[Arthropod] question about DroSpeGe
(by gilbertd from cricket.bio.indiana.edu)
Thu Sep 9 21:23:43 EST 2010
You are refering to my work done 4 years back on this document
for the 12 drosophila genomes project. I am not now updating DroSpeGe
data, as the genomes have been published for a while and are in
others' hands for work. It may be that I will update parts in the
future for DroSpeGe if someone has a good idea and wants my collaboration.
For instance, find there recent work of mine with Rnaseq used for
gene prediction with Dros. data from the modEncode project.
For the synteny maps at above, "large scale" means syntenic regions
big enough to see on those tiny image maps, for 20Mb - 30Mb chromosomes,
so these are on the order of 500Kb - 1Mb (i.e. not microsynteny).
The software I used is linked on the above page, as is the data
(basic blast between species chromosome assemblies).
I don't know what versions of Drosophila the UCSC genome project has now,
but they make cross-species sequence conservation tables available.
- Don Gilbert
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