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SWAKK

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Overview
DescriptionA bioinformatics web app for detecting positive selection in proteins using a sliding window substitution rate analysis. Click the link below to use SWAKK.
Development Information
URL https://bioinformatics.mdanderson.org/swakk/
LanguagePerl CGI
Current version2.2
LicenseNot required for academic use
Statusactive
Last updated2024-11-05
NewsUpdated codebase from Princeton migration.
References
Citation Han Liang, Weihua Zhou, Laura F. Landweber; SWAKK: a web server for detecting positive selection in proteins using a sliding window substitution rate analysis, Nucleic Acids Research, Volume 34, Issue suppl_2, 1 July 2006, Pages W382–W384 https://doi.org/10.1093/nar/gkl272 
Help and Support
Contact Han Liang 
Discussion http://github.com/hliang-group/SWAKK/issues 

SWAKK

SWAKK is a valuable bioinformatic tool for detecting amino acid sites or regions of a protein under positive selection. It estimates the ratio of non-synonymous to synonymous substitution rates (Ka/Ks) 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 web app can also perform a sliding window analysis on the primary sequence.

Browser Requirements

SWAKK is compatible with all major browsers, including Internet Explorer, Firefox, Safari, and Chrome. Javascript must be enabled by the browser.

Usage

Login is not required — it is free for anyone to use.

Release History

  • Version 2.2.0 was released on 2024-11-05 [externally accessible].
  • Version 2.1.0 was released on 2016-01-15 [externally accessible].
  • Version 2.0.0 was released on 2015-08-04.
  • Ported/updated to more modern standards during 2015 (MDACC).
  • Version 1.0.0 was released on 2006-02-14 (Princeton).

Disclaimer

This website is for educational and research purposes only.