BH11.11/オーソログテーブルのRDF化

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* OrthoXML を利用したオーソログテーブルのRDF化(金城さん)
* OrthoXML を利用したオーソログテーブルのRDF化(金城さん)
-
select $cluster_name $gene $score $mbgd $cog $kegg $tigr $dist $org $gene_name $domain_start $domain_end where {
+
select $cluster_name $gene $score $mbgd $cog $kegg $tigr $dist $org $gene_name $domain_start $domain_end where {
-
$gene_id1 rdfs:label "dra:DR_A0139".
+
$gene_id1 rdfs:label "dra:DR_A0139".
-
$gene_id1 mbgd:hasDomain $domain_id1.
+
$gene_id1 mbgd:hasDomain $domain_id1.
-
$cluster_id mbgd:clusterMember $domain_id1.
+
$cluster_id mbgd:clusterMember $domain_id1.
-
$cluster_id mbgd:clusterMember $domain_id2.
+
$cluster_id mbgd:clusterMember $domain_id2.
-
$cluster_id mbgd:clusterScore $score.
+
$cluster_id mbgd:clusterScore $score.
-
$cluster_id mbgd:geneSymbol $gene.
+
$cluster_id mbgd:geneSymbol $gene.
-
$cluster_id mbgd:funcMbgd $mbgd.
+
$cluster_id mbgd:funcMbgd $mbgd.
-
$cluster_id mbgd:funcCog $cog.
+
$cluster_id mbgd:funcCog $cog.
-
$cluster_id mbgd:funcKegg $kegg.
+
$cluster_id mbgd:funcKegg $kegg.
-
$cluster_id mbgd:funcTigr $tigr.
+
$cluster_id mbgd:funcTigr $tigr.
-
$cluster_id mbgd:dist $dist.
+
$cluster_id mbgd:dist $dist.
-
$gene_id2 mbgd:hasDomain $domain_id2.
+
$gene_id2 mbgd:hasDomain $domain_id2.
-
$gene_id2 mbgd:organism $org.
+
$gene_id2 mbgd:organism $org.
-
$cluster_id rdfs:label $cluster_name.
+
$cluster_id rdfs:label $cluster_name.
-
$gene_id2 rdfs:label $gene_name.
+
$gene_id2 rdfs:label $gene_name.
-
$domain_id2 mbgd:domainNumber $domain_number.
+
$domain_id2 mbgd:domainNumber $domain_number.
-
$domain_id2 mbgd:domainStart $domain_start.
+
$domain_id2 mbgd:domainStart $domain_start.
-
$domain_id2 mbgd:domainEnd $domain_end.
+
$domain_id2 mbgd:domainEnd $domain_end.
-
}
+
}

2011年11月24日 (木) 08:16時点における版

オーソログクラスターのRDFの試作

http://mbgd.genome.ad.jp:8036/rdf/orthogroup/5820

オーソログテーブル全体のRDF化

  • MBGDテキストファイル形式(dclst形式)→ RDF(Turtle)
    • 変換スクリプトの作成(千葉)
  • Sesameへのロード
http://localhost:8080/openrdf-workbench/repositories/mbgd9/summary
  • SPARQLによる検索

オーソログテーブルのXML化 (OrthoXML)

  • OrthoXML を利用したオーソログテーブルのRDF化(金城さん)
select $cluster_name $gene $score $mbgd $cog $kegg $tigr $dist $org $gene_name $domain_start $domain_end where {
$gene_id1 rdfs:label "dra:DR_A0139".
$gene_id1 mbgd:hasDomain $domain_id1.
$cluster_id mbgd:clusterMember $domain_id1.
$cluster_id mbgd:clusterMember $domain_id2.
$cluster_id mbgd:clusterScore $score.
$cluster_id mbgd:geneSymbol $gene.
$cluster_id mbgd:funcMbgd $mbgd.
$cluster_id mbgd:funcCog $cog.
$cluster_id mbgd:funcKegg $kegg.
$cluster_id mbgd:funcTigr $tigr.
$cluster_id mbgd:dist $dist.
$gene_id2 mbgd:hasDomain $domain_id2.
$gene_id2 mbgd:organism $org.
$cluster_id rdfs:label $cluster_name.
$gene_id2 rdfs:label $gene_name.
$domain_id2 mbgd:domainNumber $domain_number.
$domain_id2 mbgd:domainStart $domain_start.
$domain_id2 mbgd:domainEnd $domain_end.
}
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