationship between a ratio or proportion and its divisor.

AnnotationAssertion
abbreviated IRI: bfo:RO_0020203
literal: has divisor

AnnotationAssertion
abbreviated IRI: bfo:RO_0040035
literal: This relation groups relations between diseases and any other kind of entity.

AnnotationAssertion
abbreviated IRI: bfo:RO_0040036
literal: p has anatomical participant c iff p has participant c, and c is an anatomical entity

AnnotationAssertion
abbreviated IRI: bfo:RO_0040042
literal: part-of is homeomorphic for independent continuants.

AnnotationAssertion
abbreviated IRI: bfo:RO_0040042
literal: R is homemorphic for C iff (1) there exists some x,y such that x R y, and x and y instantiate C and (2) for all x, if x is an instance of C, and there exists some y some such that x R y, then it follows that y is an instance of C.

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000000
annotation:
  literal: BGEE:curator
abbreviated IRI: bfo:RO_HOM0000000
literal: Relation between biological objects that resemble or are related to each other sufficiently to warrant a comparison.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000000
literal: TODO: Add homeomorphy axiom

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000000
literal: sameness

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000000
literal: similar to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814479
abbreviated IRI: bfo:RO_HOM0000000
literal: correspondence

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000000
literal: resemblance

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1002/bies.950180611
annotation:
  IRI: http://dx.doi.org/10.1002/jmor.1051730307
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814480
annotation:
  abbreviated IRI: bfo:HOM_0000001
abbreviated IRI: bfo:RO_HOM0000001
literal: Similarity that results from common evolutionary origin.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000001
literal: homologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.010
annotation:
  abbreviated IRI: bfo:HOM_0000002
abbreviated IRI: bfo:RO_HOM0000002
literal: Similarity that results from independent evolution.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000002
literal: homoplasous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000002
literal: analogy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814484
annotation:
  IRI: http://dx.doi.org/10.1007/s00427-003-0301-4
annotation:
  IRI: http://dx.doi.org/10.1186/1742-9994-2-15
annotation:
  abbreviated IRI: bfo:HOM_0000003
abbreviated IRI: bfo:RO_HOM0000003
literal: Similarity that is characterized by the organization of anatomical structures through the expression of homologous or identical patterning genes.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000003
literal: homocracous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.010
annotation:
  abbreviated IRI: bfo:HOM_0000004
abbreviated IRI: bfo:RO_HOM0000004
literal: Homoplasy that involves different underlying mechanisms or structures.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000004
literal: analogy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.010
annotation:
  abbreviated IRI: bfo:HOM_0000005
abbreviated IRI: bfo:RO_HOM0000005
literal: Homoplasy that involves homologous underlying mechanisms or structures.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000005
literal: parallel evolution

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.014
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.es.20.110189.000411
annotation:
  abbreviated IRI: bfo:HOM_0000006
annotation:
  literal: ISBN:0123195837
abbreviated IRI: bfo:RO_HOM0000006
literal: Homology that is defined by similarity with regard to selected structural parameters.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000006
literal: structural homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000006
literal: idealistic homology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0169-5347(97)01125-7
annotation:
  abbreviated IRI: bfo:HOM_0000007
annotation:
  literal: ISBN:0123195837
abbreviated IRI: bfo:RO_HOM0000007
literal: Homology that is defined by common descent.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: cladistic homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: historical homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: phylogenetic homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: taxic homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000007
literal: true homology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0169-5347(97)01125-7
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.es.20.110189.000411
annotation:
  abbreviated IRI: bfo:HOM_0000008
abbreviated IRI: bfo:RO_HOM0000008
literal: Homology that is defined by sharing of a set of developmental constraints, caused by locally acting self-regulatory mechanisms of differentiation, between individualized parts of the phenotype.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000008
literal: biological homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000008
literal: transformational homology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.010
annotation:
  abbreviated IRI: bfo:HOM_0000009
abbreviated IRI: bfo:RO_HOM0000009
literal: Homoplasy that involves phenotypes similar to those seen in ancestors within the lineage.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000009
literal: atavism

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000009
literal: rudiment

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000009
literal: reversion

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000010
annotation:
  literal: MeSH:Synteny
abbreviated IRI: bfo:RO_HOM0000010
literal: Structural homology that is detected by similarity in content and organization between chromosomes.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000010
literal: syntenic homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000010
literal: synteny

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000011
annotation:
  IRI: http://www.ncbi.nlm.nih.gov/pubmed/5449325
abbreviated IRI: bfo:RO_HOM0000011
literal: Historical homology that involves genes that diverged after a duplication event.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000011
literal: paralogous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1186/1471-213X-7-100
annotation:
  abbreviated IRI: bfo:HOM_0000012
annotation:
  literal: DOI:10.1002/1097-010X(20001215)288:4<345::AID-JEZ7>3.0.CO;2-Y
abbreviated IRI: bfo:RO_HOM0000012
literal: Paralogy that involves sets of syntenic blocks.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000012
literal: syntenic paralogous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000012
literal: duplicon

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000012
literal: paralogon

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1101/gr.6380007
annotation:
  abbreviated IRI: bfo:HOM_0000013
abbreviated IRI: bfo:RO_HOM0000013
literal: Syntenic homology that involves chromosomes of different species.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000013
literal: syntenic orthologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000014
annotation:
  literal: ISBN:0123195837
annotation:
  literal: ISBN:978-0471984931
abbreviated IRI: bfo:RO_HOM0000014
literal: Structural homology that involves complex structures from which only a fraction of the elements that can be isolated are separately homologous.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: fractional homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: partial homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: segmental homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: mixed homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: modular homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: partial correspondence

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000014
literal: percent homology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/0022-2836(76)90195-9
annotation:
  abbreviated IRI: bfo:HOM_0000015
abbreviated IRI: bfo:RO_HOM0000015
literal: Structural homology that is detected at the level of the 3D protein structure, but maybe not at the level of the amino acid sequence.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000015
literal: protein structural homologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000016
annotation:
  literal: SO:non_functional_homolog_of
abbreviated IRI: bfo:RO_HOM0000016
literal: Structural homology that involves a pseudogenic feature and its functional ancestor.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000016
literal: pseudogene

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000016
literal: non functional homologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814484
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000017
annotation:
  IRI: http://www.ncbi.nlm.nih.gov/pubmed/5449325
abbreviated IRI: bfo:RO_HOM0000017
literal: Historical homology that involves genes that diverged after a speciation event.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000017
literal: orthologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000018
abbreviated IRI: bfo:RO_HOM0000018
literal: Historical homology that is characterized by an interspecies (horizontal) transfer since the common ancestor.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000018
literal: xenologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000019
annotation:
  literal: BGEE:curator
abbreviated IRI: bfo:RO_HOM0000019
literal: Historical homology that involves two members sharing no other homologs in the lineages considered.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000019
literal: 1 to 1 homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000019
literal: 1:1 homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000019
literal: one-to-one homology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814484
annotation:
  abbreviated IRI: bfo:HOM_0000020
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000020
literal: Orthology that involves two genes that did not experience any duplication after the speciation event that created them.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000020
literal: 1 to 1 orthologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000020
literal: 1:1 orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000020
literal: one-to-one orthology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1038/75560
annotation:
  abbreviated IRI: bfo:HOM_0000022
abbreviated IRI: bfo:RO_HOM0000022
literal: Paralogy that results from a whole genome duplication event.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000022
literal: ohnologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000022
literal: homoeology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000023
abbreviated IRI: bfo:RO_HOM0000023
literal: Paralogy that results from a lineage-specific duplication subsequent to a given speciation event.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000023
literal: in-paralogous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000023
literal: inparalogy

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000023
literal: symparalogy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000024
abbreviated IRI: bfo:RO_HOM0000024
literal: Paralogy that results from a duplication preceding a given speciation event.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000024
literal: alloparalogy

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000024
literal: out-paralogous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000024
literal: outparalogy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1006/scdb.1999.0338
annotation:
  IRI: http://dx.doi.org/10.1038/nrg2099
annotation:
  abbreviated IRI: bfo:HOM_0000025
abbreviated IRI: bfo:RO_HOM0000025
literal: 1:many orthology that involves a gene in species A and one of its ortholog in species B, when duplications more recent than the species split have occurred in species B but not in species A.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000025
literal: pro-orthologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1006/scdb.1999.0338
annotation:
  IRI: http://dx.doi.org/10.1038/nrg2099
annotation:
  abbreviated IRI: bfo:HOM_0000026
abbreviated IRI: bfo:RO_HOM0000026
literal: 1:many orthology that involves a gene in species A and its ortholog in species B, when duplications more recent than the species split have occurred in species A but not in species B.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000026
literal: semi-orthologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.es.20.110189.000411
annotation:
  abbreviated IRI: bfo:HOM_0000027
abbreviated IRI: bfo:RO_HOM0000027
literal: Iterative homology that involves structures arranged along the main body axis.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000027
literal: serial homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000027
literal: homonomy

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000028
annotation:
  literal: ISBN:978-0674639416
abbreviated IRI: bfo:RO_HOM0000028
literal: Biological homology that is characterized by changes, over evolutionary time, in the rate or timing of developmental events of homologous structures.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000028
literal: heterochronous homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000028
literal: heterochrony

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Pedomorphosis
annotation:
  abbreviated IRI: bfo:HOM_0000029
annotation:
  literal: ISBN:978-0674639416
abbreviated IRI: bfo:RO_HOM0000029
literal: Heterochronous homology that is produced by a retention in adults of a species of traits previously seen only in juveniles.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000029
literal: juvenification

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000029
literal: pedomorphosis

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Peramorphosis
annotation:
  abbreviated IRI: bfo:HOM_0000030
abbreviated IRI: bfo:RO_HOM0000030
literal: Heterochronous homology that is produced by a maturation of individuals of a species past adulthood, which take on hitherto unseen traits.

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Progenesis
annotation:
  abbreviated IRI: bfo:HOM_0000031
annotation:
  literal: ISBN:978-0674639416
abbreviated IRI: bfo:RO_HOM0000031
literal: Paedomorphosis that is produced by precocious sexual maturation of an organism still in a morphologically juvenile stage.

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Neoteny
annotation:
  abbreviated IRI: bfo:HOM_0000032
annotation:
  literal: ISBN:978-0674639416
abbreviated IRI: bfo:RO_HOM0000032
literal: Paedomorphosis that is produced by a retardation of somatic development.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000032
literal: juvenilization

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000032
literal: neotenous to

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Mimicry
annotation:
  abbreviated IRI: bfo:HOM_0000033
abbreviated IRI: bfo:RO_HOM0000033
literal: Convergence that results from co-evolution usually involving an evolutionary arms race.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000033
literal: mimicrous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1038/415741a
annotation:
  abbreviated IRI: bfo:HOM_0000034
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000034
literal: Orthology that involves two genes when duplications more recent than the species split have occurred in one species but not the other.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000034
literal: 1 to many orthologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000034
literal: 1:many orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000034
literal: one-to-many orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000034
literal: co-orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000034
literal: many to 1 orthology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1093/molbev/msp002
annotation:
  abbreviated IRI: bfo:HOM_0000036
abbreviated IRI: bfo:RO_HOM0000036
literal: Historical homology that involves two members of a larger set of homologs.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000036
literal: many to many homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000036
literal: many-to-many homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000036
literal: many:many homology

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000037
annotation:
  literal: BGEE:curator
abbreviated IRI: bfo:RO_HOM0000037
literal: Historical homology that involves a structure that has no other homologs in the species in which it is defined, and several homologous structures in another species.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000037
literal: 1 to many homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000037
literal: one-to-many homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000037
literal: 1:many homology

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000042
annotation:
  literal: ISBN:978-0252068140
abbreviated IRI: bfo:RO_HOM0000042
literal: Historical homology that is based on recent shared ancestry, characterizing a monophyletic group.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000042
literal: apomorphous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000042
literal: synapomorphy

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000043
annotation:
  literal: ISBN:978-0252068140
abbreviated IRI: bfo:RO_HOM0000043
literal: Historical homology that is based on distant shared ancestry.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000043
literal: plesiomorphous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000043
literal: symplesiomorphy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814485
annotation:
  IRI: http://dx.doi.org/10.1038/nature07891
annotation:
  abbreviated IRI: bfo:HOM_0000044
abbreviated IRI: bfo:RO_HOM0000044
literal: Homocracy that involves morphologically and phylogenetically disparate structures that are the result of parallel evolution.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000044
literal: deep genetic homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000044
literal: deep homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000044
literal: generative homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000044
literal: homoiology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1073/pnas.0807433105
annotation:
  abbreviated IRI: bfo:HOM_0000045
abbreviated IRI: bfo:RO_HOM0000045
literal: Historical homology that is characterized by topological discordance between a gene tree and a species tree attributable to the phylogenetic sorting of genetic polymorphisms across successive nodes in a species tree.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000045
literal: hemiplasous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000046
annotation:
  IRI: http://www.ncbi.nlm.nih.gov/pubmed/11110898
abbreviated IRI: bfo:RO_HOM0000046
literal: Historical homology that involves not recombining and subsequently differentiated sex chromosomes.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000046
literal: gametologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000047
annotation:
  literal: ISBN:0195307615
abbreviated IRI: bfo:RO_HOM0000047
literal: Historical homology that involves the chromosomes able to pair (synapse) during meiosis.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000047
literal: chromosomal homologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1038/415741a
annotation:
  abbreviated IRI: bfo:HOM_0000048
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000048
literal: Orthology that involves two genes that experienced duplications more recent than the species split that created them.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: many to many orthologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: many-to-many orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: many:many orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: trans-orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: co-orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000048
literal: trans-homology

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000049
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000049
literal: Paralogy that involves genes from the same species.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000049
literal: within-species paralogous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000050
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000050
literal: Paralogy that involves genes from different species.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000050
literal: between-species paralogous to

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Pedomorphosis
annotation:
  abbreviated IRI: bfo:HOM_0000051
abbreviated IRI: bfo:RO_HOM0000051
literal: Paedomorphosis that is produced by delayed growth of immature structures into the adult form.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000051
literal: post-displacement

AnnotationAssertion
annotation:
  IRI: http://en.wikipedia.org/wiki/Peramorphosis
annotation:
  abbreviated IRI: bfo:HOM_0000052
annotation:
  literal: ISBN:978-0674639416
abbreviated IRI: bfo:RO_HOM0000052
literal: Peramorphosis that is produced by a delay in the offset of development.

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF00173425
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  abbreviated IRI: bfo:HOM_0000053
abbreviated IRI: bfo:RO_HOM0000053
literal: Xenology that results, not from the transfer of a gene between two species, but from a hybridization of two species.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000053
literal: synologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  abbreviated IRI: bfo:HOM_0000054
abbreviated IRI: bfo:RO_HOM0000054
literal: Orthology that involves functional equivalent genes with retention of the ancestral function.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000054
literal: isoorthologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1016/S0168-9525(00)02005-9
annotation:
  abbreviated IRI: bfo:HOM_0000055
annotation:
  literal: ISBN:978-0878932665
abbreviated IRI: bfo:RO_HOM0000055
literal: Paralogy that is characterized by duplication of adjacent sequences on a chromosome segment.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000055
literal: tandem paralogous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000055
literal: iterative paralogy

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000055
literal: serial paralogy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814485
annotation:
  IRI: http://dx.doi.org/10.1016/j.jhevol.2006.11.010
annotation:
  IRI: http://dx.doi.org/10.1186/1742-9994-2-15
annotation:
  abbreviated IRI: bfo:HOM_0000057
annotation:
  literal: ISBN:0199141118
abbreviated IRI: bfo:RO_HOM0000057
literal: Parallelism that involves morphologically very similar structures, occurring only within some members of a taxon and absent in the common ancestor (which possessed the developmental basis to develop this character).

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: apomorphic tendency

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: cryptic homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: latent homologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: underlying synapomorphy

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: homoiology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: homoplastic tendency

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000057
literal: re-awakening

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1186/1742-9994-2-15
annotation:
  abbreviated IRI: bfo:HOM_0000058
annotation:
  literal: DOI:10.1002/1521-1878(200009)22:9<846::AID-BIES10>3.0.CO;2-R
abbreviated IRI: bfo:RO_HOM0000058
literal: Homocracy that involves recognizably corresponding characters that occurs in two or more taxa, or as a repeated unit within an individual.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000058
literal: generative homology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000058
literal: syngenous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000060
annotation:
  IRI: http://www.ensembl.org/info/docs/compara/homology_method.html
abbreviated IRI: bfo:RO_HOM0000060
literal: Between-species paralogy that involves single copy paralogs resulting from reciprocal gene loss.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000060
literal: 1:1 paralogy

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000060
literal: apparent 1:1 orthology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000060
literal: apparent orthologous to

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000060
literal: pseudoorthology

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.genet.39.073003.114725
annotation:
  abbreviated IRI: bfo:HOM_0000061
abbreviated IRI: bfo:RO_HOM0000061
literal: Xenology that involves genes that ended up in a given genome as a result of a combination of vertical inheritance and horizontal gene transfer.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000061
literal: pseudoparalogous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1093/nar/gkl1043
annotation:
  abbreviated IRI: bfo:HOM_0000062
abbreviated IRI: bfo:RO_HOM0000062
literal: Historical homology that involves functional equivalent genes with retention of the ancestral function.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000062
literal: equivalogous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1101/gr.1774904
annotation:
  IRI: http://dx.doi.org/10.1126/science.287.5450.116
annotation:
  abbreviated IRI: bfo:HOM_0000063
abbreviated IRI: bfo:RO_HOM0000063
literal: Historical homology that involves orthologous pairs of interacting molecules in different organisms.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000063
literal: interologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814484
annotation:
  IRI: http://dx.doi.org/10.1038/415741a
annotation:
  abbreviated IRI: bfo:HOM_0000065
abbreviated IRI: bfo:RO_HOM0000065
literal: Similarity that is characterized by interchangeability in function.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000065
literal: functional similarity

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1146/annurev.es.20.110189.000411
annotation:
  abbreviated IRI: bfo:HOM_0000066
abbreviated IRI: bfo:RO_HOM0000066
literal: Biological homology that involves parts of the same organism.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000066
literal: iterative homologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000068
annotation:
  IRI: http://www.ncbi.nlm.nih.gov/pubmed/3065587
abbreviated IRI: bfo:RO_HOM0000068
literal: Xenology that is characterized by multiple horizontal transfer events, resulting in the presence of two or more copies of the foreign gene in the host genome.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000068
literal: duplicate xenology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000068
literal: multiple xenology

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000068
literal: paraxenologous to

AnnotationAssertion
annotation:
  abbreviated IRI: bfo:HOM_0000069
annotation:
  IRI: http://www.ncbi.nlm.nih.gov/pubmed/3065587
abbreviated IRI: bfo:RO_HOM0000069
literal: Paralogy that is characterized by extra similarity between paralogous sequences resulting from concerted evolution.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000069
literal: plerologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814484
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814485
annotation:
  abbreviated IRI: bfo:HOM_0000071
annotation:
  literal: ISBN:0123195837
abbreviated IRI: bfo:RO_HOM0000071
literal: Structural homology that involves structures with the same or similar relative positions.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000071
literal: homotopous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/BF02814485
annotation:
  IRI: http://dx.doi.org/10.1016/j.cell.2008.06.030
annotation:
  abbreviated IRI: bfo:HOM_0000072
abbreviated IRI: bfo:RO_HOM0000072
literal: Biological homology that involves an ectopic structure and the normally positioned structure.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000072
literal: heterotopy

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1073/pnas.0505156102
annotation:
  abbreviated IRI: bfo:HOM_0000073
abbreviated IRI: bfo:RO_HOM0000073
literal: Synology that results from allopolyploidy.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000073
literal: homoeologous to

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1007/s10441-007-9023-8
annotation:
  IRI: http://dx.doi.org/10.1046/j.1525-142x.2000.00054.x
annotation:
  abbreviated IRI: bfo:HOM_0000074
abbreviated IRI: bfo:RO_HOM0000074
literal: Iterative homology that involves two structures, one of which originated as a duplicate of the other and co-opted the expression of patterning genes of the ancestral structure.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000074
literal: axis paramorphism

AnnotationAssertion
annotation:
  IRI: http://dx.doi.org/10.1101/gr.1774904
annotation:
  abbreviated IRI: bfo:HOM_0000075
abbreviated IRI: bfo:RO_HOM0000075
literal: Historical homology that involves orthologous pairs of transcription factors and downstream regulated genes in different organisms.

AnnotationAssertion
abbreviated IRI: bfo:RO_HOM0000075
literal: regulogous to

AnnotationAssertion
annotation:
  literal: CARO:0001001
annotation:
  literal: FBC:DOS
annotation:
  literal: FBbt:00005099
abbreviated IRI: bfo:UBERON_0000122
literal: A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses.

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0000122
literal: funiculus

AnnotationAssertion
annotation:
  literal: FBbt:00005099
abbreviated IRI: bfo:UBERON_0000122
literal: nerve fiber bundle

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0000122
literal: neural fiber bundle

AnnotationAssertion
annotation:
  literal: http://orcid.org/0000-0001-9114-8737
abbreviated IRI: bfo:UBERON_0000466
literal: Anatomical entity that has no mass.

AnnotationAssertion
annotation:
  literal: FMA:67112
abbreviated IRI: bfo:UBERON_0000466
literal: immaterial physical anatomical entity

AnnotationAssertion
annotation:
  literal: FMA:62955
annotation:
  literal: http://orcid.org/0000-0001-9114-8737
abbreviated IRI: bfo:UBERON_0001062
literal: Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species.

AnnotationAssertion
annotation:
  literal: BTO:0001102
annotation:
  literal: Wikipedia:Blood_vessel
abbreviated IRI: bfo:UBERON_0001981
literal: A vessel through which blood circulates in the body.

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0001981
literal: consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus

AnnotationAssertion
annotation:
  literal: EMAPA:35993
abbreviated IRI: bfo:UBERON_0001981
literal: vascular element

AnnotationAssertion
annotation:
  literal: FMA:50722
abbreviated IRI: bfo:UBERON_0001981
literal: region of vascular tree organ

AnnotationAssertion
annotation:
  literal: FMA:50722
abbreviated IRI: bfo:UBERON_0001981
literal: vascular tree organ region

AnnotationAssertion
annotation:
  literal: ISBN:0073040584
annotation:
  literal: Wikipedia:Capillary
annotation:
  literal: https://github.com/obophenotype/uberon/issues/137
abbreviated IRI: bfo:UBERON_0001982
literal: Any of the smallest blood vessels connecting arterioles with venules.

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0001982
literal: not all sources agree capillary is a blood vessel - consider adopting EMAPA superclass of vascular element

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0001982
literal: blood capillary

AnnotationAssertion
abbreviated IRI: bfo:UBERON_0001982
literal: capillary vessel

AnnotationAssertion
annotation:
  literal: CARO:0010000
abbreviated IRI: bfo:UBERON_0010000
literal: An anatomical structure that has more than one cell as a part.

AnnotationAssertion
annotation:
  literal: FBbt:00100313
abbreviated IRI: bfo:UBERON_0010000
literal: multicellular structure

AnnotationAssertion
abbreviated IRI: terms:contributor

AnnotationAssertion
abbreviated IRI: terms:contributor
literal: contributor

AnnotationAssertion
abbreviated IRI: terms:contributor
literal: entity responsible for making contributions to the resource

AnnotationAssertion
abbreviated IRI: terms:creator

AnnotationAssertion
abbreviated IRI: terms:creator
literal: creator

AnnotationAssertion
abbreviated IRI: terms:creator
literal: entity responsible for making the resource

AnnotationAssertion
abbreviated IRI: terms:source

AnnotationAssertion
abbreviated IRI: terms:source
literal: source

AnnotationAssertion
abbreviated IRI: terms:source
literal: related resource from which the described resource is derived

AnnotationAssertion
abbreviated IRI: terms:source
literal: The intent is to provide a user with a reference as to how the thing being annotated was derived or arrived at. - The source can be a URL to a standard, common dictionary (e.g. Oxford), or similar reference. Or it can be a short description of where the entity being annotated was derived from. - The 'Source' annotation would most likely be used as an annotation on an annotation. For instance annotating a Natural Language definition annotation.

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
literal: An alternative label for a class or property which has a more general meaning than the preferred name/primary label.

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
IRI: http://orcid.org/0000-0001-5208-3432

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/18

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
literal: has broad synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
literal: has_broad_synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasBroadSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/18

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
literal: An alternative label for a class or property which has the exact same meaning than the preferred name/primary label.

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
IRI: http://orcid.org/0000-0001-5208-3432

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/20

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
literal: has exact synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
literal: has_exact_synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasExactSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/20

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
literal: An alternative label for a class or property which has a more specific meaning than the preferred name/primary label.

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
IRI: http://orcid.org/0000-0001-5208-3432

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/19

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
literal: has narrow synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
literal: has_narrow_synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasNarrowSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/19

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
literal: An alternative label for a class or property that has been used synonymously with the primary term name, but the usage is not strictly correct.

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
IRI: http://orcid.org/0000-0001-5208-3432

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/21

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
literal: has related synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
literal: has_related_synonym

AnnotationAssertion
abbreviated IRI: oboInOwl:hasRelatedSynonym
literal: https://github.com/information-artifact-ontology/ontology-metadata/issues/21

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: ICE

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: A Generically Dependent Continuant that generically depends on some Information Bearing Entity and stands in relation of aboutness to some Entity.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: http://purl.obolibrary.org/obo/IAO_0000030

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: Information Content Entity is here intended to be a class of Entities whose instances are the informational content of Information Bearing Entities. For example, three instances of information bearers -- such as a bar chart, color-coded map, and a written report -- each of which lists the GDP of Countries for the year 2010 are each different carriers of the same information content. It is this content that is generically dependent upon its carrier. This treatment of Informational Content Entity (cf. the Information Artifact Ontology) leads to a principle of subtyping based upon the relationship that ICE's have with the Entity they are about rather than characteristics such as format, language, measurement scale, or media. The latter are treated here as being Qualities of bearers.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:InformationContentEntity
literal: Information Content Entity

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: An Information Content Entity that represents some Entity.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: the content of a court transcript represents a courtroom proceeding

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: the content of a photograph of the Statue of Liberty represents the Statue of Liberty

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: the content of a video of a sporting event represents that sporting event

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:RepresentationalInformationContentEntity
literal: Representational Information Content Entity

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_about
literal: A primitive relationship between an Information Content Entity and some Entity.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_about
literal: http://purl.obolibrary.org/obo/IAO_0000136

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_about
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_about
literal: is about

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_subject_of
literal: A primitive relationship between an instance of an Entity and an instance of an Information Content Entity.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_subject_of
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:is_subject_of
literal: is subject of

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represented_by
literal: y represented_by x iff x is an instance of Information Content Entity, and y is an instance of Entity, and z is carrier of x, such that x is about y in virtue of there existing an isomorphism between characteristics of z and y.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represented_by
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represented_by
literal: See notes for inverse property.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represented_by
literal: represented by

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: x represents y iff x is an instance of Information Content Entity, y is an instance of Entity, and z is carrier of x, such that x is about y in virtue of there existing an isomorphism between characteristics of z and y.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: The relationship that is being defined here is that between the content of a photographic image and its object, between the content of a video and its objects and events, between the content of an audio recording and the sounds or events generating those sounds, or between the content of a written transcript and the verbal event that it transcribes.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: http://www.ontologyrepository.com/CommonCoreOntologies/Mid/InformationEntityOntology

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: Isomorphism between the carrier of x and the represented entity can be via a direct similarity relation, e.g., grooves in a vinyl record corresponding to sound waves, or linguistic convention, e.g., a court stenographer's transcription of spoken words, as well as others, such as encoding processes for images.

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: represents

AnnotationAssertion
abbreviated IRI: CommonCoreOntologies:represents
literal: Given a stronger temporal interpretation, this property may be functional. For more info please refer to https://github.com/BFO-ontology/BFO-2020/tree/master/src/owl/temporal%20extensions.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:MaturityLevel
literal: maturity level

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:MaturityLevel
literal: classifier used to specify the state of a resource in its development process

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Provisional
literal: provisional

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Provisional
literal: construct or ontology development state in which content is subject to change and may change considerably

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Provisional
literal: IOF users should be aware that the resource is not dependable, but can be used for reference and for further work.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Released
literal: released

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Released
literal: construct or ontology development state in which the resource is stable, usable, and has been made available to external users

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:Released
literal: Release notes will be provided for any changes concerning released content, and any revisions will be backward compatible with the prior version to the degree possible.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:adaptedFrom
abbreviated IRI: AnnotationVocabulary:

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:adaptedFrom
literal: adapted from

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:adaptedFrom
literal: source for the resource that was modified to create the subject resource

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:directSource
abbreviated IRI: AnnotationVocabulary:

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:directSource
literal: direct source

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:directSource
literal: definitive source of the subject resource

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:excerptedFrom
abbreviated IRI: AnnotationVocabulary:

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:excerptedFrom
literal: excerpted from

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:excerptedFrom
literal: source of a resource that was imported unmodified from an external ontology

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:excerptedFrom
literal: This annotation is to be used when an element from a non-IOF ontology is used in an IOF ontology (and the source ontology is not imported in its entirety).

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:explanatoryNote
literal: explanatory note

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:explanatoryNote
literal: note that provides additional explanatory information about a given notion or resource

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicAxiom
literal: first-order logic axiom

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicAxiom
literal: logic axiom annotation written in first order logic

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicAxiom
literal: First-order logic axioms MAY be provided if the term is primitive ('is primitive' is true ) or non-primitive. A construct MAY include more than one first-order logic axiom annotation.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicDefinition
literal: first order logic definition

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicDefinition
literal: logic definition that expresses the axioms of a class or an object property in first order logic

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicDefinition
literal: An example of a First Order Logic definition for 'Product' might be (again bearing in mind the natural language terms appearing should be regarded as symbols in the IOF signature): - Continuant(x) ∧ ¬(SpecificallyDependentContinuant(x) ∨ Person(x) ∨ Organization(x)) ∧ ∃r (ProductRole(r) ∧ hasRole(x, r))

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:firstOrderLogicDefinition
literal: The First Order Logic Definition annotation is comprised of the (complete) necessary and sufficient conditions. - This annotation is Required for each non-primitive (aka non-axiomatic) class (i.e. unary relation) of a published IOF OWL ontology. This is the most authoritative and comprehensive definition of an IOF element. - IOF Common Logic ontologies do not require this annotation, but if included it must be logically equivalent to the Common Logic definition. - A primitive (aka axiomatic) term will not have a First Order Logic definition in either an OWL or Common Logic IOF ontology. - There should be at most one First Order Logic definition. - The specific symbols to be used for existential and universal quantification along with those for conjunction, disjunction, negation, conditional (i.e. if-then), and equivalence will be those commonly used in the mathematical formulas and statement. - Conjunction - ∧; Disjunction - ∨; Negation - ¬; Existential Quantification - ∃; Universal Quantification - ∀; Conditional - →; Equivalence - ↔; Left/Right Parentheses - (,); Left/Right Brackets - {,}.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:isPrimitive
literal: is primitive

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:isPrimitive
literal: boolean flag indicating that necessary and sufficient conditions are not provided

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:isPrimitive
literal: 'is primitive' must be present if the term does not have necessary and sufficient conditions and the value of the annotation must be set to true. When 'is primitive' is set to true, a value for a 'primitive rationale' annotation must also be provided.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicAxiom
literal: logic axiom

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicAxiom
literal: logical statements constraining the interpretation of the notion represented by the construct that do not provide necessary and sufficient conditions

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicAxiom
literal: This annotation property is an abstraction of the more specialized logic axiom annotations used in IOF. However, this annotation property can also be used to group together the logic axiom annotation values of different forms (such as FOL and natural language) that express the same meaning for a particular construct.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicAxiom
literal: A first order logic axiom expression and a semi-formal natural language axiom expression should be added as Property values for each logic axiom annotation using 1 of each of the corresponding logic axiom annotation subproperties.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicDefinition
literal: logic definition

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:logicDefinition
literal: definition in the form of a logical expression

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:maturity
literal: maturity

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:maturity
literal: annotation property used to indicate the development status of a resource

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:maturity
literal: Any value for maturity MUST be an instance of MaturityLevel. All IOF ontologies MUST include exactly one maturity annotation. IOF constructs may include a maturity annotation.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:naturalLanguageDefinition
literal: natural language definition

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:naturalLanguageDefinition
literal: definition written in plain text for human understanding

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:naturalLanguageDefinition
literal: This annotation is Required for each non-primitive or non-axiomatic class of an IOF (OWL or Common Logic) ontology. - It is optional for primitive (aka axiomatic) classes since such the Elucidation annotation is required and will satisfy the role of a natural language definition. - It is optional, but recommended, for relations when the intent of a relation may be misunderstood. - There should be at most one. - This natural language definition should be subject matter expert friendly and consistent with any formal definition or elucidation. - Natural language definitions should use class and relation names with following caveats: a) Relations – For those relations whose label (i.e. local identifier) consist of multiple terms hyphenate the terms of the label: e.g. 'hasPlan' would be written as 'has-plan' b) Classes – For classes whose label has multiple distinct terms, e.g, ManufacturingOperationSpecification, separate the terms but bound them with apostrophe marks: 'Manufacturing Operation Specification'.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:primitiveRationale
literal: primitive rationale

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:primitiveRationale
literal: reason why necessary and sufficient conditions could not be provided

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:primitiveRationale
literal: When 'is primitive' is set to true, a value for 'primitive rationale' must be provided. The rationale should indicate what is missing if additional work is required to define necessary and sufficient conditions.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageAxiom
literal: semi-formal natural language axiom

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageAxiom
literal: logic axiom expressed in natural language

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageAxiom
literal: Semi-formal natural language axioms MAY be provided if the term is primitive (is primitive is true). A construct MAY include more than one semi-formal natural language axiom annotation.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageDefinition
literal: semi-formal natural language definition

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageDefinition
literal: logic definition that expresses a first order logic definition or common logic definition in natural language

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:semiFormalNaturalLanguageDefinition
literal: This annotation is required if an element in an IOF OWL ontology has a First Order Logic definition or in a IOF Common Logic (where the element is defined using Common Logic). - The intent of this annotation to provide a transition or bridge from the First Order Logic definition of a notion to the natural language definition. This definition is intended to help a user understand the intended interpretation of the notion. - As example using the First Order Logic definition of 'Product' above, a semi-formal translation of that might be: - Product =def. Continuant that is not a Person and not an Organization and not a Specifically Dependent Continuant and there is a Product Role that the thing has or bears.

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:subjectMatterExpertExplanation
literal: subject matter expert explanation

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:subjectMatterExpertExplanation
literal: definition of the term expressed in natural language that has the minimal usage of ontological terms and is intended to be a self-standing explanation

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:subjectMatterExpertExplanation
literal: Usage of this annotation is optional but is recommended in cases where: - the natural language definition or elucidation rely heavily on the terms defined in the ontology - there exists an explanation of the term that is more familiar to SMEs that does not coincide with the definition present in the ontology

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:usageNote
literal: usage note

AnnotationAssertion
abbreviated IRI: AnnotationVocabulary:usageNote
literal: note that provides information about how a given notion or resource is used in the ontology's context

AnnotationPropertyRange
IRI: /SCO_0000016