Changes between Version 14 and Version 15 of DDBJ-KEGG-PDBj/Results

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Timestamp:
2009/06/29 15:33:57 (12 years ago)
Author:
akinjo
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  • DDBJ-KEGG-PDBj/Results

    v14 v15  
    33 * For the details of the project, see [wiki:DDBJ-KEGG-PDBj]. 
    44 
    5 == for paper == 
     5== begin paper == 
    66(The following is a draft of a part of a paper to be submitted.) 
    77 
    8 === A DDBJ-KEGG-PDBj workflow: from pathways to protein-protein interactions == 
     8=== A DDBJ-KEGG-PDBj workflow: from pathways to protein-protein interactions === 
    99The objective of this working group is to examine the potentials and obstacles of web services by implementing a real-life use case. 
    1010The goal of the workflow is to enumerate possible physical protein-protein interactions among proteins in a biochemical pathway. 
     
    1616(5) For each species in the phylogenetic profile, run BLAST searches for each amino acid sequence against PDB. 
    1717(6) If two amino acid sequences (of the same species) have homologs in the same PDB entry, they are inferred to be in possible contact, and hence predicted to be an interacting pair. 
     18 
     19To implement the workflow outlined above, we have used the SOAP and REST APIs of KEGG (http://www.genome.jp/kegg/soap/), DDBJ (http://www.xml.nig.ac.jp/) and PDBj. 
     20== end paper == 
    1821 
    1922== Members ==