Ensembl 2017
Top Cited Papers
Open Access
- 28 November 2016
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 45 (D1), D635-D642
- https://doi.org/10.1093/nar/gkw1104
Abstract
Ensembl (www.ensembl.org) is a database and genome browser for enabling research on vertebrate genomes. We import, analyse, curate and integrate a diverse collection of large-scale reference data to create a more comprehensive view of genome biology than would be possible from any individual dataset. Our extensive data resources include evidence-based gene and regulatory region annotation, genome variation and gene trees. An accompanying suite of tools, infrastructure and programmatic access methods ensure uniform data analysis and distribution for all supported species. Together, these provide a comprehensive solution for large-scale and targeted genomics applications alike. Among many other developments over the past year, we have improved our resources for gene regulation and comparative genomics, and added CRISPR/Cas9 target sites. We released new browser functionality and tools, including improved filtering and prioritization of genome variation, Manhattan plot visualization for linkage disequilibrium and eQTL data, and an ontology search for phenotypes, traits and disease. We have also enhanced data discovery and access with a track hub registry and a selection of new REST end points. All Ensembl data are freely released to the scientific community and our source code is available via the open source Apache 2.0 license.Keywords
This publication has 55 references indexed in Scilit:
- APPRIS: annotation of principal and alternative splice isoformsNucleic Acids Research, 2012
- ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenicsNucleic Acids Research, 2012
- An integrated encyclopedia of DNA elements in the human genomeNature, 2012
- The 1000 Genomes Project: data management and community accessNature Methods, 2012
- BLUEPRINT to decode the epigenetic signature written in bloodNature Biotechnology, 2012
- Mouse genomic variation and its effect on phenotypes and gene regulationNature, 2011
- Ensembl BioMarts: a hub for data retrieval across taxonomic spaceDatabase: The Journal of Biological Databases and Curation, 2011
- The NIH Roadmap Epigenomics Mapping ConsortiumNature Biotechnology, 2010
- Modeling sample variables with an Experimental Factor OntologyBioinformatics, 2010
- Haploview: analysis and visualization of LD and haplotype mapsBioinformatics, 2004