C. elegans assembly version

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Peter Frommolt

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Sep 12, 2014, 9:23:23 AM9/12/14

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Dear UCSC genome team,

I am wondering why the UCSC Genome Browser main sites still use the C.
elegans assembly WS220/ce10 which dates back to 2010 - are there any
plans to update the browser to the newer WBcel235?

Best wishes,

--
Dr. Peter Frommolt, Dipl.-Math.
Bioinformatics Core Facility

CECAD Cologne - Excellent in Aging Research
Joseph-Stelzmann-Str. 26, 50931 Köln, Germany
Phone +49 221 478 96815
http://www.cecad.uni-koeln.de/

Luvina Guruvadoo

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Sep 12, 2014, 5:46:01 PM9/12/14

to Peter Frommolt, gen...@soe.ucsc.edu

Hello Peter,

Our funding mandates that we focus on vertebrate genomes, so we have been unable to pursue an update to C. elegans. You are welcome to create an assembly hub, however, as noted in this mailing list question: https://groups.google.com/a/soe.ucsc.edu/d/topic/genome/eZ_wBLH66I0/discussion. Assembly hubs are a tool we developed to allow users to display their own genome assemblies and accompanying annotation in the UCSC Genome Browser.

For more information on creating assembly hubs, please review the track hub help pages at http://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html and the assembly hubs wiki page at http://genomewiki.ucsc.edu/index.php/Assembly_Hubs.

If you have any further questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived on a publicly-accessible forum. If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.

- - -
Luvina Guruvadoo
UCSC Genome Bioinformatics Group