From denise at ebi.ac.uk Tue Jan 13 17:08:27 2015 From: denise at ebi.ac.uk (Denise Carvalho-Silva) Date: Tue, 13 Jan 2015 17:08:27 -0000 Subject: [ensembl-announce] Ensembl Genomes release 25 is out Message-ID: <6127a0e05d8bce7e7ddd8dd495594f02.squirrel@webmail.ebi.ac.uk> Dear all, We have just released the latest update of Ensembl Genomes. The highlights of our new release are * New fruitfly assembly BDGP6 * New bread?wheat assembly, including the BAC assembly of chromosome 3B * New variation datasets for barley * New assemblies and gene annotation?for two plant pathogens * Sequences from RNAcentral against selected genomes Variation data in barley We?ve added three new variation datasets for Hordeum vulgare: *Five?million variant calls from POPSEQ of cv. Morex x cv. Barke progeny *Over?six million variant calls from POPSEQ of Oregon Wolfe barley *Over 7k?SNP assays from the iSelect chip Non-coding RNA sequences from RNAcentral * Following the launch of the new ncRNA sequence resource RNAcentral, we now show alignments of non-coding sequences against selected genomes. Look for the ?RNAcentral sequences? track in the ?Region in detail? view and?turn the?data track on. New genomes * Additional 1,939 completely sequenced and annotated bacterial genomes from INSDC Other news * Update to Ensembl 78 software * Updated pan-taxonomic compara database A complete list of the changes can be found on the Ensembl Genomes website. Get in touch if you have any questions or comments. Best wishes, The Ensembl Genomes team From dstaines at ebi.ac.uk Tue Jan 27 12:30:07 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Tue, 27 Jan 2015 12:30:07 +0000 Subject: [ensembl-announce] Ensembl Genomes downtime Message-ID: <54C784CF.6030209@ebi.ac.uk> All Ensembl Genomes web browsers will be unavailable for approximately 30 minutes at 10:00 GMT on Monday 3rd February 2015, to allow migration to new hardware. In addition, the sequence search will be unavailable between 9.30 and 12.30 that same day. We apologise for any inconvenience caused. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ From dstaines at ebi.ac.uk Tue Jan 27 12:32:55 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Tue, 27 Jan 2015 12:32:55 +0000 Subject: [ensembl-announce] Ensembl Genomes downtime In-Reply-To: <54C784CF.6030209@ebi.ac.uk> References: <54C784CF.6030209@ebi.ac.uk> Message-ID: <54C78577.4050102@ebi.ac.uk> On 01/27/2015 12:30 PM, Dan Staines wrote: > All Ensembl Genomes web browsers will be unavailable for approximately > 30 minutes at 10:00 GMT on Monday 3rd February 2015, to allow migration > to new hardware. In addition, the sequence search will be unavailable > between 9.30 and 12.30 that same day. We apologise for any inconvenience > caused. > Correction: the date for this downtime is Tuesday 3rd February. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ From dstaines at ebi.ac.uk Wed Jan 28 14:01:47 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Wed, 28 Jan 2015 14:01:47 +0000 Subject: [ensembl-announce] Ensembl Genomes MySQL server downtime Message-ID: <54C8EBCB.8020508@ebi.ac.uk> Our public server (mysql-eg-publicsql.ebi.ac.uk) will be unavailable due to essential maintenance on Friday 30th January 2015 between 10 and 11 GMT. Other services will be unaffected. Regards, Dan. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ From denise at ebi.ac.uk Tue Jan 13 17:08:27 2015 From: denise at ebi.ac.uk (Denise Carvalho-Silva) Date: Tue, 13 Jan 2015 17:08:27 -0000 Subject: [ensembl-announce] Ensembl Genomes release 25 is out Message-ID: <6127a0e05d8bce7e7ddd8dd495594f02.squirrel@webmail.ebi.ac.uk> Dear all, We have just released the latest update of Ensembl Genomes. The highlights of our new release are * New fruitfly assembly BDGP6 * New bread?wheat assembly, including the BAC assembly of chromosome 3B * New variation datasets for barley * New assemblies and gene annotation?for two plant pathogens * Sequences from RNAcentral against selected genomes Variation data in barley We?ve added three new variation datasets for Hordeum vulgare: *Five?million variant calls from POPSEQ of cv. Morex x cv. Barke progeny *Over?six million variant calls from POPSEQ of Oregon Wolfe barley *Over 7k?SNP assays from the iSelect chip Non-coding RNA sequences from RNAcentral * Following the launch of the new ncRNA sequence resource RNAcentral, we now show alignments of non-coding sequences against selected genomes. Look for the ?RNAcentral sequences? track in the ?Region in detail? view and?turn the?data track on. New genomes * Additional 1,939 completely sequenced and annotated bacterial genomes from INSDC Other news * Update to Ensembl 78 software * Updated pan-taxonomic compara database A complete list of the changes can be found on the Ensembl Genomes website. Get in touch if you have any questions or comments. Best wishes, The Ensembl Genomes team From dstaines at ebi.ac.uk Tue Jan 27 12:30:07 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Tue, 27 Jan 2015 12:30:07 +0000 Subject: [ensembl-announce] Ensembl Genomes downtime Message-ID: <54C784CF.6030209@ebi.ac.uk> All Ensembl Genomes web browsers will be unavailable for approximately 30 minutes at 10:00 GMT on Monday 3rd February 2015, to allow migration to new hardware. In addition, the sequence search will be unavailable between 9.30 and 12.30 that same day. We apologise for any inconvenience caused. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ From dstaines at ebi.ac.uk Tue Jan 27 12:32:55 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Tue, 27 Jan 2015 12:32:55 +0000 Subject: [ensembl-announce] Ensembl Genomes downtime In-Reply-To: <54C784CF.6030209@ebi.ac.uk> References: <54C784CF.6030209@ebi.ac.uk> Message-ID: <54C78577.4050102@ebi.ac.uk> On 01/27/2015 12:30 PM, Dan Staines wrote: > All Ensembl Genomes web browsers will be unavailable for approximately > 30 minutes at 10:00 GMT on Monday 3rd February 2015, to allow migration > to new hardware. In addition, the sequence search will be unavailable > between 9.30 and 12.30 that same day. We apologise for any inconvenience > caused. > Correction: the date for this downtime is Tuesday 3rd February. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ From dstaines at ebi.ac.uk Wed Jan 28 14:01:47 2015 From: dstaines at ebi.ac.uk (Dan Staines) Date: Wed, 28 Jan 2015 14:01:47 +0000 Subject: [ensembl-announce] Ensembl Genomes MySQL server downtime Message-ID: <54C8EBCB.8020508@ebi.ac.uk> Our public server (mysql-eg-publicsql.ebi.ac.uk) will be unavailable due to essential maintenance on Friday 30th January 2015 between 10 and 11 GMT. Other services will be unaffected. Regards, Dan. -- Dan Staines, PhD Ensembl Genomes Technical Coordinator EMBL-EBI Tel: +44-(0)1223-492507 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/