Literature DB >> 15060015

Visualization of multiple genome annotations and alignments with the K-BROWSER.

Kushal Chakrabarti1, Lior Pachter.   

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.

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Year:  2004        PMID: 15060015      PMCID: PMC383318          DOI: 10.1101/gr.1957004

Source DB:  PubMed          Journal:  Genome Res        ISSN: 1088-9051            Impact factor:   9.043


  16 in total

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5.  AVID: A global alignment program.

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Journal:  Genome Res       Date:  2003-01       Impact factor: 9.043

6.  Ensembl 2002: accommodating comparative genomics.

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Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

7.  The UCSC Genome Browser Database.

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Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

8.  MAVID: constrained ancestral alignment of multiple sequences.

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Journal:  Genome Res       Date:  2004-04       Impact factor: 9.043

9.  Phylogenetic shadowing of primate sequences to find functional regions of the human genome.

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10.  Strategies and tools for whole-genome alignments.

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  4 in total

1.  MAVID: constrained ancestral alignment of multiple sequences.

Authors:  Nicolas Bray; Lior Pachter
Journal:  Genome Res       Date:  2004-04       Impact factor: 9.043

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Journal:  Genome Res       Date:  2005-12-14       Impact factor: 9.043

3.  GATA: a graphic alignment tool for comparative sequence analysis.

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Journal:  BMC Bioinformatics       Date:  2005-01-17       Impact factor: 3.169

4.  ABC: software for interactive browsing of genomic multiple sequence alignment data.

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Journal:  BMC Bioinformatics       Date:  2004-12-08       Impact factor: 3.169

  4 in total

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