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Tomato genome in GenomeBrowse

asked 2013-05-02 10:46:20 -0600

Hello Golden Helix,

Any chance you could add the public tomato genome (http://solgenomics.net) to the 'download genome' drop-down menu?

Rob

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answered 2013-05-07 17:04:10 -0600

Hi Rob,

I just wanted to let you know that I have completed the assembly file necessary to make the Tomato genome available from the drop down menu of GenomeBrowse as well as the corresponding gene track and reference sequence track for the ITAG 2.3 genome build.

Both the gene track and the reference sequence track can either be streamed from the cloud or downloaded through the Add dialog of GenomeBrowse.

When we make new species or builds available in GenomeBrowse the assembly files needed to make that build available from the drop down menu automatically get shipped with the next update release of the software. I will email you the required assembly file so you can have this build available immediately.

If you have any issues please let me know.

Thanks, Jami...

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answered 2013-05-02 16:08:57 -0600

Hi Rob,

Yes we can definitely get that genome added to GenomeBrowse! Thank you for providing the source link for the genome.

They have a couple different versions of this genome available, would you like the most recent release ITAG 2.3 (04/26/2011) or do you need one of the older versions?

I also checked what information was available on Phytozome.net for the tomato genome and they have downloads for both a gene track and reference sequence track for the ITAG 2.3 build. Phytoyzome formats their downloads in a way that works nicely with our commercial product SVS7 which we use to build annotation tracks for GenomeBrowse so it is our go to place for plant genomes.

Would you also like these annotation tracks created and made available in GenomeBrowse? If so please let me know and we can have them available by early next week.

Please let us know if you have any further questions or requests.

Thanks, Jami...

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Asked: 2013-05-02 10:46:20 -0600

Seen: 45 times

Last updated: May 07 '13