Work

SWAKK: a web server for detecting positive selection in proteins using a sliding window substitution rate analysis

Year: 2006

Type: article

Abstract: We present a bioinformatic web server (SWAKK) for detecting amino acid sites or regions of a protein under positive selection. It estimates the ratio of non-synonymous to synonymous substitution rates (K(A)/K(S)) between a pair of protein-coding DNA sequences, by sliding a 3D window, or sphere, across one reference structure. The program displays the results on the 3D protein structure. In addition, for comparison or when a reference structure is unavailable, the server can also perform a sliding window analysis on the primary sequence. The SWAKK web server is available at http://oxytricha.princeton.edu/SWAKK/.

Source: Nucleic Acids Research

DOI: 10.1093/nar/gkl272

Authors: H. Liang, W. Zhou, L. F. Landweber

Institutions: Princeton University, Princeton Plasma Physics Laboratory

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $3,992

Funder: National Institute of General Medical Sciences