RE: ctenophore genome

[Chetyrkin, Sergei]

Hi,

Recently two ctenophore genomes were published and I wonder if you could make it available (along with their annotations) at UCSC GB?

Thanks

Sergei

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Sergei Chetyrkin,
Research Assistant Professor of Medicine,
Vanderbilt University Medical Center,
Department of Medicine/Nephrology 
B-3221 Medical Center North
1161 21st Ave South,
Nashville, TN 37232
sergei.c...@vanderbilt.edu

[Brian Lee]

Dear Sergei,

Thank you for using the UCSC Genome Browser and your request to add the two new ctenophore genomes. Our grant specifies that we focus our efforts on vertebrate genomes, so we do not have the resources to add these genomes internally, but we still have a mechanism in place to make them available through external hosting and support.

Our assembly hubs feature allows any lab to create a genome browser for their assembly of choice. If you build an assembly hub for these genomes following our wiki steps, we could then add a link on our public hubs page making them available for everyone.

Here is the main wiki page to follow, accessible from the track hub's user guide page:

http://genomewiki.ucsc.edu/index.php/Assembly_Hubs

http://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html

You need a server that can host the data in publicly-accessible locations. You may want to start by building a simple hub following this quick start guide: http://genome.ucsc.edu/goldenPath/help/hubQuickStart.html

Once you have a basic hub on an existing UCSC assembly working, you can follow the wiki guide and use our existing plant assembly hub as a working example: 

http://genome-test.cse.ucsc.edu/~hiram/hubs/Plants/genomes.txt

I also highly recommend reviewing and searching our mailing list forum for real world example questions and answers about implementing assembly hubs:

https://groups.google.com/a/soe.ucsc.edu/forum/?hl=en&fromgroups#!searchin/genome/assembly$20hub

If you decided to build this assembly hub and host the data, once it is working, we can add it to our public hubs page along side other externally hosted hubs: http://genome.ucsc.edu/cgi-bin/hgHubConnect?

Thank you again for your inquiry and using the UCSC Genome Browser. 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.

All the best,

Brian Lee

UCSC Genome Bioinformatics Group

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