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Table 2 Metastatic pathways identified by gene set enrichment meta-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

           

DNA_REPLICATION_REACTOME

11

64

2

19

5

6

2

6

14.4

< 10E-6

< 10E-6

CELL_CYCLE_KEGG

4

101

1

14

39

5

3

12

22.4

1.0E-6

1.1E-4

ATRBRCAPATHWAY

58

10

23

1

73

41

9

17

29.0

2.2E-5

1.5E-3

AMINOACYL_TRNA_BIOSYNTHESIS

35

90

57

21

9

9

8

10

29.9

2.7E-5

1.5E-3

PYRIMIDINE_METABOLISM

5

9

11

20

159

3

7

34

31.0

3.5E-5

1.6E-3

G1_TO_S_CELL_CYCLE_REACTOME

22

141

5

5

65

19

5

11

34.1

8.2E-5

3.0E-3

PROTEASOME_DEGRADATION

29

128

71

29

2

13

1

7

35.0

1.0E-4

3.0E-3

G2PATHWAY

30

107

4

23

86

8

15

9

35.3

1.1E-4

3.0E-3

PROTEASOMEPATHWAY

36

155

45

10

1

14

10

16

35.9

1.3E-4

3.1E-3

PURINE_METABOLISM

23

70

54

38

57

22

22

28

39.3

2.7E-4

6.0E-3

MRNA_PROCESSING_REACTOME

59

67

68

34

14

53

23

20

42.3

5.0E-4

1.0E-2

PROTEASOME

38

171

18

31

3

50

12

26

43.6

6.6E-4

1.2E-2

VEGFPATHWAY

41

52

84

4

37

38

81

13

43.8

6.8E-4

1.2E-2

PENTOSE_PHOSPHATE_PATHWAY

28

140

83

68

10

17

4

3

44.1

7.3E-4

1.2E-2

CELLCYCLEPATHWAY

44

112

3

13

139

2

27

21

45.1

8.7E-4

1.3E-2

GLYCOLYSIS_AND_GLUCONEOGENESIS

1

145

107

62

4

10

16

24

46.1

1.1E-3

1.5E-2

OXIDATIVE_PHOSPHORYLATION

80

142

25

15

85

16

11

1

46.9

1.2E-3

1.6E-2

G1PATHWAY

75

39

27

11

171

25

36

8

49.0

1.7E-3

2.0E-2

ARAPPATHWAY

19

8

175

17

49

43

25

56

49.0

1.7E-3

2.0E-2

FRUCTOSE_AND_MANNOSE_METABOLISM

10

11

145

41

58

101

19

14

49.9

2.0E-3

2.3E-2

S1P_SIGNALING

17

35

60

25

131

66

51

22

50.9

2.4E-3

2.5E-2

ACTINYPATHWAY

6

219

50

2

15

60

24

43

52.4

3.0E-3

3.1E-2

ELECTRON_TRANSPORT_CHAIN

131

191

36

9

41

12

6

5

53.9

3.8E-3

3.7E-2

RNA_TRANSCRIPTION_REACTOME

133

69

6

24

97

49

37

19

54.3

4.0E-3

3.7E-2

MPRPATHWAY

26

176

12

28

129

1

20

44

54.5

4.2E-3

3.7E-2

UBIQUITIN_MEDIATED_PROTEOLYSIS

46

125

128

89

6

15

14

15

54.8

4.3E-3

3.7E-2

Down-regulated

           

HISTIDINE_METABOLISM

193

151

117

189

184

191

145

212

172.8

2.5E-3

4.6E-2

PPARAPATHWAY

192

167

131

177

168

133

206

210

173.0

2.4E-3

4.6E-2

GLYCEROLIPID_METABOLISM

165

85

204

207

221

185

155

177

174.9

1.8E-3

4.0E-2

FATTY_ACID_METABOLISM

164

210

176

138

200

140

163

211

175.3

1.7E-3

4.0E-2

PDGFPATHWAY

209

127

182

185

112

181

212

213

177.6

1.1E-3

3.1E-2

EGFPATHWAY

208

124

192

191

106

197

190

215

177.9

1.1E-3

3.1E-2

NUCLEAR_RECEPTORS

173

202

121

174

199

150

214

193

178.3

9.8E-4

3.1E-2

BETA_ALANINE_METABOLISM

218

164

116

165

218

163

193

203

180.0

7.2E-4

3.1E-2

TOLLPATHWAY

212

119

167

204

128

223

165

222

180.0

7.2E-4

3.1E-2

GPCRDB_OTHER

134

196

164

158

210

196

205

195

182.3

4.5E-4

3.1E-2

GLEEVECPATHWAY

219

73

177

219

203

166

199

219

184.4

2.9E-4

3.1E-2

VALINE_LEUCINE_AND_ISOLEUCINE_DEGRADATION

222

174

184

181

207

194

97

217

184.5

2.8E-4

3.1E-2

  1. The ranking numbers indicate the ranking of each gene set (pathway) out of the 223 gene sets in each data set and the mean ranking number indicate the ranking in the meta-analysis. Only 38 significant out of a total of 223 gene sets are shown. Ams: Amsterdam, Hua: Huang, HUM: HUMAC, Rot: Rotterdam, S03: Sotiriou 2003, S06: Sotiriou 2006, Sto: Stockholm, Upp: Uppsala.