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Visualization of Multiple Genome Annotations and Alignments With the K-BROWSER

Chakrabarti, Kushal and Pachter, Lior (2004) Visualization of Multiple Genome Annotations and Alignments With the K-BROWSER. Genome Research, 14 (4). pp. 716-720. ISSN 1088-9051. PMCID PMC383318. doi:10.1101/gr.1957004. https://resolver.caltech.edu/CaltechAUTHORS:20170308-142044905

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Abstract

We introduce a novel genome browser application, the K-BROWSER, that allows intuitive visualization of biological information across an arbitrary number of multiply aligned genomes. In particular, the K-BROWSER simultaneously displays an arbitrary number of genomes both through overlaid annotations and predictions that describe their respective characteristics, and through the multiple alignment that describes their global relationship to one another. The browsing environment has been designed to allow users seamless access to information available in every genome and, furthermore, to allow easy navigation within and between genomes. As of the date of publication, the K-BROWSER has been set up on the human, mouse, and rat genomes.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1101/gr.1957004DOIArticle
http://genome.cshlp.org/content/14/4/716.abstractPublisherArticle
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC383318/PubMed CentralArticle
ORCID:
AuthorORCID
Pachter, Lior0000-0002-9164-6231
Additional Information:© 2004 Cold Spring Harbor Laboratory Press. The Authors acknowledge that six months after the full-issue publication date, the Article will be distributed under a Creative Commons CC-BY-NC License (Attribution-NonCommercial 4.0 International License, http://creativecommons.org/licenses/by-nc/4.0/). Accepted November 17, 2003. Received September 10, 2003. We thank Nicolas Bray and Colin Dewey for suggestions and help with the alignments. Yin Lau helped with the Web site design. L.P. was partially supported by the NIH (R02-HG02362-01), and K.C. was partially supported by a COR grant from UC Berkeley. The publication costs of this article were defrayed in part by payment of page charges. This article must therefore be hereby marked “advertisement” in accordance with 18 USC section 1734 solely to indicate this fact. The K-BROWSER can be accessed at http://hanuman.math.berkeley.edu/kbrowser/. The source code is available upon request.
Funders:
Funding AgencyGrant Number
NIHR02-HG02362-01
University of California, BerkeleyUNSPECIFIED
Issue or Number:4
PubMed Central ID:PMC383318
DOI:10.1101/gr.1957004
Record Number:CaltechAUTHORS:20170308-142044905
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20170308-142044905
Official Citation:Visualization of Multiple Genome Annotations and Alignments With the K-BROWSER Kushal Chakrabarti and Lior Pachter Genome Res. April 2004 14: 716-720; doi:10.1101/gr.1957004
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74921
Collection:CaltechAUTHORS
Deposited By: George Porter
Deposited On:08 Mar 2017 22:31
Last Modified:15 Nov 2021 16:29

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