Skip Navigation


Bioinformatics Advance Access originally published online on May 18, 2006
Bioinformatics 2006 22(14):1782-1783; doi:10.1093/bioinformatics/btl193
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow All Versions of this Article:
22/14/1782    most recent
btl193v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (7)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Engels, R.
Right arrow Articles by Galagan, J. E.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Engels, R.
Right arrow Articles by Galagan, J. E.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Combo: a whole genome comparative browser

Reinhard Engels 1,*, Tamara Yu 1, Chris Burge 2, Jill P. Mesirov 1, David DeCaprio 1 and James E. Galagan 1

1 The Broad Institute of MIT and Harvard 320 Charles Street, Cambridge, MA 02142, USA
2 Department of Biology, Massachusetts Institute of Technology Cambridge, MA 02139, USA

*To whom correspondence should be addressed.

Summary: Combo is a comparative genome browser that provides a dynamic view of whole genome alignments along with their associated annotations. Combo provides two different visualization perspectives. The perpendicular (dot plot) view provides a dot plot of genome alignments synchronized with a display of genome annotations along each axis. The parallel view displays two genome annotations horizontally, synchronized through a panel displaying local alignments as trapezoids. Users can zoom to any resolution, from whole chromosomes to individual bases. They can select, highlight and view detailed information from specific alignments and annotations. Combo is an organism agnostic and can import data from a variety of file formats.

Availability: Combo is integrated as part of the Argo Genome Browser which also provides single-genome browsing and editing capabilities. Argo is written in Java, runs on multiple platforms and is freely available for download at http://www.broad.mit.edu/annotation/argo/.

Contact: reinhard{at}broad.mit.edu

Received on March 4, 2006; revised on May 12, 2006; accepted on May 14, 2006

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
J. H. Kim, W.-C. Kim, M. S. Waterman, S. Park, and L. M. Li
HAPLOWSER: a whole-genome haplotype browser for personal genome and metagenome
Bioinformatics, September 15, 2009; 25(18): 2430 - 2431.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
M. Krzywinski, J. Schein, I. Birol, J. Connors, R. Gascoyne, D. Horsman, S. J. Jones, and M. A. Marra
Circos: An information aesthetic for comparative genomics
Genome Res., September 1, 2009; 19(9): 1639 - 1645.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
M. Itoh and H. Watanabe
CGAS: comparative genomic analysis server
Bioinformatics, April 1, 2009; 25(7): 958 - 959.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.