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Table 5 Effect of δ-tocotrienol on down-regulation (74) of fold change gene expression in "causal netwworks" section of IPA analysis in hepatitis C patients

From: δ-Tocotrienol feeding modulates gene expression of EIF2, mTOR, protein ubiquitination through multiple-signaling pathways in chronic hepatitis C patients

# Master Regulator Molecule Type Part. regulators1 Depth Pred Acti State2 Act. Z-Score3 P-Value Over4 Network Bi-Corr5 Causal Net6 Target-Con-Re7
B Down-regulation          
25 JAK1/2 group 26s Proteasome,Akt,AKT1 3 Inhibited -7.511 2.54E-14 0.0008 295 (81) 80
26 PPAR ligand-PPAR-Retinoic acid-RXRα complex 26s Proteasome,Akt,AKT1 3 Inhibited -4.459 3.31E-13 0.0131 306 (61) 60
27 LXR ligand-LXR-Retinoic acid-RXRα complex 26s Proteasome,Akt,AR 3 Inhibited -4.815 4.17E-13 0.0085 290 (58) 57
28 PPARγ ligand-PPARγ-Retinoic acid-RARα complex 26s Proteasome,Akt,AKT1 3 Inhibited -4.230 4.23E-13 0.0121 306 (66) 65
29 PXR ligand-PXR-Retinoic acid-RXRα complex 26s Proteasome,AKT1 3 Inhibited -4.432 3.33E-12 0.0221 294 (58) 58
30 RAR ligand-RARα-Retinoic acid-RXRα complex 26s Proteasome,Akt,AKT1 3 Inhibited -5.396 3.52E-12 0.039 297 (57) 56
31 Vegf Receptor group 26s Proteasome,ABL1,Akt 3 Inhibited -5.056 1.56E-11 0.0052 276 (93) 90
32 FXR ligand-FXR-Retinoic acid-RXRα complex 26s Proteasome,Akt,AKT1 3 Inhibited -5.100 1.96E-11 0.0484 291 (56) 55
33 hydrogen sulfide chemical - endogenous mammalian 26s Proteasome,Akt,AKT1 3 Inhibited -4.222 2.15E-11 0.0013 237 (92) 89
34 NLK kinase 26s Proteasome,AKT1,Alp 3 Inhibited -3.429 8.72E-11 0.0375 248 (50) 45
35 CD80 transmembrane receptor CD28,CD80,IFNG,IL4 2 Inhibited -6.267 1.32E-10 0.003 132 (8) 8
36 Pdgfra-Pdgfrb complex 26s Proteasome,AKT1,AR 3 Inhibited -7.878 1.37E-10 0.0184 285 (93) 89
37 Klra7 (includes others) transmembrane receptor 26s Proteasome,Akt,AR 3 Inhibited -7.445 1.44E-10 0.0324 291 (93) 93
38 FLT4 transmembrane receptor 26s Proteasome,Akt,AR 3 Inhibited -5.020 1.46E-10 0.0177 280 (80) 78
39 Vegfr dimer complex 26s Proteasome,AKT1,AR 3 Inhibited -7.071 1.59E-10 0.0178 242 (61) 58
40 lipopolysaccharide chemical drug lipopolysaccharide 1 Inhibited -7.668 2.75E-10 0.0045 120 (1) 1
41 TEK kinase 26s Proteasome,ADRB2 3 Inhibited -4.954 3E-10 0.0124 274 (93) 93
42 LATS1 kinase 26s Proteasome,ARID4A 3 Activated 4.680 3.43E-10 0.0322 250 (56) 54
43 NYAP1 other 26s Proteasome,Akt,AKT1 3 Inhibited -6.264 3.54E-10 0.0304 281 (86) 85
44 MYO16 other 26s Proteasome,Akt,AKT1 3 Inhibited -6.264 3.54E-10 0.0304 281 (86) 85
45 NYAP2 other 26s Proteasome,Akt,AKT1 3 Inhibited -6.264 3.54E-10 0.0304 281 (86) 85
46 IRS group 26s Proteasome,ADRB2 3 Inhibited -5.548 1.63E-09 0.0456 269 (77) 74
47 FAK-Src complex 26s Proteasome,ABL1,Akt 3 Inhibited -6.839 2.41E-09 0.043 273 (90) 86
48 Plk group 26s Proteasome,Akt,AKT1 3 Inhibited -2.500 2.77E-09 0.0425 219 (55) 50
49 G-protein beta group 26s Proteasome,ADORA2A 3 Inhibited -5.647 3.22E-09 0.0309 283 (103) 99
50 ADRA1B G-protein coupled receptor 26s Proteasome,ADRA1B 3 Inhibited -6.238 4.49E-09 0.0406 278 (86) 85
51 IL2 cytokine IL2 1 Inhibited -4.619 8.23E-09 0.0004 48 (1) 1
52 propolis biologic drug 26s Proteasome,AKT1 3 Inhibited -2.829 1.78E-08 0.0482 231 (76) 73
53 exenatide biologic drug 26s Proteasome,Akt,AMPK 3   -1.432 2.36E-08 0.0088 236 (88) 88
54 imidazole chemical - endogenous mammalian 26s Proteasome,ADORA2A 3   1.091 2.79E-08 0.05 243 (75) 70
55 LETM1 other Akt,AMPK,APP,AR 3   -1.023 0.000000069 0.036 215 (64) 63
56 IL-2R complex IL-2R,IL2RA,IL2RG,JAK1 2 Inhibited -3.491 0.00000012 0.0103 84 (14) 13
57 IL23 complex IL12B,IL23,JAK2,MTOR 2 Inhibited -7.155 0.000000165 0.0112 80 (9) 9
58 IL15 cytokine IL15 1 Inhibited -2.121 0.000000551 0.0009 32 (1) 1
59 TH17 Cytokine group IL17A,IL21,IL22,TH17 2 Inhibited -4.323 0.000000813 0.0037 39 (4) 4
60 IL4R transmembrane receptor IL4,IL4R,IRS1,IRS2,JAK 2 Inhibited -4.503 0.00000102 0.0252 75 (13) 12
61 IL21 cytokine IL21 1 Inhibited -2.985 0.00000527 0.0028 22 (1) 1
62 SATB1 transcription regulator SATB1 1   1.528 0.00000669 0.0011 21 (1) 1
63 cyclosporin A biologic drug cyclosporin A 1   1.441 0.0000108 0.0163 39 (1) 1
64 IL12RB2 transmembrane receptor IL12 (family),IL12RB2 2 Inhibited -4.116 0.0000233 0.0103 34 (4) 3
65 mir-26 microRNA Akt,mir-26 2   0.192 0.0000247 0.0126 27 (2) 2
66 mir-221 microRNA Akt,mir-221 2   -0.192 0.0000247 0.0129 27 (2) 2
67 IL5 cytokine IL5 1 Inhibited -4.914 0.0000541 0.0136 28 (1) 1
68 ropivacaine chemical drug Akt,NOS3,Pkc(s) 2   -1.029 0.0000544 0.0289 34 (5) 4
69 UCP3 transporter IRS1,IRS2,PI3K 2   -1.961 0.0000657 0.0231 26 (4) 3
70 AIF1 other AIF1,Akt,BAD 2   -1.177 0.0000657 0.0211 26 (3) 3
71 IFN Beta group IFN Beta 1 Inhibited -2.138 0.00082 0.043 14 (1) 1
72 PDGFD growth factor PDGFD 1   -0.577 0.000838 0.0044 3 (1) 1
73 PARP9 enzyme PARP9 1 Inhibited -2.236 0.00123 0.0073 5 (1) 1
74 PPP1R14B phosphatase PPP1R14B 1   -1.732 0.00162 0.005 3 (1) 1
  1. 1Part. Regulators = Paticipating Regulators; 2Pred Acti state = Predicted Acitivation State; 3Act. Z-Score = Activation Z-Score; 4P-Value Over. = P-Value Overlap; 5Network Bi-Corr = Network Bias-Corrected P-Values; 7Target-Con-Re. = Target Connected regulators