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The case for well-conducted experiments to validate statistical protocols for 2D gels: different pre-processing =
Sreelatha Meleth1, Jessy Deshane, Helen Kim
1Biostatistics and Bioinformatics Unit, Comprehensive Cancer Center, University of Alabama at Birmingham, Birmingham, AL 35294, USA. Sreelatha.Meleth@ccc.uab.edu
Background:
The proteomics literature has seen a proliferation of publications that seek to apply the rapidly improving technology of 2D gels to study various biological systems. However, there is a dearth of systematic studies that have investigated appropriate statistical approaches to analyse the data from these experiments.
Results:
Comparison of the effects of statistical pre-processing on the results of two sample t-tests suggests that the results of 2D gel experiments and by extension the conclusions derived from these experiments are not independent of the statistical protocol used.
Conclusions:
This study suggests that there is a need for well-conducted validation studies to establish optimal statistical techniques to be used on such data sets.
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