[BiO BB] expression level by EST by family
Harry Mangalam
harry.mangalam at uci.edu
Fri Mar 7 14:07:32 EST 2008
(apologies if this posted 2x - possible mail burp)
Posting for a colleague:
<post>
I'm looking for tools to do a little data mining in the NCBI data
base. Specifically what I'm interested in is obtaining the EST
frequency as a measure of the expression levels of members of a
particular gene family (Na/K ATPases) by organism (mouse) and tissue
type (heart). I've browsed the EST database and it looks like the
data is in there but what I need is a tool that can search all
records in each relevant data base. Any ideas or pointers in the
right direction?
</post>
It sounds like what he needs is an SQL-like interface to dbEST; is
there such a thing extant or is this something that will have to be
writ using a bio* toolkit to NCBI's or other API?
It does look like Ensembl's Biomart could answer questions like this
tho - can anyone confirm?
--
Harry Mangalam - Research Computing, NACS, E2148, Engineering Gateway,
UC Irvine 92697 949 824 0084(o), 949 285 4487(c)
--
[A Nation of Sheep breeds a Government of Wolves.
Edward R. Murrow]
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