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Statistical exploration of variation in quantitative two‐dimensional gel electrophoresis data
Author(s) -
Gustafsson John S.,
Ceasar Robert,
Glasbey Chris A.,
Blomberg Anders,
Rudemo Mats
Publication year - 2004
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.200300824
Subject(s) - studentized range , transformation (genetics) , yeast , variance (accounting) , gel electrophoresis , chromatography , logarithm , two dimensional gel electrophoresis , analysis of variance , chemistry , biology , biological system , mathematics , statistics , proteomics , biochemistry , standard deviation , gene , mathematical analysis , accounting , business
Two‐dimensional gel electrophoresis is a major technique in global analysis at the protein level. This paper presents an examination of spot volume data from three gel sets with radioactively labeled yeast Saccharomyces cerevisiae proteins. A strong variance versus mean dependence in data was found to be stabilized by applying a shifted logarithmic transformation. However, transformed data showed a remaining substantial variance heterogeneity for different proteins. Furthermore, examination of studentized residuals revealed that transformed data were approximately normally distributed and that there were spatial correlations among the measurement errors in the gel.