[Bioperl-l] Re: Comparative genomics - regions of synteny and whole genome duplication

[Jim Kent]

You could get some clustering from large scale duplication
events before the species split.  Consider the 4 vertebrate
hox clusters.

+++++++++++++++++++++++++++++++++++++++++++++++
Jim Kent.  Zahler Lab.  University of California at Santa Cruz
http://www.cse.ucsc.edu/~kent/

----- Original Message -----
From: "Richard Copley" <copley@embl-heidelberg.de>
To: "Elia Stupka" <elia@ebi.ac.uk>
Cc: "Lukasz Huminiecki" <lucash@ebi.ac.uk>; "ensdev" <ensembl-dev@ebi.ac.uk>; "Bioperl"
<bioperl-l@bioperl.org>; "Fugu Project mailing list" <fugu_project@fugu-sg.org>
Sent: Wednesday, October 03, 2001 6:35 AM
Subject: Re: Comparative genomics - regions of synteny and whole genome duplication


>
> >>From all the discussions we have been having until now it seems that it is
> > not enough, i.e. blast hit with high perc_id != orthologue :)
>
>
> But say you get 10 consecutive genes in genome A, which have high blast
> scores to 10 consecutive genes in genome B, then I guess they would be
> orthologues providing the 'high blast score' was high enough. Are there
> adaptive reasons that would cause paralogues to cluster in that way in
> vertebrates? I don't think so, but would welcome pointers to the contrary.
>
>
> --
>   Richard Copley
>   EMBL
>   Meyerhofstr.1
>   69012 Heidelberg
>   Germany
>   Tel: +49 6221 387 534
>   FAX: +49 6221 387 517
>
>
>