Changes between Version 42 and Version 43 of DDBJ-KEGG-PDBj

Timestamp:

2010/02/13 14:10:21 (15 years ago)

Author:

akinjo

Comment:

--

DDBJ-KEGG-PDBj

@@ -13 +13 @@
  * /PDBx:datablock/PDBx:entity_src_genCategory/PDBx:entity_src_gen/PDBx:pdbx_gene_src_ncbi_taxonomy_id
 where {PDBID} should be something like "1a00" (in lowercase).
+
+== Converting PDBML to RDF ==
+tore.eriksson has made a tentative XSL stylesheet to convert PDBMLplus (some selected elements) into RDF.
+(but when I checked the output RDF with raptor converter (rapper), it had some errors...)
+
+While I (akinjo) was in Shinkansen from Tokyo to Osaka, I wrote an XSL stylesheet that convert the whole PDBML file
+into RDF (files attached). I noticed one good thing about PDBML.
+ * PDBML is based on mmCIF (PDB's original format)
+ * mmCIF is actually defined as an ontology.
+ * So, we can use mmCIF categories and items as predicates.
+ * An xpath REST interface for PDBMLplus is available at pdbj: e.g., http://service.pdbj.org/mine/xpath/1a00/datablock/entityCategory/entity
+ * Thus, we can use xpaths as subjects and objects in RDF.
 
 = DDBJ things =