[Genome] Recombination rate and exon conservation

[Isabelle Dupanloup]

Hi there,

I have 2 questions regarding the use of data made available by the UCSC
Genome Bioinformatics group.

1) I'm interested in getting recombination rates, for the human genome,
along the different chromosomes. I saw that you made available different
tables in the Download section of the UCSC genome website. And here is
my question. What are the differences between these tables:
- hapmapRecombRate.txt.gz
- snpRecombRateHapmap.txt.gz ?
These 2 tables contain essentially the same info but the coordinates of
the genomic segments are slightly different, as well as the line
numbers. Do you have an explanation for that ?

2) I would like to know something about exons conservation in vertebrate
species. What I need to do is to check if an exon of a gene in the human
genome is present also in the genome of chimp, macaque, mouse, rat,
chicken etc. (and do that for a lot of human exons). I know that you
make available different kind of genomic alignments for different sets
of species. But do you make available somewhere a table listing the
presence of human exons in different vertebrate species' genome ? If it
is not the case, do you have an advice for the best table I need to
download to get what I need ?

Thank you very much for your help.

Isabelle

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Isabelle Dupanloup PhD
Computational and Molecular Population Genetics Group Baltzerstrasse 6
3012 Bern Switzerland
Tel: +41 31 631 45 49
Fax: +41 31 631 48 88