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J Proteome Res. 2004 Nov-Dec;3(6):1210-8.

Processing of data generated by 2-dimensional gel electrophoresis for statistical analysis: missing data, normalization, and statistics.

Author information

1
Department of Cellular and Structural Biology, University of Texas Health Science Center at San Antonio, San Antonio, TX 78284-7762, USA.

Abstract

Several high-throughput statistical methods were evaluated for processing data generated by two-dimensional polyacrylamide gel electrophoresis, including how to handle missing data, normalization, and statistical analysis of data obtained from 2-D gels. Quantile normalization combined with a nonparametric permutation test based on minimizing false discover rates gave the highest yield of proteins that changed with genotype and detected the anticipated 50% decrease in Mn-superoxide dismutase (MnSOD) protein levels in mitochondrial extracts obtained from MnSOD-deficient mice.

PMID:
15595730
DOI:
10.1021/pr049886m
[Indexed for MEDLINE]

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