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<div>Hi Marcela</div>
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<div>Thanks! So, it sounds like that Gramene release is the complete one (I.e., merged from two independent resources). </div>
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<div>Cheers,</div>
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<div>Qunfeng</div>
<div>-- </div>
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<div>Qunfeng Dong, Ph.D.</div>
<div>Assistant Professor</div>
<div>Department of Biological Sciences</div>
<div>Department of Computer Science and Engineering</div>
<div>Life Science Complex A358 (office), A440 (lab)</div>
<div>University of North Texas</div>
<div>1155 Union Circle, #305220</div>
<div>Denton, TX 76203-5017</div>
<div>Phone: 940-565-3598 (office), 940-369-5194 (lab)</div>
<div><a href="http://www.biol.unt.edu/~dongq/" style="color: purple; ">http://www.biol.unt.edu/~dongq/</a></div>
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<span style="font-weight:bold">From: </span>"Marcela K. Monaco" <<a href="mailto:mmonaco@cshl.edu">mmonaco@cshl.edu</a>><br>
<span style="font-weight:bold">Date: </span>Tuesday, March 4, 2014 4:33 PM<br>
<span style="font-weight:bold">To: </span>Name <<a href="mailto:qunfeng.dong@unt.edu">qunfeng.dong@unt.edu</a>><br>
<span style="font-weight:bold">Cc: </span>"<a href="mailto:feedback@gramene.org">feedback@gramene.org</a>" <<a href="mailto:feedback@gramene.org">feedback@gramene.org</a>><br>
<span style="font-weight:bold">Subject: </span>Re: [Feedback] [Website feedback] Is Gramene in charge of the rice genome annotation?<br>
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<div>Hi Qunfeng,<br>
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Thanks for the generous compliments :) <br>
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As I understand, traditionally there have been 2 parallel assemblies for <i>Oryza sativa japonica</i>, one by MSU (see
<a href="http://rice.plantbiology.msu.edu/">http://rice.plantbiology.msu.edu/</a>) and one by RAP-DB (IRGSP, see
<a href="http://rapdb.dna.affrc.go.jp/">http://rapdb.dna.affrc.go.jp/</a>). <br>
Gramene released the first merged version of both of these assemblies which was generated by scientists of both of the above entities, and adopted primarily the gene annotations of the IRGSP group. However, we also provide the MSU7 gene models in a separate
browser track. For more details on this, see the annotation section in <a href="http://ensembl.gramene.org/Oryza_sativa/Info/Annotation/#assembly">
http://ensembl.gramene.org/Oryza_sativa/Info/Annotation/#assembly</a><br>
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Marcela<br>
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<div class="gmail_extra">PS: RAP-DB provide a gene conversion table at <a href="http://rapdb.dna.affrc.go.jp/download/archive/RAP-MSU.txt.gz" target="_blank">
http://<span class="">rapdb</span>.dna.affrc.go.jp/download/archive/<span class="">RAP</span>-MSU.txt.gz</a><br>
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<div><span style="border-collapse: collapse; color: rgb(34, 34, 34); font-family: arial, sans-serif; font-size: 13px; "><font size="1">==<br>
Marcela Karey Monaco, PhD</font> <font size="1"><br>
Gramene Project Coordinator<br>
Cold Spring Harbor Laboratory<br>
One Bungtown Road, Williams #5<br>
Cold Spring Harbor, NY 11724<br>
</font></span><span style="border-collapse: collapse; color: rgb(34, 34, 34); font-family: arial, sans-serif; font-size: 13px; "><font size="1">Phone: <a value="+15163676998" style="color:rgb(17,85,204)"><span>516</span>-<span>367</span>-<span><span style="background-image:initial;background-color:rgb(255,255,204);color:rgb(34,34,34)"><span><font size="1">8808</font></span></span></span></a><a value="+15163676998" style="color:rgb(17,85,204)"><span></span></a><br>
Fax: <a value="+15163676851" style="color:rgb(17,85,204)"><span>516</span>-<span>367</span>-6851</a></font></span></div>
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<div class="gmail_quote">On Tue, Mar 4, 2014 at 5:02 PM, <a href="mailto:qunfeng.dong@unt.edu">
qunfeng.dong@unt.edu</a> <span dir="ltr"><<a href="mailto:qunfeng.dong@unt.edu" target="_blank">qunfeng.dong@unt.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
Qunfeng Dong (<a href="mailto:qunfeng.dong@unt.edu">qunfeng.dong@unt.edu</a>) sent a message using the contact form at<br>
<a href="http://www.gramene.org/contact" target="_blank">http://www.gramene.org/contact</a>.<br>
<br>
Dear Gramene team:<br>
<br>
I am always impressed by your excellent work. Please do pardon my ignorance<br>
question, since it is difficult to track who is doing what these days. My<br>
question is whether Gramene is charge of the rice genome annotations? I know<br>
that Gramene is doing maize for sure, but can I trust that the rice genome<br>
annotation downloaded from Gramene is the latest official release for the<br>
community? Or Gramene just "imported" the rice annotation from somebody else?<br>
<br>
Thanks<br>
<br>
Qunfeng<br>
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