Regulation of nuclear SMAD2/3 signaling Entity Mean Std Dev Mean of Up Perturbations Number of Up Perturbations Mean of Down Perturbations Number of Down Perturbations Number of Total Perturbations EP300 -0.016 0.158 -9999.0 0.0 -0.646 9.0 9.0 HSPA8 0.013 0.055 -9999.0 0.0 -0.67 1.0 1.0 SMAD3/SMAD4/ER alpha -0.047 0.186 0.24 4.0 -0.465 16.0 20.0 AKT1 -0.01 0.09 -9999.0 0.0 -0.593 3.0 3.0 GSC -0.055 0.234 -9999.0 0.0 -1.483 2.0 2.0 NKX2-5 -0.09 0.22 -9999.0 0.0 -0.527 30.0 30.0 muscle cell differentiation 0.092 0.181 0.527 17.0 -9999.0 0.0 17.0 SMAD2-3/SMAD4/SP1 -0.031 0.197 -9999.0 0.0 -0.628 8.0 8.0 SMAD4 -0.01 0.116 -9999.0 0.0 -0.737 3.0 3.0 CBFB 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 SAP18 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 Cbp/p300/MSG1 0.013 0.114 -9999.0 0.0 -0.417 8.0 8.0 SMAD3/SMAD4/VDR -0.036 0.173 -9999.0 0.0 -0.539 10.0 10.0 MYC 0.01 0.129 -9999.0 0.0 -0.606 6.0 6.0 CDKN2B -0.321 0.61 -9999.0 0.0 -1.462 33.0 33.0 AP1 -0.074 0.264 -9999.0 0.0 -0.707 16.0 16.0 SMAD2/SMAD2/SMAD4/SnoN/SIN3/HDAC complex/NCoR1 0.041 0.075 -9999.0 0.0 -0.367 1.0 1.0 SMAD2-3/SMAD4/FOXO1-3a-4/FOXG1 -0.069 0.184 -9999.0 0.0 -0.497 11.0 11.0 SP3 0.02 0.011 -9999.0 0.0 -9999.0 0.0 0.0 CREB1 0.009 0.078 -9999.0 0.0 -0.668 2.0 2.0 FOXH1 0.006 0.047 -9999.0 0.0 -0.446 1.0 1.0 SMAD3/SMAD4/GR -0.025 0.121 -9999.0 0.0 -0.407 10.0 10.0 GATA3 -0.002 0.11 -9999.0 0.0 -0.439 9.0 9.0 SKI/SIN3/HDAC complex/NCoR1 0.053 0.037 -9999.0 0.0 -9999.0 0.0 0.0 MEF2C/TIF2 -0.068 0.237 -9999.0 0.0 -0.738 11.0 11.0 endothelial cell migration 0.118 0.413 1.423 13.0 -9999.0 0.0 13.0 MAX 0.022 0.015 -9999.0 0.0 -9999.0 0.0 0.0 RBBP7 0.009 0.066 -9999.0 0.0 -0.458 3.0 3.0 RBBP4 0.01 0.067 -9999.0 0.0 -0.563 2.0 2.0 RUNX2 0.009 0.078 -9999.0 0.0 -0.668 2.0 2.0 RUNX3 -0.029 0.173 -9999.0 0.0 -0.649 11.0 11.0 RUNX1 -0.003 0.115 -9999.0 0.0 -0.626 5.0 5.0 CTBP1 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 NR3C1 0.019 0.042 -9999.0 0.0 -0.463 1.0 1.0 VDR -0.034 0.175 -9999.0 0.0 -0.603 13.0 13.0 CDKN1A -0.02 0.246 -9999.0 0.0 -1.17 5.0 5.0 KAT2B 0.001 0.007 -9999.0 0.0 -9999.0 0.0 0.0 SMAD2/SMAD2/SMAD4/FOXH1 -0.007 0.107 -9999.0 0.0 -0.427 4.0 4.0 DCP1A 0.018 0.0 -9999.0 0.0 -9999.0 0.0 0.0 SKI 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 SERPINE1 -0.121 0.42 -9999.0 0.0 -1.451 13.0 13.0 SMAD3/SMAD4/ATF2 -0.023 0.121 -9999.0 0.0 -0.412 10.0 10.0 SMAD3/SMAD4/ATF3 -0.06 0.168 -9999.0 0.0 -0.448 18.0 18.0 SAP30 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 Cbp/p300/PIAS3 0.024 0.113 -9999.0 0.0 -0.417 8.0 8.0 JUN -0.074 0.26 -9999.0 0.0 -0.701 16.0 16.0 SMAD3/SMAD4/IRF7 -0.027 0.131 -9999.0 0.0 -0.445 9.0 9.0 TFE3 0.017 0.028 -9999.0 0.0 -9999.0 0.0 0.0 COL1A2 -0.126 0.335 -9999.0 0.0 -0.768 27.0 27.0 mesenchymal cell differentiation 0.031 0.139 0.449 11.0 -9999.0 0.0 11.0 DLX1 -0.013 0.117 -9999.0 0.0 -0.458 10.0 10.0 TCF3 0.014 0.055 -9999.0 0.0 -0.668 1.0 1.0 FOS -0.111 0.247 -9999.0 0.0 -0.562 34.0 34.0 SMAD3/SMAD4/Max -0.023 0.12 -9999.0 0.0 -0.407 10.0 10.0 Cbp/p300/SNIP1 0.011 0.107 -9999.0 0.0 -0.416 8.0 8.0 ZBTB17 0.028 0.047 -9999.0 0.0 -0.463 1.0 1.0 LAMC1 -0.002 0.183 -9999.0 0.0 -0.777 6.0 6.0 TGIF2/HDAC complex/SMAD3/SMAD4 -0.028 0.133 -9999.0 0.0 -0.486 8.0 8.0 IRF7 0.017 0.057 -9999.0 0.0 -0.658 1.0 1.0 ESR1 -0.043 0.184 -9999.0 0.0 -0.523 19.0 19.0 HNF4A 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 MEF2C -0.077 0.243 -9999.0 0.0 -0.683 14.0 14.0 SMAD2-3/SMAD4 -0.024 0.14 -9999.0 0.0 -0.442 9.0 9.0 Cbp/p300/Src-1 0.017 0.107 -9999.0 0.0 -0.417 8.0 8.0 IGHV3OR16-13 -0.021 0.099 -9999.0 0.0 -0.81 2.0 2.0 TGIF2/HDAC complex 0.011 0.067 -9999.0 0.0 -0.562 2.0 2.0 CREBBP 0.021 0.011 -9999.0 0.0 -9999.0 0.0 0.0 SKIL -0.004 0.122 -9999.0 0.0 -0.668 5.0 5.0 HDAC1 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 HDAC2 0.015 0.038 -9999.0 0.0 -0.457 1.0 1.0 SNIP1 0.014 0.038 -9999.0 0.0 -0.457 1.0 1.0 GCN5L2 0.022 0.012 -9999.0 0.0 -9999.0 0.0 0.0 SMAD3/SMAD4/TFE3 0.001 0.151 -9999.0 0.0 -0.553 6.0 6.0 MSG1/HSC70 0.011 0.064 -9999.0 0.0 -0.361 4.0 4.0 SMAD2 -0.009 0.066 -9999.0 0.0 -0.652 1.0 1.0 SMAD3 -0.024 0.155 -9999.0 0.0 -0.602 9.0 9.0 SMAD3/E2F4-5/DP1/p107/SMAD4 -0.001 0.123 -9999.0 0.0 -0.411 7.0 7.0 SMAD2/SMAD2/SMAD4 -0.017 0.08 -9999.0 0.0 -0.501 3.0 3.0 NCOR1 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 NCOA2 0.009 0.078 -9999.0 0.0 -0.668 2.0 2.0 NCOA1 0.018 0.0 -9999.0 0.0 -9999.0 0.0 0.0 MYOD/E2A -0.002 0.118 -9999.0 0.0 -0.472 9.0 9.0 SMAD2-3/SMAD4/SP1/MIZ-1 -0.021 0.196 -9999.0 0.0 -0.705 6.0 6.0 IFNB1 0.008 0.152 -9999.0 0.0 -0.59 6.0 6.0 SMAD3/SMAD4/MEF2C -0.089 0.249 -9999.0 0.0 -0.71 13.0 13.0 CITED1 0.009 0.066 -9999.0 0.0 -0.459 3.0 3.0 SMAD2-3/SMAD4/ARC105 -0.009 0.132 -9999.0 0.0 -0.466 5.0 5.0 RBL1 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 SMAD2-3/SMAD4/FOXO1-3a-4/CEBPB -0.1 0.254 -9999.0 0.0 -0.522 34.0 34.0 RUNX1-3/PEBPB2 -0.009 0.148 -9999.0 0.0 -0.479 12.0 12.0 SMAD7 -0.055 0.251 -9999.0 0.0 -0.731 11.0 11.0 MYC/MIZ-1 0.036 0.113 -9999.0 0.0 -0.396 7.0 7.0 SMAD3/SMAD4 -0.015 0.224 0.368 3.0 -0.595 12.0 15.0 IL10 0.008 0.143 -9999.0 0.0 -0.532 5.0 5.0 PIASy/HDAC complex 0.015 0.013 -9999.0 0.0 -9999.0 0.0 0.0 PIAS3 0.02 0.006 -9999.0 0.0 -9999.0 0.0 0.0 CDK2 0.016 0.057 -9999.0 0.0 -0.678 1.0 1.0 IL5 0.004 0.148 -9999.0 0.0 -0.496 6.0 6.0 CDK4 0.019 0.04 -9999.0 0.0 -0.458 1.0 1.0 PIAS4 0.015 0.013 -9999.0 0.0 -9999.0 0.0 0.0 ATF3 -0.039 0.172 -9999.0 0.0 -0.536 16.0 16.0 SMAD3/SMAD4/SP1 -0.03 0.195 -9999.0 0.0 -0.677 7.0 7.0 FOXG1 -0.032 0.145 -9999.0 0.0 -0.457 16.0 16.0 FOXO3 -0.004 0.085 -9999.0 0.0 -0.442 4.0 4.0 FOXO1 -0.022 0.126 -9999.0 0.0 -0.49 9.0 9.0 FOXO4 -0.001 0.076 -9999.0 0.0 -0.487 2.0 2.0 heart looping -0.076 0.24 -9999.0 0.0 -0.671 14.0 14.0 CEBPB 0.006 0.057 -9999.0 0.0 -0.666 1.0 1.0 SMAD3/SMAD4/DLX1 -0.041 0.15 -9999.0 0.0 -0.46 12.0 12.0 MYOD1 -0.016 0.147 -9999.0 0.0 -0.641 8.0 8.0 SMAD3/SMAD4/HNF4 -0.025 0.123 -9999.0 0.0 -0.403 11.0 11.0 SMAD3/SMAD4/GATA3 -0.04 0.14 -9999.0 0.0 -0.487 8.0 8.0 SnoN/SIN3/HDAC complex/NCoR1 -0.004 0.121 -9999.0 0.0 -0.667 5.0 5.0 SMAD3/SMAD4/RUNX1-3/PEBPB2 -0.022 0.192 -9999.0 0.0 -0.656 9.0 9.0 SMAD3/SMAD4/SP1-3 -0.012 0.192 -9999.0 0.0 -0.791 5.0 5.0 MED15 0.012 0.054 -9999.0 0.0 -0.458 2.0 2.0 SP1 -0.01 0.099 -9999.0 0.0 -0.726 2.0 2.0 SIN3B 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 SIN3A 0.018 0.002 -9999.0 0.0 -9999.0 0.0 0.0 SMAD2/SMAD2/SMAD4/FOXH1/NKX2-5 -0.063 0.196 -9999.0 0.0 -0.533 13.0 13.0 ITGB5 -0.006 0.209 -9999.0 0.0 -0.95 5.0 5.0 TGIF/SIN3/HDAC complex/CtBP 0.053 0.042 -9999.0 0.0 -9999.0 0.0 0.0 SMAD3/SMAD4/AR -0.057 0.16 -9999.0 0.0 -0.453 16.0 16.0 AR -0.035 0.159 -9999.0 0.0 -0.497 16.0 16.0 negative regulation of cell growth -0.017 0.147 -9999.0 0.0 -0.459 9.0 9.0 SMAD3/SMAD4/MYOD -0.046 0.159 -9999.0 0.0 -0.475 13.0 13.0 E2F5 -0.03 0.157 -9999.0 0.0 -0.518 14.0 14.0 E2F4 0.018 0.0 -9999.0 0.0 -9999.0 0.0 0.0 SMAD2/SMAD2/SMAD4/FOXH1/SMIF -0.001 0.134 -9999.0 0.0 -0.548 4.0 4.0 SMAD2-3/SMAD4/FOXO1-3a-4 -0.066 0.193 -9999.0 0.0 -0.577 7.0 7.0 TFDP1 0.015 0.038 -9999.0 0.0 -0.458 1.0 1.0 SMAD3/SMAD4/AP1 -0.078 0.269 -9999.0 0.0 -0.719 16.0 16.0 SMAD3/SMAD4/RUNX2 -0.029 0.141 -9999.0 0.0 -0.451 11.0 11.0 TGIF2 0.011 0.067 -9999.0 0.0 -0.563 2.0 2.0 TGIF1 0.014 0.055 -9999.0 0.0 -0.668 1.0 1.0 ATF2 0.018 0.0 -9999.0 0.0 -9999.0 0.0 0.0