Open AccessThe Ensembl gene annotation system
Author(s) -
Bronwen Aken,
Sarah Ayling,
Daniel Barrell,
Laura Clarke,
V. Curwen,
Susan Fairley,
Julio Fernandez-Banet,
Konstantinos Billis,
Carlos García Girón,
Thibaut Hourlier,
Kevin Howe,
Andreas Kähäri,
Felix Kokocinski,
Fergal J. Martin,
Daniel N. Murphy,
Rishi Nag,
Magali Ruffier,
Michael Schuster,
Amy Tang,
Jan-Hinnerk Vogel,
Simon White,
Amonida Zadissa,
Paul Flicek,
Stephen M. J. Searle
Publication year - 2016
Publication title -
database
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.406
H-Index - 62
ISSN - 1758-0463
DOI - 10.1093/database/baw093
Subject(s) - ensembl , annotation , gene annotation , gene nomenclature , genome , computational biology , gene , computer science , genome browser , genome project , information retrieval , biology , genomics , genetics , artificial intelligence , taxonomy (biology) , botany , nomenclature
The Ensembl gene annotation system has been used to annotate over 70 different vertebrate species across a wide range of genome projects. Furthermore, it generates the automatic alignment-based annotation for the human and mouse GENCODE gene sets. The system is based on the alignment of biological sequences, including cDNAs, proteins and RNA-seq reads, to the target genome in order to construct candidate transcript models. Careful assessment and filtering of these candidate transcripts ultimately leads to the final gene set, which is made available on the Ensembl website. Here, we describe the annotation process in detail.Database URL: http://www.ensembl.org/index.html.
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