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Table 1 GSEA canonical pathways results on three different database (KEGG, Reactome and BioCarta)

From: Whole gene expression profile in blood reveals multiple pathways deregulation in R6/2 mouse model

 

Gene set name

SIZE

ES

NES

NOM p-val

FDR q-val

FWER p-val

KEGG

COMPLEMENT AND COAGULATION CASCADES

61

0.69

2.56

0.000

0.000

0.000

PPAR SIGNALING PATHWAY

60

0.56

2.02

0.000

0.004

0.006

GLYCINE SERINE AND THREONINE METABOLISM

29

0.60

1.87

0.002

0.023

0.057

PRIMARY BILE ACID BIOSYNTHESIS

15

0.69

1.77

0.006

0.044

0.137

RIBOSOME

82

0.45

1.73

0.000

0.052

0.199

LYSINE DEGRADATION

43

0.48

1.63

0.007

0.126

0.483

HISTIDINE METABOLISM

28

0.53

1.62

0.020

0.110

0.488

SYSTEMIC LUPUS ERYTHEMATOSUS

54

0.46

1.62

0.007

0.101

0.505

PEROXISOME

73

0.43

1.60

0.002

0.105

0.565

PENTOSE PHOSPHATE PATHWAY

23

0.55

1.59

0.013

0.100

0.582

BUTANOATE METABOLISM

30

0.51

1.59

0.007

0.095

0.598

CYSTEINE AND METHIONINE METABOLISM

33

0.47

1.54

0.026

0.131

0.736

BIOSYNTHESIS OF UNSATURATED FATTY ACIDS

18

0.55

1.53

0.035

0.134

0.770

TYROSINE METABOLISM

35

0.46

1.51

0.031

0.144

0.822

PRION DISEASES

32

0.47

1.51

0.024

0.140

0.831

ONE CARBON POOL BY FOLATE

16

0.55

1.47

0.043

0.177

0.910

SELENOAMINO ACID METABOLISM

25

0.48

1.46

0.047

0.171

0.916

FATTY ACID METABOLISM

33

0.45

1.44

0.047

0.193

0.948

AMINOACYL TRNA BIOSYNTHESIS

41

0.42

1.40

0.048

0.241

0.977

CARDIAC MUSCLE CONTRACTION

69

−0.5

−1.83

0.000

0.044

0.051

DILATED CARDIOMYOPATHY

87

−0.46

−1.74

0.000

0.075

0.163

REACTOME

FORMATION OF FIBRIN CLOT CLOTTING CASCADE

31

0.7

2.20

0.000

0.002

0.001

BILE ACID AND BILE SALT METABOLISM

23

0.73

2.18

0.000

0.001

0.001

COMPLEMENT CASCADE

23

0.71

2.10

0.000

0.003

0.007

LIPOPROTEIN METABOLISM

26

0.67

2.05

0.000

0.007

0.019

RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2

74

0.53

2.01

0.000

0.010

0.034

CHYLOMICRON MEDIATED LIPID TRANSPORT

16

0.73

2.00

0.000

0.009

0.039

INTRINSIC PATHWAY

17

0.73

1.99

0.000

0.008

0.040

METABOLISM OF AMINO ACIDS AND DERIVATIVES

188

0.45

1.98

0.000

0.009

0.052

LIPID DIGESTION MOBILIZATION AND TRANSPORT

41

0.58

1.95

0.002

0.011

0.070

SYNTHESIS OF BILE ACIDS AND BILE SALTS

18

0.69

1.91

0.004

0.016

0.109

SULFUR AMINO ACID METABOLISM

24

0.61

1.84

0.002

0.035

0.239

PEPTIDE CHAIN ELONGATION

81

0.45

1.74

0.000

0.094

0.548

CLEAVAGE OF GROWING TRANSCRIPT IN THE TERMINATION REGION

31

0.51

1.63

0.011

0.238

0.888

TRANSCRIPTIONAL ACTIVITY OF SMAD2 SMAD3 SMAD4 HETEROTRIMER

36

0.49

1.62

0.007

0.248

0.917

BIOCARTA

COMP PATHWAY

16

0.75

2.02

0.000

0.021

0.017

INTRINSIC PATHWAY

23

0.67

2.00

0.000

0.012

0.019

 

TOB1 PATHWAY

19

0.61

1.70

0.011

0.224

0.412

  1. Table shows statistically up-regulated and down-regulated pathways in R6/2 versus WT mice, and for everyone, number of genes (size) identified in the microarrays, enrichment score (ES), normalized enrichment score (NES), nominal p-value (NOM p-val), false discovery rate (FDR q-val), familywise-error rate (FWER p-val).