Fill data from uniprot

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pablopareja edited this page Mar 11, 2011 · 8 revisions

Completes protein data performing HTTP requests to Uniprot site. (this program will soon be replaced by a WS with Bio4j servlets as end-point) The jar file can be downloaded here

Arguments for the program:

Name of the XML file with predicted genes
Output XML filename with uniprot data incorporated

Sample of String used for the request:

http://www.uniprot.org/uniprot/?query=accession:Q8YZR1&format=tab&columns=protein names,organism,comment(FUNCTION),ec,interpro,go,pathway,families,keywords,length,subcellular locations,citation

Information retrieved from Uniprot and associated to predicted genes includes:

Full name
Gene Ontology annotations
...