A Kasprzyk

AA Salamov

AV Zimin

Bovine Genome Sequencing and Analysis Consortium

C Michael Dickens

CG Elsik

Christine G Elsik

Christopher P Childers

CJ Mungall

Donald C Vile

G Parra

GS Slater

Jaideep P Sundaram

Justin T Reese

K Eilbeck

KD Pruitt

Kevin L Childs

LD Stein

MS Boguski

P Flicek

RJ Wilson

SE Lewis

SF Altschul

TD Wu

The UniProt Consortium

V Solovyev

Y Liu

BMC Genomics

English

PubMed

Springer - Publisher Connector

Bovine Genome Database: supporting community annotation and analysis of the Bos taurus genome

Reese, Justin T

Childers, Christopher P

Sundaram, Jaideep P

Dickens, C Michael

Childs, Kevin L

Vile, Donald C

Elsik, Christine G

Texas A&M University

OAKTrust Digital Repository (Texas A&M Univ)

Abstract
          
            Background
            A goal of the Bovine Genome Database (BGD; http://BovineGenome.org) has been to support the Bovine Genome Sequencing and Analysis Consortium (BGSAC) in the annotation and analysis of the bovine genome. We were faced with several challenges, including the need to maintain consistent quality despite diversity in annotation expertise in the research community, the need to maintain consistent data formats, and the need to minimize the potential duplication of annotation effort. With new sequencing technologies allowing many more eukaryotic genomes to be sequenced, the demand for collaborative annotation is likely to increase. Here we present our approach, challenges and solutions facilitating a large distributed annotation project.
          
          
            Results and Discussion
            BGD has provided annotation tools that supported 147 members of the BGSAC in contributing 3,871 gene models over a fifteen-week period, and these annotations have been integrated into the bovine Official Gene Set. Our approach has been to provide an annotation system, which includes a BLAST site, multiple genome browsers, an annotation portal, and the Apollo Annotation Editor configured to connect directly to our Chado database. In addition to implementing and integrating components of the annotation system, we have performed computational analyses to create gene evidence tracks and a consensus gene set, which can be viewed on individual gene pages at BGD.
          
          
            Conclusions
            We have provided annotation tools that alleviate challenges associated with distributed annotation. Our system provides a consistent set of data to all annotators and eliminates the need for annotators to format data. Involving the bovine research community in genome annotation has allowed us to leverage expertise in various areas of bovine biology to provide biological insight into the genome sequence.
          </jats:sec

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Bovine Genome Database: supporting community annotation and analysis of the Bos taurus genome

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Springer - Publisher Connector

Texas A&M University

OAKTrust Digital Repository (Texas A&M Univ)

Springer - Publisher Connector

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