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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).