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Table 5 Results for the Hypoxia gene sets in the Hypoxia/normal data set.

From: Comparative study of gene set enrichment methods

   RS GLAPA GSEA
Pathway Size Rank P-value Rank P-value1 P-value2 Rank P-value
MENSE_HYPOXIA_UP 342 1 0.000 19 0.074 0.000 2 0.000
HYPOXIA_FIBRO_UP 51 3 0.000 18 0.081 0.004 9 0.000
MENSE_HYPOXIA_DN 14 31 0.000 1 0.054 0.000 4 0.000
MANALO_HYPOXIA_UP 305 11 0.001 30 0.083 0.000 7 0.004
MENSE_HYPOXIA TRANSPORTER_GENES 196 7 0.003 42 0.083 0.000 11 0.002
MENSE_HYPOXIA APOPTOSIS_GENES 38 10 0.000 31 0.086 0.000 26 0.014
HYPOXIA_NORMAL_UP 587 4 0.000 64 0.086 0.000 6 0.000
HIF1_TARGETS 98 8 0.004 66 0.088 0.006 37 0.013
HYPOXIA_REVIEW 220 5 0.002 116 0.111 0.005 8 0.000
VEGFPATHWAY 85 38 0.001 135 0.093 0.016 59 0.011
HYPOXIA_REG_UP 105 2 0.002 241 0.128 0.037 29 0.010
MANALO_HYPOXIA_DN 211 133 0.178 253 0.125 0.032 126 0.094
HIFPATHWAY 42 49 0.018 611 0.196 0.142 31 0.008
P53HYPOXIAPATHWAY 57 285 0.070 249 0.120 0.053 238 0.126
VHL_NORMAL_UP 1251 26 0.083 328 0.134 0.008 522 0.081
RCC_NL_UP 1529 15 0.033 239 0.116 0.001 727 0.222
VHL_RCC_UP 288 374 0.188 130 0.118 0.003 539 0.229
HYPOXIA_RCC_NOVHL_UP 159 528 0.201 177 0.111 0.014 560 0.260
HYPOXIA_RCC_UP 330 716 0.304 415 0.136 0.092 561 0.177