Nanopublication: RArAFrdM4r
Full identifier: http://purl.org/np/RArAFrdM4rux7Cwl-lT_a4JzGk9tcGItbpd7ykkbD3S2M
https://w3id.org/biolink/vocab/actively_involved_in
actively_involved_in
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"actively involved in - holds between a continuant and a process or function, where the continuant actively contributes to part or all of the process or function it realizes"
.
https://w3id.org/biolink/vocab/address
address
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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(?)."
.
https://w3id.org/biolink/vocab/adjusted_p_value
adjusted_p_value
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"adjusted p value - The adjusted p-value is the probability of obtaining test results at least as extreme as the results actually observed, under the assumption that the null hypothesis is correct, adjusted for multiple comparisons. P is always italicized and capitalized. The actual P value* should be expressed (P=. 04) rather than expressing a statement of inequality (P<. 05), unless P<."
.
https://w3id.org/biolink/vocab/affects
affects
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"affects - describes an entity that has a direct affect on the state or quality of another existing entity. Use of the 'affects' predicate implies that the affected entity already exists, unlike predicates such as 'affects risk for' and 'prevents, where the outcome is something that may or may not come to be."
.
https://w3id.org/biolink/vocab/affiliation
affiliation
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"affiliation - a professional relationship between one provider (often a person) within another provider (often an organization). Target provider identity should be specified by a CURIE. Providers may have multiple affiliations."
.
https://w3id.org/biolink/vocab/agent_id
agent_id
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"agent id - Different classes of agents have distinct preferred identifiers. For publishers, use the ISBN publisher code. See https://grp.isbn-international.org/ for publisher code lookups. For editors, authors and individual providers, use the individual's ORCID if available; Otherwise, a ScopusID, ResearchID or Google Scholar ID ('GSID') may be used if the author ORCID is unknown. Institutional agents could be identified by an International Standard Name Identifier ('ISNI') code."
.
https://w3id.org/biolink/vocab/aggregator_knowledge_source
aggregator_knowledge_source
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"aggregator knowledge source - An intermediate aggregator resource from which knowledge expressed in an Association was retrieved downstream of the original source, on its path to its current serialized form."
.
https://w3id.org/biolink/vocab/ameliorates
ameliorates
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/anatomical_context_qualifier
anatomical_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab...ical_entity_association_object
anatomical_entity_to_anatomical_entity_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical entity 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."
.
https://w3id.org/biolink/vocab...cal_entity_association_subject
anatomical_entity_to_anatomical_entity_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical 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."
.
https://w3id.org/biolink/vocab...y_ontogenic_association_object
anatomical_entity_to_anatomical_entity_ontogenic_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical entity ontogenic association object - the structure at an earlier time"
.
https://w3id.org/biolink/vocab...ntogenic_association_predicate
anatomical_entity_to_anatomical_entity_ontogenic_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical entity ontogenic association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab..._ontogenic_association_subject
anatomical_entity_to_anatomical_entity_ontogenic_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical entity ontogenic association subject - the structure at a later time"
.
https://w3id.org/biolink/vocab..._part_of_association_predicate
anatomical_entity_to_anatomical_entity_part_of_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"anatomical entity to anatomical entity part of association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab/aspect_qualifier
aspect_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"aspect qualifier - Composes with the core concept to describe new concepts of a different ontological type. e.g. a process in which the core concept participates, a function/activity/role held by the core concept, or a characteristic/quality that inheres in the core concept. The purpose of the aspect slot is to indicate what aspect is being affected in an 'affects' association."
.
https://w3id.org/biolink/vocab/assesses
assesses
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"assesses - The effect of a thing on a target was interrogated in some assay. A relationship between some perturbing agent (usually a chemical compound) and some target entity, where the affect of the perturbing agent on the target entity was interrogated in a particular assay. The target might be a particular protein, tissue, phenotype, whole organism, cell line, or other type of biological entity."
.
https://w3id.org/biolink/vocab/associated_environmental_context
associated_environmental_context
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated environmental context - An attribute that can be applied to an association where the association holds between two entities located or occurring in a particular environment. For example, two microbial taxa may interact in the context of a human gut; a disease may give rise to a particular phenotype in a particular environmental exposure. # TODO: add examples of values for this property."
.
https://w3id.org/biolink/vocab/associated_with
associated_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated with - Expresses a relationship between two named things where the relationship is typically generated statistically (though not in all cases), and is weaker than its child, 'correlated with', but stronger than its parent, 'related to'. This relationship holds between two concepts represented by variables for which a statistical dependence is demonstrated. E.g. the statement “Atrial Fibrillation (Afib) is associated with Myocardial Infarction (MI)” asserts that having Afib is not statistically independent from whether a patient will also have MI. Note that in Translator associations, the subject and object concepts may map exactly to the statistical variables, or represent related entities for which the variables serve as proxies in an Association (e.g. diseases, chemical entities or processes)."
.
https://w3id.org/biolink/vocab/associated_with_decreased_likelihood_of
associated_with_decreased_likelihood_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/associated_with_increased_likelihood_of
associated_with_increased_likelihood_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated with increased likelihood of - Expresses a relationship between two named things where the relationship is typically generated statistically and the state or fact of something is more probable."
.
https://w3id.org/biolink/vocab/associated_with_likelihood_of
associated_with_likelihood_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated with likelihood of - A a relationship that holds between two concepts represented by variables for which a statistical dependence is demonstrated, wherein the state or value of one variable predicts the future state or value of the other. E.g. the statement “An Atrial Fibrillation (Afib) diagnosis is associated with likelihood of a Myocardial Infarction (MI) diagnosis” asserts that the state of having Afib is associated with an increased or decreased likelihood that a patient will later exhibit MI."
.
https://w3id.org/biolink/vocab/associated_with_resistance_to
associated_with_resistance_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated with resistance to - A relation that holds between a named thing and a chemical that specifies that the change in the named thing is found to be associated with the degree of resistance to treatment by the chemical."
.
https://w3id.org/biolink/vocab/associated_with_sensitivity_to
associated_with_sensitivity_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"associated with sensitivity to - A relation that holds between a named thing and a chemical that specifies that the change in the named thing is found to be associated with the degree of sensitivity to treatment by the chemical."
.
https://w3id.org/biolink/vocab/association_category
association_category
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"association 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}"
.
https://w3id.org/biolink/vocab/attribute_name
attribute_name
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"attribute name - The human-readable 'attribute name' can be set to a string which reflects its context of interpretation, e.g. SEPIO evidence/provenance/confidence annotation or it can default to the name associated with the 'has attribute type' slot ontology term."
.
https://w3id.org/biolink/vocab/authors
authors
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"authors - connects an publication to the list of authors who contributed to the publication. This property should be a comma-delimited list of author names. It is recommended that an author's name be formatted as "surname, firstname initial.". Note that this property is a node annotation expressing the citation list of authorship which might typically otherwise be more completely documented in biolink:PublicationToProviderAssociation defined edges which point to full details about an author and possibly, some qualifiers which clarify the specific status of a given author in the publication."
.
https://w3id.org/biolink/vocab/biomarker_for
biomarker_for
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"biomarker for - holds between a measurable chemical entity and a disease or phenotypic feature, where the entity is used as an indicator of the presence or state of the disease or feature."
.
https://w3id.org/biolink/vocab/bonferonni_adjusted_p_value
bonferonni_adjusted_p_value
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"bonferonni adjusted p value - The Bonferroni correction is an adjustment made to P values when several dependent or independent statistical tests are being performed simultaneously on a single data set. To perform a Bonferroni correction, divide the critical P value (α) by the number of comparisons being made. P is always italicized and capitalized. The actual P value* should be expressed (P=. 04) rather than expressing a statement of inequality (P<. 05), unless P<."
.
https://w3id.org/biolink/vocab/broad_match
broad_match
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"broad match - a list of terms from different schemas or terminology systems that have a broader, more general meaning. Broader terms are typically shown as parents in a hierarchy or tree."
.
https://w3id.org/biolink/vocab/broad_matches
broad_matches
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"broad matches - A list of terms from different schemas or terminology systems that have a broader meaning. Such terms often describe a more general concept from different ontological perspectives."
.
https://w3id.org/biolink/vocab/catalyst_qualifier
catalyst_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"catalyst qualifier - a qualifier that connects an association between two causally connected entities (for example, two chemical entities, or a chemical entity in that changes location) and the gene product, gene, or complex that enables or catalyzes the change."
.
https://w3id.org/biolink/vocab/category
category
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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}"
.
https://w3id.org/biolink/vocab/causal_mechanism_qualifier
causal_mechanism_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"causal mechanism qualifier - A statement qualifier representing a type of molecular control mechanism through which an effect of a chemical on a gene or gene product is mediated (e.g. 'agonism', 'inhibition', 'allosteric modulation', 'channel blocker')"
.
https://w3id.org/biolink/vocab...of_disease_association_subject
cell_line_as_a_model_of_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"cell line as a model of disease association subject - A cell line derived from an organismal entity with a disease state that is used as a model of that disease."
.
https://w3id.org/biolink/vocab...ic_feature_association_subject
cell_line_to_disease_or_phenotypic_feature_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...tity_association_mixin_subject
cell_line_to_entity_association_mixin_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"cell line 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."
.
https://w3id.org/biolink/vocab...n_anatomical_context_qualifier
chemical_affects_gene_association_anatomical_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab...ion_causal_mechanism_qualifier
chemical_affects_gene_association_causal_mechanism_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical affects gene association causal mechanism qualifier - A statement qualifier representing a type of molecular control mechanism through which an effect of a chemical on a gene or gene product is mediated (e.g. 'agonism', 'inhibition', 'allosteric modulation', 'channel blocker')"
.
https://w3id.org/biolink/vocab...ffects_gene_association_object
chemical_affects_gene_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical affects gene 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."
.
https://w3id.org/biolink/vocab...cts_gene_association_predicate
chemical_affects_gene_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical affects gene association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...ssociation_qualified_predicate
chemical_affects_gene_association_qualified_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...tion_species_context_qualifier
chemical_affects_gene_association_species_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...fects_gene_association_subject
chemical_affects_gene_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical affects gene 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."
.
https://w3id.org/biolink/vocab...named_thing_association_object
chemical_entity_assesses_named_thing_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...ed_thing_association_predicate
chemical_entity_assesses_named_thing_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical entity assesses named thing association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...amed_thing_association_subject
chemical_entity_assesses_named_thing_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical entity assesses named thing 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."
.
https://w3id.org/biolink/vocab...ulates_gene_association_object
chemical_entity_or_gene_or_gene_product_regulates_gene_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical entity or gene or gene product regulates gene 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."
.
https://w3id.org/biolink/vocab...tes_gene_association_predicate
chemical_entity_or_gene_or_gene_product_regulates_gene_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical entity or gene or gene product regulates gene association predicate - the direction is always from regulator to regulated"
.
https://w3id.org/biolink/vocab...lates_gene_association_subject
chemical_entity_or_gene_or_gene_product_regulates_gene_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical entity or gene or gene product regulates gene 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."
.
https://w3id.org/biolink/vocab...n_anatomical_context_qualifier
chemical_gene_interaction_association_anatomical_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab...interaction_association_object
chemical_gene_interaction_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical gene interaction 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."
.
https://w3id.org/biolink/vocab...eraction_association_predicate
chemical_gene_interaction_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical gene interaction association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...nteraction_association_subject
chemical_gene_interaction_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical gene interaction 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."
.
https://w3id.org/biolink/vocab..._feature_association_predicate
chemical_or_drug_or_treatment_side_effect_disease_or_phenotypic_feature_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical or drug or treatment side effect disease or phenotypic feature association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab..._feature_association_predicate
chemical_or_drug_or_treatment_to_disease_or_phenotypic_feature_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical or drug or treatment to disease or phenotypic feature association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...association_catalyst_qualifier
chemical_to_chemical_derivation_association_catalyst_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical to chemical derivation association catalyst qualifier - this connects the derivation edge to the chemical entity that catalyzes the reaction that causes the subject chemical to transform into the object chemical."
.
https://w3id.org/biolink/vocab...rivation_association_predicate
chemical_to_chemical_derivation_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical to chemical derivation association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...pic_feature_association_object
chemical_to_disease_or_phenotypic_feature_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemical to disease or phenotypic feature association object - the disease or phenotype that is affected by the chemical"
.
https://w3id.org/biolink/vocab/chemically_similar_to
chemically_similar_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"chemically similar to - holds between one small molecule entity and another that it approximates for purposes of scientific study, in virtue of its exhibiting similar features of the studied entity."
.
https://w3id.org/biolink/vocab/clinical_modifier_qualifier
clinical_modifier_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"clinical modifier qualifier - the method or process of administering a pharmaceutical compound to achieve a therapeutic effect in humans or animals."
.
https://w3id.org/biolink/vocab/close_match
close_match
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"close match - a list of terms from different schemas or terminology systems that have a semantically similar but not strictly equivalent, broader, or narrower meaning. Such terms often describe the same general concept from different ontological perspectives (e.g. drug as a type of chemical entity versus drug as a type of role borne by a chemical entity)."
.
https://w3id.org/biolink/vocab/condition_associated_with_gene
condition_associated_with_gene
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"condition associated with gene - holds between a gene and a disease or phenotypic feature that may be influenced, contribute to, or be correlated with the gene or its alleles/products"
.
https://w3id.org/biolink/vocab/contributor_association_qualifiers
contributor_association_qualifiers
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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'"
.
https://w3id.org/biolink/vocab/correlated_with
correlated_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"correlated with - A relationship that holds between two concepts represented by variables for which a statistical dependence is demonstrated using a correlation analysis method."
.
https://w3id.org/biolink/vocab/decreases_amount_or_activity_of
decreases_amount_or_activity_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"decreases amount or activity of - A grouping mixin to help with searching for all the predicates that decrease the amount or activity of the object."
.
https://w3id.org/biolink/vocab/decreases_response_to
decreases_response_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"decreases response to - holds between two chemical entities where the action or effect of one decreases the susceptibility of a biological entity or system (e.g. an organism, cell, cellular component, macromolecular machine mixin, biological or pathological process) to the other"
.
https://w3id.org/biolink/vocab/derivative_qualifier
derivative_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"derivative qualifier - A qualifier that composes with a core subject/object concept to describe something that is derived from the core concept. For example, the qualifier ‘metabolite’ combines with a ‘Chemical X’ core concept to express the composed concept ‘a metabolite of Chemical X’."
.
https://w3id.org/biolink/vocab/derives_from
derives_from
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"derives from - holds 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"
.
https://w3id.org/biolink/vocab/derives_into
derives_into
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"derives into - holds 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"
.
https://w3id.org/biolink/vocab/directly_physically_interacts_with
directly_physically_interacts_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"directly physically interacts with - A causal mechanism mediated by a direct contact between the effector and target entities (this contact may be weak or strong, transient or stable)."
.
https://w3id.org/biolink/vocab/disease_has_location
disease_has_location
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"disease has location - A relationship between a disease and an anatomical entity where the disease has one or more features that are located in that entity."
.
https://w3id.org/biolink/vocab...inheritance_association_object
disease_or_phenotypic_feature_to_genetic_inheritance_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"disease or phenotypic feature to genetic inheritance association object - genetic inheritance associated with the specified disease or phenotypic feature."
.
https://w3id.org/biolink/vocab...eritance_association_predicate
disease_or_phenotypic_feature_to_genetic_inheritance_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"disease or phenotypic feature to genetic inheritance association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...to_location_association_object
disease_or_phenotypic_feature_to_location_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"disease or phenotypic feature to location association object - anatomical entity in which the disease or feature is found."
.
https://w3id.org/biolink/vocab...pic_feature_association_object
disease_to_phenotypic_feature_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"disease to phenotypic feature 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."
.
https://w3id.org/biolink/vocab...ic_feature_association_subject
disease_to_phenotypic_feature_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...sease_association_has_evidence
druggable_gene_to_disease_association_has_evidence
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"druggable gene to disease association has evidence - connects an association to an instance of supporting evidence"
.
https://w3id.org/biolink/vocab..._disease_association_predicate
druggable_gene_to_disease_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"druggable gene to disease association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...to_disease_association_subject
druggable_gene_to_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"druggable gene to disease association subject - gene in which variation is correlated with the disease in a protective manner, or if the product produced by the gene can be targeted by a small molecule and this leads to a protective or improving disease state."
.
https://w3id.org/biolink/vocab/editor
editor
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"editor - editor of a compiled work such as a book or a periodical (newspaper or an academic journal). Note that in the case of publications which have a containing "published in" node property, the editor association may not be attached directly to the embedded child publication, but only made in between the parent's publication node and the editorial agent of the encompassing publication (e.g. only from the Book referenced by the 'published_in' property of a book chapter Publication node)."
.
https://w3id.org/biolink/vocab/end_interbase_coordinate
end_interbase_coordinate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"end interbase coordinate - The position at which the subject nucleic acid entity ends on the chromosome or other entity to which it is located on."
.
https://w3id.org/biolink/vocab...event_association_mixin_object
entity_to_exposure_event_association_mixin_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"entity to exposure event association mixin 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."
.
https://w3id.org/biolink/vocab...tcome_association_mixin_object
entity_to_outcome_association_mixin_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"entity to outcome association mixin 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."
.
https://w3id.org/biolink/vocab...ature_association_mixin_object
entity_to_phenotypic_feature_association_mixin_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"entity to phenotypic feature association mixin 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."
.
https://w3id.org/biolink/vocab/exacerbates
exacerbates
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"exacerbates - 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."
.
https://w3id.org/biolink/vocab/exact_matches
exact_matches
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"exact matches - A list of terms from different schemas or terminology systems that have an identical meaning. Such terms often describe the same concept from different ontological perspectives."
.
https://w3id.org/biolink/vocab/exon_to_transcript_relationship_object
exon_to_transcript_relationship_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"exon to transcript 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."
.
https://w3id.org/biolink/vocab/exon_to_transcript_relationship_subject
exon_to_transcript_relationship_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"exon to transcript 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."
.
https://w3id.org/biolink/vocab/expected_count
expected_count
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"expected count - The expected (calculated) number of instances in a dataset/cohort whose records contain both the subject and object concept of an association if the subject and object concepts are independent."
.
https://w3id.org/biolink/vocab...ic_feature_association_subject
exposure_event_to_phenotypic_feature_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"exposure event 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."
.
https://w3id.org/biolink/vocab/extraction_confidence_score
extraction_confidence_score
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"extraction confidence score - 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."
.
https://w3id.org/biolink/vocab/food_component_of
food_component_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"food component 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)"
.
https://w3id.org/biolink/vocab/form_or_variant_qualifier
form_or_variant_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"form or variant qualifier - A qualifier that composes with a core subject/object concept to define a specific type, variant, alternative version of this concept. The composed concept remains a subtype or instance of the core concept. For example, the qualifier ‘mutation’ combines with the core concept ‘Gene X’ to express the compose concept ‘a mutation of Gene X’."
.
https://w3id.org/biolink/vocab...of_disease_association_subject
gene_as_a_model_of_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene as a model of disease association subject - A gene that has a role in modeling the disease. This may be a model organism ortholog of a known disease gene, or it may be a gene whose mutants recapitulate core features of the disease."
.
https://w3id.org/biolink/vocab/gene_associated_with_condition
gene_associated_with_condition
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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"
.
https://w3id.org/biolink/vocab/gene_fusion_with
gene_fusion_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene fusion with - holds between two independent genes that have fused through translocation, interstitial deletion, or chromosomal inversion to form a new, hybrid gene. Fusion genes are often implicated in various neoplasms and cancers."
.
https://w3id.org/biolink/vocab..._to_disease_association_object
gene_has_variant_that_contributes_to_disease_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene has variant that contributes to disease 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."
.
https://w3id.org/biolink/vocab..._disease_association_predicate
gene_has_variant_that_contributes_to_disease_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...to_disease_association_subject
gene_has_variant_that_contributes_to_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene has variant that contributes to disease association subject - A gene that has a role in modeling the disease. This may be a model organism ortholog of a known disease gene, or it may be a gene whose mutants recapitulate core features of the disease."
.
https://w3id.org/biolink/vocab/gene_product_of
gene_product_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene product of - 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 thatf process is either y or something that is ribosomally translated from x"
.
https://w3id.org/biolink/vocab/gene_to_disease_association_object
gene_to_disease_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to disease 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."
.
https://w3id.org/biolink/vocab/gene_to_disease_association_subject
gene_to_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to disease association subject - gene in which variation is correlated with the disease, may be protective or causative or associative, or as a model"
.
https://w3id.org/biolink/vocab...sociation_quantifier_qualifier
gene_to_expression_site_association_quantifier_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to expression site association quantifier qualifier - can be used to indicate magnitude, or also ranking"
.
https://w3id.org/biolink/vocab...ssion_site_association_subject
gene_to_expression_site_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to expression site association subject - Gene or gene product positively within the specified anatomical entity (or subclass, i.e. cellular component) location."
.
https://w3id.org/biolink/vocab/gene_to_gene_association_object
gene_to_gene_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/gene_to_gene_association_subject
gene_to_gene_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene association subject - the subject 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."
.
https://w3id.org/biolink/vocab...pression_association_predicate
gene_to_gene_coexpression_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene coexpression association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab/gene_to_gene_family_association_object
gene_to_gene_family_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene family 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."
.
https://w3id.org/biolink/vocab/gene_to_gene_family_association_subject
gene_to_gene_family_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene family 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."
.
https://w3id.org/biolink/vocab...ne_homology_association_object
gene_to_gene_homology_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene homology 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."
.
https://w3id.org/biolink/vocab...e_homology_association_subject
gene_to_gene_homology_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene homology 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."
.
https://w3id.org/biolink/vocab...ne_product_relationship_object
gene_to_gene_product_relationship_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene product 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."
.
https://w3id.org/biolink/vocab...product_relationship_predicate
gene_to_gene_product_relationship_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene product relationship predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...e_product_relationship_subject
gene_to_gene_product_relationship_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to gene product 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."
.
https://w3id.org/biolink/vocab/gene_to_go_term_association_subject
gene_to_go_term_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to go term association subject - gene, product or macromolecular complex that has the function associated with the GO term"
.
https://w3id.org/biolink/vocab...pic_feature_association_object
gene_to_phenotypic_feature_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"gene to phenotypic feature 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."
.
https://w3id.org/biolink/vocab/genetically_interacts_with
genetically_interacts_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genetically interacts with - holds between two genes whose phenotypic effects are dependent on each other in some way - such that their combined phenotypic effects are the result of some interaction between the activity of their gene products. Examples include epistasis and synthetic lethality."
.
https://w3id.org/biolink/vocab/genomic_sequence_localization_object
genomic_sequence_localization_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genomic sequence localization 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."
.
https://w3id.org/biolink/vocab/genomic_sequence_localization_predicate
genomic_sequence_localization_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genomic sequence localization predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab/genomic_sequence_localization_subject
genomic_sequence_localization_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genomic sequence localization 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."
.
https://w3id.org/biolink/vocab...ype_part_association_predicate
genotype_to_genotype_part_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genotype to genotype part association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab..._feature_association_predicate
genotype_to_phenotypic_feature_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"genotype to phenotypic feature association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab/has_adverse_event
has_adverse_event
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has adverse event - An untoward medical occurrence in a patient or clinical investigation subject that happens during treatment with a therapeutic agent. Adverse events may be caused by something other than the drug or therapy being given and may include abnormal laboratory finding, symptoms, or diseases temporally associated with the treatment, whether or not considered related to the treatment. Adverse events are unintended effects that occur when a medication is administered correctly."
.
https://w3id.org/biolink/vocab/has_biomarker
has_biomarker
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has biomarker - holds between a disease or phenotypic feature and a measurable chemical entity that is used as an indicator of the presence or state of the disease or feature. # metabolite"
.
https://w3id.org/biolink/vocab/has_food_component
has_food_component
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has food component - holds between food and one or more chemical entities composing it, irrespective of nutritional value (i.e. could also be a contaminant or additive)"
.
https://w3id.org/biolink/vocab/has_mode_of_inheritance
has_mode_of_inheritance
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has mode of inheritance - Relates a disease or phenotypic feature to its observed genetic segregation and assumed associated underlying DNA manifestation (i.e. autosomal, sex or mitochondrial chromosome)."
.
https://w3id.org/biolink/vocab/has_phenotype
has_phenotype
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has phenotype - holds between a biological entity and a phenotype, where 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). In SNOMEDCT, disorders with keyword 'characterized by' should translate into this predicate."
.
https://w3id.org/biolink/vocab/has_plasma_membrane_part
has_plasma_membrane_part
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has plasma membrane part - 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."
.
https://w3id.org/biolink/vocab/has_sequence_location
has_sequence_location
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/has_side_effect
has_side_effect
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has side effect - An unintended, but predictable, secondary effect shown to be correlated with a therapeutic agent, drug or treatment. Side effects happen at normal, recommended doses or treatments, and are unrelated to the intended purpose of the medication."
.
https://w3id.org/biolink/vocab/has_topic
has_topic
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"has topic - Connects a node to a vocabulary term or ontology class that describes some aspect of the entity. In general specific characterization is preferred. See https://github.com/biolink/biolink-model/issues/238"
.
https://w3id.org/biolink/vocab/highest_FDA_approval_status
highest_FDA_approval_status
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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.'"
.
https://w3id.org/biolink/vocab/increases_amount_or_activity_of
increases_amount_or_activity_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"increases amount or activity of - A grouping mixin to help with searching for all the predicates that increase the amount or activity of the object."
.
https://w3id.org/biolink/vocab/increases_response_to
increases_response_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"increases response to - holds between two chemical entities where the action or effect of one increases the susceptibility of a biological entity or system (e.g. an organism, cell, cellular component, macromolecular machine mixin, biological or pathological process) to the other"
.
https://w3id.org/biolink/vocab...named_thing_association_object
information_content_entity_to_named_thing_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"information content entity to 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."
.
https://w3id.org/biolink/vocab...ed_thing_association_predicate
information_content_entity_to_named_thing_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"information content entity to named thing association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...amed_thing_association_subject
information_content_entity_to_named_thing_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"information content entity to named thing 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."
.
https://w3id.org/biolink/vocab/interbase_coordinate
interbase_coordinate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"interbase coordinate - A position in interbase coordinates. Interbase coordinates start at position 0 instead of position 1. This is applied to a sequence localization edge."
.
https://w3id.org/biolink/vocab/is_active_ingredient_of
is_active_ingredient_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"is active ingredient of - holds between a molecular entity and a drug, in which the former is a part of the latter, and is a biologically active component"
.
https://w3id.org/biolink/vocab/is_frameshift_variant_of
is_frameshift_variant_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"is frameshift variant of - holds between a sequence variant and a gene, such the sequence variant causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three."
.
https://w3id.org/biolink/vocab/is_missense_variant_of
is_missense_variant_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"is missense variant of - holds between a gene and a sequence variant, such the sequence variant results in a different amino acid sequence but where the length is preserved."
.
https://w3id.org/biolink/vocab/is_splice_site_variant_of
is_splice_site_variant_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/is_synonymous_variant_of
is_synonymous_variant_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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"
.
https://w3id.org/biolink/vocab/iso_abbreviation
iso_abbreviation
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"iso abbreviation - Standard abbreviation for periodicals in the International Organization for Standardization (ISO) 4 system See https://www.issn.org/services/online-services/access-to-the-ltwa/. If the 'published in' property is set, then the iso abbreviation pertains to the broader publication context (the journal) within which the given publication node is embedded, not the publication itself."
.
https://w3id.org/biolink/vocab/knowledge_source
knowledge_source
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"knowledge source - An Information Resource from which the knowledge expressed in an Association was retrieved, directly or indirectly. This can be any resource through which the knowledge passed on its way to its currently serialized form. In practice, implementers should use one of the more specific subtypes of this generic property."
.
https://w3id.org/biolink/vocab/ln_ratio_confidence_interval
ln_ratio_confidence_interval
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)"
.
https://w3id.org/biolink/vocab/macromolecular_machine_mixin_name
macromolecular_machine_mixin_name
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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"
.
https://w3id.org/biolink/vocab...cal_process_association_object
macromolecular_machine_to_biological_process_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...r_component_association_object
macromolecular_machine_to_cellular_component_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"macromolecular machine to cellular component 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."
.
https://w3id.org/biolink/vocab...tity_association_mixin_subject
macromolecular_machine_to_entity_association_mixin_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...ar_activity_association_object
macromolecular_machine_to_molecular_activity_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"macromolecular machine 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."
.
https://w3id.org/biolink/vocab/manifestation_of
manifestation_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"manifestation of - that part of a phenomenon which is directly observable or visibly expressed, or which gives evidence to the underlying process; used in SemMedDB for linking things like dysfunctions and processes to some disease or syndrome"
.
https://w3id.org/biolink/vocab/mapped_predicate
mapped_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"mapped predicate - The predicate that is being replaced by the fully qualified representation of predicate + subject and object qualifiers. Only to be used in test data and mapping data to help with the transition to the fully qualified predicate model. Not to be used in knowledge graphs."
.
https://w3id.org/biolink/vocab..._derivation_association_object
material_sample_derivation_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"material sample derivation association object - the material entity the sample was derived from. This may be another material sample, or any other material entity, including for example an organism, a geographic feature, or some environmental material."
.
https://w3id.org/biolink/vocab/max_tolerated_dose
max_tolerated_dose
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"max tolerated dose - The highest dose of a drug or treatment that does not cause unacceptable side effects. The maximum tolerated dose is determined in clinical trials by testing increasing doses on different groups of people until the highest dose with acceptable side effects is found. Also called MTD."
.
https://w3id.org/biolink/vocab/mechanism_of_action
mechanism_of_action
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"mechanism of action - a boolean flag to indicate if the edge is part of a path or subgraph of a knowledge graph that constitutes the mechanism of action for a result."
.
https://w3id.org/biolink/vocab...ease_association_mixin_subject
model_to_disease_association_mixin_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"model to disease association mixin subject - The entity that serves as the model of the disease. This may be an organism, a strain of organism, a genotype or variant that exhibits similar features, or a gene that when mutated exhibits features of the disease"
.
https://w3id.org/biolink/vocab...ical_entity_association_object
molecular_activity_to_chemical_entity_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"molecular activity to chemical entity 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."
.
https://w3id.org/biolink/vocab...cal_entity_association_subject
molecular_activity_to_chemical_entity_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...ar_activity_association_object
molecular_activity_to_molecular_activity_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...r_activity_association_subject
molecular_activity_to_molecular_activity_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab..._to_pathway_association_object
molecular_activity_to_pathway_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab..._pathway_association_predicate
molecular_activity_to_pathway_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"molecular activity to pathway association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...to_pathway_association_subject
molecular_activity_to_pathway_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...ed_thing_association_predicate
named_thing_associated_with_likelihood_of_named_thing_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/named_thing_category
named_thing_category
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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}"
.
https://w3id.org/biolink/vocab/narrow_match
narrow_match
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"narrow match - a list of terms from different schemas or terminology systems that have a narrower, more specific meaning. Narrower terms are typically shown as children in a hierarchy or tree."
.
https://w3id.org/biolink/vocab/narrow_matches
narrow_matches
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/negatively_correlated_with
negatively_correlated_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab/object_location_in_text
object_location_in_text
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"object location in text - Character offsets for the text span(s) in the supporting text corresponding to the object concept of the extracted assertion"
.
https://w3id.org/biolink/vocab/occurs_together_in_literature_with
occurs_together_in_literature_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/opposite_of
opposite_of
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab...ironment_association_predicate
organism_taxon_to_environment_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"organism taxon to environment association predicate - predicate describing the relationship between the taxon and the environment"
.
https://w3id.org/biolink/vocab...anism_taxon_association_object
organism_taxon_to_organism_taxon_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...nism_taxon_association_subject
organism_taxon_to_organism_taxon_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...sociated_environmental_context
organism_taxon_to_organism_taxon_interaction_associated_environmental_context
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"organism taxon to organism taxon interaction associated environmental context - the environment in which the two taxa interact"
.
https://w3id.org/biolink/vocab...sm_taxon_interaction_predicate
organism_taxon_to_organism_taxon_interaction_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...taxon_specialization_predicate
organism_taxon_to_organism_taxon_specialization_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...o_organism_association_subject
organism_to_organism_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...of_disease_association_subject
organismal_entity_as_a_model_of_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/original_object
original_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/original_predicate
original_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"original predicate - used to hold the original relation/predicate that an external knowledge source uses before transformation to match the biolink-model specification."
.
https://w3id.org/biolink/vocab/original_subject
original_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/p_value
p_value
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/pairwise_molecular_interaction_object
pairwise_molecular_interaction_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/pairwise_molecular_interaction_subject
pairwise_molecular_interaction_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/part_qualifier
part_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab/phenotypic_state
phenotypic_state
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/physically_interacts_with
physically_interacts_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"physically interacts with - holds between two entities that make physical contact as part of some interaction. does not imply a causal relationship."
.
https://w3id.org/biolink/vocab/population_context_qualifier
population_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"population context qualifier - a biological population (general, study, cohort, etc.) with a specific set of characteristics to constrain an association."
.
https://w3id.org/biolink/vocab...pulation_association_predicate
population_to_population_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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"
.
https://w3id.org/biolink/vocab/positively_correlated_with
positively_correlated_with
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab/predicate_mappings
predicate_mappings
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/prevents
prevents
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"prevents - holds between an entity whose application or use reduces the likelihood of a potential outcome. Typically used to associate a chemical entity, exposure, activity, or medical intervention that can prevent the onset a disease or phenotypic feature."
.
https://w3id.org/biolink/vocab/primary_knowledge_source
primary_knowledge_source
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/provided_by
provided_by
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"provided by - The value in this node property represents the knowledge provider that created or assembled the node and all of its attributes. Used internally to represent how a particular node made its way into a knowledge provider or graph."
.
https://w3id.org/biolink/vocab/publication_id
publication_id
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/publication_name
publication_name
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab/publication_pages
publication_pages
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/publication_publication_type
publication_publication_type
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/publication_type
publication_type
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/publisher
publisher
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)."
.
https://w3id.org/biolink/vocab/qualified_predicate
qualified_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/reaction_to_catalyst_association_object
reaction_to_catalyst_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...articipant_association_subject
reaction_to_participant_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/regulates
regulates
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/related_to_at_instance_level
related_to_at_instance_level
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/relative_frequency_object
relative_frequency_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...ncy_object_confidence_interval
relative_frequency_object_confidence_interval
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)"
.
https://w3id.org/biolink/vocab/relative_frequency_subject
relative_frequency_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...cy_subject_confidence_interval
relative_frequency_subject_confidence_interval
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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)"
.
https://w3id.org/biolink/vocab/resource_role
resource_role
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/response_affected_by
response_affected_by
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/retrieval_source_resource
retrieval_source_resource
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"retrieval source resource - The InformationResource that served as a source for the knowledge expressed in an Edge, or data used to generate this knowledge."
.
https://w3id.org/biolink/vocab/retrieval_source_resource_role
retrieval_source_resource_role
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/retrieval_source_upstream_resources
retrieval_source_upstream_resources
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/sequence_feature_relationship_object
sequence_feature_relationship_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/sequence_feature_relationship_subject
sequence_feature_relationship_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/sequence_localization_attribute
sequence_localization_attribute
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab...s_treatment_association_object
sequence_variant_modulates_treatment_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"sequence variant modulates treatment association object - treatment whose efficacy is modulated by the subject variant"
.
https://w3id.org/biolink/vocab..._treatment_association_subject
sequence_variant_modulates_treatment_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"sequence variant modulates treatment association subject - variant that modulates the treatment of some disease"
.
https://w3id.org/biolink/vocab/species_context_qualifier
species_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"species context qualifier - A statement qualifier representing a taxonomic category of species in which a relationship expressed in an association took place."
.
https://w3id.org/biolink/vocab/start_coordinate
start_coordinate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"start coordinate - The position at which the subject genomic entity starts on the chromosome or other entity to which it is located on. (ie: the start of the sequence being referenced is 1)."
.
https://w3id.org/biolink/vocab/start_interbase_coordinate
start_interbase_coordinate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"start interbase coordinate - The position at which the subject nucleic acid entity starts on the chromosome or other entity to which it is located on. (ie: the start of the sequence being referenced is 0)."
.
https://w3id.org/biolink/vocab/subject_location_in_text
subject_location_in_text
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"subject location in text - Character offsets for the text span(s) in the supporting text corresponding to the subject concept of the extracted assertion."
.
https://w3id.org/biolink/vocab/supporting_data_set
supporting_data_set
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting data set - A set of data used as evidence to generate the knowledge expressed in an Association (e.g. through computation on, reasoning or inference over the retrieved data)."
.
https://w3id.org/biolink/vocab/supporting_data_source
supporting_data_source
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting data source - An Information Resource from which data was retrieved and subsequently used as evidence to generate the knowledge expressed in an Association (e.g. through computation on, reasoning or inference over the retrieved data)."
.
https://w3id.org/biolink/vocab/supporting_document_type
supporting_document_type
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting document type - The document type (e.g., Journal Article, Case Study, Preprint) for the supporting document used in a Text Mining Result."
.
https://w3id.org/biolink/vocab/supporting_documents
supporting_documents
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting documents - One or more referencable documents that report the statement expressed in an Association, or provide information used as evidence supporting this statement."
.
https://w3id.org/biolink/vocab/supporting_study_cohort
supporting_study_cohort
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting study cohort - A description of a study population/cohort that was interrogated to provide evidence for the association (e.g. the inclusion and exclusion criteria)."
.
https://w3id.org/biolink/vocab/supporting_study_context
supporting_study_context
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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.)."
.
https://w3id.org/biolink/vocab/supporting_study_metadata
supporting_study_metadata
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/supporting_study_method_description
supporting_study_method_description
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting study method description - A uri or curie pointing to information about the methodology used to generate data supporting an Association."
.
https://w3id.org/biolink/vocab/supporting_study_method_type
supporting_study_method_type
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting study method type - A type of method that was applied in a study used to generate the information used as evidence (e.g. a type of experimental assay, or statistical calculation, or computational analysis)."
.
https://w3id.org/biolink/vocab/supporting_text_section_type
supporting_text_section_type
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"supporting text section type - The section of the supporting text of a Text Mining Result within the supporting document. This is in the form of the name of the document section (e.g., Abstract, Introduction) that contains the supporting text."
.
https://w3id.org/biolink/vocab/taxon_to_taxon_association_subject
taxon_to_taxon_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"taxon to 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."
.
https://w3id.org/biolink/vocab/temporal_context_qualifier
temporal_context_qualifier
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"temporal context qualifier - a constraint of time placed upon the truth value of an association. for time intervales, use temporal interval qualifier."
.
https://w3id.org/biolink/vocab/transcript_to_gene_relationship_object
transcript_to_gene_relationship_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"transcript to gene 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."
.
https://w3id.org/biolink/vocab/transcript_to_gene_relationship_subject
transcript_to_gene_relationship_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"transcript to gene 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."
.
https://w3id.org/biolink/vocab/translates_to
translates_to
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"translates to - x (amino acid chain/polypeptide) is the ribosomal translation of y (transcript) if and only if a ribosome reads y (transcript) through a series of triplet codon-amino acid adaptor activities (GO:0030533) and produces x (amino acid chain/polypeptide)"
.
https://w3id.org/biolink/vocab/upstream_resources
upstream_resources
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"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."
.
https://w3id.org/biolink/vocab/variant_to_disease_association_subject
variant_to_disease_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to disease association subject - a sequence variant in which the allele state is associated in some way with the disease state"
.
https://w3id.org/biolink/vocab...tity_association_mixin_subject
variant_to_entity_association_mixin_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to entity association mixin subject - a sequence variant in which the allele state is associated with some other entity"
.
https://w3id.org/biolink/vocab/variant_to_gene_association_object
variant_to_gene_association_object
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to gene 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."
.
https://w3id.org/biolink/vocab/variant_to_gene_association_predicate
variant_to_gene_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to gene association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...pression_association_predicate
variant_to_gene_expression_association_predicate
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to gene expression association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes."
.
https://w3id.org/biolink/vocab...ic_feature_association_subject
variant_to_phenotypic_feature_association_subject
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to phenotypic feature association subject - a sequence variant in which the allele state is associated in some way with the phenotype state"
.
https://w3id.org/biolink/vocab...pulation_association_has_count
variant_to_population_association_has_count
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to population association has count - number in object population that carry a particular allele, aka allele count"
.
https://w3id.org/biolink/vocab...ation_association_has_quotient
variant_to_population_association_has_quotient
http://www.w3.org/2000/01/rdf-schema#label
label
(this is a literal)
"variant to population association has quotient - frequency of allele in population, expressed as a number with allele divided by number in reference population, aka allele frequency"
.
This is the identifier for the assertion of this nanopublication.
http://purl.org/np/RArAFrdM4r...#assertion
The assertion above
http://www.w3.org/ns/prov#wasDerivedFrom
wasDerivedFrom
https://raw.githubusercontent....model/master/biolink-model.ttl
biolink-model.ttl
.
This is the identifier for this whole nanopublication.
http://purl.org/np/RArAFrdM4r...
This nanopublication
date and time when the nanopublication was created
http://purl.org/dc/terms/created
was created on
(this is a literal)
"2023-03-31T14:24:26.976+02:00"
.
This is a local identifier minted within the nanopublication.
http://purl.org/np/RArAFrdM4r...#sig
sig
http://purl.org/nanopub/x/hasSignatureTarget
has as target
This is the identifier for this whole nanopublication.
http://purl.org/np/RArAFrdM4r...
this nanopublication
.
This is a local identifier minted within the nanopublication.
http://purl.org/np/RArAFrdM4r...#sig
sig
http://purl.org/nanopub/x/hasAlgorithm
has the algorithm
(this is a literal)
"RSA"
.
This is a local identifier minted within the nanopublication.
http://purl.org/np/RArAFrdM4r...#sig
sig
http://purl.org/nanopub/x/hasPublicKey
has the public key
(this is a literal)
"MIGfMA0GCSqGSIb3DQEBAQUAA4GNADCBiQKBgQCwUtewGCpT5vIfXYE1bmf/Uqu1ojqnWdYxv+ySO80ul8Gu7m8KoyPAwuvaPj0lvPtHrg000qMmkxzKhYknEjq8v7EerxZNYp5B3/3+5ZpuWOYAs78UnQVjbHSmDdmryr4D4VvvNIiUmd0yxci47dTFUj4DvfHnGd6hVe5+goqdcwIDAQAB"
.
This is a local identifier minted within the nanopublication.
http://purl.org/np/RArAFrdM4r...#sig
sig
http://purl.org/nanopub/x/hasSignature
has the signature
(this is a literal)
"ZyeFvXIpYeGgQkl3kNfsrbfCW9BKWlY/3UbXaQec60RafxgQxyH86aSt8WfrW6G35aZxEVsASrDKb4E7c8a2NMRJkVafnkZ77puckYo7zmDgyNrw3Ggv+8YI0WfA4x1zU5+YL1oOZnCPAbEkCuBqIoNN15tnYUizrea7667ShAY="
.
This is the identifier for this whole nanopublication.
http://purl.org/np/RArAFrdM4r...
this nanopublication
http://purl.org/dc/terms/creator
creator
https://orcid.org/0000-0002-1267-0234
Tobias Kuhn
.