Genome Resources at the EBI - Ensembl and Ensembl Genomes

Date: Sunday, January 13, 2013
Time: 8:00 AM
Room: California
Bert Overduin , EMBL - European Bioinformatics Institute, Hinxton, Cambridge, United Kingdom
Ensembl Team , Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom
Ensembl Genomes Team , EMBL - European Bioinformatics Institute, Hinxton, Cambridge, United Kingdom
The Ensembl project (http://www.ensembl.org) seeks to enable genomic science by providing high quality, integrated annotation on chordate and selected eukaryotic genomes. All supported species include comprehensive, evidence-based gene annotations and a selected set of genomes includes additional data focused on variation, comparative, evolutionary, functional and regulatory annotation. As of Ensembl release 69 (October 2012), 61 species are fully supported. Ensembl data are accessible through an interactive web site, flat files, the data mining tool BioMart, direct database querying, a set of Perl APIs and a REST API. Highlights of the past year include a new pig assembly, Ensembl/Havana merged gene set, ncRNA set and updated variant set, and a new dog assembly, gene set and updated variant set. We've added the use of RNAseq data as support for gene sets, improvements to the web interface and Variant Effect Predictor as well as several new web displays.

Ensembl Genomes (http://www.ensemblgenomes.org) consists of five sub-portals (for bacteria, protists, fungi, plants and invertebrate metazoa) designed to complement the Ensembl portal, currently containing data for over 350 species. Recent developments include the inclusion of sequences from the potato and tomato, the emerging wheat and barley genomes, and data from pests, pollinators, vectors and pathogens including 25 plant and oomycete phytopathogens.

Together Ensembl and Ensembl Genomes offer a single unified interface across the taxonomic space.

This presentation will consist of a short introduction to Ensembl and Ensembl Genomes followed by a demonstration with an emphasis on recently added data and functionality.