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

Fengkai Zhang | Zendy; Zhongming Zhao | Zendy

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

Author(s) -

Fengkai Zhang,

Zhongming Zhao

Publication year - 2005

Publication title -

computer applications in the biosciences

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1460-2059

pISSN - 0266-7061

DOI - 10.1093/bioinformatics/bti377

Subject(s) - perl , single nucleotide polymorphism , snp , context (archaeology) , genetics , java , computational biology , snp genotyping , computer science , biology , gene , programming language , genotype , paleontology

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.

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