[ensembl-dev] different between eGenetics and GNF/Atlas

[qiongfen0 at gmail.com]

Dear Thomas,
Thanks for your reply, it has help me so much. 
Now, I have another confused, I hope you can help me understand this. 
I am using ensembl-tools-release-77 now, when I use VEP to annotate the variants in mitochondria, some has the result of HGVSp but not have HGVSc (like the follow printscreen), it may be quiet strange. Then I use the VEP online  to try again, but it has no result of HGVSc and HGVSp. I wonder what make this result appear.
    
       
Hope to hear form you.

Yours sincerely,
Lin

From: Thomas Maurel
Date: 2016-06-28 17:30
To: Ensembl developers list
Subject: Re: [ensembl-dev] different between eGenetics and GNF/Atlas
Dear Lin,

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:

GNF/Atlas data came to us via the Gene Expression Atlas project at EMBL-EBI.

http://www.ebi.ac.uk/gxa/

The GNF/Atlas data was published by the Genomics Institute of the Novartis Research Foundation:
 
http://www.gnf.org/technology/organismal/gene-expression-core.htm
 
The eGenetics database uses Expressed Sequence Tags (ESTs) annotated with eVOC ontology terms by SANBI (South African National Bioinformatics Institute). More information below.

http://www.ncbi.nlm.nih.gov/pubmed/12799354
http://www.sanbi.ac.za/

Hope this helps,
Best Regards,
Thomas
On 28 Jun 2016, at 03:04, qiongfen0 at gmail.com wrote:

Dear Sirs,
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?
I am looking forward to hearing from you.

Yours sincerely,
Lin

Qiongfen Lin
South China Normal University
TEL: +8615118845463| Mail : qiongfen0 at gmail.com
 
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--
Thomas Maurel
Bioinformatician - Ensembl Production Team
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD
United Kingdom

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