<html><head><meta http-equiv="Content-Type" content="text/html charset=windows-1252"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Laurent,<div class=""><br class=""></div><div class="">Thanks for the quick response and fix .. smile.</div><div class=""><br class=""></div><div class="">Best,</div><div class=""><br class=""></div><div class="">Andrew</div><div class=""><br class=""></div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On Jan 5, 2017, at 6:42 AM, Laurent Gil <<a href="mailto:lgil@ebi.ac.uk" class="">lgil@ebi.ac.uk</a>> wrote:</div><br class="Apple-interchange-newline"><div class="">
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<div bgcolor="#FFFFFF" text="#000000" class=""><p class="">Dear Andrew,</p>
This is due to an issue with our import script which missed this
NHGRI-EBI GWAS catalog result.<br class="">
Thank you for spotting it!<br class="">
<br class="">
We just fixed the script and the NHGRI-EBI GWAS catalog data for the
variant rs1019670 will be in the next Ensembl release (version 88,
planned in March), under the newest dbSNP ID "rs7232
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".<br class="">
<br class="">
Best regards,<br class="">
<pre class="moz-signature" cols="72">Laurent
Ensembl Variation
</pre>
<div class="moz-cite-prefix">On 04/01/2017 21:27, <a class="moz-txt-link-abbreviated" href="mailto:andrew126@mac.com">andrew126@mac.com</a>
wrote:<br class="">
</div>
<blockquote cite="mid:BB3B6F0E-5781-426C-AAF8-43C92891ECCC@mac.com" type="cite" class="">
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Hi,
<div class=""><br class="">
</div>
<div class="">I am using Ensembl API v86, but this appears to be a
more general question.</div>
<div class=""><br class="">
</div>
<div class="">The NHGRI GWAS catalog lists a result for rs1019670
(a result which was added to their catalog 2014-03-14):</div>
<div class=""><br class="">
</div>
<div class=""><a moz-do-not-send="true" href="https://www.ebi.ac.uk/gwas/search?query=rs1019670" class="">https://www.ebi.ac.uk/gwas/search?query=rs1019670</a></div>
<div class=""><br class="">
</div>
<div class="">However, neither this result nor the variant is
found at <a moz-do-not-send="true" href="http://ensembl.org/" class="">ensembl.org</a>. A search of <a moz-do-not-send="true" href="http://ensembl.org/" class="">ensembl.org</a> for
rs1019670 returns rs7232:</div>
<div class=""><br class="">
</div>
<div class=""><a moz-do-not-send="true" href="http://useast.ensembl.org/Homo_sapiens/Variation/Explore?r=11:60172626-60173626;v=rs7232;vdb=variation;vf=6894" class="">http://useast.ensembl.org/Homo_sapiens/Variation/Explore?r=11:60172626-60173626;v=rs7232;vdb=variation;vf=6894</a></div>
<div class=""><br class="">
</div>
<div class="">rs1019670 is listed as an “archive dbDNP” entry for
rs7232; however, no phenotype data appear curated for rs7232 at
<a moz-do-not-send="true" href="http://ensembl.org/" class="">ensembl.org</a>.</div>
<div class=""><br class="">
</div>
<div class="">Does the superceding of rs1019670 by rs7232 explain
why the GWAS-catalog result is not found in Ensembl? Is there
any way that such results could be mapped instead of left out?</div>
<div class=""><br class="">
</div>
<div class="">Thanks for any information.</div>
<div class=""><br class="">
</div>
<div class="">Best regards,</div>
<div class=""><br class="">
</div>
<div class="">Andrew</div>
<div class=""><br class="">
</div>
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</div>
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</pre>
</blockquote>
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