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@prefix schema: <http://schema.org/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix edam: <http://edamontology.org/> .
@prefix pav: <http://purl.org/pav/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix orcid: <https://orcid.org/> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix bibo: <http://purl.org/ontology/bibo/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix foaf: <http://xmlns.com/foaf/0.1/> .

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

sub:assertion {
  <http://purl.org/coloc-seq/advantage-kinetics-approach> schema:advantage "Distinguishes genuinely resident transcripts from slowly degradable contaminants"@en;
    schema:description "Tracks depletion dynamics across gradient instead of single RNase treatment"@en;
    schema:name "Enzymatic Kinetics-Based Approach"@en;
    a schema:Thing;
    rdfs:comment "Overcomes major limitation of standard fractionation methods"@en .
  
  <http://purl.org/coloc-seq/advantage-mock-control> schema:expectedResult "P0 = 0 for all RNAs when membranes are dissolved"@en;
    schema:name "Mock CoLoC-seq Control Experiment"@en;
    schema:purpose "Control for false-positive identifications"@en, "Distinguish organellar protection from intrinsic RNase resistance"@en;
    a schema:Thing;
    rdfs:comment "Essential quality control for validating resident RNA identification"@en .
  
  <http://purl.org/coloc-seq/advantage-no-genetic-modification> schema:benefit "Applicable to any cell type or tissue"@en,
      "Broader applicability than proximity labeling methods"@en, "Can be implemented in non-model species"@en;
    schema:name "No Genetic Modification Required"@en;
    a schema:Thing;
    rdfs:comment "Key practical advantage for diverse research applications"@en .
  
  <http://purl.org/coloc-seq/advantage-universal-applicability> schema:advantage "Compatible with non-model organisms"@en,
      "No genetic modification required"@en;
    schema:applicableTo "Extracellular vesicles"@en, "Mitochondria"@en, "Plastids"@en,
      "Vacuolar compartments"@en, "Viral particles"@en;
    schema:name "Universal Applicability"@en;
    a schema:Thing;
    rdfs:comment "Major advantage over proximity labeling techniques"@en .
  
  this: npx:relatesTo <https://w3id.org/np/RAMVUimnATifJYJw0VP2zAesw4OK_Gw30p9NgcEU4oVW8>,
      <https://w3id.org/np/RA_C-L7pLBKSyHDhS2YIFmqfb_-BLGOldcUb8emWvRltA>, <https://w3id.org/np/RAqWgWTy_lLfUrvdgqP0lggMHH_Of_5TgmpDWkpxe16gg>;
    schema:about <https://doi.org/10.1093/nar/gkac1205>;
    schema:text "CoLoC-seq advances subcellular transcriptomics by combining enzymatic kinetics with Mock control experiments to overcome false-positive limitations of conventional fractionation methods and eliminating the requirement for genetic modification."@en;
    a <https://w3id.org/np/RAZTGowlvcV7tu_Gi1DpIhq3KNCra6KQBgpAdqx7gSMrE/o/ntemplate/AIDA-Sentence>;
    rdfs:seeAlso edam:operation_3680 .
}

sub:provenance {
  <https://doi.org/10.1093/nar/gkac1205> bibo:doi "10.1093/nar/gkac1205";
    schema:datePublished "2023"^^xsd:gYear;
    schema:isPartOf sub:__1;
    schema:name "CoLoC-seq probes the global topology of organelle transcriptomes"@en;
    a schema:ScholarlyArticle .
  
  sub:__1 schema:name "Nucleic Acids Research"@en;
    a schema:Periodical .
  
  sub:assertion prov:wasAttributedTo orcid:0000-0001-8763-6703, orcid:0000-0002-1481-2996,
      orcid:0000-0002-9142-7979;
    prov:wasDerivedFrom <https://doi.org/10.1093/nar/gkac1205>, <https://w3id.org/np/RAMVUimnATifJYJw0VP2zAesw4OK_Gw30p9NgcEU4oVW8>,
      <https://w3id.org/np/RA_C-L7pLBKSyHDhS2YIFmqfb_-BLGOldcUb8emWvRltA>, <https://w3id.org/np/RAqWgWTy_lLfUrvdgqP0lggMHH_Of_5TgmpDWkpxe16gg> .
}

sub:pubinfo {
  orcid:0009-0005-7752-8203 foaf:name "Tiado Kollender" .
  
  this: dct:created "2026-01-11T00:00:00Z"^^xsd:dateTime;
    dct:license <https://creativecommons.org/publicdomain/zero/1.0/>;
    npx:wasCreatedFromPubinfoTemplate <https://w3id.org/np/RA0J4vUn_dekg-U1kK3AOEt02p9mT2WO03uGxLDec1jLw>,
      <https://w3id.org/np/RAukAcWHRDlkqxk7H2XNSegc1WnHI569INvNr-xdptDGI>;
    pav:createdBy orcid:0009-0005-7752-8203;
    a npx:ExampleNanopub;
    rdfs:comment "AIDA-based assertion about CoLoC-seq innovations compared to existing subcellular transcriptomics methods"@en;
    rdfs:label "Nanopublication: CoLoC-seq design innovations and advantages"@en;
    prov:wasAttributedTo orcid:0009-0005-7752-8203 .
  
  sub:sig npx:hasAlgorithm "RSA";
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    npx:hasSignatureTarget this: .
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