The Ensembl gene annotation system

被引：523

作者：

Aken, Bronwen L. ^{[1
,2
]}

Ayling, Sarah ^{[2
,3
]}

Barrell, Daniel ^{[1
,2
,4
]}

Clarke, Laura ^{[2
,5
]}

Curwen, Valery ^{[2
]}

Fairley, Susan ^{[2
,5
]}

Banet, Julio Fernandez ^{[2
,6
]}

Billis, Konstantinos ^{[1
,2
]}

Giron, Carlos Garcia ^{[1
,2
]}

Hourlier, Thibaut ^{[1
,2
]}

Howe, Kevin ^{[2
,5
]}

Kahari, Andreas ^{[2
,7
]}

Kokocinski, Felix ^{[2
]}

Martin, Fergal J. ^{[1
,2
]}

Murphy, Daniel N. ^{[1
,2
]}

Nag, Rishi ^{[1
,2
]}

Ruffier, Magali ^{[2
,5
]}

Schuster, Michael ^{[1
,8
]}

Tang, Y. Amy ^{[2
,5
]}

Vogel, Jan-Hinnerk ^{[2
,9
]}

White, Simon ^{[2
,10
]}

Zadissa, Amonida ^{[2
,5
]}

Flicek, Paul ^{[1
,2
]}

Searle, Stephen M. J. ^{[2
]}

机构：

[1] European Bioinformat Inst Wellcome Genome Campus, European Mol Biol Lab, Cambridge CB10 1SD, England

[2] Wellcome Trust Sanger Inst Wellcome Genome Campus, Cambridge CB10 1SA, England

[3] Genome Anal Ctr, Norwich Res Pk, Norwich NR4 7UH, Norfolk, England

[4] Eagle Genom Ltd, Babraham Res Campus, Cambridge CB22 3AT, England

[5] European Bioinformat Inst, European Mol Biol Lab, Wellcome Genome Campus, Cambridge CB10 1SD, England

[6] Pfizer Inc, 10646 Sci Ctr Dr, San Diego, CA 92121 USA

[7] Uppsala Univ, Inst Cell Molekylarbiol, Husargatan 3, S-75237 Uppsala, Sweden

[8] Austrian Acad Sci, CeMM Res Ctr Mol Med, A-1090 Vienna, Austria

[9] Genentech Inc, 1 DNAWay, San Francisco, CA 94080 USA

[10] Baylor Coll Med, Human Genome Sequencing Ctr, Houston, TX 77030 USA

来源：

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION | 2016年

基金：

英国生物技术与生命科学研究理事会; 英国惠康基金;

关键词：

GENOME PROVIDES INSIGHTS; SEQUENCE; REVEALS; EVOLUTION; ALIGNMENT; DATABASE; ZEBRAFISH; IDENTIFICATION; COMPLEXITY; GENERATION;

D O I：

10.1093/database/baw093

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

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.

引用

页数：19

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