From ap5 at sanger.ac.uk Fri May 4 11:25:01 2012 From: ap5 at sanger.ac.uk (Anne Parker) Date: Fri, 4 May 2012 11:25:01 +0100 Subject: [ensembl-announce] Retirement of archive 53 Message-ID: <5E1FBD82-C882-44C5-92FD-217757B9BED2@sanger.ac.uk> Dear all Please be aware that archive 53 is due to be retired next week, upon the release of Ensembl 67. You can find more information on our blog: http://www.ensembl.info/blog/2012/05/04/retirement-of-archive-53-march-2009/ Thanks Anne Anne Parker Ensembl Web Production Manager www.ensembl.org From maurel at ebi.ac.uk Thu May 10 10:58:58 2012 From: maurel at ebi.ac.uk (Thomas Maurel) Date: Thu, 10 May 2012 10:58:58 +0100 Subject: [ensembl-announce] Ensembl release 67 is out! Message-ID: <556AFC61-7DA7-4962-AAB6-909D9F00A735@ebi.ac.uk> The latest Ensembl update (e!67) has been released : http://www.ensembl.org/ Here are some highlights: Human: The patches for the human genome assembly have been updated to GRCh37.p7, Human somatic variants from COSMIC have been updated to release 58 and we now provide the 1000 genomes phase 1 genotype data. New species: Nile tilapia (Oreochromis niloticus). New genomes: The assemblies for Pig and Squirrel have been updated. A complete list of the changes in release 67 can be found at http://www.ensembl.org/info/website/news.html For the latest news on the ensembl project visit our blog at http://www.ensembl.info/ The release blog post can be viewed here : http://www.ensembl.info/blog/2012/05/10/ensembl-67-has-been-released/ Best regards, Thomas Maurel -- Thomas Maurel Bioinformatician - Ensembl Production Team European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton Cambridge - CB10 1SD - UK -------------- next part -------------- An HTML attachment was scrubbed... URL: From st3 at sanger.ac.uk Tue May 15 11:18:20 2012 From: st3 at sanger.ac.uk (Stephen Trevanion) Date: Tue, 15 May 2012 11:18:20 +0100 Subject: [ensembl-announce] ensembl downtime Thur 17th May Message-ID: <4FB22D6C.1040301@sanger.ac.uk> Dear all, Due to urgent maintenance being required, all Sanger located Ensembl based websites (www.ensembl.org, pre.ensembl.org, archives and vega.sanger.ac.uk) will be unavailable for a short period on Thur, 17th May from 1300 GMT. We expect the work to be completed within the hour. Ensembl mirrors (useast.ensembl.org, uswest.ensembl.org and asia.ensembl.org) will continue to operate, but note that user logins from these will not be available during this period. Apologies for the inconvenience this may cause. Steve From st3 at sanger.ac.uk Tue May 22 16:03:36 2012 From: st3 at sanger.ac.uk (Stephen Trevanion) Date: Tue, 22 May 2012 16:03:36 +0100 Subject: [ensembl-announce] Brief interuption to Ensembl BLAST/BLAT Thur 24th May Message-ID: <4FBBAAC8.4010308@sanger.ac.uk> Dear all, BLAST and BLAT will be unavailable for a short period from 13.00 BST on Thur 24th due to some hardware maintenance being required. We expect this work to be complete within the hour. This will affect the main Ensembl site, mirror sites, Vega and Pre Ensembl. Apologies for any inconvenience caused, Regards, Steve From maurel at ebi.ac.uk Mon May 28 13:50:00 2012 From: maurel at ebi.ac.uk (Thomas Maurel) Date: Mon, 28 May 2012 13:50:00 +0100 Subject: [ensembl-announce] Declarations of intentions for Ensembl Release 68 Message-ID: <1294F98E-55A4-4E6E-9F23-4EC64F2AACF1@ebi.ac.uk> Dear all, Please find the summary of the declarations of intentions for Ensembl release 68 (scheduled for the 24th of July 2012) on our public website : admin.ensembl.org/Changelog/Summary. Note these are intentions and are not guaranteed to be in the release. Best regards, Thomas Maurel -- Thomas Maurel Bioinformatician - Ensembl Production Team European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton Cambridge - CB10 1SD - UK -------------- next part -------------- An HTML attachment was scrubbed... URL: From denise at ebi.ac.uk Wed May 30 10:38:27 2012 From: denise at ebi.ac.uk (Denise Carvalho-Silva) Date: Wed, 30 May 2012 10:38:27 +0100 Subject: [ensembl-announce] Ensembl Genomes 14 has been released! Message-ID: Dear all, The Ensembl Genomes Project is pleased to announce release 14 of Ensembl Genomes. This release contains 11 new genomes, bringing the total genomes supported to 352. Main highlights are: * Four new genomes in Ensembl Protists: the ciliate protozoa Tetrahymena thermophila; two oomycetes pathogens of the model plant Arabidopsis thaliana, Hyaloperonospora arabidopsidis and Albugo laibachii; and Entamoeba histolytic, a parasitic protozoan that infects primates, including humans. * The addition of tomato (Solanum lycopersicum), foxtail millet (Setaria italica), and a disease resistant rice (Oryza brachyantha) to Ensembl Plants. Tomato has now been added to the pan-taxonomic comparative analysis, and synteny data is available for the Oryza genomes. Two new variation datasets covering the Maize HapMap 2 project and African rice (Oryza glaberrima) are now available. * Two new species, Monarch butterly (Danaus plexippus) and the Postman butterfly (Heliconius melpomene), have been added to Ensembl Metazoa. Updated gene sets are now available for Aedes aegypti, Culex quinquefasciatus, Ixodes scapularis and Caenorhabditis elegans. The underlying genome assembly for Caenorhabditis briggsae has been updated, and a new gene set is provided. Whole genome DNA alignments (LASTZ and translated BLAT) have been prepared between C. elegans and the six other nematodes. * Two new species in Ensembl Fungi: Sclerotinia sclerotorium and Botryotinia fuckeliana. Projection of manual GO (Gene Ontology) annotation from S. pombe and S. cerevisiae to other species based on protein homology is now available. * Software migration to Ensembl 67 The Ensembl Genomes Team -------------- next part -------------- An HTML attachment was scrubbed... URL: From ap5 at sanger.ac.uk Fri May 4 11:25:01 2012 From: ap5 at sanger.ac.uk (Anne Parker) Date: Fri, 4 May 2012 11:25:01 +0100 Subject: [ensembl-announce] Retirement of archive 53 Message-ID: <5E1FBD82-C882-44C5-92FD-217757B9BED2@sanger.ac.uk> Dear all Please be aware that archive 53 is due to be retired next week, upon the release of Ensembl 67. You can find more information on our blog: http://www.ensembl.info/blog/2012/05/04/retirement-of-archive-53-march-2009/ Thanks Anne Anne Parker Ensembl Web Production Manager www.ensembl.org From maurel at ebi.ac.uk Thu May 10 10:58:58 2012 From: maurel at ebi.ac.uk (Thomas Maurel) Date: Thu, 10 May 2012 10:58:58 +0100 Subject: [ensembl-announce] Ensembl release 67 is out! Message-ID: <556AFC61-7DA7-4962-AAB6-909D9F00A735@ebi.ac.uk> The latest Ensembl update (e!67) has been released : http://www.ensembl.org/ Here are some highlights: Human: The patches for the human genome assembly have been updated to GRCh37.p7, Human somatic variants from COSMIC have been updated to release 58 and we now provide the 1000 genomes phase 1 genotype data. New species: Nile tilapia (Oreochromis niloticus). New genomes: The assemblies for Pig and Squirrel have been updated. A complete list of the changes in release 67 can be found at http://www.ensembl.org/info/website/news.html For the latest news on the ensembl project visit our blog at http://www.ensembl.info/ The release blog post can be viewed here : http://www.ensembl.info/blog/2012/05/10/ensembl-67-has-been-released/ Best regards, Thomas Maurel -- Thomas Maurel Bioinformatician - Ensembl Production Team European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton Cambridge - CB10 1SD - UK -------------- next part -------------- An HTML attachment was scrubbed... URL: From st3 at sanger.ac.uk Tue May 15 11:18:20 2012 From: st3 at sanger.ac.uk (Stephen Trevanion) Date: Tue, 15 May 2012 11:18:20 +0100 Subject: [ensembl-announce] ensembl downtime Thur 17th May Message-ID: <4FB22D6C.1040301@sanger.ac.uk> Dear all, Due to urgent maintenance being required, all Sanger located Ensembl based websites (www.ensembl.org, pre.ensembl.org, archives and vega.sanger.ac.uk) will be unavailable for a short period on Thur, 17th May from 1300 GMT. We expect the work to be completed within the hour. Ensembl mirrors (useast.ensembl.org, uswest.ensembl.org and asia.ensembl.org) will continue to operate, but note that user logins from these will not be available during this period. Apologies for the inconvenience this may cause. Steve From st3 at sanger.ac.uk Tue May 22 16:03:36 2012 From: st3 at sanger.ac.uk (Stephen Trevanion) Date: Tue, 22 May 2012 16:03:36 +0100 Subject: [ensembl-announce] Brief interuption to Ensembl BLAST/BLAT Thur 24th May Message-ID: <4FBBAAC8.4010308@sanger.ac.uk> Dear all, BLAST and BLAT will be unavailable for a short period from 13.00 BST on Thur 24th due to some hardware maintenance being required. We expect this work to be complete within the hour. This will affect the main Ensembl site, mirror sites, Vega and Pre Ensembl. Apologies for any inconvenience caused, Regards, Steve From maurel at ebi.ac.uk Mon May 28 13:50:00 2012 From: maurel at ebi.ac.uk (Thomas Maurel) Date: Mon, 28 May 2012 13:50:00 +0100 Subject: [ensembl-announce] Declarations of intentions for Ensembl Release 68 Message-ID: <1294F98E-55A4-4E6E-9F23-4EC64F2AACF1@ebi.ac.uk> Dear all, Please find the summary of the declarations of intentions for Ensembl release 68 (scheduled for the 24th of July 2012) on our public website : admin.ensembl.org/Changelog/Summary. Note these are intentions and are not guaranteed to be in the release. Best regards, Thomas Maurel -- Thomas Maurel Bioinformatician - Ensembl Production Team European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton Cambridge - CB10 1SD - UK -------------- next part -------------- An HTML attachment was scrubbed... URL: From denise at ebi.ac.uk Wed May 30 10:38:27 2012 From: denise at ebi.ac.uk (Denise Carvalho-Silva) Date: Wed, 30 May 2012 10:38:27 +0100 Subject: [ensembl-announce] Ensembl Genomes 14 has been released! Message-ID: Dear all, The Ensembl Genomes Project is pleased to announce release 14 of Ensembl Genomes. This release contains 11 new genomes, bringing the total genomes supported to 352. Main highlights are: * Four new genomes in Ensembl Protists: the ciliate protozoa Tetrahymena thermophila; two oomycetes pathogens of the model plant Arabidopsis thaliana, Hyaloperonospora arabidopsidis and Albugo laibachii; and Entamoeba histolytic, a parasitic protozoan that infects primates, including humans. * The addition of tomato (Solanum lycopersicum), foxtail millet (Setaria italica), and a disease resistant rice (Oryza brachyantha) to Ensembl Plants. Tomato has now been added to the pan-taxonomic comparative analysis, and synteny data is available for the Oryza genomes. Two new variation datasets covering the Maize HapMap 2 project and African rice (Oryza glaberrima) are now available. * Two new species, Monarch butterly (Danaus plexippus) and the Postman butterfly (Heliconius melpomene), have been added to Ensembl Metazoa. Updated gene sets are now available for Aedes aegypti, Culex quinquefasciatus, Ixodes scapularis and Caenorhabditis elegans. The underlying genome assembly for Caenorhabditis briggsae has been updated, and a new gene set is provided. Whole genome DNA alignments (LASTZ and translated BLAT) have been prepared between C. elegans and the six other nematodes. * Two new species in Ensembl Fungi: Sclerotinia sclerotorium and Botryotinia fuckeliana. Projection of manual GO (Gene Ontology) annotation from S. pombe and S. cerevisiae to other species based on protein homology is now available. * Software migration to Ensembl 67 The Ensembl Genomes Team -------------- next part -------------- An HTML attachment was scrubbed... URL: