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

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/.

DOI: 10.1093/nar/gkl272

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@article{Liang2006SWAKKAW, title={SWAKK: a web server for detecting positive selection in proteins using a sliding window substitution rate analysis}, author={Han Liang and Weihua Zhou and Laura F. Landweber}, journal={Nucleic Acids Research}, year={2006}, volume={34}, pages={W382 - W384} }