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

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Timestamp:
2010/02/13 14:10:21 (9 years ago)
Author:
akinjo
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  • DDBJ-KEGG-PDBj

    v42 v43  
    1313 * /PDBx:datablock/PDBx:entity_src_genCategory/PDBx:entity_src_gen/PDBx:pdbx_gene_src_ncbi_taxonomy_id 
    1414where {PDBID} should be something like "1a00" (in lowercase). 
     15 
     16== Converting PDBML to RDF == 
     17tore.eriksson has made a tentative XSL stylesheet to convert PDBMLplus (some selected elements) into RDF. 
     18(but when I checked the output RDF with raptor converter (rapper), it had some errors...) 
     19 
     20While I (akinjo) was in Shinkansen from Tokyo to Osaka, I wrote an XSL stylesheet that convert the whole PDBML file 
     21into RDF (files attached). I noticed one good thing about PDBML. 
     22 * PDBML is based on mmCIF (PDB's original format) 
     23 * mmCIF is actually defined as an ontology. 
     24 * So, we can use mmCIF categories and items as predicates. 
     25 * An xpath REST interface for PDBMLplus is available at pdbj: e.g., http://service.pdbj.org/mine/xpath/1a00/datablock/entityCategory/entity 
     26 * Thus, we can use xpaths as subjects and objects in RDF. 
    1527 
    1628= DDBJ things =