WSPMaker: A Tool for Calculating Selection Pressure in Proteins
Author Information
Author(s): Lee Yong Seok, Kim Tae-Hyung, Kang Tae-Wook, Chung Won-Hyong, Shin Gwang-Sik
Primary Institution: Korean Bioinformation Center, KRIBB
Hypothesis
Can a web tool effectively calculate selection pressures in protein-coding sequences using a sliding window approach?
Conclusion
WSPMaker is a web tool for scanning and calculating selection pressures in sub-regions of two protein-coding DNA sequences.
Supporting Evidence
- WSPMaker allows users to analyze selection pressures in specific regions of protein-coding sequences.
- The tool can accommodate various evolutionary models and user-defined parameters.
- WSPMaker provides visual graphs to help interpret selection pressures in genes.
Takeaway
WSPMaker helps scientists find out which parts of genes are under strong selection pressure, making it easier to study how proteins evolve.
Methodology
WSPMaker uses a sliding window approach to analyze two orthologous protein-coding sequences and calculates the Ka/Ks ratio to detect selection pressures.
Limitations
The tool requires user-defined parameters and may not detect selection pressures effectively with limited sequence data.
Digital Object Identifier (DOI)
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