[Genome] Gene Sorter

[Rachel Harte]

Vinayak,

I think that the GO similarity option will help you to sort your genes 
into biologically similar categories.

Unfortunately, you will need to sort one gene at a time to find the top 10 
most similar genes. However, you could write a script that accesses Gene 
Sorter and does it automatically. If you do so, please take note of the 
restrictions that are stated on our home page under the Conditions of Use 
section:
"Program-driven use of this software is limited to a maximum of one hit 
every 15 seconds and no more than 5,000 hits per day."

One feature of Gene Sorter that you may find useful is the filter. Using 
this you can upload a gene list to which you would like sorting 
restricted. The default is currently that if you search for a gene, 
then sorting is done based on all the genes for the assembly that you 
chose. To use the filter, click on the filter button on the Gene Sorter
page and there you can list genes or upload a list.

I hope that this helps you. Please let us know if you have further 
questions.

Rachel

  On Tue, 3 Oct 2006, Vinayak 
Kulkarni wrote:

> Hi,
> I have a list of genes (Refseq Accession Numbers) which I need to sort into
> biologically similar catagories. I believe Human Gene Sorter does exactly
> that if you use the GO similarity option. Please could you let me know if
> this the correct approach?
> However it allows only one gene at a time so how can I upload a list of
> genes and find say top 10 closest ones for each one of them?
> Thanks for all your help,
> Vinayak.
> Graduate Student,
> U.T Southwestern Medical Center at Dallas.
>
>
>

-- 
Rachel Harte
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu