EZRetrieve is just for Humans .. I dont think that solves Charles' problem.. <br>
Charles .. can you tell me some more about the R/BioMart route .. n am unaware of the BLAT procedure as well ...<br>
Samantha<br><br><div><span class="gmail_quote">On 1/6/06, <b class="gmail_sendername"><a href="mailto:firstname.lastname@example.org">email@example.com</a></b> <<a href="mailto:firstname.lastname@example.org">email@example.com</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
EZRetrieve<br><br>Quoting Charles Hefer <<a href="mailto:firstname.lastname@example.org">email@example.com</a>>:<br><br>> Hi<br>><br>> I am looking for a way to automate the retrieval of upstream regions<br>> of genes (from fully sequenced genomes).
<br>><br>> I have tried the R/BioMart route, but the organisms I want are not<br>> available in BioMart (yet). The next option would be to use BLAT to<br>> retrieve the gene positions and then retrieve the upstream regions,
<br>> but<br>> I am looking for a simpler solution. Does one of the Bio modules of i.e<br>><br>> Python/Java/PERL support this functionality?<br>><br>> The aim is to put up a little internal web-service for promoter
<br>> searches, for which the desired gene ID (GenBankId) would be entered and<br>><br>> the ~2kb upstream region returned.<br>><br>> Thanx, in advance<br>> --<br>><br>> Charles</blockquote></div><br>