[Bioperl-l] a question on gene retrieval

Cui, Wenwu (NIH/NLM/NCBI) [C] cuiw at ncbi.nlm.nih.gov
Wed Nov 22 11:50:07 EST 2006


You can use LWP to retrieve the following URL

http://www.ncbi.nlm.nih.gov/mapview/maps.cgi?taxid=9606&chr=5&maps=genes
[102826728:104828399]-r&cmd=txt

and then parse the HTML.

Good luck!

Wenwu Cui

-----Original Message-----
From: Svetlana Bulashevska [mailto:s.bulashevska at dkfz-heidelberg.de] 
Sent: Wednesday, November 22, 2006 6:21 AM
To: bioperl-l at lists.open-bio.org
Subject: [Bioperl-l] a question on gene retrieval

Dear Sirs,
I am very new to bioperl and I would highly appreciate if you could 
advise me on the following.
I have the locations of the sequences (like chr5|-1|102826728|102828399)

in the human genome
and I would like to retrieve what known genes lay in the close proximity

to the sequences (they can also overlap with the sequence). What bioperl

modules and classes should I use?
Thank you very much,
Svetlana Bulashevska.

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