Ensembl Genomes 2016: more genomes, more complexity

Paul Kersey(European Bioinformatics Institute), James E. Allen(European Bioinformatics Institute), Irina M. Armean(European Bioinformatics Institute), Sanjay Boddu(European Bioinformatics Institute), Bruce J. Bolt(European Bioinformatics Institute), Denise Carvalho‐Silva(European Bioinformatics Institute), Mikkel Christensen(European Bioinformatics Institute), Paul A. Davis(European Bioinformatics Institute), Lee J. Falin(European Bioinformatics Institute), Christoph Grabmueller(European Bioinformatics Institute), Jay C. Humphrey(European Bioinformatics Institute), Arnaud Kerhornou(European Bioinformatics Institute), Julia Khobova(European Bioinformatics Institute), Naveen K. Aranganathan(European Bioinformatics Institute), Nicholas Langridge(European Bioinformatics Institute), Ernesto Lowy(European Bioinformatics Institute), Mark D. McDowall(European Bioinformatics Institute), Uma Maheswari(European Bioinformatics Institute), Michael Nuhn(European Bioinformatics Institute), Chuang Kee Ong(European Bioinformatics Institute), Bert Overduin(European Bioinformatics Institute), Michael Paulini(European Bioinformatics Institute), Helder Pedro(European Bioinformatics Institute), Emily Perry(European Bioinformatics Institute), Giulietta Spudich(European Bioinformatics Institute), Electra Tapanari(European Bioinformatics Institute), Brandon Walts(European Bioinformatics Institute), Gareth Williams(European Bioinformatics Institute), Marcela K Tello-Ruiz(European Bioinformatics Institute), Joshua C. Stein(Cold Spring Harbor Laboratory), Sharon Wei(Cold Spring Harbor Laboratory), Doreen Ware(Cornell University), Dan Bolser(European Bioinformatics Institute), Kevin Howe(European Bioinformatics Institute), Eugene Kulesha(European Bioinformatics Institute), Daniel Lawson(European Bioinformatics Institute), G. Maslen(European Bioinformatics Institute), D. Staines(European Bioinformatics Institute)
Nucleic Acids Research
November 17, 2015
10.1093/nar/gkv1209
Cited by 552Open Access
Full Text

Abstract

Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species, complementing the resources for vertebrate genomics developed in the context of the Ensembl project (http://www.ensembl.org). Together, the two resources provide a consistent set of programmatic and interactive interfaces to a rich range of data including reference sequence, gene models, transcriptional data, genetic variation and comparative analysis. This paper provides an update to the previous publications about the resource, with a focus on recent developments. These include the development of new analyses and views to represent polyploid genomes (of which bread wheat is the primary exemplar); and the continued up-scaling of the resource, which now includes over 23 000 bacterial genomes, 400 fungal genomes and 100 protist genomes, in addition to 55 genomes from invertebrate metazoa and 39 genomes from plants. This dramatic increase in the number of included genomes is one part of a broader effort to automate the integration of archival data (genome sequence, but also associated RNA sequence data and variant calls) within the context of reference genomes and make it available through the Ensembl user interfaces.

Related Papers

No related papers found

Powered by citation graph analysis