[Genome] custom track submission

[Heather Trumbower]

Hi Kendy, good to hear from you.   Thanks very much for offering 
additional data.   Any of the options you describe below should work fine, 
it's really your preference.   The only other possibility to consider 
would be to change your color format to match our Structural Variation 
track.  Note we now have that track for both hg17 and hg18.   Lars Feuk 
from Steve Scherer's group did the work to move the data to hg18, I'm sure he 
would like to have your data included as well.

You can send files directly to me.

Heather Trumbower
UCSC Genome Bioinformatics Group


On Tue, 5 Jun 2007, Kendy Wong wrote:

> Hi,
>
> We have previously submitted a custom track of copy-number variants (see
> below) which is now publicly available at the UCSC goldenPath
> customTracks site.
>
> Copy-Number Variants
> <http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg17&hgt.customText=http://g
> enome-test.cse.ucsc.edu/goldenPath/customTracks/hg17/wong.bed>  (hg17)
> accompanying the paper Wong, K. et al. A Comprehensive Analysis of
> Common Copy-Number Variations in the Human Genome
> <http://www.journals.uchicago.edu/AJHG/journal/issues/v80n1/44048/brief/
> 44048.abstract.html> . American Journal of Human Genetics 80:91-104
> (2007).
>
> We would like to include all the BAC clones on our array as well.
> Please let us know which will be a better approach:
>
> 1) Submit the whole array as a separate custom track and modify
> the CNV track's description to alert users that both tracks can be
> loaded simultaneously if desired.
>
> 2) Amend the current CNV track to include the remaining BAC clones
> from the array and color code these differently from the CNV clones.
> (If this is the choice, should we submit just the remaining clones or
> combine the two and resubmit a modified CNV track?)
>
> 3) Or other suggestion?
>
> Thanks,
>
> Kendy
>
>
> _______________________________
>
> Kendy Wong, PhD
> Post-doctoral fellow
> Cancer Genetics & Developmental Biology
> BC Cancer Research Centre
> Vancouver, B.C.
> V5Z 1L3 Canada
> 604-675-8000 x7701
> kwong at bccrc.ca
>
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