Matches in Nanopublications for { ?s ?p ?o <http://purl.org/np/RArAFrdM4rux7Cwl-lT_a4JzGk9tcGItbpd7ykkbD3S2M#assertion>. }
- strand label "strand - The strand on which a feature is located. Has a value of '+' (sense strand or forward strand) or '-' (anti-sense strand or reverse strand)." assertion.
- genomic_sequence_localization_object label "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." assertion.
- p_value label "p value - A quantitative confidence value that represents the probability of obtaining a result at least as extreme as that actually obtained, assuming that the actual value was the result of chance alone." assertion.
- mentions label "mentions - refers to is a relation between one information content entity and the named thing that it makes reference to." assertion.
- in_pathway_with label "in pathway with - holds between two genes or gene products that are part of in the same biological pathway" assertion.
- is_nonsense_variant_of label "is nonsense variant of - holds between a sequence variant and a gene, such the sequence variant results in a premature stop codon" assertion.
- gene_to_gene_homology_association_object label "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." assertion.
- chemical_or_drug_or_treatment_to_disease_or_phenotypic_feature_association_predicate label "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." assertion.
- has_food_component label "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)" assertion.
- genotype_to_genotype_part_association_predicate label "genotype to genotype part association predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- has_gene_product label "has gene product - holds between a gene and a transcribed and/or translated product generated from it" assertion.
- node_property label "node property - A grouping for any property that holds between a node and a value" assertion.
- iso_abbreviation label "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." assertion.
- cell_line_to_entity_association_mixin_subject label "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." assertion.
- chemical_affects_gene_association_subject label "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." assertion.
- resource label "resource - The CURIE for an Information Resource that served as a source of knowledge expressed in an Edge, or a source of data used to generate this knowledge." assertion.
- produces label "produces - holds between a material entity and a product that is generated through the intentional actions or functioning of the material entity" assertion.
- book_type label "book type - Should generally be set to an ontology class defined term for 'book'." assertion.
- causal_mechanism_qualifier label "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')" assertion.
- chemical_or_drug_or_treatment_side_effect_disease_or_phenotypic_feature_association_predicate label "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." assertion.
- variant_to_phenotypic_feature_association_subject label "variant to phenotypic feature association subject - a sequence variant in which the allele state is associated in some way with the phenotype state" assertion.
- opposite_of label "opposite of - x is the opposite of y if there exists some distance metric M, and there exists no z such as M(x,z) <= M(x,y) or M(y,z) <= M(y,x). (This description is from RO. Needs to be rephrased)." assertion.
- catalyst_qualifier label "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." assertion.
- article_published_in label "article published in - The enclosing parent serial containing the article should have industry-standard identifier from ISSN." assertion.
- predicate label "predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- capable_of label "capable of - holds between a physical entity and process or function, where the continuant alone has the ability to carry out the process or function." assertion.
- sequence_localization_attribute label "sequence localization attribute - An attribute that can be applied to a genome sequence localization edge. These edges connect a nucleic acid entity such as an exon to an entity such as a chromosome. Edge properties are used to ascribe specific positional information and other metadata to the localization. In pragmatic terms this can be thought of as columns in a GFF3 line." assertion.
- predicate_mappings label "predicate mappings - A collection of relationships that are not used in biolink, but have biolink patterns that can be used to replace them. This is a temporary slot to help with the transition to the fully qualified predicate model in Biolink3." assertion.
- case_to_entity_association_mixin_subject label "case to entity association mixin subject - the case (e.g. patient) that has the property" assertion.
- model_to_disease_association_mixin_subject label "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" assertion.
- has_device label "has device - connects an entity to one or more (medical) devices" assertion.
- FDA_adverse_event_level label "FDA adverse event level - " assertion.
- FDA_approval_status label "FDA approval status - " assertion.
- has_biological_sequence label "has biological sequence - connects a genomic feature to its sequence" assertion.
- phenotypic_state label "phenotypic state - in experiments (e.g. gene expression) assaying diseased or unhealthy tissue, the phenotypic state can be put here, e.g. MONDO ID. For healthy tissues, use XXX." assertion.
- associated_with_likelihood_of label "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." assertion.
- publication_type label "publication type - Ontology term for publication type may be drawn from Dublin Core types (https://www.dublincore.org/specifications/dublin-core/dcmi-type-vocabulary/), FRBR-aligned Bibliographic Ontology (https://sparontologies.github.io/fabio/current/fabio.html), the MESH publication types (https://www.nlm.nih.gov/mesh/pubtypes.html), the Confederation of Open Access Repositories (COAR) Controlled Vocabulary for Resource Type Genres (http://vocabularies.coar-repositories.org/documentation/resource_types/), Wikidata (https://www.wikidata.org/wiki/Wikidata:Publication_types), or equivalent publication type ontology. When a given publication type ontology term is used within a given knowledge graph, then the CURIE identified term must be documented in the graph as a concept node of biolink:category biolink:OntologyClass." assertion.
- chemical_entity_or_gene_or_gene_product_regulates_gene_association_predicate label "chemical entity or gene or gene product regulates gene association predicate - the direction is always from regulator to regulated" assertion.
- population_to_population_association_predicate label "population to population association predicate - A relationship type that holds between the subject and object populations. Standard mereological relations can be used. E.g. subject part-of object, subject overlaps object. Derivation relationships can also be used" assertion.
- affected_by label "affected by - describes an entity of which the state or quality is affected by another existing entity." assertion.
- phase label "phase - The phase for a coding sequence entity. For example, phase of a CDS as represented in a GFF3 with a value of 0, 1 or 2." assertion.
- disease_or_phenotypic_feature_to_location_association_object label "disease or phenotypic feature to location association object - anatomical entity in which the disease or feature is found." assertion.
- organism_taxon_to_organism_taxon_interaction_associated_environmental_context label "organism taxon to organism taxon interaction associated environmental context - the environment in which the two taxa interact" assertion.
- genotype_to_gene_association_object label "genotype to gene association object - gene implicated in genotype" assertion.
- stoichiometry label "stoichiometry - the relationship between the relative quantities of substances taking part in a reaction or forming a compound, typically a ratio of whole integers." assertion.
- temporal_interval_qualifier label "temporal interval qualifier - a constraint of a time interval placed upon the truth value of an association." assertion.
- population_to_population_association_object label "population to population association object - the population that form the object of the association" assertion.
- colocalizes_with label "colocalizes with - holds between two entities that are observed to be located in the same place." assertion.
- derives_into label "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" assertion.
- contributor_association_subject label "contributor association subject - information content entity which an agent has helped realise" assertion.
- object label "object - connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- genomic_sequence_localization_subject label "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." assertion.
- entity_to_disease_or_phenotypic_feature_association_mixin_object label "entity to disease or phenotypic feature association mixin object - disease or phenotype" assertion.
- gene_has_variant_that_contributes_to_disease_association_subject label "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." assertion.
- supporting_data_set label "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)." assertion.
- adjusted_p_value label "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<." assertion.
- qualified_predicate label "qualified predicate - Predicate to be used in an association when subject and object qualifiers are present and the full reading of the statement requires a qualification to the predicate in use in order to refine or increase the specificity of the full statement reading. This qualifier holds a relationship to be used instead of that expressed by the primary predicate, in a ‘full statement’ reading of the association, where qualifier-based semantics are included. This is necessary only in cases where the primary predicate does not work in a full statement reading." assertion.
- affects label "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." assertion.
- assesses label "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." assertion.
- extraction_confidence_score label "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." assertion.
- target_for label "target for - A gene is a target of a disease when its products are druggable and when a drug interaction with the gene product could have a therapeutic effect" assertion.
- related_to label "related to - A relationship that is asserted between two named things" assertion.
- supporting_study_size label "supporting study size - The sample size used in a study that provided evidence for the association (e.g. 'n' of a cohort for a clinical study)." assertion.
- organism_taxon_to_environment_association_subject label "organism taxon to environment association subject - the taxon that is the subject of the association" assertion.
- nutrient_of label "nutrient of - holds between a one or more chemical entities present in food, irrespective of nutritional value (i.e. could also be a contaminant or additive)" assertion.
- gene_to_gene_product_relationship_predicate label "gene to gene product relationship predicate - A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes." assertion.
- supporting_study_cohort label "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)." assertion.
- expressed_in label "expressed in - holds between a gene or gene product and an anatomical entity in which it is expressed" assertion.
- directly_physically_interacts_with label "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)." assertion.
- concept_count_subject label "concept count subject - The number of instances in a dataset/cohort whose records contain the concept in the subject slot of an association." assertion.
- supporting_study_method_description label "supporting study method description - A uri or curie pointing to information about the methodology used to generate data supporting an Association." assertion.
- variant_to_population_association_has_total label "variant to population association has total - number all populations that carry a particular allele, aka allele number" assertion.
- relative_frequency_object_confidence_interval label "relative frequency object confidence interval - The 99% confidence interval for the relative_frequency_object calculation (i.e. the range of values within which the true value has a 99% chance of falling)" assertion.
- variant_to_entity_association_mixin_subject label "variant to entity association mixin subject - a sequence variant in which the allele state is associated with some other entity" assertion.
- pairwise_gene_to_gene_interaction_predicate label "pairwise gene to gene interaction predicate - interaction relationship type" assertion.
- affiliation label "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." assertion.
- has_active_ingredient label "has active ingredient - holds between a drug and a molecular entity in which the latter is a part of the former, and is a biologically active component" assertion.
- has_metabolite label "has metabolite - holds between two molecular entities in which the second one is derived from the first one as a product of metabolism" assertion.
- entity_to_exposure_event_association_mixin_object label "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." assertion.
- clinical_finding_has_attribute label "clinical finding has attribute - connects any entity to an attribute" assertion.
- has_procedure label "has procedure - connects an entity to one or more (medical) procedures" assertion.
- animal_model_available_from label "animal model available from - " assertion.
- available_from label "available from - " assertion.
- anatomical_entity_to_anatomical_entity_association_object label "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." assertion.
- pages label "pages - page number of source referenced for statement or publication" assertion.
- chapter label "chapter - chapter of a book" assertion.
- gene_product_of label "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" assertion.
- sequence_variant_modulates_treatment_association_object label "sequence variant modulates treatment association object - treatment whose efficacy is modulated by the subject variant" assertion.
- druggable_gene_to_disease_association_subject label "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." assertion.
- decreased_likelihood_associated_with label "decreased likelihood associated with - " assertion.
- genotype_to_gene_association_predicate label "genotype to gene association predicate - the relationship type used to connect genotype to gene" assertion.
- pairwise_molecular_interaction_subject label "pairwise molecular interaction subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- disease_or_phenotypic_feature_to_genetic_inheritance_association_object label "disease or phenotypic feature to genetic inheritance association object - genetic inheritance associated with the specified disease or phenotypic feature." assertion.
- molecular_activity_to_pathway_association_subject label "molecular activity to pathway association subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- subject label "subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- has_drug label "has drug - connects an entity to one or more drugs" assertion.
- has_unit label "has unit - connects a quantity value to a unit" assertion.
- sequence_feature_relationship_subject label "sequence feature relationship subject - connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object." assertion.
- has_mode_of_inheritance label "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)." assertion.
- increased_likelihood_associated_with label "increased likelihood associated with - " assertion.