Matches in Nanopublications for { ?s ?p ?o <http://purl.org/np/RArAFrdM4rux7Cwl-lT_a4JzGk9tcGItbpd7ykkbD3S2M#assertion>. }
- sequence_variant_has_gene label "sequence variant has gene - Each allele can be associated with any number of genes" assertion.
- sequence_variant_has_biological_sequence label "sequence variant has biological sequence - The state of the sequence w.r.t a reference sequence" assertion.
- sequence_localization_attribute label "sequence localization attribute - An attribute that can be applied to a genome sequence localization edge. These edges connect a nucleic acid entity such as an exon to an entity such as a chromosome. Edge properties are used to ascribe specific positional information and other metadata to the localization. In pragmatic terms this can be thought of as columns in a GFF3 line." assertion.
- sequence_feature_relationship_subject label "sequence feature relationship subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- sequence_feature_relationship_object label "sequence feature relationship object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- same_as label "same as - holds between two entities that are considered equivalent to each other" assertion.
- routes_of_delivery label "routes of delivery - the method or process of administering a pharmaceutical compound to achieve a therapeutic effect in humans or animals." assertion.
- retrieval_source_upstream_resources label "retrieval source upstream resources - The InformationResources that served as a source for the InformationResource that served as a source for the knowledge expressed in an Edge, or data used to generate this knowledge." assertion.
- retrieval_source_resource_role label "retrieval source resource role - The role of the InformationResource in the retrieval of the knowledge expressed in an Edge, or data used to generate this knowledge." assertion.
- retrieval_source_resource label "retrieval source resource - The InformationResource that served as a source for the knowledge expressed in an Edge, or data used to generate this knowledge." assertion.
- response_affected_by label "response affected by - holds between two chemical entities where the susceptibility of a biological entity or system (e.g. an organism, cell, cellular component, macromolecular machine mixin, biological or pathological process) of one is affected by the action of the other." assertion.
- resource_role label "resource role - The role played by the InformationResource in serving as a source for an Edge. Note that a given Edge should have one and only one 'primary' source, and may have any number of 'aggregator' or 'supporting data' sources." assertion.
- resource label "resource - The CURIE for an Information Resource that served as a source of knowledge expressed in an Edge, or a source of data used to generate this knowledge." assertion.
- relative_frequency_subject_confidence_interval label "relative frequency subject confidence interval - The 99% confidence interval for the relative_frequency_subject calculation (i.e. the range of values within which the true value has a 99% chance of falling)" assertion.
- relative_frequency_subject label "relative frequency subject - The frequency at which subject and object concepts co-occur in records within a dataset/cohort, relative to the frequency at which the subject concept appears in these same records." assertion.
- relative_frequency_object_confidence_interval label "relative frequency object confidence interval - The 99% confidence interval for the relative_frequency_object calculation (i.e. the range of values within which the true value has a 99% chance of falling)" assertion.
- relative_frequency_object label "relative frequency object - The frequency at which subject and object concepts co-occur in records within a dataset/cohort, relative to the frequency at which the object concept appears in these same records." assertion.
- related_to_at_instance_level label "related to at instance level - Represents a relationship held between two instances of a data classes. Much like an assertion component, in an ABox, these represent facts associated with the conceptual model." assertion.
- related_to_at_concept_level label "related to at concept level - Represents a relationship held between terminology components that describe the conceptual model of a domain." assertion.
- related_to label "related to - A relationship that is asserted between two named things" assertion.
- regulates label "regulates - A more specific form of affects, that implies the effect results from a biologically evolved control mechanism. Gene-affects-gene relationships will (almost) always involve regulation. Exogenous/environmental chemical-affects-gene relationships are not cases of regulation in this definition. Instead these would be captured using the 'affects' predicate, or possibly one of the 'interacts with' predicates depending on the nature of the interaction." assertion.
- reaction_to_participant_association_subject label "reaction to participant association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- reaction_to_catalyst_association_object label "reaction to catalyst association object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- reaction_side label "reaction side - the side of a reaction being modeled (ie: left or right)" assertion.
- reaction_direction label "reaction direction - the direction of a reaction as constrained by the direction enum (ie: left_to_right, neutral, etc.)" assertion.
- quantifier_qualifier label "quantifier qualifier - A measurable quantity for the object of the association" assertion.
- qualifier label "qualifier - grouping slot for all qualifiers on an edge. useful for testing compliance with association classes" assertion.
- qualified_predicate label "qualified predicate - Predicate to be used in an association when subject and object qualifiers are present and the full reading of the statement requires a qualification to the predicate in use in order to refine or increase the specificity of the full statement reading. This qualifier holds a relationship to be used instead of that expressed by the primary predicate, in a ‘full statement’ reading of the association, where qualifier-based semantics are included. This is necessary only in cases where the primary predicate does not work in a full statement reading." assertion.
- publisher label "publisher - organization or person responsible for publishing books, periodicals, podcasts, games or software. Note that in the case of publications which have a containing "published in" node property, the publisher association may not be attached directly to the embedded child publication, but only made in between the parent's publication node and the publisher agent of the encompassing publication (e.g. only from the Journal referenced by the 'published_in' property of an journal article Publication node)." assertion.
- published_in label "published in - CURIE identifier of a broader publication context within which the publication may be placed, e.g. a specified book or journal." assertion.
- publication_type label "publication type - Ontology term for publication type may be drawn from Dublin Core types (https://www.dublincore.org/specifications/dublin-core/dcmi-type-vocabulary/), FRBR-aligned Bibliographic Ontology (https://sparontologies.github.io/fabio/current/fabio.html), the MESH publication types (https://www.nlm.nih.gov/mesh/pubtypes.html), the Confederation of Open Access Repositories (COAR) Controlled Vocabulary for Resource Type Genres (http://vocabularies.coar-repositories.org/documentation/resource_types/), Wikidata (https://www.wikidata.org/wiki/Wikidata:Publication_types), or equivalent publication type ontology. When a given publication type ontology term is used within a given knowledge graph, then the CURIE identified term must be documented in the graph as a concept node of biolink:category biolink:OntologyClass." assertion.
- publication_publication_type label "publication publication type - Ontology term for publication type may be drawn from Dublin Core types (https://www.dublincore.org/specifications/dublin-core/dcmi-type-vocabulary/), FRBR-aligned Bibliographic Ontology (https://sparontologies.github.io/fabio/current/fabio.html), the MESH publication types (https://www.nlm.nih.gov/mesh/pubtypes.html), the Confederation of Open Access Repositories (COAR) Controlled Vocabulary for Resource Type Genres (http://vocabularies.coar-repositories.org/documentation/resource_types/), Wikidata (https://www.wikidata.org/wiki/Wikidata:Publication_types), or equivalent publication type ontology. When a given publication type ontology term is used within a given knowledge graph, then the CURIE identified term must be documented in the graph as a concept node of biolink:category biolink:OntologyClass." assertion.
- publication_pages label "publication pages - When a 2-tuple of page numbers are provided, they represent the start and end page of the publication within its parent publication context. For books, this may be set to the total number of pages of the book." assertion.
- publication_name label "publication name - the 'title' of the publication is generally recorded in the 'name' property (inherited from NamedThing). The field name 'title' is now also tagged as an acceptable alias for the node property 'name' (just in case)." assertion.
- publication_id label "publication id - Different kinds of publication subtypes will have different preferred identifiers (curies when feasible). Precedence of identifiers for scientific articles is as follows: PMID if available; DOI if not; actual alternate CURIE otherwise. Enclosing publications (i.e. referenced by 'published in' node property) such as books and journals, should have industry-standard identifier such as from ISBN and ISSN." assertion.
- provider label "provider - person, group, organization or project that provides a piece of information (e.g. a knowledge association)." assertion.
- produces label "produces - holds between a material entity and a product that is generated through the intentional actions or functioning of the material entity" assertion.
- primary_knowledge_source label "primary knowledge source - The most upstream source of the knowledge expressed in an Association that an implementer can identify. Performing a rigorous analysis of upstream data providers is expected; every effort is made to catalog the most upstream source of data in this property. Only one data source should be declared primary in any association. "aggregator knowledge source" can be used to caputre non-primary sources." assertion.
- prevented_by label "prevented by - holds between a potential outcome of which the likelihood was reduced by the application or use of an entity." assertion.
- predicate_mappings label "predicate mappings - A collection of relationships that are not used in biolink, but have biolink patterns that can be used to replace them. This is a temporary slot to help with the transition to the fully qualified predicate model in Biolink3." assertion.
- predicate label "predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- precedes label "precedes - holds between two processes, where one completes before the other begins" assertion.
- preceded_by label "preceded by - holds between two processes, where the other is completed before the one begins" assertion.
- population_to_population_association_subject label "population to population association subject - the population that form the subject of the association" assertion.
- population_to_population_association_predicate label "population to population association predicate - A relationship type that holds between the subject and object populations. Standard mereological relations can be used. E.g. subject part-of object, subject overlaps object. Derivation relationships can also be used" assertion.
- population_to_population_association_object label "population to population association object - the population that form the object of the association" assertion.
- population_context_qualifier label "population context qualifier - a biological population (general, study, cohort, etc.) with a specific set of characteristics to constrain an association." assertion.
- physically_interacts_with label "physically interacts with - holds between two entities that make physical contact as part of some interaction. does not imply a causal relationship." assertion.
- phenotypic_state label "phenotypic state - in experiments (e.g. gene expression) assaying diseased or unhealthy tissue, the phenotypic state can be put here, e.g. MONDO ID. For healthy tissues, use XXX." assertion.
- phase label "phase - The phase for a coding sequence entity. For example, phase of a CDS as represented in a GFF3 with a value of 0, 1 or 2." assertion.
- participates_in label "participates in - holds between a continuant and a process, where the continuant is somehow involved in the process" assertion.
- part_qualifier label "part qualifier - defines a specific part/component of the core concept (used in cases there this specific part has no IRI we can use to directly represent it, e.g. 'ESR1 transcript' q: polyA tail)." assertion.
- part_of label "part of - holds between parts and wholes (material entities or processes)" assertion.
- paralogous_to label "paralogous to - a homology relationship that holds between entities (typically genes) that diverged after a duplication event." assertion.
- pairwise_molecular_interaction_subject label "pairwise molecular interaction subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- pairwise_molecular_interaction_predicate label "pairwise molecular interaction predicate - interaction relationship type" assertion.
- pairwise_molecular_interaction_object label "pairwise molecular interaction object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- pairwise_molecular_interaction_id label "pairwise molecular interaction id - identifier for the interaction. This may come from an interaction database such as IMEX." assertion.
- pairwise_gene_to_gene_interaction_predicate label "pairwise gene to gene interaction predicate - interaction relationship type" assertion.
- pages label "pages - page number of source referenced for statement or publication" assertion.
- p_value label "p value - A quantitative confidence value that represents the probability of obtaining a result at least as extreme as that actually obtained, assuming that the actual value was the result of chance alone." assertion.
- overlaps label "overlaps - holds between entities that overlap in their extents (materials or processes)" assertion.
- orthologous_to label "orthologous to - a homology relationship between entities (typically genes) that diverged after a speciation event." assertion.
- original_subject label "original subject - used to hold the original subject of a relation (or predicate) that an external knowledge source uses before transformation to match the biolink-model specification." assertion.
- original_predicate label "original predicate - used to hold the original relation/predicate that an external knowledge source uses before transformation to match the biolink-model specification." assertion.
- original_object label "original object - used to hold the original object of a relation (or predicate) that an external knowledge source uses before transformation to match the biolink-model specification." assertion.
- organismal_entity_has_attribute label "organismal entity has attribute - may often be an organism attribute" assertion.
- organismal_entity_as_a_model_of_disease_association_subject label "organismal entity as a model of disease association subject - A organismal entity (strain, breed) with a predisposition to a disease, or bred/created specifically to model a disease." assertion.
- organism_to_organism_association_subject label "organism to organism association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- organism_to_organism_association_object label "organism to organism association object - An association between two individual organisms." assertion.
- organism_taxon_to_organism_taxon_specialization_subject label "organism taxon to organism taxon specialization subject - the more specific taxon" assertion.
- organism_taxon_to_organism_taxon_specialization_predicate label "organism taxon to organism taxon specialization predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- organism_taxon_to_organism_taxon_specialization_object label "organism taxon to organism taxon specialization object - the more general taxon" assertion.
- organism_taxon_to_organism_taxon_interaction_subject label "organism taxon to organism taxon interaction subject - the taxon that is the subject of the association" assertion.
- organism_taxon_to_organism_taxon_interaction_predicate label "organism taxon to organism taxon interaction predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- organism_taxon_to_organism_taxon_interaction_object label "organism taxon to organism taxon interaction object - the taxon that is the subject of the association" assertion.
- organism_taxon_to_organism_taxon_interaction_associated_environmental_context label "organism taxon to organism taxon interaction associated environmental context - the environment in which the two taxa interact" assertion.
- organism_taxon_to_organism_taxon_association_subject label "organism taxon to organism taxon association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- organism_taxon_to_organism_taxon_association_object label "organism taxon to organism taxon association object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- organism_taxon_to_environment_association_subject label "organism taxon to environment association subject - the taxon that is the subject of the association" assertion.
- organism_taxon_to_environment_association_predicate label "organism taxon to environment association predicate - predicate describing the relationship between the taxon and the environment" assertion.
- organism_taxon_to_environment_association_object label "organism taxon to environment association object - the environment in which the organism occurs" assertion.
- organism_taxon_to_entity_association_subject label "organism taxon to entity association subject - organism taxon that is the subject of the association" assertion.
- opposite_of label "opposite of - 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). (This description is from RO. Needs to be rephrased)." assertion.
- onset_qualifier label "onset qualifier - a qualifier used in a phenotypic association to state when the phenotype appears is in the subject" assertion.
- occurs_together_in_literature_with label "occurs together in literature with - holds between two entities where their co-occurrence is correlated by counts of publications in which both occur, using some threshold of occurrence as defined by the edge provider." assertion.
- occurs_in label "occurs in - holds between a process and a material entity or site within which the process occurs" assertion.
- object_location_in_text label "object location in text - Character offsets for the text span(s) in the supporting text corresponding to the object concept of the extracted assertion" assertion.
- nutrient_of label "nutrient of - holds between a one or more chemical entities present in food, irrespective of nutritional value (i.e. could also be a contaminant or additive)" assertion.
- node_property label "node property - A grouping for any property that holds between a node and a value" assertion.
- negatively_correlated_with label "negatively correlated with - A relationship that holds between two concepts represented by variables for which a statistical correlation is demonstrated, wherein variable values move in opposite directions (i.e. increased in one or presence of one correlates with a decrease or absence of the other)." assertion.
- narrow_matches label "narrow matches - A list of terms from different schemas or terminology systems that have a narrower meaning. Such terms often describe a more specific concept from different ontological perspectives." assertion.
- named_thing_category label "named thing category - Name of the high level ontology class in which this entity is categorized. Corresponds to the label for the biolink entity type class. * In a neo4j database this MAY correspond to the neo4j label tag. * In an RDF database it should be a biolink model class URI. This field is multi-valued. It should include values for ancestors of the biolink class; for example, a protein such as Shh would have category values `biolink:Protein`, `biolink:GeneProduct`, `biolink:MolecularEntity`, ... In an RDF database, nodes will typically have an rdf:type triples. This can be to the most specific biolink class, or potentially to a class more specific than something in biolink. For example, a sequence feature `f` may have a rdf:type assertion to a SO class such as TF_binding_site, which is more specific than anything in biolink. Here we would have categories {biolink:GenomicEntity, biolink:MolecularEntity, biolink:NamedThing}" assertion.
- named_thing_associated_with_likelihood_of_named_thing_association_predicate label "named thing associated with likelihood of named thing association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- molecular_activity_to_pathway_association_subject label "molecular activity to pathway association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- molecular_activity_to_pathway_association_predicate label "molecular activity to pathway association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- molecular_activity_to_pathway_association_object label "molecular activity to pathway association object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- molecular_activity_to_molecular_activity_association_subject label "molecular activity to molecular activity association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- molecular_activity_to_molecular_activity_association_object label "molecular activity to molecular activity association object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- molecular_activity_to_chemical_entity_association_subject label "molecular activity to chemical entity association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.