@prefix ns1: <http://purl.org/dc/terms/> .
@prefix this: <http://purl.org/np/RA3e5g4QDiQlJU4gsAfo5KmMBXQqU5tQF2_ea79FtMjNU> .
@prefix sub: <http://purl.org/np/RA3e5g4QDiQlJU4gsAfo5KmMBXQqU5tQF2_ea79FtMjNU#> .
@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 prov: <http://www.w3.org/ns/prov#> .
@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: np:hasAssertion sub:assertion;
    np:hasProvenance sub:provenance;
    np:hasPublicationInfo sub:pubinfo;
    a np:Nanopublication .
}

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: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 rdf:object sub:readableassertion;
    rdf:predicate rdfs:label;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "1"^^xsd:integer .
  
  sub:st01 rdf:object sub:subject;
    rdf:predicate rdf:subject;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "2"^^xsd:integer .
  
  sub:st02 rdf:object sub:subjectType;
    rdf:predicate bl:category;
    rdf:subject sub:subject;
    a rdf:Statement;
    nt:statementOrder "2"^^xsd:integer .
  
  sub:st03 rdf:object sub:object;
    rdf:predicate rdf:object;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "4"^^xsd:integer .
  
  sub:st04 rdf:object sub:objectType;
    rdf:predicate bl:category;
    rdf:subject sub:object;
    a rdf:Statement;
    nt:statementOrder "2"^^xsd:integer .
  
  sub:st05 rdf:object sub:associationType;
    rdf:predicate bl:association_type;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "0"^^xsd:integer .
  
  sub:st06 rdf:object sub:associationRelation;
    rdf:predicate bl:relation;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "1"^^xsd:integer .
  
  sub:st07 rdf:object sub:associationPredicate;
    rdf:predicate rdf:predicate;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "1"^^xsd:integer .
  
  sub:st08 rdf:object sub:negated;
    rdf:predicate bl:negated;
    rdf:subject sub:association;
    a nt:OptionalStatement;
    nt:statementOrder "6"^^xsd:integer .
  
  sub:st09 rdf:object sub:providedBy;
    rdf:predicate bl:provided_by;
    rdf:subject sub:association;
    a nt:OptionalStatement;
    nt:statementOrder "7"^^xsd:integer .
  
  sub:st10 rdf:object sub:publication;
    rdf:predicate bl:publications;
    rdf:subject sub:association;
    a nt:OptionalStatement;
    nt:statementOrder "8"^^xsd:integer .
  
  sub:st11 a nt:GroupedStatement, nt:OptionalStatement;
    nt:hasStatement sub:st11a, sub:st11b, sub:st11c .
  
  sub:st11a rdf:object sub:lifeStage;
    rdf:predicate bl:stage_qualifier;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "13"^^xsd:integer .
  
  sub:st11b rdf:object bl:LifeStage;
    rdf:predicate rdf:type;
    rdf:subject sub:lifeStage;
    a rdf:Statement;
    nt:statementOrder "13"^^xsd:integer .
  
  sub:st11c rdf:object sub:lifeStageName;
    rdf:predicate rdfs:label;
    rdf:subject sub:lifeStage;
    a rdf:Statement;
    nt:statementOrder "13"^^xsd:integer .
  
  sub:st12 a nt:GroupedStatement, nt:OptionalStatement;
    nt:hasStatement sub:st12a, sub:st12b, sub:st12c, sub:st12d, sub:st12e, sub:st12f .
  
  sub:st12a rdf:object sub:targetgroup;
    rdf:predicate bl:has_evidence;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "12"^^xsd:integer .
  
  sub:st12b rdf:object sub:evidencetype;
    rdf:predicate rdf:type;
    rdf:subject sub:targetgroup;
    a rdf:Statement;
    nt:statementOrder "12"^^xsd:integer .
  
  sub:st12c rdf:object sub:hasPhenotype;
    rdf:predicate bl:has_phenotype;
    rdf:subject sub:targetgroup;
    a rdf:Statement;
    nt:statementOrder "12"^^xsd:integer .
  
  sub:st12d rdf:object sub:hasDrug1;
    rdf:predicate bl:has_drug;
    rdf:subject sub:targetgroup;
    a nt:OptionalStatement;
    nt:statementOrder "15"^^xsd:integer .
  
  sub:st12e rdf:object sub:hasDrug2;
    rdf:predicate bl:has_drug;
    rdf:subject sub:targetgroup;
    a nt:OptionalStatement;
    nt:statementOrder "16"^^xsd:integer .
  
  sub:st12f rdf:object bl:EvidenceType;
    rdf:predicate bl:category;
    rdf:subject sub:targetgroup;
    a nt:OptionalStatement;
    nt:statementOrder "12"^^xsd:integer .
  
  sub:st13 rdf:object rdf:Statement;
    rdf:predicate rdf:type;
    rdf:subject sub:association;
    a rdf:Statement;
    nt:statementOrder "13"^^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 in biolink category" .
  
  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 prov: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 "BE2LZhbIidnteYrb/d5/jXoPUV/cYIoGoxhScWRIwIcC7psHBERkQE2IZIxOu0TNm8+bAENPT4qntCi4P87VG8z+4hmDg39ZVCYMtnIxf1CY0JquSuKdm6h3GcjL7GITIDdrpAVPVD1l+MrGa5T5PAHKcqimF1T/uNRhCA6oVjI=";
    npx:hasSignatureTarget this: .
  
  this: ns1:created "2020-12-13T10:00:00+01:00"^^xsd:dateTime;
    ns1:creator orcid:0000-0002-1501-1082;
    npx:supersedes <http://purl.org/np/RAh-W0DqROqGBJWW1ku4rkl_aLisp8hhoasKz4JI3QzVY> .
}