[DAS2] question regarding most up-to-date D. melanogaster DAS?
aloraine at gmail.com
Mon Apr 17 17:47:03 UTC 2006
I'm not sure it would be worth adding more work to the project to
allow for these cases. If funding is renewed, then I think it would be
worth the effort. But for now, probably not, since it would be a new
feature. (At this stage, avoiding feature creep seems advisable :-)
I believe I can get a mapping of cytological bands onto genomic
coordinates from FlyBase. I don't know how reliable these mappings
are, but assuming they are okay, I can use them to query a fly DAS
site to get the genes in those coordinates. I'm not sure what is the
best DAS site to use for this, however.
On 4/17/06, Andrew Dalke <dalke at dalkescientific.com> wrote:
> > Our markers (for influential loci in the study) are mapped to
> > cytological bands. Is it possible to run region-based queries using
> > cytological coordinates? (e.g., 30A - 30B, inclusive) My goal is to
> > find all candidate genes under those peaks.
> At present there is no way to do that.
> A server can extend the query syntax to support searches in
> cytological coordinates and add new feature elements to store
> those coordinates. I don't know enough about how people use
> those coordinates to sketch an example.
> dalke at dalkescientific.com
> DAS2 mailing list
> DAS2 at lists.open-bio.org
Section on Statistical Genetics
University of Alabama at Birmingham
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