Skip to main content

Advertisement

Table 3 POG values for the 100 top-ranked genes among six test sites

From: Ranking differentially expressed genes from Affymetrix gene expression data: methods with reproducibility, sensitivity, and specificity

Method PLIER VSN FARMS mmgMOS MBEI GCRMA MAS RMA DFW
Sample A vs. B          
WAD 64 56 71 65 69 58 61 62 60
AD 45 59 65 62 58 65 45 64 59
FC 40 60 65 60 58 65 45 64 59
RP 43 58 65 65 59 65 42 63 59
modT 1 22 0 3 15 5 6 1 1
samT 11 11 0 55 39 6 31 10 1
shrinkT 0 12 - 37 20 10 5 4 1
ibmT - 21 0 - 15 15 8 3 1
Sample C vs. D          
WAD 8 36 41 12 33 9 8 20 10
AD 1 6 17 13 4 4 1 4 4
FC 1 8 16 14 2 3 0 5 4
RP 2 10 17 12 4 3 1 5 4
modT 0 0 0 0 0 0 2 1 0
samT 2 0 0 13 1 0 3 3 0
shrinkT 0 0 - 0 2 0 0 1 0
ibmT - 0 0 - 1 1 - 6 0
  1. Various POG values such as for FARMS/shrinkT could not be calculated because those statistics include infinities. Note POG values for MAS, RMA, and DFW-preprocessed data.