Journal Article

ABWGAT: anchor-based whole genome analysis tool

Sarbashis Das, Anchal Vishnoi and Alok Bhattacharya

in Bioinformatics

Volume 25, issue 24, pages 3319-3320
Published in print December 2009 | ISSN: 1367-4803
Published online October 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp587
ABWGAT: anchor-based whole genome analysis tool

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Summary: Large numbers of genomes are being sequenced regularly and the rate will go up in future due to availability of new genome sequencing techniques. In order to understand genotype to phenotype relationships, it is necessary to identify sequence variations at the genomic level. Alignment of a pair of genomes and parsing the alignment data is an accepted approach for identification of variations. Though there are a number of tools available for whole-genome alignment, none of these allows automatic parsing of the alignment and identification of different kinds of genomic variants with high degree of sensitivity. Here we present a simple web-based interface for whole genome comparison named ABWGAT (Anchor-Based Whole Genome Analysis Tool) that is simple to use. The output is a list of variations such as SNVs, indels, repeat expansion and inversion.

Availability: The web server is freely available to non-commercial users at the following address http://abwgc.jnu.ac.in/_sarba. Supplementary data are available at http://abwgc.jnu.ac.in/_sarba/cgi-bin/abwgc_retrival.cgi using job id 524, 526 and 528.

Contact: dsarbashis@gmail.com; alok.bhattacharya@gmail.com

Journal Article.  1145 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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