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Table 3 Pathways identified by GennMAPP analysis

From: Gene expression meta-analysis identifies metastatic pathways and transcription factors in breast cancer

Pathway Ams Hua HUM Rot S03 S06 Sto Upp mean p FDR
Up-regulated            
Hs_Cell_cycle_KEGG 1 97 2 1 1 4 1 1 13.5 < 10E-6 9.0E-5
Hs_Cell_Cycle-G1_to_S_control_Reactome 3 51 21 13 5 7 8 11 14.9 < 10E-6 9.0E-5
Hs_DNA_replication_Reactome 2 124 3 8 6 10 2 3 19.8 5.0E-6 3.0E-4
Hs_Electron_Transport_Chain 73 9 34 2 35 11 4 2 21.3 1.0E-5 4.4E-4
Hs_Androgen-Receptor_NetPath_2 82 12 9 16 20 5 43 19 25.8 4.6E-5 1.3E-3
Hs_1-Tissue-Embryonic_Stem_Cell 6 157 1 4 22 3 13 4 26.3 5.2E-5 1.3E-3
Hs_mRNA_processing_Reactome 45 22 64 6 33 26 9 5 26.3 5.2E-5 1.3E-3
Hs_Citrate_cycle_TCA_cycle_ 18 23 81 40 7 35 11 21 29.5 1.5E-4 3.3E-3
Hs_Aminoacyl_tRNA_biosynthesis 19 101 84 32 10 13 3 8 33.8 4.7E-4 9.3E-3
Hs_Cholesterol_Biosynthesis 28 119 7 41 13 56 6 24 36.8 1.0E-3 1.8E-2
Hs_Hedgehog_Netpath_10 41 5 4 21 99 18 76 65 41.1 2.7E-3 4.3E-2
Down-regulated            
Hs_Adipogenesis 4 22 41 43 16 58 2 1 23.4 2.5E-5 4.4E-3
Hs_EGFR1_NetPath_4 5 3 42 44 24 13 13 80 28.0 1.0E-4 8.9E-3
Hs_T-Cell-Receptor_NetPath_11 37 2 75 6 38 28 19 51 32.0 3.0E-4 1.8E-2
Hs_Smooth_muscle_contraction 30 51 36 23 34 50 12 44 35.0 6.6E-4 2.4E-2
Hs_Insulin_Signaling 15 11 54 64 39 47 16 39 35.6 7.7E-4 2.4E-2
Hs_IL-6_NetPath_18 16 8 163 3 41 7 26 23 35.9 8.1E-4 2.4E-2
Hs_IL-7_NetPath_19 7 5 141 9 19 15 28 78 37.75 1.3E-3 3.0E-2
Hs_IL-3_NetPath_15 58 7 56 18 32 29 44 61 38.125 1.4E-3 3.0E-2
  1. The ranking numbers indicate the ranking of each gene set (pathway) out of the 177 gene sets in each data set and the mean ranking number indicate the ranking in the meta-analysis. Only 19 significant out of a total of 177 gene sets are shown. Ams: Amsterdam, Hua: Huang, HUM: HUMAC, Rot: Rotterdam, S03: Sotiriou 2003, S06: Sotiriou 2006, Sto: Stockholm, Upp: Uppsala.