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Table 4 Gene set enrichment meta-analysis of transcriptional regulatory motifs

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

motif Ams Hua HUM Rot S03 S06 Sto Upp mean p FDR
V$E2F_Q6_01 2 165 13 75 2 11 16 25 38.6 < 10E-6 < 10E-6
V$E2F_03 3 273 15 25 7 13 13 9 44.8 < 10E-6 < 10E-6
V$E2F_Q4_01 7 235 17 65 4 20 6 16 46.3 < 10E-6 < 10E-6
KTGGYRSGAA_UNKNOWN 16 191 8 126 43 1 8 23 52.0 < 10E-6 < 10E-6
V$E2F_Q3 30 289 22 80 23 29 4 8 60.6 < 10E-6 < 10E-6
V$E2F1_Q4_01 18 501 18 12 51 24 14 4 80.3 3.0E-6 3.3E-4
V$E2F1_Q6_01 15 440 14 79 44 38 11 14 81.9 3.0E-6 3.3E-4
V$E2F_Q3_01 14 535 21 14 46 28 15 5 84.8 6.0E-6 5.3E-4
V$E2F_Q6 28 595 9 17 9 15 2 6 85.1 7.0E-6 5.3E-4
GCCATNTTG_V$YY1_Q6 89 87 254 60 27 117 39 29 87.8 7.0E-6 5.3E-4
V$E2F1_Q3 9 588 5 43 35 21 7 2 88.8 8.0E-6 5.5E-4
V$E2F_Q4 26 617 12 16 10 25 3 7 89.5 1.0E-5 6.3E-4
V$E2F1DP1RB_01 21 607 10 34 19 16 9 3 89.9 1.2E-5 7.0E-4
ACTWSNACTNY_UNKNOWN 218 32 142 151 90 63 10 48 94.3 1.5E-5 8.2E-4
GGAANCGGAANY_UNKNOWN 227 14 305 58 45 110 1 1 95.1 1.7E-5 8.6E-4
TCCCRNNRTGC_UNKNOWN 151 117 33 10 152 158 33 115 96.1 1.8E-5 8.6E-4
V$NFY_Q6 84 74 36 272 151 76 25 66 98.0 2.2E-5 9.8E-4
V$E2F1_Q6 32 649 6 36 21 12 12 19 98.4 2.5E-5 1.1E-3
V$E2F4DP1_01 31 672 7 23 13 19 18 15 99.8 3.0E-5 1.1E-3
SGCGSSAAA_V$E2F1DP2_01 4 698 11 26 12 17 17 18 100.4 3.0E-5 1.1E-3
V$E2F1DP2_01 11 695 1 44 15 6 21 11 100.5 3.1E-5 1.1E-3
V$E2F1DP1_01 12 694 2 45 16 7 22 12 101.3 3.2E-5 1.1E-3
V$E2F4DP2_01 13 693 3 46 17 8 23 13 102.0 3.5E-5 1.1E-3
V$E2F_02 24 685 4 48 18 10 20 10 102.4 3.5E-5 1.1E-3
TGASTMAGC_V$NFE2_01 19 166 301 152 6 23 83 87 104.6 4.1E-5 1.2E-3
AACYNNNNTTCCS_UNKNOWN 77 9 299 216 22 101 52 77 106.6 4.6E-5 1.3E-3
V$NRF1_Q6 38 224 114 233 8 150 51 42 107.5 4.7E-5 1.3E-3
V$ELK1_02 198 219 160 32 194 56 27 26 114.0 7.7E-5 2.1E-3
V$E2F1_Q4 25 511 39 98 96 85 26 45 115.6 9.1E-5 2.4E-3
GCGSCMNTTT_UNKNOWN 208 56 37 396 37 161 48 49 124.0 1.8E-4 4.4E-3
V$GABP_B 36 22 173 562 86 107 5 17 126.0 2.1E-4 5.0E-3
V$YY1_Q6 216 215 304 87 26 81 58 59 130.8 2.8E-4 6.5E-3
V$USF2_Q6 172 207 82 328 113 53 57 53 133.1 3.2E-4 7.4E-3
V$NRF2_01 301 19 383 64 103 127 74 39 138.8 4.6E-4 1.0E-2
V$E2F_01 20 641 16 222 172 3 19 21 139.3 4.7E-4 1.0E-2
V$SP1_Q6_01 23 18 310 545 29 102 35 61 140.4 4.9E-4 1.0E-2
V$ARNT_02 221 248 68 169 76 222 38 86 141.0 5.1E-4 1.0E-2
V$HIF1_Q5 62 279 168 159 285 69 71 38 141.4 5.2E-4 1.0E-2
RACTNNRTTTNC_UNKNOWN 315 6 279 119 211 82 94 27 141.6 5.3E-4 1.0E-2
V$BACH1_01 17 118 349 187 133 44 63 239 143.8 6.2E-4 1.2E-2
ATCMNTCCGY_UNKNOWN 40 428 56 51 321 14 133 113 144.5 6.4E-4 1.2E-2
V$AP1_01 51 85 177 287 42 43 120 361 145.8 6.9E-4 1.2E-2
ACTAYRNNNCCCR_UNKNOWN 171 13 83 66 637 109 29 72 147.5 7.5E-4 1.3E-2
V$ER_Q6_02 118 366 63 176 177 214 37 58 151.1 9.4E-4 1.6E-2
V$CETS1P54_01 308 55 244 134 317 41 80 36 151.9 9.8E-4 1.7E-2
V$NFY_01 1 559 42 157 106 242 30 92 153.6 1.1E-3 1.8E-2
V$COUP_DR1_Q6 86 67 194 232 269 223 62 97 153.8 1.1E-3 1.8E-2
V$NFY_C 73 135 35 539 245 86 47 90 156.3 1.2E-3 2.0E-2
V$AP4_Q6_01 60 228 79 459 250 57 75 91 162.4 1.7E-3 2.6E-2
CTCNANGTGNY_UNKNOWN 199 43 30 259 255 116 251 167 165.0 1.9E-3 3.0E-2
TMTCGCGANR_UNKNOWN 550 485 72 59 68 60 24 24 167.8 2.2E-3 3.3E-2
V$MYCMAX_B 22 510 271 276 234 4 36 34 173.4 2.9E-3 4.2E-2
YGCGYRCGC_UNKNOWN 67 267 249 491 160 88 41 28 173.9 2.9E-3 4.2E-2
V$AP2_Q3 78 58 91 544 279 96 111 137 174.3 3.0E-3 4.2E-2
CCAWNWWNNNGGC_UNKNOWN 39 256 222 203 360 153 100 93 178.3 3.5E-3 4.9E-2
  1. Genes with common transcriptional regulatory sequence elements constitute a gene set. The ranking numbers indicate the ranking of each gene set out of a total of 761 gene sets in each data set and the mean ranking number indicate the ranking in the meta-analysis. Only 55 significantly up-regulated out of a total of 761 gene sets are shown. No gene sets were significantly down-regulated. Ams: Amsterdam, Hua: Huang, HUM: HUMAC, Rot: Rotterdam, S03: Sotiriou 2003, S06: Sotiriou 2006, Sto: Stockholm, Upp: Uppsala.