http://purl.org/np/RAKZ_Uov70ybJVpayRaV4s3PR0eenrgvbMPgTFf3IhzGo
.trig | .trig.txt | .jelly | .jelly.txt
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix ns1: <http://www.w3.org/ns/prov#> .
@prefix this: <http://purl.org/np/RAKZ_Uov70ybJVpayRaV4s3PR0eenrgvbMPgTFf3IhzGo> .
@prefix sub: <http://purl.org/np/RAKZ_Uov70ybJVpayRaV4s3PR0eenrgvbMPgTFf3IhzGo#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix orcid: <https://orcid.org/> .
@prefix nt: <https://w3id.org/np/o/ntemplate/> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix bl: <https://w3id.org/biolink/vocab/> .
@prefix eco: <http://purl.obolibrary.org/obo/ECO_> .
@prefix ro: <http://purl.obolibrary.org/obo/RO_> .
sub:Head {
this: a np:Nanopublication;
np:hasAssertion sub:assertion;
np:hasProvenance sub:provenance;
np:hasPublicationInfo sub:pubinfo .
}
sub:assertion {
eco:0000006 rdfs:label "experimental evidence" .
eco:0000180 rdfs:label "clinical study evidence" .
eco:0000204 rdfs:label "author statement" .
eco:0000205 rdfs:label "curator inference" .
eco:0000362 rdfs:label "computational inference" .
eco:0005548 rdfs:label "biological system reconstruction evidence based on inference from background scientific knowledge" .
eco:0006152 rdfs:label "medical practitioner statement evidence" .
eco:0006153 rdfs:label "self-reported individual's statement evidence" .
eco:0007672 rdfs:label "computational evidence" .
ro:0002434 rdfs:label "interacts with" .
sub:assertion a nt:AssertionTemplate;
rdfs:label "Defining a biomedical association with its context using the BioLink model";
nt:hasStatement sub:st00, sub:st01, sub:st02, sub:st03, sub:st04, sub:st05, sub:st06,
sub:st07, sub:st08, sub:st09, sub:st10, sub:st11, sub:st12, sub:st13, sub:st14, sub:st15 .
sub:association a nt:LocalResource;
rdfs:label "This association" .
sub:associationPredicate a nt:GuidedChoicePlaceholder;
rdfs:label "search for the association predicate in the BioLink model";
nt:possibleValue bl:affects, bl:correlated_with, bl:interacts_with, bl:treated_by,
bl:treats;
nt:possibleValuesFromApi "http://data.bioontology.org/search?pagesize=20&apikey=fd451bec-eacd-4519-b972-90fb6c7007cb&ontologies=BLM&include_properties=true&q=" .
sub:associationRelation a nt:GuidedChoicePlaceholder;
rdfs:label "provide the relation between the 2 concepts of the association from RO";
nt:possibleValue ro:0002434;
nt:possibleValuesFromApi "https://www.ebi.ac.uk/ols/api/select?ontology=ro&q=" .
sub:associationType a nt:GuidedChoicePlaceholder;
rdfs:label "provide the association class from the BioLink model";
nt:possibleValue bl:Association, bl:ChemicalToDiseaseOrPhenotypicFeatureAssociation,
bl:ChemicalToGeneAssociation, bl:ChemicalToPathwayAssociation, bl:GeneToDiseaseAssociation,
bl:PairwiseGeneToGeneInteraction;
nt:possibleValuesFromApi "http://data.bioontology.org/search?pagesize=20&apikey=fd451bec-eacd-4519-b972-90fb6c7007cb&ontologies=BLM&include_properties=true&q=" .
sub:evidencetype a nt:GuidedChoicePlaceholder;
rdfs:label "add the evidence code from the Evidence Code Ontology (ECO) here";
nt:possibleValue eco:0000000, eco:0000006, eco:0000180, eco:0000204, eco:0000205,
eco:0000362, eco:0005548, eco:0006152, eco:0006153, eco:0007672;
nt:possibleValuesFromApi "http://data.bioontology.org/search?pagesize=20&apikey=fd451bec-eacd-4519-b972-90fb6c7007cb&ontologies=ECO&q=" .
sub:hasDrug1 a nt:GuidedChoicePlaceholder;
rdfs:label "provide the drugs used by this target group from Translator NameResolution API";
nt:possibleValuesFromApi "https://name-resolution-sri.renci.org/lookup?limit=10&string=" .
sub:hasDrug2 a nt:GuidedChoicePlaceholder;
rdfs:label "provide the drugs used by this target group from Translator NameResolution API";
nt:possibleValuesFromApi "https://name-resolution-sri.renci.org/lookup?limit=10&string=" .
sub:hasPhenotype a nt:GuidedChoicePlaceholder;
rdfs:label "provide a URI for the phenotype of the target group from Translator NameResolution API";
nt:possibleValuesFromApi "https://name-resolution-sri.renci.org/lookup?limit=10&string=" .
sub:lifeStage a nt:LocalResource;
rdfs:label "The target group life stage" .
sub:lifeStageName a nt:LiteralPlaceholder;
rdfs:label "describe the life stage or age of the target group (e.g. Adults, 18-40)" .
sub:negated a nt:RestrictedChoicePlaceholder;
nt:possibleValue xsd:false, xsd:true .
sub:object a nt:GuidedChoicePlaceholder;
rdfs:label "target biomedical entity from Translator NameResolution API";
nt:possibleValuesFromApi "https://name-resolution-sri.renci.org/lookup?limit=10&string=" .
sub:objectType a nt:GuidedChoicePlaceholder;
rdfs:label "search for the object class in the BioLink model";
nt:possibleValue bl:ChemicalSubstance, bl:Disease, bl:Drug, bl:Gene, bl:PhenotypicFeature,
bl:Protein;
nt:possibleValuesFromApi "http://data.bioontology.org/search?pagesize=20&apikey=fd451bec-eacd-4519-b972-90fb6c7007cb&ontologies=BLM&include_properties=true&q=" .
sub:providedBy a nt:LiteralPlaceholder;
rdfs:label "add the identifier of the dataset or agent providing the associations" .
sub:publication a nt:UriPlaceholder;
rdfs:label "add the URI of a publication supporting this association (doi, PubMed, URL...)" .
sub:readableassertion a nt:LiteralPlaceholder;
rdfs:label "describe the assertion concisely (e.g. tylenol treats pain in adults patients)" .
sub:st00 a rdf:Statement;
rdf:object sub:readableassertion;
rdf:predicate rdfs:label;
rdf:subject sub:association;
nt:statementOrder "0"^^xsd:integer .
sub:st01 a rdf:Statement;
rdf:object sub:subject;
rdf:predicate rdf:subject;
rdf:subject sub:association;
nt:statementOrder "1"^^xsd:integer .
sub:st02 a rdf:Statement;
rdf:object sub:subjectType;
rdf:predicate bl:category;
rdf:subject sub:subject;
nt:statementOrder "2"^^xsd:integer .
sub:st03 a rdf:Statement;
rdf:object sub:object;
rdf:predicate rdf:object;
rdf:subject sub:association;
nt:statementOrder "3"^^xsd:integer .
sub:st04 a rdf:Statement;
rdf:object sub:objectType;
rdf:predicate bl:category;
rdf:subject sub:object;
nt:statementOrder "4"^^xsd:integer .
sub:st05 a rdf:Statement;
rdf:object sub:associationType;
rdf:predicate bl:association_type;
rdf:subject sub:association;
nt:statementOrder "5"^^xsd:integer .
sub:st06 a rdf:Statement;
rdf:object sub:associationRelation;
rdf:predicate bl:relation;
rdf:subject sub:association;
nt:statementOrder "6"^^xsd:integer .
sub:st07 a rdf:Statement;
rdf:object sub:associationPredicate;
rdf:predicate rdf:predicate;
rdf:subject sub:association;
nt:statementOrder "7"^^xsd:integer .
sub:st08 a nt:OptionalStatement;
rdf:object sub:negated;
rdf:predicate bl:negated;
rdf:subject sub:association;
nt:statementOrder "8"^^xsd:integer .
sub:st09 a nt:OptionalStatement;
rdf:object sub:providedBy;
rdf:predicate bl:provided_by;
rdf:subject sub:association;
nt:statementOrder "9"^^xsd:integer .
sub:st10 a nt:OptionalStatement;
rdf:object sub:publication;
rdf:predicate bl:publications;
rdf:subject sub:association;
nt:statementOrder "10"^^xsd:integer .
sub:st11 a nt:GroupedStatement, nt:OptionalStatement;
nt:hasStatement sub:st11a, sub:st11b, sub:st11c;
nt:statementOrder "11"^^xsd:integer .
sub:st11a a rdf:Statement;
rdf:object sub:lifeStage;
rdf:predicate bl:stage_qualifier;
rdf:subject sub:association;
nt:statementOrder "1"^^xsd:integer .
sub:st11b a rdf:Statement;
rdf:object sub:lifeStageName;
rdf:predicate rdfs:label;
rdf:subject sub:lifeStage;
nt:statementOrder "2"^^xsd:integer .
sub:st11c a rdf:Statement;
rdf:object bl:LifeStage;
rdf:predicate rdf:type;
rdf:subject sub:lifeStage;
nt:statementOrder "3"^^xsd:integer .
sub:st12 a nt:GroupedStatement, nt:OptionalStatement;
nt:hasStatement sub:st12a, sub:st12b, sub:st12c, sub:st12d;
nt:statementOrder "12"^^xsd:integer .
sub:st12a a rdf:Statement;
rdf:object sub:targetgroup;
rdf:predicate bl:has_evidence;
rdf:subject sub:association;
nt:statementOrder "1"^^xsd:integer .
sub:st12b a rdf:Statement;
rdf:object sub:evidencetype;
rdf:predicate rdf:type;
rdf:subject sub:targetgroup;
nt:statementOrder "2"^^xsd:integer .
sub:st12c a rdf:Statement;
rdf:object sub:hasPhenotype;
rdf:predicate bl:has_phenotype;
rdf:subject sub:targetgroup;
nt:statementOrder "3"^^xsd:integer .
sub:st12d a rdf:Statement;
rdf:object bl:EvidenceType;
rdf:predicate bl:category;
rdf:subject sub:targetgroup;
nt:statementOrder "4"^^xsd:integer .
sub:st13 a nt:OptionalStatement;
rdf:object sub:hasDrug1;
rdf:predicate bl:has_drug;
rdf:subject sub:targetgroup;
nt:statementOrder "13"^^xsd:integer .
sub:st14 a nt:OptionalStatement;
rdf:object sub:hasDrug2;
rdf:predicate bl:has_drug;
rdf:subject sub:targetgroup;
nt:statementOrder "14"^^xsd:integer .
sub:st15 a rdf:Statement;
rdf:object rdf:Statement;
rdf:predicate rdf:type;
rdf:subject sub:association;
nt:statementOrder "15"^^xsd:integer .
sub:subject a nt:GuidedChoicePlaceholder;
rdfs:label "source biomedical entity from Translator NameResolution API";
nt:possibleValuesFromApi "https://name-resolution-sri.renci.org/lookup?limit=10&string=" .
sub:subjectType a nt:GuidedChoicePlaceholder;
rdfs:label "search for the subject class in the BioLink model";
nt:possibleValue bl:ChemicalSubstance, bl:Disease, bl:Drug, bl:Gene, bl:PhenotypicFeature,
bl:Protein;
nt:possibleValuesFromApi "http://data.bioontology.org/search?pagesize=20&apikey=fd451bec-eacd-4519-b972-90fb6c7007cb&ontologies=BLM&include_properties=true&q=" .
sub:targetgroup a nt:LocalResource;
rdfs:label "The target group evidence" .
rdf:Statement rdfs:label "association Statement" .
rdf:object rdfs:label "has object" .
rdf:predicate rdfs:label "has predicate" .
rdf:subject rdfs:label "has subject" .
rdf:type rdfs:label "has type" .
rdfs:label rdfs:label "has label" .
xsd:false rdfs:label "false" .
xsd:true rdfs:label "true" .
bl:EvidenceType rdfs:label "EvidenceType" .
bl:association_type rdfs:label "has BioLink type" .
bl:category rdfs:label "is a" .
bl:description rdfs:label "is described by" .
bl:has_drug rdfs:label "uses drug" .
bl:has_phenotype rdfs:label "has phenotype" .
bl:id rdfs:label "has id" .
bl:negated rdfs:label "is negated" .
bl:provided_by rdfs:label "is provided by" .
bl:publications rdfs:label "has publications" .
bl:qualifiers rdfs:label "is qualified by" .
bl:relation rdfs:label "has relation" .
bl:stage_qualifier rdfs:label "is qualified by life stage" .
}
sub:provenance {
sub:assertion ns1:wasAttributedTo orcid:0000-0002-1501-1082 .
}
sub:pubinfo {
sub:sig npx:hasAlgorithm "RSA";
npx:hasPublicKey "MIGfMA0GCSqGSIb3DQEBAQUAA4GNADCBiQKBgQCR9fz0fKCdWOWC+pxhkQhEM/ppbdIYe5TLSdj+lJzSlv9mYBaPgrzVezSwwbmhlHBPDZa4/vHycU315BdmUGq+pXllp9+rWFfrb+kBJwhZjpG6BeyyXBsRFz4jmQVxl/ZYHilQTh/XalYzKkEAyTiEMPee4Kz61PaWOKH24CsnOQIDAQAB";
npx:hasSignature "ZKU5r8vC4qNKtycWObAhw8KyWqzTy3Tm1SZJiyCax2SUz3tfvbUIX8/BWw8uWR8W4joX6MnTGmHGMgoXLsP8HGhg/32qkJav8yI1wvmfGBUYTXmwUy6JjMMLwWpZjp/kTVANKWbvcdb1pl1vZbdKVLXewDwdlvxDWtiFNJ5glQw=";
npx:hasSignatureTarget this: .
this: dcterms:created "2020-12-13T10:00:00+01:00"^^xsd:dateTime;
dcterms:creator orcid:0000-0002-1501-1082;
npx:supersedes <http://purl.org/np/RAzTbKefd-Enr0NWnz0-EW_ZZ6Gudgcp8RcfkkLlJdA2A> .
}