Ensembl 2015

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ID: 296889
2014
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Abstract
Ensembl (http://www.ensembl.org) is a genomic interpretation system providing the most up-to-date annotations, querying tools and access methods for chordates and key model organisms. This year we released updated annotation (gene models, comparative genomics, regulatory regions and variation) on the new human assembly, GRCh38, although we continue to support researchers using the GRCh37.p13 assembly through a dedicated site (http://grch37.ensembl.org). Our Regulatory Build has been revamped to identify regulatory regions of interest and to efficiently highlight their activity across disparate epigenetic data sets. A number of new interfaces allow users to perform large-scale comparisons of their data against our annotations. The REST server (http://rest.ensembl.org), which allows programs written in any language to query our databases, has moved to a full service alongside our upgraded website tools. Our online Variant Effect Predictor tool has been updated to process more variants and calculate summary statistics. Lastly, the WiggleTools package enables users to summarize large collections of data sets and view them as single tracks in Ensembl. The Ensembl code base itself is more accessible: it is now hosted on our GitHub organization page (https://github.com/Ensembl) under an Apache 2.0 open source license.
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Authors Fiona Cunningham, M Ridwan Amode, Daniel Barrell, Kathryn Beal, Konstantinos Billis, Simon Brent, Denise Carvalho‐Silva, Peter Clapham, Guy Coates, Stephen Fitzgerald, Laurent Gil, Carlos García Girón, Leo I. Gordon, Thibaut Hourlier, Sarah Hunt, Sophie H. Janacek, Nathan Johnson, Thomas Juettemann, Andreas Kähäri, Stephen Keenan, Fergal J. Martin, Thomas Maurel, William McLaren, Daniel N. Murphy, Rishi Nag, Bert Overduin, Anne Parker, Mateus Patrício, Emily Perry, Miguel Pignatelli, Harpreet Singh Riat, Dan Sheppard, Kieron Taylor, Anja Thormann, Alessandro Vullo, Steven P. Wilder, Amonida Zadissa, Bronwen Aken, Ewan Birney, Jennifer Harrow, Rhoda Kinsella, Matthieu Muffato, Magali Ruffier, Stephen M. J. Searle, Giulietta Spudich, Stephen J. Trevanion, Andrew Yates, Daniel R. Zerbino, Paul Flicek
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Journal Nucleic Acids Research
Year 2014
DOI
10.1093/nar/gku1010
URL
https://academic.oup.com/nar/article-pdf/43/D1/D662/7311412/gku1010.pdf
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