Table 1 Results of pathway fragment analysis

Title

Number of hits

Group size

Expected hits

P-value

Adjusted P-value

Hit names

 Glu ---GluR1:GluR3--- > c-fos

2

11

0.11067

0.00504

0.02521

GRIA1 (ENSG00000155511), GRIA1 (ENSG00000269977)

 GluR1:GluR2 complex

2

9

0.09055

0.00334

0.02521

GRIA1 (ENSG00000155511), GRIA1 (ENSG00000269977)

 AMPA receptor signaling

2

14

0.14086

0.00819

0.0273

GRIA1 (ENSG00000155511), GRIA1 (ENSG00000269977)

 wnt --- > beta-catenin

2

25

0.25153

0.02525

0.04864

TCF7L2, WNT2

 SDF-1 --- > G-protein

2

27

0.27165

0.02918

0.04864

CXCL12, GNG2

 SDF-1 --- > calcium mobilization

2

26

0.26159

0.02718

0.04864

CXCL12, GNG2

 Caspase-3 ---/ K18

2

3

0.04856

7.5719E-4

0.00909

CASP3, KRT18

 Aurora-A(h) ---/ p53(h)

2

3

0.04856

7.5719E-4

0.00909

AURKA, MDM2

 glutamate metabolism

3

16

0.25897

0.00189

0.01513

ABAT, GCLM, GLS

 L-glutamate ---ammonia--- > 2-oxoglutarate

2

8

0.12948

0.00671

0.01611

ABAT, GLS

 xanthosine-5-phosphate --- > allantoin

2

8

0.12948

0.00671

0.01611

NT5E, PNP

 IMP --- > xanthine

2

8

0.12948

0.00671

0.01611

NT5E, PNP

 dGDP --- > guanine

2

7

0.1133

0.00509

0.01611

NT5E, PNP

 dADP --- > hypoxanthine

2

7

0.1133

0.00509

0.01611

NT5E, PNP

 L-ornithine --- > succinate

2

8

0.12948

0.00671

0.01611

ABAT, ODC1

 polyamine metabolism

2

8

0.12948

0.00671

0.01611

ABAT, ODC1

 plasmenylethanolamine --- > plasmenylcholine

2

10

0.16185

0.01057

0.02307

EPT1, PLCB4

 GDP --- > xanthine

2

12

0.19423

0.01519

0.03039

NT5E, PNP

 interconversions and degradations of purine ribonucleotides

3

41

0.6636

0.02728

0.04365

AMPD3, NT5E, PNP

 L-tryptophan --- > NAD+, NADPH

2

16

0.25897

0.02653

0.04365

NAMPT, NMNAT2

 biosynthesis and degradation of nicotinamide,NAD+,NADP+

2

16

0.25897

0.02653

0.04365

NAMPT, NMNAT2

 plasmenylcholine biosynthesis

2

19

0.30752

0.03667

0.05501

EPT1, PLCB4

 acetyl-CoA, acetoacetyl-CoA --- > cholesterol, fatty acid

7

21

0.90945

1.6325E-5

5.7683E-4

FDFT1, FDPS, HMGCS1, IDI1, LSS, MVD, SQLE

 cholesterol metabolism

7

21

0.90945

1.6325E-5

5.7683E-4

FDFT1, FDPS, HMGCS1, IDI1, LSS, MVD, SQLE

 biosynthesis of saturated and n - 9 series of MUFA and PUFA

5

9

0.38976

1.5131E-5

5.7683E-4

ELOVL6, FADS1, FADS2, FASN, SCD

 17-alpha-hydroxyprogesterone --- > 5alpha-androstanediol

3

5

0.21654

7.3989E-4

0.01569

AKR1C1 (ENSG00000187134), AKR1C2 (ENSG00000151632), SRD5A3

 acetyl-CoA, malonyl-CoA --- > lignoceric acid

3

5

0.21654

7.3989E-4

0.01569

ELOVL6, FADS2, FASN

 HMGCR regulation

9

65

2.81496

0.00158

0.02785

EGFR, FDFT1, FDPS, HMGCS1, IDI1, INSIG1, LSS, MVD, SQLE

 Aurora-B cell cycle regulation

17

55

4.09011

1.676E-7

4.0727E-5

BIRC5, BUB1, BUB1B, CCNB1, CCNB2, CDC20, CDCA8, CDK1, CENPE, CUL1, INCENP, MAD2L1, PLK1, TTK, UBB, UBE2C, ZC3HC1

 Cdk1, Plk1 ---/ cyclin B

5

5

0.37183

2.1527E-6

1.7437E-4

CCNB1, CDC20, CDK1, CKS1B, PLK1

 Plk1 --- > Bub1

5

5

0.37183

2.1527E-6

1.7437E-4

BUB1, CCNB1, CCNB2, CDK1, PLK1

 Plk1 --- > INCENP

5

6

0.44619

1.2138E-5

7.3737E-4

CCNB1, CCNB2, CDK1, INCENP, PLK1

 Plk1 activation and substrates

9

24

1.78478

2.7847E-5

0.00135

BRCA2, CCNB1, CCNB2, CDK1, KIF23, PLK1, PRKACB, RAD51, STK10

 CENP-E --- > BubR1

5

7

0.52056

3.9925E-5

0.00162

BUB1, BUB1B, CENPE, MAD2L1, TTK

 cyclosome regulation

16

75

5.57743

7.6369E-5

0.00265

CCNA2, CCNB1, CCNB2, CDC20, CDK1, CKS1B, CUL1, FBXO5, MAD2L1, NDC80, PLK1, SKP2, UBB, UBE2C, UBE2E2, UBE2S

 cyclosome regulatory network

16

77

5.72616

1.0692E-4

0.00289

CCNA2, CCNB1, CCNB2, CDC20, CDK1, CKS1B, CUL1, FBXO5, MAD2L1, NDC80, PLK1, SKP2, UBB, UBE2C, UBE2E2, UBE2S

 Cdc20 ubiquitination

8

22

1.63605

1.03E-4

0.00289

BUB1B, CCNB1, CDC20, CDK1, CKS1B, MAD2L1, UBB, UBE2C

 Cdc20 deubiquitination

8

23

1.71041

1.4802E-4

0.0036

BUB1B, CCNB1, CDC20, CDK1, CKS1B, MAD2L1, UBB, UBE2C

 Plk1 cell cycle regulation

12

52

3.86702

2.8909E-4

0.00585

BRCA2, CCNB1, CCNB2, CDK1, CUL1, FBXO5, KIF23, PLK1, PRKACB, RAD51, STK10, UBB

 Metaphase to Anaphase transition

12

52

3.86702

2.8909E-4

0.00585

BUB1, BUB1B, CCNB1, CDC20, CDK1, CKS1B, FBXO5, MAD2L1, NEK2, PLK1, UBB, UBE2C

 Bub1 --- > APC7

4

6

0.44619

3.9379E-4

0.00736

BUB1, BUB1B, CDC20, MAD2L1

 S phase (Cdk2)

12

55

4.09011

5.0416E-4

0.00875

CCNA2, CDK1, CDKN3, CKS1B, CUL1, E2F3, E2F8, PPM1A, PPM1B, PPM1D, SKP2, UBB

 ID complex deubiquitylation

4

7

0.52056

8.6562E-4

0.01402

CDK1, FANCD2, FANCI, UBB

 borealin --- > Aurora-B

3

4

0.29746

0.00153

0.02323

BIRC5, CDCA8, INCENP

 Pin1 --- > APP

3

5

0.37183

0.00361

0.05167

CCNB1, CCNB2, CDK1

 HMGCR regulation

21

65

6.1986

1.9691E-7

6.4979E-5

CAB39, CAB39L, CYP51A1, DHCR7, EGFR, FDFT1, FDPS, HMGCS1, IDI1, LIPA, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, SC5D, TM7SF2, UFD1L, VCP

 acetyl-CoA, acetoacetyl-CoA --- > cholesterol, fatty acid

9

21

2.00262

5.8742E-5

0.00646

CYP51A1, DHCR7, FDFT1, FDPS, HMGCS1, IDI1, LIPA, SC5D, TM7SF2

 cholesterol metabolism

9

21

2.00262

5.8742E-5

0.00646

CYP51A1, DHCR7, FDFT1, FDPS, HMGCS1, IDI1, LIPA, SC5D, TM7SF2

 parkin associated pathways

15

65

6.1986

8.2044E-4

0.03437

CALM2, DNAJA1, HSPA8, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, TUBA1C, TUBB6, UBE2G1, UBE2L3, UBE2N

 Mdm2 --- > p/CAF

8

23

2.19335

8.3317E-4

0.03437

PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, TAF9 (ENSG00000085231)

 HMGCR --- > 26S proteasome

9

28

2.67017

7.5931E-4

0.03437

PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, UFD1L, VCP

 ER-alpha ---CHIP--- > 26S proteasome

9

28

2.67017

7.5931E-4

0.03437

HSP90AA1, HSPA8, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8

 cofilin-1 degradation

8

22

2.09799

5.9124E-4

0.03437

CFL1, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8

 Smac ---/ cIAP-2

8

24

2.28871

0.00115

0.03446

BIRC3, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8

 E1 ---/ alpha-synuclein

8

24

2.28871

0.00115

0.03446

PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, UBE2L3

 NIK degradation

8

24

2.28871

0.00115

0.03446

PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, TRAF3

 Caspase network

17

82

7.81977

0.00137

0.03759

BID, BIRC3, CDC42, CFLAR, CRADD, DFFA, HSPD1, MCL1, PSMA7, PSMC1, PSMC4, PSMC5, PSMD11, PSMD2, PSMD8, UBE2L3, XIAP