Genetic Interaction Score (S-Score) Calculation, Clustering, and Visualization of Genetic Interaction Profiles for Yeast
- 1Department of Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, California 94518
- 2Systems Biology Ireland, University College Dublin, Belfield, Dublin 4, Ireland
- 3North West Cancer Research Institute, Bangor University, Bangor LL57 2UW, United Kingdom
- ↵4Correspondence: roguev{at}gmail.com; colm.ryan{at}ucd.ie
Abstract
This protocol describes computational analysis of genetic interaction screens, ranging from data capture (plate imaging) to downstream analyses. Plate imaging approaches using both digital camera and office flatbed scanners are included, along with a protocol for the extraction of colony size measurements from the resulting images. A commonly used genetic interaction scoring method, calculation of the S-score, is discussed. These methods require minimal computer skills, but some familiarity with MATLAB and Linux/Unix is a plus. Finally, an outline for using clustering and visualization software for analysis of resulting data sets is provided.
Footnotes
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From the Fission Yeast collection, edited by Iain M. Hagan, Antony M. Carr, Agnes Grallert, and Paul Nurse.
