diff options
Diffstat (limited to 'examples/genelist.scm')
| -rwxr-xr-x | examples/genelist.scm | 28 |
1 files changed, 14 insertions, 14 deletions
diff --git a/examples/genelist.scm b/examples/genelist.scm index 60ae4cd..ecd5cad 100755 --- a/examples/genelist.scm +++ b/examples/genelist.scm @@ -21,7 +21,7 @@ (gnc:gene_symbol a rdfs:Class) (gnc:gene_symbol rdfs:label "A gene symbol") (gnt:gene rdfs:domain gnc:gene_symbol) - (gnt:belongs_to_species rdfs:domain gnc:gene_symbol) + (gnt:has_species rdfs:domain gnc:gene_symbol) (gnc:gene a rdfs:Class) (gnc:gene rdfs:label "Gene") (gnt:has_gene_id a owl:ObjectProperty) @@ -30,34 +30,34 @@ (gnc:transcript rdfs:domain gnc:gene_symbol) (gnt:transcript a owl:ObjectProperty) (gnc:transcript rdfs:comments "The gene transcript of this resource") - (gnc:ebi_gwas_link rdfs:Class gnc:ResourceLink) + (gnc:ebi_gwas_link rdfs:Class gnc:resource_link) (gnc:ebi_gwas_link rdfs:label "EBI GWAS") (gnc:ebi_gwas_link rdfs:comments "EBI GWAS") - (gnc:protein_atlas_link rdfs:Class gnc:ResourceLink) + (gnc:protein_atlas_link rdfs:Class gnc:resource_link) (gnc:protein_atlas_link rdfs:label "Protein Atlas") (gnc:protein_atlas_link rdfs:comments "Human Protein Atlas") - (gnc:genemania_link rdfs:Class gnc:ResourceLink) + (gnc:genemania_link rdfs:Class gnc:resource_link) (gnc:genemania_link rdfs:label "GeneMANIA") (gnc:genemania_link rdfs:comments "GeneMANIA") - (gnc:gemma_link rdfs:Class gnc:ResourceLink) + (gnc:gemma_link rdfs:Class gnc:resource_link) (gnc:gemma_link rdfs:label "Gemma") (gnc:gemma_link rdfs:comments "Meta-analysis of gene expression data") - (gnc:biogps_link rdfs:Class gnc:ResourceLink) + (gnc:biogps_link rdfs:Class gnc:resource_link) (gnc:biogps_link rdfs:label "BioGPS") (gnc:biogps_link rdfs:comments "Expression across many tissues and cell types") - (gnc:aba_link rdfs:Class gnc:ResourceLink) + (gnc:aba_link rdfs:Class gnc:resource_link) (gnc:aba_link rdfs:label "ABA") (gnc:aba_link rdfs:comments "Allen Brain Atlas") - (gnc:panther_link rdfs:Class gnc:ResourceLink) + (gnc:panther_link rdfs:Class gnc:resource_link) (gnc:panther_link rdfs:label "PANTHER") (gnc:panther_link rdfs:comments "Gene and protein data resources from Celera-ABI") - (gnc:panther_link rdfs:Class gnc:ResourceLink) + (gnc:panther_link rdfs:Class gnc:resource_link) (gnc:panther_link rdfs:label "STRING") (gnc:panther_link rdfs:comments "Protein interactions: known and inferred") - (gnc:gtex_link rdfs:Class gnc:ResourceLink) + (gnc:gtex_link rdfs:Class gnc:resource_link) (gnc:gtex_link rdfs:label "GTEx Portal") (gnc:gtex_link rdfs:comments "GTEx Portal") - (gnc:rgd_link rdfs:Class gnc:ResourceLink) + (gnc:rgd_link rdfs:Class gnc:resource_link) (gnc:rgd_link rdfs:label "Rat Genome DB") (gnc:rgd_link rdfs:comments "Rat Genome DB") (gnc:has_kg_id rdfs:domain gnc:gene_symbol) @@ -229,7 +229,7 @@ '^^xsd:double)) (set gnt:strand (string-trim-both (field GeneList Strand))) (set - gnt:belongs_to_species (string->identifier "" (remap-species-identifiers (field Species Fullname)))) + gnt:has_species (string->identifier "" (remap-species-identifiers (field Species Fullname)))) (set gnt:transcript (ontology 'transcript: @@ -253,7 +253,7 @@ gene-uid) #:separator "_")) (set rdf:type 'gnc:gene) - (set gnt:belongs_to_species 'gn:Rattus_norvegicus) + (set gnt:has_species 'gn:Rattus_norvegicus) (set gnt:gene_symbol (string-trim-both (field GeneList_rn33 geneSymbol))) (set gnt:chromosome (field GeneList_rn33 chromosome)) (set gnt:tx_start (annotate-field @@ -279,7 +279,7 @@ "<~0@*~a~1@*~a> .~%<~0@*~a~1@*~a> ~2@*~a" "http://www.pantherdb.org/genes/geneList.do?searchType=basic&fieldName=all&organism=all&listType=1&fieldValue=" (string-trim-both symbol) - "a gnc:PantherLink")) + "a gnc:panther_link")) ""))) (set dct:references (let ((symbol (string-trim-both (field GeneList_rn33 geneSymbol)))) |