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Bioinformatics. 2005 May 15;21(10):2517-9. Epub 2005 Mar 15.

SNPNB: analyzing neighboring-nucleotide biases on single nucleotide polymorphisms (SNPs).

Author information

1
Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, Richmond, VA 23298, USA.

Abstract

SNPNB is a user-friendly and platform-independent application for analyzing Single Nucleotide Polymorphism NeighBoring sequence context and nucleotide bias patterns, and subsequently evaluating the effective SNP size for the bias patterns observed from the whole data. It was implemented by Java and Perl. SNPNB can efficiently handle genome-wide or chromosome-wide SNP data analysis in a PC or a workstation. It provides visualizations of the bias patterns for SNPs or each type of SNPs.

AVAILABILITY:

SNPNB and its full description are freely available at http://bioinfo.vipbg.vcu.edu/SNPNB/

PMID:
15769840
DOI:
10.1093/bioinformatics/bti377
[Indexed for MEDLINE]

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