[ensembl-dev] Ensembl Genomes release 29 is out!

[Dmitry Kuznetsov]

Dear Denise and the Ensembl Genomes team,

 

Thanks a lot for your efforts. 

 

I tried to access the new data on MySQL database at mysql-eg-publicsql.ebi.ac.uk:4157 , but connection was repeatedly lost at the very first step. Too many connections? The server under update? 

 

Please, suggest when we may hope to access new data…

 

Thanks a lot

Dmitry Kuznetsov

+41 (21) 692-40-62

 <mailto:Dmitry.Kuznetsov at isb-sib.ch> Dmitry.Kuznetsov at isb-sib.ch

 <http://www.isb-sib.ch/> www.isb-sib.ch

https://www.isb-sib.ch/galleries/xmax-children-2013/asdfjhaskjhiuz3124kjhaskjh231487sdfjoasidfjaohj3487cskdjksh35sdjsk34921387432kj4nh123k09as8dasdfaskdfhaskdjfhksh2341kh/sib_logo.png

 

 

 

 

 

From: dev-bounces at ensembl.org [mailto:dev-bounces at ensembl.org] On Behalf Of Denise Carvalho-Silva
Sent: Friday, October 16, 2015 17:23
To: dev at ensembl.org
Subject: [ensembl-dev] Ensembl Genomes release 29 is out!

 

Dear all,

We are delighted to announce that the latest update of Ensembl Genomes has been released.

Highlights of this release include:


            • Pairwise alignments for more than 50 plant genomes including potato and tomato, cacao and grape, and several Oryza sp

            • Newly available genomes from INSDC into our ever expanding Protists and Fungi divisions

            • Cross-references of genes in Fungi and Protists to the Pathogen – Host Interaction Database (PHI-base)

            • Additional 6,806 bacterial genomes imported from ENA <http://www.ebi.ac.uk/ena> 

            • Protein domain information from InterProScan (version 5.14-53.0)

 

Genomic alignments

            New pairwise alignments have been extended to additional plant genomes and can be viewed in our browser <http://plants.ensembl.org/Solanum_tuberosum/Location/Multi?db=core;g=PGSC0003DMG400023754;r=1:80939326-80946811;r1=1:92723872-92731357:1;s1=Solanum_lycopersicum>  website. 

            The alignment text <http://plants.ensembl.org/Solanum_tuberosum/Location/Compara_Alignments?align=9420;db=core;g=PGSC0003DMG400023754;r=1:80940360-80945890>  can be downloaded in different file formats.

            Whole genome alignments can also be retrieved via our FTP or programmatically using our APIs.

 

            View the complete list of genomic alignments <http://plants.ensembl.org/compara_analyses.html>  available in this new release.

 

Marking your favourite region, gene, exon, or variant

 

            You can now mark a selected region when browsing the Ensembl Genomes websites. 

            Drag and select your favourite gene and use the pop-up window to mark it. You can also click on the gene itself to mark the location of it.

 

Other news

 

            Updated BioMart: Protists, Metazoa, Fungi and Plants        

            Updated peptide comparative genomics <http://ensemblgenomes.org/info/data/peptide_compara> 

            New assemblies and annotations for existing fungal species

            Gene families available in Protists

 

A complete list of the changes can be found on the Ensembl Genomes <http://ensemblgenomes.org/info/release-notes/29>  website.

 

Any questions or comments? Get in touch <mailto:helpdesk at ensemblgenomes.org> .

 

Best wishes,

Denise and the Ensembl Genomes team

 <https://twitter.com/ensemblgenomes> @ensemblgenomes

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ensembl.org/pipermail/dev_ensembl.org/attachments/20151016/6a9d5eec/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image003.png
Type: image/png
Size: 28431 bytes
Desc: not available
URL: <http://mail.ensembl.org/pipermail/dev_ensembl.org/attachments/20151016/6a9d5eec/attachment.png>