<html><head><meta http-equiv="content-type" content="text/html; charset=ISO-8859-1"><style>body { line-height: 1.5; }blockquote { margin-top: 0px; margin-bottom: 0px; margin-left: 0.5em; }div.foxdiv20160704101901414151 { word-wrap: break-word; -webkit-line-break: after-white-space; }body { font-size: 10.5pt; font-family: ????; color: rgb(0, 0, 0); line-height: 1.5; }</style></head><body>
<div><span></span>Dear <span style="font-size: 10.5pt; line-height: 1.5; background-color: window;">Thomas,</span></div><div>Thanks for your reply, it has help me so much. </div><div><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">Now, I have another confused, I hope you can help me understand this.</span> </div><div><span style="color: rgb(0, 0, 0); background-color: rgba(0, 0, 0, 0);">I am using </span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">ensembl-tools-release-77 now, when I use VEP to </span><span style="color: rgb(0, 0, 0); background-color: rgba(0, 0, 0, 0);">annotate</span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;"> the variants in </span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">mitochondria, some has the result of </span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">HGVSp but not have </span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">HGVSc (like the follow </span><span style="font-family: 'Microsoft YaHei'; font-size: 13px; line-height: normal; white-space: nowrap; widows: 1; background-color: window;">printscreen</span><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">), it may be quiet strange. Then I use the VEP online to try again, but it has no result of </span><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;">HGVSc and </span><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;">HGVSp. I wonder what make this result appear.</span></div><div><span style="color: rgb(0, 0, 0); background-color: rgba(0, 0, 0, 0);"> </span><img src="cid:_Foxmail.1@bcc0fd22-6411-bcc3-72a3-d3aa1ac56a54" border="0" style="font-size: 10.5pt; line-height: 1.5; background-color: window;"></div><div><span style="color: rgb(0, 0, 0); background-color: rgba(0, 0, 0, 0);"> </span><img src="cid:_Foxmail.1@68eb01de-1e4e-7e63-83ba-455f603d2f17" border="0" style="font-size: 10.5pt; line-height: 1.5; background-color: window;"><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;"> </span></div><div><span style="background-color: rgba(0, 0, 0, 0); font-size: 10.5pt; line-height: 1.5;">Hope to hear form you.</span></div><div><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;"><br></span></div><div><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;">Yours sincerely,</span></div><div><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;">Lin</span></div><br><blockquote style="margin-top: 0px; margin-bottom: 0px; margin-left: 0.5em;"><div style="border:none;border-top:solid #B5C4DF 1.0pt;padding:3.0pt 0cm 0cm 0cm"><div style="PADDING-RIGHT: 8px; PADDING-LEFT: 8px; FONT-SIZE: 12px;FONT-FAMILY:tahoma;COLOR:#000000; BACKGROUND: #efefef; PADDING-BOTTOM: 8px; PADDING-TOP: 8px"><div><b>From:</b> <a href="mailto:maurel@ebi.ac.uk">Thomas Maurel</a></div><div><b>Date:</b> 2016-06-28 17:30</div><div><b>To:</b> <a href="mailto:dev@ensembl.org">Ensembl developers list</a></div><div><b>Subject:</b> Re: [ensembl-dev] different between eGenetics and GNF/Atlas</div></div></div><div><div class="FoxDiv20160704101901414151">Dear Lin,<div class=""><br class=""></div><div class="">I am afraid that this data was retired in Ensembl release 76. These might not match as the data is coming from two different sources:</div><div class=""><br class=""></div><span class="">GNF/Atlas data came to us via the Gene Expression Atlas project at EMBL-EBI.<br class=""><br class=""></span><a href="http://www.ebi.ac.uk/gxa/" class="">http://www.ebi.ac.uk/gxa/</a><span class=""><br class=""><br class="">The GNF/Atlas data was published by the Genomics Institute of the Novartis Research Foundation:<br class=""> <br class=""></span><a href="http://www.gnf.org/technology/organismal/gene-expression-core.htm" class="">http://www.gnf.org/technology/organismal/gene-expression-core.htm</a><span class=""><br class=""> <br class="">The eGenetics database uses Expressed Sequence Tags (ESTs) annotated with eVOC ontology terms by SANBI (South African National Bioinformatics Institute). More information below.<br class=""><br class=""></span><a href="http://www.ncbi.nlm.nih.gov/pubmed/12799354" class="">http://www.ncbi.nlm.nih.gov/pubmed/12799354<br class=""></a><a href="http://www.sanbi.ac.za/" class="">http://www.sanbi.ac.za/</a><div class=""><span class=""><br class=""></span></div><div class=""><span class="">Hope this helps,</span></div><div class=""><span class="">Best Regards,</span></div><div class=""><span class="">Thomas<br class=""><blockquote type="cite" class="" style="margin-top: 0px;">On 28 Jun 2016, at 03:04, <a href="mailto:qiongfen0@gmail.com" class="">qiongfen0@gmail.com</a> wrote:<br class=""><br class="">Dear Sirs,<br class="">I'm using biomart to filter a series of genes which are specifically expressed in the brain. In biomart there are two such filters, 'eGenetics/SANBI EST anatomical system data' and 'GNF/Atlas organism part', however, the results of these two filters don't match. I searched for it at biomart help but i couldn't find anything about this. Can anybody help me to understand the difference of these two filters?<br class="">I am looking forward to hearing from you.<br class=""><br class="">Yours sincerely,<br class="">Lin<br class=""><br class="">Qiongfen Lin<br class="">South China Normal University<br class="">TEL: +8615118845463| Mail : <a href="mailto:qiongfen0@gmail.com" class="">qiongfen0@gmail.com</a><br class=""> <br class="">_______________________________________________<br class="">Dev mailing list Dev@ensembl.org<br class="">Posting guidelines and subscribe/unsubscribe info: http://lists.ensembl.org/mailman/listinfo/dev<br class="">Ensembl Blog: http://www.ensembl.info/<br class=""></blockquote><br class=""><div class="">--<br class="">Thomas Maurel<br class="">Bioinformatician - Ensembl Production Team<br class="">European Bioinformatics Institute (EMBL-EBI)<br class="">European Molecular Biology Laboratory<br class="">Wellcome Trust Genome Campus<br class="">Hinxton<br class="">Cambridge CB10 1SD<br class="">United Kingdom<br class=""></div><br class=""></span></div></div></div></blockquote>
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