Nanopublication

ID

https://w3id.org/np/RATGV5msKoOdwc3jgCfgitsSGzAN-tWoqk3oGOYlB8rB0
Formats

Content

@prefix this: <https://w3id.org/np/RATGV5msKoOdwc3jgCfgitsSGzAN-tWoqk3oGOYlB8rB0> .
@prefix sub: <https://w3id.org/np/RATGV5msKoOdwc3jgCfgitsSGzAN-tWoqk3oGOYlB8rB0/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix nt: <https://w3id.org/np/o/ntemplate/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix dcmitype: <http://purl.org/dc/dcmitype/> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix orcid: <https://orcid.org/> .
@prefix mvikg: <http://example.org/mvikg/> .
@prefix gen: <https://w3id.org/kpxl/gen/terms/> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix biolink: <https://w3id.org/biolink/vocab/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix sosa: <http://www.w3.org/ns/sosa/> .

sub:Head {
  this: a np:Nanopublication;
    np:hasAssertion sub:assertion;
    np:hasProvenance sub:provenance;
    np:hasPublicationInfo sub:pubinfo .
}

sub:assertion {
  mvikg:has_biome rdfs:label "has biome" .
  
  dcmitype:Dataset rdfs:label "dataset" .
  
  dct:isPartOf rdfs:label "is part of" .
  
  rdf:type rdfs:label "is a" .
  
  sosa:Sample rdfs:label "sample" .
  
  sosa:isSampleOf rdfs:label "is sample of" .
  
  biolink:in_taxon rdfs:label "in taxon" .
  
  sub:biome a nt:ExternalUriPlaceholder, nt:GuidedChoicePlaceholder;
    rdfs:label "the biome the taxon was sampled from (GOLD biome recommended)";
    nt:possibleValuesFromApi "https://www.ebi.ac.uk/ols4/api/select?ontology=gold&fieldList=iri,label,description&q=" .
  
  sub:organism a nt:EmbeddedResource, nt:LocalResource;
    rdfs:label "the strain/organism this sample was taken from" .
  
  sub:project a nt:ExternalUriPlaceholder, nt:GuidedChoicePlaceholder;
    rdfs:label "the PMC article/dataset this record is derived from (search by title, PMC ID or PMID)";
    nt:possibleValuesFromApi "https://www.ebi.ac.uk/europepmc/webservices/rest/search?format=json&query=" .
  
  sub:sample a nt:IntroducedResource, nt:LocalResource;
    rdfs:label "this sample" .
  
  sub:st01 rdf:object sosa:Sample;
    rdf:predicate rdf:type;
    rdf:subject sub:sample .
  
  sub:st02 a nt:GroupedStatement, nt:OptionalStatement;
    nt:hasStatement sub:st03, sub:st04 .
  
  sub:st03 rdf:object sub:project;
    rdf:predicate dct:isPartOf;
    rdf:subject sub:sample .
  
  sub:st04 rdf:object dcmitype:Dataset;
    rdf:predicate rdf:type;
    rdf:subject sub:project .
  
  sub:st05 rdf:object sub:organism;
    rdf:predicate sosa:isSampleOf;
    rdf:subject sub:sample .
  
  sub:st06 rdf:object sub:taxon;
    rdf:predicate biolink:in_taxon;
    rdf:subject sub:organism .
  
  sub:st07 a nt:OptionalStatement;
    rdf:object sub:biome;
    rdf:predicate mvikg:has_biome;
    rdf:subject sub:taxon .
  
  sub:taxon a nt:ExternalUriPlaceholder, nt:GuidedChoicePlaceholder;
    rdfs:label "the organism taxon the strain belongs to (NCBITaxon)";
    nt:possibleValuesFromApi "https://www.ebi.ac.uk/ols/api/select?ontology=ncbitaxon&fieldList=iri,label,description&q=" .
  
  sub:templateVersion a nt:AssertionTemplate, nt:UnlistedTemplate;
    dct:description "Declaring an MVIKG sample context (PMC article/dataset, strain/organism, taxon, biome), independent of any one gene -- a sample can have many genes observed in it. To be referenced by gene-variant-phenotype observations.";
    dct:isVersionOf sub:template;
    rdfs:label "Declaring an MVIKG sample context";
    gen:governedBy <https://w3id.org/spaces/mvikg>;
    nt:hasNanopubLabelPattern "this sample";
    nt:hasStatement sub:st01, sub:st02, sub:st03, sub:st04, sub:st05, sub:st06, sub:st07;
    nt:hasTag "Biology";
    nt:hasTargetNanopubType sosa:Sample .
}

sub:provenance {
  sub:assertion prov:wasAttributedTo orcid:0009-0005-5515-1230 .
}

sub:pubinfo {
  this: dct:created "2026-11-04T00:00:00Z"^^xsd:dateTime;
    dct:creator orcid:0009-0005-5515-1230;
    dct:license <https://creativecommons.org/licenses/by/4.0/>;
    npx:embeds sub:templateVersion;
    npx:introduces sub:template;
    rdfs:label "Declaring an MVIKG sample context";
    nt:wasCreatedFromProvenanceTemplate <https://w3id.org/np/RA-yPZEYODCS39dWOWm7NA_ClOGFHzPi8iYhLzoZf19GI>;
    nt:wasCreatedFromPubinfoTemplate <https://w3id.org/np/RA4o9JqSxNO2Z47itbAcxvpVfdR97t_7usxmdR90URXQs>;
    nt:wasCreatedFromTemplate <https://w3id.org/np/RAgeON_vGgJCt5E4DPMi0eOPaGwNv9tbfFTRZtBwdQL0w> .
  
  sub:sig npx:hasAlgorithm "RSA";
    npx:hasPublicKey "MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEAjO3oH8Lq/l1oZIUY3FlCz5DnndybGvAhBdmEJ/yq7Nv3GZEYPrEro23rCBCp0GiriOXlVbk61pA/7JFE6tqzTresINW6QQMxE9sIhCBlX4cG66JFD8ud6bMvUyzCR8LQA6zfrSbafGE06rvglJd4MDUcTwvUKqtL9UCnOaowVfnZ3sPOe9EqlmJuO3iHGxBSXMPOPEJZUzMXsFDWFuMZTnrR8gY3r5nVF5a8L/MD135ZH8qW5yGXOB28CmVYCAbw2o07QEKzyzFKN+W1gfnprYZvuKzwGexnzcdzc1S8N/M5bzhWQ40EKCEqgUE8c81OzEMm1HUlUKEJ/o5I/FKKAwIDAQAB";
    npx:hasSignature "KdUGuavGCR2iM7lbOUlGgZ+j6VRHEoXYnHT3dZnScaeqcQ6v6K4SZ+pIulT+hgfwlKIFdxvywXLXRV5yKUyoqvjozP6V7O9zPWQzmEUKo2CXr5AxHyZL1FzwjychnkZLA/DnEsoLRLRv4/Gh4L+m+xnFDfmtIb90T46rpwi0s3NDXHUGkjPxiXADK+0M2zZw9fr0HDRoQyfnWNljKBtvUOlvDyL9OJi5L8lTjEZPj/MFhKWhntSaC6lqbnkq7j7O2ryOHHBky/Q+W5lqT2mt8AURQvPrQNrm/4akHCOnsusG7tql1ejsUHSzEWhLLyBjzDsUmNQ++3NN0h9XPCF1uA==";
    npx:hasSignatureTarget this:;
    npx:signedBy orcid:0009-0005-5515-1230 .
}