Matches in Nanopublications for { ?s ?p ?o <http://purl.org/np/RArAFrdM4rux7Cwl-lT_a4JzGk9tcGItbpd7ykkbD3S2M#assertion>. }
- ameliorates label "ameliorates - A relationship between an entity (e.g. a genotype, genetic variation, chemical, or environmental exposure, clinical intervention) and a condition (a phenotype or disease), where the presence of the entity reduces or eliminates some or all aspects of the condition." assertion.
- treats label "treats - holds between a therapeutic procedure or chemical entity and a disease or phenotypic feature that it is used to treat" assertion.
- chemical_affects_gene_association_species_context_qualifier label "chemical affects gene association species context qualifier - A statement qualifier representing a taxonomic category of species in which a relationship expressed in an association took place." assertion.
- associated_with_decreased_likelihood_of label "associated with decreased likelihood of - Expresses a relationship between two named things where the relationship is typically generated statistically and the state or fact of something is less probable." assertion.
- enabled_by label "enabled by - holds between a process and a physical entity, where the physical entity executes the process" assertion.
- highest_FDA_approval_status label "highest FDA approval status - Should be the highest level of FDA approval this chemical entity or device has, regardless of which disease, condition or phenotype it is currently being reviewed to treat. For specific levels of FDA approval for a specific condition, disease, phenotype, etc., see the association slot, 'FDA approval status.'" assertion.
- direction_qualifier label "direction qualifier - Composes with the core concept (+ aspect if provided) to describe a change in its direction or degree." 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.
- iri label "iri - An IRI for an entity. This is determined by the id using expansion rules." assertion.
- predisposes label "predisposes - holds between two entities where exposure to one entity increases the chance of developing the other" assertion.
- location_of label "location of - holds between material entity or site and a material entity that is located within it (but not considered a part of it)" assertion.
- is_splice_site_variant_of label "is splice site variant of - holds between a sequence variant and a gene, such the sequence variant is in the canonical splice site of one of the gene's exons." assertion.
- affects_risk_for label "affects risk for - holds between two entities where exposure to one entity alters the chance of developing the other" assertion.
- has_sequence_location label "has sequence location - holds between two nucleic acid entities when the subject can be localized in sequence coordinates on the object. For example, between an exon and a chromosome/contig." 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.
- address label "address - the particulars of the place where someone or an organization is situated. For now, this slot is a simple text "blob" containing all relevant details of the given location for fitness of purpose. For the moment, this "address" can include other contact details such as email and phone number(?)." 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.
- causes label "causes - holds between two entities where the occurrence, existence, or activity of one causes the occurrence or generation 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.
- has_not_completed label "has not completed - holds between an entity and a process that the entity is capable of, but has not completed" assertion.
- category label "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.
- genotype_to_variant_association_subject label "genotype to variant association subject - parent genotype" assertion.
- chemical_gene_interaction_association_predicate label "chemical gene interaction association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- homologous_to label "homologous to - holds between two biological entities that have common evolutionary origin" assertion.
- gene_to_gene_association_object label "gene to gene association object - the object gene in the association. If the relation is symmetric, subject vs object is arbitrary. We allow a gene product to stand as a proxy for the gene or vice versa." assertion.
- support_graphs label "support graphs - A list of knowledge graphs that support the existence of this node." assertion.
- contributor_association_qualifiers label "contributor association qualifiers - this field can be used to annotate special characteristics of an agent relationship, such as the fact that a given author agent of a publication is the 'corresponding author'" assertion.
- pairwise_molecular_interaction_predicate label "pairwise molecular interaction predicate - interaction relationship type" assertion.
- subject_location_in_text label "subject location in text - Character offsets for the text span(s) in the supporting text corresponding to the subject concept of the extracted assertion." assertion.
- macromolecular_machine_to_biological_process_association_object label "macromolecular machine to biological process 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.
- supporting_study_metadata label "supporting study metadata - Information about a study used to generate information used as evidence to support the knowledge expressed in an Association. In practice, data creators should use one of the more specific subtypes of this property." 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.
- 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.
- supporting_text label "supporting text - The segment of text from a document that supports the mined assertion." assertion.
- has_stressor label "has stressor - the process or entity that the receptor is being exposed to" assertion.
- macromolecular_machine_to_entity_association_mixin_subject label "macromolecular machine to entity association mixin 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.
- full_name label "full name - a long-form human readable name for a thing" assertion.
- organismal_entity_has_attribute label "organismal entity has attribute - may often be an organism attribute" assertion.
- has_route label "has route - the process that results in the stressor coming into direct contact with the receptor" assertion.
- qualifier label "qualifier - grouping slot for all qualifiers on an edge. useful for testing compliance with association classes" assertion.
- species_context_qualifier label "species context qualifier - A statement qualifier representing a taxonomic category of species in which a relationship expressed in an association took place." assertion.
- has_gene label "has gene - connects an entity associated with one or more genes" assertion.
- chemical_affects_gene_association_anatomical_context_qualifier label "chemical affects gene association anatomical context qualifier - A statement qualifier representing an anatomical location where an relationship expressed in an association took place (can be a tissue, cell type, or sub-cellular location)." assertion.
- preceded_by label "preceded by - holds between two processes, where the other is completed before the one begins" assertion.
- context_qualifier label "context qualifier - Restricts the setting/context/location where the core concept (or qualified core concept) resides or occurs." assertion.
- upstream_resources label "upstream resources - An upstream InformationResource from which the resource being described directly retrieved a record of the knowledge expressed in the Edge, or data used to generate this knowledge. This is an array because there are cases where a merged Edge holds knowledge that was retrieved from multiple sources. e.g. an Edge provided by the ARAGORN ARA can expressing knowledge it retrieved from both the automat-mychem-info and molepro KPs, which both provided it with records of this single fact." assertion.
- mentioned_by label "mentioned by - refers to is a relation between one named thing and the information content entity that it makes reference to." assertion.
- supporting_study_context label "supporting study context - A term or terms describing the experimental setting/context in which evidence supporting the Association was generated ('context' may be defined by many factors, including taxon, model system (e.g. cell line type), tissue type, disease, etc.)." assertion.
- disease_to_phenotypic_feature_association_subject label "disease to phenotypic feature 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.
- coexpressed_with label "coexpressed with - holds between any two genes or gene products, in which both are generally expressed within a single defined experimental context." assertion.
- has_nutrient label "has nutrient - one or more nutrients which are growth factors for a living organism" assertion.
- gene_to_gene_coexpression_association_predicate label "gene to gene coexpression association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- is_non_coding_variant_of label "is non coding variant of - holds between a sequence variant and a gene, where the variant does not affect the coding sequence" assertion.
- enables label "enables - holds between a physical entity and a process, where the physical entity executes the process" 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.
- clinical_measurement_has_attribute_type label "clinical measurement has attribute type - connects an attribute to a class that describes it" assertion.
- gene_to_expression_site_association_stage_qualifier label "gene to expression site association stage qualifier - stage at which the gene is expressed in the site" assertion.
- sex_qualifier label "sex qualifier - a qualifier used in a phenotypic association to state whether the association is specific to a particular sex." assertion.
- chemical_to_chemical_derivation_association_predicate label "chemical to chemical derivation association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- chemical_entity_assesses_named_thing_association_object label "chemical entity assesses named thing 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.
- chemical_affects_gene_association_qualified_predicate label "chemical affects gene association 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.
- qualifiers label "qualifiers - connects an association to qualifiers that modify or qualify the meaning of that association" assertion.
- genomic_sequence_localization_predicate label "genomic sequence localization predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- ln_ratio_confidence_interval label "ln ratio confidence interval - The 99% confidence interval for the ln_ratio calculation (i.e. the range of values within which the true value has a 99% chance of falling)" 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.
- macromolecular_machine_mixin_name label "macromolecular machine mixin name - genes are typically designated by a short symbol and a full name. We map the symbol to the default display name and use an additional slot for full name" 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.
- has_variant_part label "has variant part - holds between a nucleic acid entity and a nucleic acid entity that is a sub-component of it" 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.
- genetic_neighborhood_of label "genetic neighborhood of - holds between two genes located nearby one another on a chromosome. " assertion.
- anatomical_entity_to_anatomical_entity_part_of_association_object label "anatomical entity to anatomical entity part of association object - the whole" 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.
- disrupted_by label "disrupted by - describes a relationship where the structure, function, or occurrence of one entity is degraded or interfered with by another." assertion.
- exact_match label "exact match - holds between two entities that have strictly equivalent meanings, with a high degree of confidence" assertion.
- is_synonymous_variant_of label "is synonymous variant of - holds between a sequence variant and a gene, such the sequence variant is in the coding sequence of the gene, but results in the same amino acid sequence" assertion.
- gene_associated_with_condition label "gene associated with condition - holds between a gene and a disease or phenotypic feature that the gene or its alleles/products may influence, contribute to, or correlate with" assertion.
- cell_line_to_disease_or_phenotypic_feature_association_subject label "cell line to disease or phenotypic feature 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.
- genotype_to_genotype_part_association_object label "genotype to genotype part association object - child genotype" 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.
- evidence_count label "evidence count - The number of evidence instances that are connected to an association." assertion.
- has_count label "has count - number of things with a particular property" assertion.
- volume label "volume - volume of a book or music release in a collection/series or a published collection of journal issues in a serial publication" assertion.
- sequence_variant_modulates_treatment_association_subject label "sequence variant modulates treatment association subject - variant that modulates the treatment of some disease" assertion.
- positively_correlated_with label "positively correlated with - A relationship that holds between two concepts represented by variables for which a statistical correlation is demonstrated, wherein variable values move together in the same direction (i.e. increased in one or presence of one correlates with an increase or presence of the other)." assertion.
- has_excipient label "has excipient - holds between a drug and a molecular entities in which the latter is a part of the former, and is a biologically inactive component" assertion.
- chi_squared_statistic label "chi squared statistic - represents the chi-squared statistic computed from observations" assertion.
- gene_has_variant_that_contributes_to_disease_association_predicate label "gene has variant that contributes to disease association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- chemical_gene_interaction_association_anatomical_context_qualifier label "chemical gene interaction association anatomical context qualifier - A statement qualifier representing an anatomical location where an relationship expressed in an association took place (can be a tissue, cell type, or sub-cellular location)." assertion.
- member_of label "member of - Defines a mereological relation between a item and a collection." assertion.
- model_of label "model of - holds between a thing and some other thing it approximates for purposes of scientific study, in virtue of its exhibiting similar features of the studied entity." assertion.
- frequency_qualifier label "frequency qualifier - a qualifier used in a phenotypic association to state how frequent the phenotype is observed in the subject" assertion.
- sequence_variant_id label "sequence variant id - A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI" assertion.
- in_cell_population_with label "in cell population with - holds between two genes or gene products that are expressed in the same cell type or population" assertion.
- taxon_to_taxon_association_object label "taxon to taxon association object - An association between individuals of different taxa." assertion.
- drug_regulatory_status_world_wide label "drug regulatory status world wide - An agglomeration of drug regulatory status worldwide. Not specific to FDA." assertion.
- biological_role_mixin label "biological role mixin - A role played by the chemical entity or part thereof within a biological context." assertion.
- is_excipient_of label "is excipient of - holds between a molecular entity and a drug in which the former is a part of the latter, and is a biologically inactive component" assertion.
- genotype_to_phenotypic_feature_association_predicate label "genotype to phenotypic feature association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." 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.
- druggable_gene_to_disease_association_has_evidence label "druggable gene to disease association has evidence - connects an association to an instance of supporting evidence" assertion.