Ensembl Genomes 2020—enabling non-vertebrate genomic research

Kevin Howe(European Bioinformatics Institute), Bruno Contreras‐Moreira(European Bioinformatics Institute), Nishadi De Silva(European Bioinformatics Institute), G. Maslen(European Bioinformatics Institute), Wasiu Akanni(European Bioinformatics Institute), James E. Allen(European Bioinformatics Institute), Jorge Álvarez-Jarreta(European Bioinformatics Institute), Matthieu Barba(European Bioinformatics Institute), Dan Bolser(European Bioinformatics Institute), Lahcen Cambell(European Bioinformatics Institute), Manuel Carbajo Martinez(European Bioinformatics Institute), Marc Chakiachvili(European Bioinformatics Institute), Mikkel Christensen(European Bioinformatics Institute), Carla Cummins(European Bioinformatics Institute), Alayne Cuzick(Rothamsted Research), Paul A. Davis(European Bioinformatics Institute), Silvie Fexová(European Bioinformatics Institute), Astrid Gall(European Bioinformatics Institute), Nancy George(European Bioinformatics Institute), Laurent Gil(European Bioinformatics Institute), Parul Gupta(Oregon State University), K. E. Hammond‐Kosack(Rothamsted Research), Erin Haskell(European Bioinformatics Institute), Sarah Hunt(European Bioinformatics Institute), Pankaj Jaiswal(Oregon State University), Sophie H. Janacek(European Bioinformatics Institute), Paul Kersey(European Bioinformatics Institute), Nicholas Langridge(European Bioinformatics Institute), Uma Maheswari(European Bioinformatics Institute), Thomas Maurel(European Bioinformatics Institute), Mark D. McDowall(European Bioinformatics Institute), Benjamin Moore(European Bioinformatics Institute), Matthieu Muffato(European Bioinformatics Institute), Guy Naamati(European Bioinformatics Institute), Sushma Naithani(Oregon State University), Andrew Olson(Cold Spring Harbor Laboratory), Irene Papatheodorou(European Bioinformatics Institute), Mateus Patrício(European Bioinformatics Institute), Michael Paulini(European Bioinformatics Institute), Helder Pedro(European Bioinformatics Institute), Emily Perry(European Bioinformatics Institute), Justin Preece(Oregon State University), Marc Rosello(European Bioinformatics Institute), Matthew Russell(European Bioinformatics Institute), Vasily Sitnik(European Bioinformatics Institute), D. Staines(European Bioinformatics Institute), Joshua C. Stein(Cold Spring Harbor Laboratory), Marcela K Tello-Ruiz(Cold Spring Harbor Laboratory), Stephen J. Trevanion(European Bioinformatics Institute), Martin Urban(Rothamsted Research), Sharon Wei(Cold Spring Harbor Laboratory), Doreen Ware(Agricultural Research Service), Gary W. Williams(European Bioinformatics Institute), Andrew Yates(European Bioinformatics Institute), Paul Flicek(European Bioinformatics Institute)
Nucleic Acids Research
October 2, 2019
10.1093/nar/gkz890
Cited by 525Open Access
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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 interfaces to genomic data across the tree of life, including reference genome sequence, gene models, transcriptional data, genetic variation and comparative analysis. Data may be accessed via our website, online tools platform and programmatic interfaces, with updates made four times per year (in synchrony with Ensembl). Here, we provide an overview of Ensembl Genomes, with a focus on recent developments. These include the continued growth, more robust and reproducible sets of orthologues and paralogues, and enriched views of gene expression and gene function in plants. Finally, we report on our continued deeper integration with the Ensembl project, which forms a key part of our future strategy for dealing with the increasing quantity of available genome-scale data across the tree of life.

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