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Ensembl's 10th year

Paul Flicek et al. Nucleic Acids Res. 2010 Jan.

Abstract

Ensembl (http://www.ensembl.org) integrates genomic information for a comprehensive set of chordate genomes with a particular focus on resources for human, mouse, rat, zebrafish and other high-value sequenced genomes. We provide complete gene annotations for all supported species in addition to specific resources that target genome variation, function and evolution. Ensembl data is accessible in a variety of formats including via our genome browser, API and BioMart. This year marks the tenth anniversary of Ensembl and in that time the project has grown with advances in genome technology. As of release 56 (September 2009), Ensembl supports 51 species including marmoset, pig, zebra finch, lizard, gorilla and wallaby, which were added in the past year. Major additions and improvements to Ensembl since our previous report include the incorporation of the human GRCh37 assembly, enhanced visualisation and data-mining options for the Ensembl regulatory features and continued development of our software infrastructure.

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Figures

Figure 1.
Figure 1.
The convergence of the Ensembl gene set and the UniProt and RefSeq resources shown over time. Three versions of Ensembl (release 44 in April 2007, release 47 in October 2007 and release 55 in July 2009) are each compared to the data available from Swiss-Prot/UniProtKB, NCBI RefSeq Proteins and NCBI RefSeq mRNAs. The colours on the bars represent the fraction of the Ensembl entries that perfectly match the entries in the other resources (blue); have matching edges and an internal mismatch or indel (red); have a substantial, but incomplete match (green); or are missing (purple).
Figure 2.
Figure 2.
Ensembl regulatory feature: ENSR00000131372, a promoter-associated feature located on human chromosome 6 shown with the anchoring DNase I hypersensitivity sites and supporting histone modification data.
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