Kersey, Paul Julian2; Allen, James E3; Christensen, Mikkel1; Davis, Paul3; Falin, Lee J3; Grabmueller, Christoph3; Hughes, Daniel Seth Toney3; Humphrey, Jay3; Kerhornou, Arnaud3; Khobova, Julia3; Langridge, Nicholas3; McDowall, Mark D3; Maheswari, Uma3; Maslen, Gareth3; Nuhn, Michael3; Ong, Chuang Kee3; Paulini, Michael3; Pedro, Helder3; Toneva, Iliana3; Tuli, Mary Ann3; Walts, Brandon3; Williams, Gareth3; Wilson, Derek3; Youens-Clark, Ken3; Monaco, Marcela K3; Stein, Joshua3; Wei, Xuehong3; Ware, Doreen3; Bolser, Daniel M3; Howe, Kevin Lee3; Kulesha, Eugene3; Lawson, Daniel3; Staines, Daniel Michael3
1 KLINISK FARMAKOLOGISK AFDELING, Bispebjerg and Frederiksberg Hospital, The Capital Region of Denmark2 The European Molecular Biology Laboratory, The European Bioinformatics Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK, Wellcome Trust Sanger Centre, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK, Cold Spring Harbor Laboratory, 1 Bungtown Rd, Cold Spring Harbor, NY 11724, USA and USDA-ARS, Cornell University, Ithaca, NY, 14853, USA.3 unknown
scaling up access to genome-wide data
Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species. The project exploits and extends technologies for genome annotation, analysis and dissemination, developed in the context of the vertebrate-focused Ensembl project, and provides a complementary set of resources for non-vertebrate species through a consistent set of programmatic and interactive interfaces. These provide access to data including reference sequence, gene models, transcriptional data, polymorphisms and comparative analysis. This article provides an update to the previous publications about the resource, with a focus on recent developments. These include the addition of important new genomes (and related data sets) including crop plants, vectors of human disease and eukaryotic pathogens. In addition, the resource has scaled up its representation of bacterial genomes, and now includes the genomes of over 9000 bacteria. Specific extensions to the web and programmatic interfaces have been developed to support users in navigating these large data sets. Looking forward, analytic tools to allow targeted selection of data for visualization and download are likely to become increasingly important in future as the number of available genomes increases within all domains of life, and some of the challenges faced in representing bacterial data are likely to become commonplace for eukaryotes in future.