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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.
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BMC Cancer

ISSN: 1471-2407

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