Using the Generic Genome Browser (GBrowse)

Current Protocols in Bioinformatics
Maureen J Donlin

Abstract

A genome browser is software that allows users to visualize DNA, protein, or other sequence features within the context of a reference sequence, such as a chromosome or contig. The Generic Genome Browser (GBrowse) is an open-source browser developed as part of the Generic Model Organism Database project (Stein et al., 2002). GBrowse can be configured to display genomic sequence features for any organism and is the browser used for the model organisms Drosophila melanogaster (Grumbling and Strelets, 2006) and Caenorhabditis elegans (Schwarz et al., 2006), among others. The software package can be downloaded from the web and run on a Windows, Mac OS X, or Unix-type system. Version 1.64, as described in this protocol, was released in November 2005, but the software is under active development and new versions are released about every six months.

References

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Dec 31, 2005·Nucleic Acids Research·Erich M SchwarzPaul W Sternberg
Dec 31, 2005·Nucleic Acids Research·Gary Grumbling, Victor Strelets
Feb 8, 2006·Human Genomics·Terrence S Furey

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Citations

Oct 1, 2011·Database : the Journal of Biological Databases and Curation·Stephen P FicklinDoreen Main
Nov 20, 2013·Database : the Journal of Biological Databases and Curation·Kate EvansDorrie Main
Nov 4, 2009·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Keiichi MochidaLam-Son Phan Tran
Jun 12, 2013·Nucleic Acids Research·Ignacio MedinaJoaquín Dopazo
Mar 9, 2010·Plant & Cell Physiology·Keiichi Mochida, Kazuo Shinozaki
May 21, 2011·BMC Bioinformatics·Mario Latendresse, Peter D Karp
Jun 24, 2009·Plant Methods·James C Estill, Jeffrey L Bennetzen
Mar 31, 2011·Plant Methods·Sandra DèrozierSébastien Aubourg
Nov 26, 2015·Plant Biotechnology Journal·Agnieszka A GoliczDavid Edwards
Sep 12, 2015·IEEE Transactions on Visualization and Computer Graphics·Bowen YuClaudio T Silva
Mar 19, 2014·Plant Biotechnology Reports·Sook Jung, Dorrie Main
Dec 12, 2018·Microbiology Resource Announcements·Maria J TavaresNuno P Mira
Jan 27, 2016·BMC Genomics·Aaron R ShifmanBrian T Wilhelm

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