<div dir="ltr">Dear Shelly,<div><br></div><div><div dir="ltr" style="font-size:13px">Sorry, I missed to enter the barley genome as update in our previous release 43 and have just corrected the Genomes table in <a href="http://gramene.org/release-notes-43">http://gramene.org/release-notes-43</a></div><div dir="ltr" style="font-size:13px"><br></div><div dir="ltr" style="font-size:13px">We has been recommended to us to advise users to stick to the contig coordinates, and only project to chromosomal coordinates when absolutely necessary.</div><div dir="ltr" style="font-size:13px"><br></div><div style="font-size:13px">Thank you,</div><div style="font-size:13px"><br></div><div style="font-size:13px">Marcela</div><div class="" style="font-size:13px"></div></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Feb 3, 2015 at 2:46 AM, Shelly Hen Avivi <span dir="ltr"><<a href="mailto:shelly.hen-avivi@weizmann.ac.il" target="_blank">shelly.hen-avivi@weizmann.ac.il</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Dear Marcela,<br>
<br>
Thanks for your answer.<br>
I looked at the links you sent me, I don't see any genome update (I hope I do not miss anything). So- I still don't understand- if no update was done to the barley genome, how the genomic region now looks totally different? The genes are localized in very different locations from what used to be until recently. I just want to verify that this is on purpose and not a problem in the browser...<br>
<br>
Thanks, Shelly<br>
<br>
~~~<br>
Shelly Hen- Avivi<br>
Asaph Aharoni’s Lab<br>
Dept. of Plant Sciences<br>
Weizmann Institute of Science<br>
Rehovot 76100<br>
Israel<br>
<a href="tel:%2B972-8934-2275" value="+97289342275">+972-8934-2275</a><br>
________________________________<br>
From: <a href="mailto:mkmonaco.cshl@gmail.com">mkmonaco.cshl@gmail.com</a> [<a href="mailto:mkmonaco.cshl@gmail.com">mkmonaco.cshl@gmail.com</a>] on behalf of Marcela K. Monaco [<a href="mailto:mmonaco@cshl.edu">mmonaco@cshl.edu</a>]<br>
Sent: Monday, February 02, 2015 6:53 PM<br>
To: Shelly Hen Avivi; <a href="mailto:feedback@gramene.org">feedback@gramene.org</a><br>
Subject: Re: [Feedback] Site Feedback: new barley 2H assembly<br>
<span class=""><br>
Dear Shelly,<br>
<br>
The last update performed on barley was the addition of the chloroplast genomes around Sept 2014, see <a href="http://www.gramene.org/release-notes-42" target="_blank">http://www.gramene.org/release-notes-42</a>.<br>
<br>
All the information that we have about the assembly and gene annotations for barley is available in the barley webpage, see <a href="http://ensembl.gramene.org/Hordeum_vulgare/Info/Annotation/#assembly" target="_blank">http://ensembl.gramene.org/Hordeum_vulgare/Info/Annotation/#assembly</a> (you get here by clicking on "More information and statistics" from <a href="http://ensembl.gramene.org/Hordeum_vulgare" target="_blank">http://ensembl.gramene.org/Hordeum_vulgare</a>).<br>
<br>
Thanks,<br>
<br>
Marcela<br>
<br>
</span><span class="">On Sun, Feb 1, 2015 at 5:28 AM, <a href="mailto:feedback@gramene.org">feedback@gramene.org</a><mailto:<a href="mailto:feedback@gramene.org">feedback@gramene.org</a>> <<a href="mailto:feedback@gramene.org">feedback@gramene.org</a><mailto:<a href="mailto:feedback@gramene.org">feedback@gramene.org</a>>> wrote:<br>
URL : <a href="http://www.gramene.org/node/323" target="_blank">http://www.gramene.org/node/323</a><br>
<br>
Subject : Site Feedback: new barley 2H assembly<br>
<br>
Name : Shelly Hen- Avivi<br>
<br>
</span>Email : <a href="mailto:shellyha@weizmann.ac.il">shellyha@weizmann.ac.il</a><mailto:<a href="mailto:shellyha@weizmann.ac.il">shellyha@weizmann.ac.il</a>><br>
<span class=""><br>
Organization: Weizmann institute of science<br>
<br>
Comments :<br>
<br>
Hello,<br>
<br>
I find my barley genes of interest in a very different genomic region comparing to what I found previously. The genes are located in 2H chromosome.<br>
Have you updates the 2H assembly? Was is dramatically changed? Is the new assembly more reliable?<br>
<br>
Many thanks<br>
Shelly<br>
<br>
<a href="http://www.warelab.org/bugs/view.php?id=5112" target="_blank">http://www.warelab.org/bugs/view.php?id=5112</a><br>
<br>
<br>
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</blockquote></div><br></div>