Figure 5

A comparison of the reliability of differential expression results returned by regularized t-test, the GEO method, and the voting method in a three sample by three sample comparison. The number of the top 50 differentially expressed genes from the master list that are found in the gene list of length 10, 50, 100, 150, 200, 250 and 300 is indicated on the y-axis. The GEO results based on a 3v3 sample are clearly superior to the 3v3 regularized t-test results, and roughly comparable to the results of the 4v4 regularized t-test (not shown). The voting method combining the results improves the results to a level almost comparable to a 5v5 regularized t-test.