Pathway Name Avg Num Perturbations Total Perturbations Num Entities Min Mean Truth Max Mean Truth Min Mean Within Max Mean Within Min Mean Any Max Mean Within TCGA08_retinoblastoma 52.0 417.0 8.0 -0.183 0.112 1000.0 -1000.0 -0.018 -1000.0 Syndecan-1-mediated signaling events 33.0 1152.0 34.0 -0.309 0.013 1000.0 -1000.0 -0.041 -1000.0 IL23-mediated signaling events 27.0 1627.0 60.0 -0.539 0.013 1000.0 -1000.0 -0.165 -1000.0 Ephrin A reverse signaling 25.0 175.0 7.0 -0.068 -0.0 1000.0 -1000.0 -0.017 -1000.0 Signaling events regulated by Ret tyrosine kinase 22.0 1863.0 82.0 -0.238 0.013 1000.0 -1000.0 -0.085 -1000.0 TCGA08_p53 22.0 154.0 7.0 -0.129 0.042 1000.0 -1000.0 -0.015 -1000.0 Signaling events mediated by the Hedgehog family 21.0 1120.0 52.0 -0.179 0.144 1000.0 -1000.0 -0.045 -1000.0 EGFR-dependent Endothelin signaling events 21.0 449.0 21.0 -0.226 0.019 1000.0 -1000.0 -0.065 -1000.0 E-cadherin signaling events 20.0 103.0 5.0 -0.111 0.013 1000.0 -1000.0 -0.027 -1000.0 IL12-mediated signaling events 18.0 1640.0 87.0 -0.414 0.064 1000.0 -1000.0 -0.126 -1000.0 PDGFR-alpha signaling pathway 18.0 792.0 44.0 -0.101 0.023 1000.0 -1000.0 -0.068 -1000.0 Glypican 2 network 18.0 75.0 4.0 -0.062 -0.047 1000.0 -1000.0 -0.018 -1000.0 Glypican 1 network 17.0 836.0 48.0 -0.258 0.03 1000.0 -1000.0 -0.032 -1000.0 TCR signaling in naïve CD8+ T cells 17.0 1666.0 93.0 -0.191 0.039 1000.0 -1000.0 -0.079 -1000.0 Effects of Botulinum toxin 17.0 452.0 26.0 -0.177 0.013 1000.0 -1000.0 -0.055 -1000.0 IL4-mediated signaling events 16.0 1482.0 91.0 -0.549 0.416 1000.0 -1000.0 -0.147 -1000.0 Reelin signaling pathway 16.0 905.0 56.0 -0.254 0.03 1000.0 -1000.0 -0.078 -1000.0 Signaling mediated by p38-alpha and p38-beta 16.0 707.0 44.0 -0.177 0.013 1000.0 -1000.0 -0.049 -1000.0 Angiopoietin receptor Tie2-mediated signaling 16.0 1445.0 88.0 -0.204 0.031 1000.0 -1000.0 -0.112 -1000.0 Arf6 signaling events 15.0 972.0 62.0 -0.226 0.023 1000.0 -1000.0 -0.05 -1000.0 Syndecan-4-mediated signaling events 15.0 1054.0 67.0 -0.196 0.023 1000.0 -1000.0 -0.09 -1000.0 Visual signal transduction: Cones 14.0 568.0 38.0 -0.136 0.013 1000.0 -1000.0 -0.054 -1000.0 Signaling events activated by Hepatocyte Growth Factor Receptor (c-Met) 14.0 1210.0 85.0 -0.161 0.013 1000.0 -1000.0 -0.075 -1000.0 FOXA2 and FOXA3 transcription factor networks 14.0 675.0 46.0 -0.428 0.016 1000.0 -1000.0 -0.08 -1000.0 ErbB2/ErbB3 signaling events 12.0 788.0 65.0 -0.179 0.019 1000.0 -1000.0 -0.056 -1000.0 Caspase cascade in apoptosis 12.0 928.0 74.0 -0.177 0.054 1000.0 -1000.0 -0.034 -1000.0 HIF-1-alpha transcription factor network 12.0 964.0 76.0 -0.252 0.043 1000.0 -1000.0 -0.146 -1000.0 p75(NTR)-mediated signaling 12.0 1623.0 125.0 -0.207 0.038 1000.0 -1000.0 -0.099 -1000.0 amb2 Integrin signaling 12.0 989.0 82.0 -0.213 0.014 1000.0 -1000.0 -0.072 -1000.0 Glucocorticoid receptor regulatory network 12.0 1449.0 114.0 -0.45 0.282 1000.0 -1000.0 -0.07 -1000.0 Endothelins 12.0 1229.0 96.0 -0.211 0.029 1000.0 -1000.0 -0.081 -1000.0 Syndecan-3-mediated signaling events 12.0 428.0 35.0 -0.226 0.038 1000.0 -1000.0 -0.04 -1000.0 Wnt signaling 12.0 87.0 7.0 -0.069 0.002 1000.0 -1000.0 -0.023 -1000.0 Calcineurin-regulated NFAT-dependent transcription in lymphocytes 12.0 839.0 68.0 -0.376 0.033 1000.0 -1000.0 -0.126 -1000.0 Visual signal transduction: Rods 12.0 637.0 52.0 -0.146 0.013 1000.0 -1000.0 -0.077 -1000.0 Thromboxane A2 receptor signaling 11.0 1244.0 105.0 -0.226 0.027 1000.0 -1000.0 -0.064 -1000.0 Noncanonical Wnt signaling pathway 10.0 261.0 26.0 -0.089 0.013 1000.0 -1000.0 -0.047 -1000.0 Calcium signaling in the CD4+ TCR pathway 10.0 315.0 31.0 -0.238 0.013 1000.0 -1000.0 -0.077 -1000.0 Syndecan-2-mediated signaling events 9.0 634.0 69.0 -0.175 0.025 1000.0 -1000.0 -0.032 -1000.0 IL1-mediated signaling events 9.0 604.0 62.0 -0.157 0.041 1000.0 -1000.0 -0.088 -1000.0 TCGA08_rtk_signaling 9.0 241.0 26.0 -0.226 0.016 1000.0 -1000.0 -0.019 -1000.0 Neurotrophic factor-mediated Trk receptor signaling 9.0 1155.0 120.0 -0.197 0.071 1000.0 -1000.0 -0.069 -1000.0 Lissencephaly gene (LIS1) in neuronal migration and development 8.0 471.0 54.0 -0.181 0.026 1000.0 -1000.0 -0.089 -1000.0 a4b1 and a4b7 Integrin signaling 8.0 40.0 5.0 -0.027 -0.002 1000.0 -1000.0 -0.022 -1000.0 BMP receptor signaling 8.0 652.0 81.0 -0.179 0.029 1000.0 -1000.0 -0.089 -1000.0 Fc-epsilon receptor I signaling in mast cells 8.0 853.0 97.0 -0.181 0.038 1000.0 -1000.0 -0.076 -1000.0 RXR and RAR heterodimerization with other nuclear receptor 8.0 465.0 52.0 -0.147 0.03 1000.0 -1000.0 -0.042 -1000.0 Retinoic acid receptors-mediated signaling 8.0 499.0 58.0 -0.154 0.026 1000.0 -1000.0 -0.07 -1000.0 Stabilization and expansion of the E-cadherin adherens junction 8.0 607.0 74.0 -0.226 0.06 1000.0 -1000.0 -0.081 -1000.0 E-cadherin signaling in the nascent adherens junction 8.0 633.0 76.0 -0.111 0.023 1000.0 -1000.0 -0.081 -1000.0 IL2 signaling events mediated by STAT5 8.0 194.0 22.0 -0.195 0.014 1000.0 -1000.0 -0.057 -1000.0 Signaling events mediated by Stem cell factor receptor (c-Kit) 8.0 636.0 78.0 -0.073 0.034 1000.0 -1000.0 -0.068 -1000.0 LPA4-mediated signaling events 7.0 88.0 12.0 -0.039 0.016 1000.0 -1000.0 -0.028 -1000.0 Nephrin/Neph1 signaling in the kidney podocyte 7.0 258.0 34.0 -0.045 0.013 1000.0 -1000.0 -0.052 -1000.0 ErbB4 signaling events 7.0 546.0 69.0 -0.226 0.077 1000.0 -1000.0 -0.078 -1000.0 Presenilin action in Notch and Wnt signaling 7.0 428.0 61.0 -0.22 0.039 1000.0 -1000.0 -0.07 -1000.0 S1P1 pathway 7.0 252.0 36.0 -0.09 0.013 1000.0 -1000.0 -0.056 -1000.0 Integrins in angiogenesis 7.0 660.0 84.0 -0.164 0.031 1000.0 -1000.0 -0.085 -1000.0 Nongenotropic Androgen signaling 7.0 378.0 52.0 -0.056 0.013 1000.0 -1000.0 -0.057 -1000.0 IL6-mediated signaling events 7.0 557.0 75.0 -0.165 0.048 1000.0 -1000.0 -0.079 -1000.0 FOXM1 transcription factor network 7.0 385.0 51.0 -0.185 0.105 1000.0 -1000.0 -0.174 -1000.0 Coregulation of Androgen receptor activity 6.0 499.0 76.0 -0.18 0.025 1000.0 -1000.0 -0.046 -1000.0 Osteopontin-mediated events 6.0 254.0 38.0 -0.064 0.016 1000.0 -1000.0 -0.089 -1000.0 JNK signaling in the CD4+ TCR pathway 6.0 114.0 17.0 -0.052 0.013 1000.0 -1000.0 -0.032 -1000.0 Signaling events mediated by PTP1B 6.0 457.0 76.0 -0.227 0.019 1000.0 -1000.0 -0.076 -1000.0 Nectin adhesion pathway 6.0 432.0 63.0 -0.111 0.021 1000.0 -1000.0 -0.072 -1000.0 Ceramide signaling pathway 6.0 465.0 76.0 -0.114 0.022 1000.0 -1000.0 -0.035 -1000.0 Paxillin-independent events mediated by a4b1 and a4b7 6.0 226.0 37.0 -0.064 0.019 1000.0 -1000.0 -0.054 -1000.0 FAS signaling pathway (CD95) 6.0 321.0 47.0 -0.201 0.015 1000.0 -1000.0 -0.037 -1000.0 IL2 signaling events mediated by PI3K 6.0 363.0 58.0 -0.186 0.025 1000.0 -1000.0 -0.082 -1000.0 Canonical Wnt signaling pathway 6.0 342.0 51.0 -0.22 0.084 1000.0 -1000.0 -0.06 -1000.0 EPHB forward signaling 6.0 552.0 85.0 -0.125 0.069 1000.0 -1000.0 -0.084 -1000.0 LPA receptor mediated events 6.0 701.0 102.0 -0.226 0.028 1000.0 -1000.0 -0.079 -1000.0 BCR signaling pathway 6.0 680.0 99.0 -0.135 0.033 1000.0 -1000.0 -0.088 -1000.0 Rapid glucocorticoid signaling 6.0 131.0 20.0 -0.083 0.014 1000.0 -1000.0 -0.021 -1000.0 E-cadherin signaling in keratinocytes 6.0 287.0 43.0 -0.226 0.015 1000.0 -1000.0 -0.065 -1000.0 Regulation of nuclear SMAD2/3 signaling 5.0 714.0 136.0 -0.16 0.157 1000.0 -1000.0 -0.061 -1000.0 Aurora C signaling 5.0 35.0 7.0 -0.018 0.0 1000.0 -1000.0 -0.035 -1000.0 TRAIL signaling pathway 5.0 255.0 48.0 -0.042 0.024 1000.0 -1000.0 -0.063 -1000.0 HIF-2-alpha transcription factor network 5.0 225.0 43.0 -0.066 0.028 1000.0 -1000.0 -0.071 -1000.0 HIV-1 Nef: Negative effector of Fas and TNF-alpha 5.0 249.0 45.0 -0.09 0.024 1000.0 -1000.0 -0.083 -1000.0 IL27-mediated signaling events 5.0 263.0 51.0 -0.15 0.014 1000.0 -1000.0 -0.079 -1000.0 Plasma membrane estrogen receptor signaling 5.0 469.0 86.0 -0.094 0.035 1000.0 -1000.0 -0.084 -1000.0 Hypoxic and oxygen homeostasis regulation of HIF-1-alpha 5.0 173.0 33.0 -0.18 0.035 1000.0 -1000.0 -0.042 -1000.0 Regulation of Androgen receptor activity 5.0 378.0 70.0 -0.273 0.036 1000.0 -1000.0 -0.065 -1000.0 Aurora B signaling 5.0 378.0 67.0 -0.146 0.013 1000.0 -1000.0 -0.063 -1000.0 PLK2 and PLK4 events 4.0 12.0 3.0 -0.001 0.006 1000.0 -1000.0 -0.017 -1000.0 S1P5 pathway 4.0 78.0 17.0 -0.057 0.04 1000.0 -1000.0 -0.037 -1000.0 ceramide signaling pathway 4.0 224.0 49.0 -0.114 0.017 1000.0 -1000.0 -0.041 -1000.0 Ephrin B reverse signaling 4.0 194.0 48.0 -0.126 0.062 1000.0 -1000.0 -0.064 -1000.0 Atypical NF-kappaB pathway 4.0 129.0 31.0 -0.073 0.026 1000.0 -1000.0 -0.036 -1000.0 Signaling events mediated by VEGFR1 and VEGFR2 4.0 540.0 125.0 -0.071 0.023 1000.0 -1000.0 -0.084 -1000.0 Regulation of Telomerase 4.0 460.0 102.0 -0.227 0.043 1000.0 -1000.0 -0.102 -1000.0 IGF1 pathway 4.0 243.0 57.0 -0.033 0.027 1000.0 -1000.0 -0.087 -1000.0 Sphingosine 1-phosphate (S1P) pathway 3.0 100.0 28.0 -0.057 0.026 1000.0 -1000.0 -0.035 -1000.0 Cellular roles of Anthrax toxin 3.0 137.0 39.0 -0.082 0.017 1000.0 -1000.0 -0.019 -1000.0 Hedgehog signaling events mediated by Gli proteins 3.0 210.0 65.0 -0.068 0.055 1000.0 -1000.0 -0.056 -1000.0 EPO signaling pathway 3.0 192.0 55.0 -0.075 0.044 1000.0 -1000.0 -0.086 -1000.0 PLK1 signaling events 3.0 255.0 85.0 -0.042 0.027 1000.0 -1000.0 -0.046 -1000.0 Insulin-mediated glucose transport 3.0 114.0 32.0 -0.082 0.029 1000.0 -1000.0 -0.056 -1000.0 Signaling events mediated by HDAC Class III 3.0 138.0 40.0 -0.071 0.024 1000.0 -1000.0 -0.035 -1000.0 Role of Calcineurin-dependent NFAT signaling in lymphocytes 3.0 275.0 83.0 -0.153 0.034 1000.0 -1000.0 -0.069 -1000.0 Regulation of p38-alpha and p38-beta 3.0 193.0 54.0 -0.156 0.033 1000.0 -1000.0 -0.057 -1000.0 S1P3 pathway 3.0 149.0 42.0 -0.068 0.02 1000.0 -1000.0 -0.036 -1000.0 Class IB PI3K non-lipid kinase events 3.0 9.0 3.0 -0.002 0.002 1000.0 -1000.0 -0.013 -1000.0 S1P4 pathway 3.0 92.0 25.0 -0.057 0.022 1000.0 -1000.0 -0.044 -1000.0 Ras signaling in the CD4+ TCR pathway 3.0 64.0 17.0 -0.03 0.025 1000.0 -1000.0 -0.039 -1000.0 Canonical NF-kappaB pathway 2.0 79.0 39.0 -0.082 0.071 1000.0 -1000.0 -0.076 -1000.0 Signaling mediated by p38-gamma and p38-delta 2.0 35.0 15.0 -0.002 0.028 1000.0 -1000.0 -0.025 -1000.0 Paxillin-dependent events mediated by a4b1 2.0 89.0 36.0 -0.037 0.026 1000.0 -1000.0 -0.073 -1000.0 Class I PI3K signaling events 2.0 151.0 73.0 -0.073 0.037 1000.0 -1000.0 -0.07 -1000.0 Insulin Pathway 2.0 202.0 74.0 -0.086 0.033 1000.0 -1000.0 -0.084 -1000.0 VEGFR1 specific signals 2.0 159.0 56.0 -0.071 0.033 1000.0 -1000.0 -0.05 -1000.0 p38 MAPK signaling pathway 2.0 125.0 44.0 -0.063 0.025 1000.0 -1000.0 -0.058 -1000.0 Signaling events mediated by HDAC Class II 1.0 77.0 75.0 -0.039 0.036 1000.0 -1000.0 -0.041 -1000.0 BARD1 signaling events 1.0 59.0 57.0 -0.023 0.054 1000.0 -1000.0 -0.06 -1000.0 Circadian rhythm pathway 1.0 42.0 22.0 -0.011 0.04 1000.0 -1000.0 -0.051 -1000.0 Aurora A signaling 1.0 96.0 60.0 -0.023 0.036 1000.0 -1000.0 -0.037 -1000.0 Arf6 downstream pathway 1.0 52.0 43.0 -0.025 0.025 1000.0 -1000.0 -0.036 -1000.0 mTOR signaling pathway 1.0 72.0 53.0 -0.013 0.026 1000.0 -1000.0 -0.058 -1000.0 IFN-gamma pathway 1.0 125.0 68.0 -0.136 0.069 1000.0 -1000.0 -0.09 -1000.0 Signaling events mediated by HDAC Class I 1.0 145.0 104.0 -0.082 0.049 1000.0 -1000.0 -0.057 -1000.0 FoxO family signaling 1.0 80.0 64.0 -0.082 0.094 1000.0 -1000.0 -0.063 -1000.0 Arf6 trafficking events 1.0 84.0 71.0 -0.1 0.039 1000.0 -1000.0 -0.073 -1000.0 PDGFR-beta signaling pathway 1.0 186.0 97.0 -0.064 0.053 1000.0 -1000.0 -0.077 -1000.0 Signaling events mediated by PRL 1.0 50.0 34.0 -0.01 0.024 1000.0 -1000.0 -0.031 -1000.0 Regulation of cytoplasmic and nuclear SMAD2/3 signaling 0.0 19.0 23.0 -0.027 0.04 1000.0 -1000.0 -0.055 -1000.0 Class I PI3K signaling events mediated by Akt 0.0 56.0 68.0 -0.082 0.046 1000.0 -1000.0 -0.046 -1000.0 Sumoylation by RanBP2 regulates transcriptional repression 0.0 11.0 27.0 -0.023 0.032 1000.0 -1000.0 -0.049 -1000.0 Arf1 pathway 0.0 5.0 54.0 -0.003 0.032 1000.0 -1000.0 -0.035 -1000.0 Alternative NF-kappaB pathway 0.0 0.0 13.0 -0.0 0.038 1000.0 -1000.0 -0.032 -1000.0 Total 1063 59326 7203 -18.2227415593 4.84435917582 131000 -131000 -8.11992793197 -131000