[BiO BB] flybase IDs to gene bank accession nos
reddy_vram at yahoo.com
Mon Jan 9 04:14:11 EST 2006
Thanks to Ann and Chen for reply.
Infact FlyBase itself is providing the batch reports, i came to know this lately. I was able to get Genebank accessions from FlyBase (http://flybase.net/cgi-bin/fbidbatch.html).
Now i have one more question, i want to search for annotations using these IDs agianst DAVID (http://david.abcc.ncifcrf.gov/). I got all the accession numbers corresponding to my FlyBase gene IDs, do i have to check all these accessions numbers against DAVID or only accession number per one gene is enough, i am not sure does it make any sense.
I used GOToolBox (http://184.108.40.206/GOToolBox/index.php?page=dataset) for annotations as it will accept FlyBase IDs but i want to check DAVID also for the same.
Thanks alot for your time
Ann Loraine <aloraine at gmail.com> wrote: Hello,
Maybe this will help...
Does FlyBase provide sequence data?
If you can get a mapping of FlyBase ids onto mRNA sequences, then you
can use blast to search against a database of RefSeq fruit fly mRNA
Then it should be relatively easy to get Entrez gene ids from the
perfect-match RefSeq ids identified in the blast search.
On 1/8/06, Liangyou Chen
> I am creating tools for such conversions. But I don't know how to
> connect the FlyBase ID to GeneBank accession or entrez ID. If you
> can show me an example how to do the conversion in detail, I will make a tool
> for you.
> On 1/6/06, Rami Reddy.V wrote:
> > Hello all,
> > I am looking for a tool to convert FlyBase IDs to Gene Bank accession or
> > entrez IDs, if anybody knows please let me know.
> > Thanks alot
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