[BiO BB] how to find gene neighbours

[Pankaj]

Thankx Govind!

I have gi numbers of homologous proteins from different organisms (some of
which may be sequenced and some may not be....i dont know!). I want to know
how to find gene neighbours and then automate the script to find gene
neighbours for all the gi numbers that I have. 

Pankaj Khurana

--
Open WebMail Project (http://openwebmail.org)


---------- Original Message -----------
From: govind mk <mkgovindis at yahoo.com>
To: idoerg at burnham.org, "The general forum at Bioinformatics.Org"
<bio_bulletin_board at bioinformatics.org>
Sent: Wed, 1 Feb 2006 18:46:31 -0800 (PST)
Subject: Re: [BiO BB] how to find gene neighbours

> I think NCBI's map viewer can elp you find neighbouring genes 
> .....   Are u looking for an algorithm or just want to map you genes 
> on to genomes and identify their neighbours
>    
>   -Govind
>   
> 
> Iddo Friedberg <idoerg at gmail.com> wrote:
>   Generally, you can do that by going to the genomic database of 
> choice for your particular organism. As you have not mentioned which 
> organism those genes are form, it is rather hard to make a 
> recommendation. Ensembl, www.fruitfly.org, yeastgenome.org are 
> examples of such databases for Eukaryotic models.
> 
> A list for bacterial projects is available from :
> 
> http://www.pasteur.fr/recherche/unites/tcruzi/minoprio/genomics/bacteria.htm
> 
> HTH,
> 
> Iddo
> 
> Pankaj wrote:
> 
> >Hi Everybody,
> >I have a few gi numbers. I want to find the their neighbouring genes. How can
> >I do that?
> >
> >Thanking all in advance
> >
> >Pankaj Khurana
> >
> >
> >--
> >Open WebMail Project (http://openwebmail.org)
> >
> >_______________________________________________
> >Bioinformatics.Org general forum - BiO_Bulletin_Board at bioinformatics.org
> >https://bioinformatics.org/mailman/listinfo/bio_bulletin_board
> >
> >
> > 
> >
> 
> -- 
> Iddo Friedberg, Ph.D.
> Burnham Institute for Medical Reseach
> 10901 N. Torrey Pines Rd.
> La Jolla, CA 92037 USA
> Tel: +1 (858) 646 3100 x3516
> Fax: +1 (858) 713 9949
> http://iddo-friedberg.org
> http://BioFunctionPrediction.org
> 
> _______________________________________________
> Bioinformatics.Org general forum - BiO_Bulletin_Board at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bio_bulletin_board
>   
> 
> __________________________________________________
> Do You Yahoo!?
> Tired of spam?  Yahoo! Mail has the best spam protection around 
> http://mail.yahoo.com
------- End of Original Message -------