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Table 1 Summary of measurements used for each gene set method.

From: Microarray-based gene set analysis: a comparison of current methods

Method

Measurement of gene set

Permutation

GSEA-Category

The sum of the T-statistics

Sample

GSEA-limma

The mean of the T-statistics

Gene

SAFE

The sum of the ranks of the T-statistics

Sample

Globaltest

The mean of the Q-statistics

Sample

PCOT2

Hotelling's T2 (multivariate T-statistic)

Sample

sigPathway

The mean of the T-statistics

Sample