[Bioperl-l] Re: Comparative genomics - regions of synteny and whole genome duplication
Wed, 03 Oct 2001 14:27:17 +0200
Elia Stupka wrote:
> Some points in reply to Lukasz:
>>blocks of synteny are best defined by clusters of orthologue genes on
> This is the strategy that I had outlined, which leaves us with the major
> question of assigning orthologues. Once orthologues are assigned
> correctly, one cand do "alignments" of chromosomes, as if they were
> sequences with similarities.
Well, do you actually need to define orthologues to do this? Doesn't the fact
that you have a sufficient number of highly homologous linked genes in the
same (or similar) order strongly point to the interpretation that they are
orthologues (at least if you're doing a cross-species comparison)?
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