In [25]:
import networkx as nx
import os
import pandas as pd
import matplotlib.pyplot as plt
import numpy as np
import igraph
In [2]:
os.chdir("D:\\FIU\\CyFinder\\Data")
df = pd.read_csv("Breast_Cancer.txt", header=None, sep="\t")
data_array = df.values.tolist()
In [67]:
for i in data_array:
print(i[0]+"\t"+i[1]+"\t"+str(i[2]))
ABCB1 ABCG2 469 ABCB1 ADAM23 193 ABCB1 AKT1 215 ABCB1 AR 215 ABCB1 BCL2 954 ABCB1 BIRC5 352 ABCB1 CDKN1A 215 ABCB1 CTSD 235 ABCB1 EGF 800 ABCB1 EGFR 284 ABCB1 ERBB2 623 ABCB1 ESR1 247 ABCB1 GLI1 227 ABCB1 GSTP1 823 ABCB1 IGF1 224 ABCB1 IL6 217 ABCB1 JUN 832 ABCB1 MGMT 643 ABCB1 NME1 274 ABCB1 NR3C1 216 ABCB1 PGR 402 ABCB1 PTEN 247 ABCB1 PTGS2 800 ABCB1 TGFB1 215 ABCB1 TP53 959 ABCG2 AKT1 815 ABCG2 ATM 916 ABCG2 BAD 297 ABCG2 BIRC5 287 ABCG2 CDH1 163 ABCG2 CDK2 218 ABCG2 CDKN1A 216 ABCG2 CTNNB1 191 ABCG2 EGF 816 ABCG2 EGFR 950 ABCG2 ERBB2 305 ABCG2 ESR1 207 ABCG2 GLI1 321 ABCG2 GSTP1 314 ABCG2 IGF1 152 ABCG2 IL6 215 ABCG2 JUN 800 ABCG2 KRT18 235 ABCG2 KRT19 469 ABCG2 KRT8 157 ABCG2 MAPK8 215 ABCG2 MGMT 655 ABCG2 NOTCH1 156 ABCG2 RB1 815 ABCG2 TP53 196 ADAM23 CDH1 380 ADAM23 CDKN2A 218 ADAM23 GSTP1 340 ADAM23 THBS1 220 AKT1 APC 516 AKT1 AR 993 AKT1 ATM 373 AKT1 BAD 999 AKT1 BCL2 992 AKT1 BIRC5 954 AKT1 BRCA1 877 AKT1 BRCA2 260 AKT1 CCNA1 673 AKT1 CCND1 992 AKT1 CCND2 770 AKT1 CCNE1 392 AKT1 CDH1 937 AKT1 CDH13 671 AKT1 CDK2 293 AKT1 CDKN1A 998 AKT1 CDKN1C 215 AKT1 CDKN2A 756 AKT1 CSF1 301 AKT1 CST6 168 AKT1 CTNNB1 991 AKT1 CTSD 221 AKT1 EGF 993 AKT1 EGFR 477 AKT1 ERBB2 476 AKT1 ESR1 998 AKT1 ESR2 974 AKT1 FOXA1 226 AKT1 GATA3 276 AKT1 GLI1 502 AKT1 GRB7 635 AKT1 GSTP1 185 AKT1 HIC1 217 AKT1 IGF1 993 AKT1 IGF1R 468 AKT1 IGFBP3 798 AKT1 IL6 860 AKT1 JUN 962 AKT1 KRT18 154 AKT1 KRT5 294 AKT1 MAPK1 386 AKT1 MAPK3 382 AKT1 MAPK8 420 AKT1 MGMT 226 AKT1 MLH1 232 AKT1 MMP2 981 AKT1 MMP9 972 AKT1 MUC1 215 AKT1 MYC 995 AKT1 NME1 800 AKT1 NOTCH1 953 AKT1 NR3C1 435 AKT1 PGR 218 AKT1 PLAU 725 AKT1 PRDM2 878 AKT1 PTEN 997 AKT1 PTGS2 962 AKT1 RASSF1 216 AKT1 RB1 328 AKT1 SERPINE1 833 AKT1 SFN 721 AKT1 SFRP1 373 AKT1 SLIT2 168 AKT1 SNAI2 221 AKT1 SRC 996 AKT1 TFF3 176 AKT1 TGFB1 270 AKT1 THBS1 916 AKT1 TP53 964 AKT1 TWIST1 832 AKT1 VEGFA 996 AKT1 XBP1 596 APC AR 223 APC BCL2 215 APC BIRC5 425 APC BRCA2 172 APC CCND1 859 APC CCND2 329 APC CDH1 870 APC CDH13 246 APC CDKN1A 440 APC CDKN1C 351 APC CDKN2A 216 APC CSF1 232 APC CTNNB1 999 APC EGF 224 APC EGFR 215 APC GATA3 223 APC GLI1 321 APC IGF1 219 APC IGF1R 221 APC IL6 218 APC KRT19 229 APC KRT5 394 APC MAPK3 275 APC MAPK8 215 APC MGMT 160 APC MLH1 899 APC MMP2 266 APC MMP9 240 APC MUC1 679 APC MYC 778 APC NOTCH1 962 APC NR3C1 235 APC PLAU 165 APC PTEN 323 APC PTGS2 912 APC RASSF1 390 APC RB1 345 APC SERPINE1 191 APC SFN 233 APC SFRP1 324 APC SRC 245 APC TFF3 383 APC TGFB1 218 APC THBS1 221 APC TP53 981 APC TP73 286 AR ATM 201 AR BCL2 667 AR BIRC5 168 AR BRCA1 976 AR BRCA2 514 AR CCNA1 388 AR CCND1 992 AR CCNE1 649 AR CDH1 849 AR CDH13 218 AR CDKN1A 293 AR CDKN1C 229 AR CDKN2A 215 AR CSF1 216 AR CTNNB1 999 AR CTSD 273 AR EGF 961 AR EGFR 997 AR ERBB2 964 AR ESR1 713 AR ESR2 268 AR FOXA1 978 AR GLI1 216 AR GSTP1 202 AR IGF1 949 AR IGF1R 307 AR IGFBP3 279 AR IL6 800 AR JUN 976 AR KRT18 193 AR KRT5 643 AR KRT8 308 AR MAPK1 967 AR MAPK3 832 AR MAPK8 215 AR MKI67 162 AR MLH1 215 AR MMP9 832 AR MUC1 882 AR MYC 362 AR NOTCH1 275 AR NR3C1 672 AR PGR 192 AR PLAU 215 AR PRDM2 156 AR PTEN 981 AR PTGS2 832 AR RB1 928 AR SERPINE1 683 AR SLC39A6 157 AR SNAI2 217 AR SRC 995 AR TGFB1 219 AR TP53 985 AR VEGFA 215 ATM BAD 223 ATM BCL2 235 ATM BIRC5 219 ATM BRCA1 999 ATM BRCA2 859 ATM CCNA1 329 ATM CCND1 602 ATM CCNE1 221 ATM CDH13 157 ATM CDK2 508 ATM CDKN1A 652 ATM CDKN2A 329 ATM CSF1 224 ATM EGF 280 ATM EGFR 401 ATM ERBB2 293 ATM ESR1 215 ATM GATA3 219 ATM GSTP1 302 ATM IGF1 300 ATM IGF1R 308 ATM IL6 255 ATM KRT5 284 ATM MAPK1 215 ATM MAPK3 215 ATM MAPK8 215 ATM MGMT 165 ATM MLH1 800 ATM MMP9 233 ATM MYC 299 ATM NOTCH1 232 ATM PGR 218 ATM PTEN 646 ATM RASSF1 159 ATM RB1 221 ATM SERPINE1 218 ATM SFN 619 ATM SRC 217 ATM TGFB1 215 ATM THBS1 218 ATM TP53 999 ATM TP73 350 ATM VEGFA 223 BAD BCL2 999 BAD BIRC5 639 BAD CCND1 485 BAD CCND2 162 BAD CCNE1 256 BAD CDH1 168 BAD CDK2 403 BAD CDKN1A 323 BAD CTNNB1 286 BAD EGF 618 BAD EGFR 683 BAD ERBB2 380 BAD ESR1 331 BAD ESR2 375 BAD IGF1 755 BAD IGF1R 736 BAD IGFBP3 204 BAD JUN 864 BAD MAPK1 943 BAD MAPK3 967 BAD MAPK8 980 BAD MMP2 287 BAD MYC 249 BAD NR3C1 279 BAD PTEN 824 BAD PTGS2 160 BAD SFN 951 BAD SRC 370 BAD TGFB1 163 BAD THBS1 224 BAD TP53 768 BAD VEGFA 316 BAD XBP1 268 BCL2 BIRC5 822 BCL2 BRCA1 265 BCL2 BRCA2 217 BCL2 CCNA1 698 BCL2 CCND1 986 BCL2 CCND2 958 BCL2 CCNE1 457 BCL2 CDH1 961 BCL2 CDH13 249 BCL2 CDK2 928 BCL2 CDKN1A 855 BCL2 CDKN2A 800 BCL2 CSF1 307 BCL2 CTNNB1 732 BCL2 CTSD 665 BCL2 EGFR 963 BCL2 ERBB2 826 BCL2 ESR1 822 BCL2 ESR2 734 BCL2 FOXA1 815 BCL2 GLI1 942 BCL2 GSTP1 409 BCL2 ID1 800 BCL2 IGF1 852 BCL2 IGF1R 771 BCL2 IGFBP3 216 BCL2 IL6 937 BCL2 JUN 979 BCL2 KRT19 488 BCL2 KRT5 510 BCL2 MAPK1 990 BCL2 MAPK3 983 BCL2 MAPK8 995 BCL2 MGMT 325 BCL2 MLH1 446 BCL2 MMP2 879 BCL2 MMP9 961 BCL2 MYC 998 BCL2 NME1 756 BCL2 NOTCH1 320 BCL2 NR3C1 854 BCL2 PGR 960 BCL2 PLAU 218 BCL2 PRDM2 581 BCL2 PTEN 961 BCL2 PTGS2 961 BCL2 PYCARD 358 BCL2 RARB 223 BCL2 RASSF1 312 BCL2 RB1 821 BCL2 SERPINE1 218 BCL2 SFN 671 BCL2 SNAI2 235 BCL2 SRC 354 BCL2 TGFB1 312 BCL2 THBS1 320 BCL2 TP53 999 BCL2 TP73 632 BCL2 VEGFA 962 BCL2 XBP1 694 BIRC5 BRCA1 729 BIRC5 BRCA2 263 BIRC5 CCNA1 588 BIRC5 CCND1 865 BIRC5 CCND2 690 BIRC5 CCNE1 419 BIRC5 CDH1 745 BIRC5 CDK2 923 BIRC5 CDKN1A 885 BIRC5 CDKN2A 580 BIRC5 CTNNB1 832 BIRC5 EGFR 960 BIRC5 ERBB2 960 BIRC5 ESR1 249 BIRC5 HIC1 180 BIRC5 IGF1 276 BIRC5 IGF1R 560 BIRC5 IL6 288 BIRC5 JUN 391 BIRC5 KRT19 159 BIRC5 KRT5 288 BIRC5 MAPK3 215 BIRC5 MAPK8 752 BIRC5 MKI67 926 BIRC5 MLH1 380 BIRC5 MMP2 730 BIRC5 MMP9 876 BIRC5 MYC 995 BIRC5 NME1 402 BIRC5 NOTCH1 399 BIRC5 NR3C1 235 BIRC5 PGR 219 BIRC5 PTEN 808 BIRC5 PTGS2 961 BIRC5 RARB 215 BIRC5 RASSF1 226 BIRC5 RB1 300 BIRC5 SFN 210 BIRC5 SFRP1 332 BIRC5 SRC 241 BIRC5 TGFB1 218 BIRC5 THBS1 338 BIRC5 TP53 968 BIRC5 TP73 373 BIRC5 VEGFA 954 BRCA1 BRCA2 999 BRCA1 CCNA1 835 BRCA1 CCND1 992 BRCA1 CCNE1 979 BRCA1 CDH1 798 BRCA1 CDH13 371 BRCA1 CDK2 994 BRCA1 CDKN1A 700 BRCA1 CDKN1C 280 BRCA1 CDKN2A 806 BRCA1 CST6 236 BRCA1 CTNNB1 246 BRCA1 EGF 216 BRCA1 EGFR 766 BRCA1 ERBB2 957 BRCA1 ESR1 999 BRCA1 ESR2 284 BRCA1 FOXA1 185 BRCA1 GATA3 485 BRCA1 GLI1 899 BRCA1 GSTP1 764 BRCA1 HIC1 430 BRCA1 IGF1 301 BRCA1 IGF1R 417 BRCA1 IL6 236 BRCA1 JUN 932 BRCA1 KRT5 829 BRCA1 MAPK1 238 BRCA1 MAPK3 215 BRCA1 MAPK8 315 BRCA1 MGMT 748 BRCA1 MKI67 437 BRCA1 MLH1 982 BRCA1 MMP2 215 BRCA1 MMP9 215 BRCA1 MUC1 216 BRCA1 MYC 996 BRCA1 NME1 775 BRCA1 NOTCH1 398 BRCA1 NR3C1 230 BRCA1 PGR 926 BRCA1 PRDM2 205 BRCA1 PTEN 934 BRCA1 PTGS2 215 BRCA1 RARB 568 BRCA1 RASSF1 732 BRCA1 RB1 992 BRCA1 SFN 281 BRCA1 SFRP1 208 BRCA1 SNAI2 216 BRCA1 SRC 618 BRCA1 THBS1 215 BRCA1 TP53 999 BRCA1 TP73 379 BRCA1 TWIST1 218 BRCA1 VEGFA 215 BRCA2 CCND1 731 BRCA2 CCNE1 661 BRCA2 CDH1 466 BRCA2 CDH13 381 BRCA2 CDK2 682 BRCA2 CDKN1A 439 BRCA2 CDKN2A 812 BRCA2 CTNNB1 276 BRCA2 EGFR 215 BRCA2 ERBB2 942 BRCA2 ESR1 825 BRCA2 FOXA1 165 BRCA2 GATA3 539 BRCA2 GLI1 221 BRCA2 GSTP1 367 BRCA2 HIC1 547 BRCA2 IGF1R 218 BRCA2 JUN 215 BRCA2 KRT5 304 BRCA2 MAPK1 215 BRCA2 MAPK3 215 BRCA2 MAPK8 215 BRCA2 MGMT 368 BRCA2 MKI67 249 BRCA2 MLH1 917 BRCA2 MUC1 281 BRCA2 MYC 279 BRCA2 NOTCH1 227 BRCA2 NR3C1 215 BRCA2 PGR 791 BRCA2 PRDM2 177 BRCA2 PTEN 930 BRCA2 RASSF1 159 BRCA2 RB1 904 BRCA2 SFN 205 BRCA2 SNAI2 302 BRCA2 TGFB1 215 BRCA2 THBS1 217 BRCA2 TP53 996 CCNA1 CCND1 269 CCNA1 CCND2 265 CCNA1 CCNE1 927 CCNA1 CDH1 572 CCNA1 CDH13 338 CCNA1 CDK2 999 CCNA1 CDKN1A 999 CCNA1 CDKN1C 879 CCNA1 CDKN2A 734 CCNA1 CTNNB1 765 CCNA1 EGF 156 CCNA1 EGFR 276 CCNA1 ERBB2 237 CCNA1 ESR1 277 CCNA1 ESR2 177 CCNA1 GATA3 221 CCNA1 GSTP1 215 CCNA1 HIC1 430 CCNA1 IGF1 779 CCNA1 IGFBP3 295 CCNA1 JUN 905 CCNA1 KRT19 235 CCNA1 MAPK1 597 CCNA1 MAPK3 655 CCNA1 MAPK8 687 CCNA1 MGMT 544 CCNA1 MLH1 234 CCNA1 MMP9 224 CCNA1 MYC 751 CCNA1 NME1 160 CCNA1 NOTCH1 748 CCNA1 NR3C1 172 CCNA1 PGR 234 CCNA1 PLAU 879 CCNA1 PTEN 393 CCNA1 RARB 313 CCNA1 RASSF1 344 CCNA1 RB1 993 CCNA1 SFN 356 CCNA1 SRC 236 CCNA1 TGFB1 257 CCNA1 THBS1 215 CCNA1 TP53 949 CCNA1 TP73 316 CCND1 CCND2 904 CCND1 CCNE1 276 CCND1 CDH1 972 CCND1 CDH13 331 CCND1 CDK2 999 CCND1 CDKN1A 999 CCND1 CDKN1C 967 CCND1 CDKN2A 995 CCND1 CSF1 217 CCND1 CTNNB1 999 CCND1 CTSD 185 CCND1 EGF 962 CCND1 EGFR 962 CCND1 ERBB2 985 CCND1 ESR1 998 CCND1 ESR2 747 CCND1 FOXA1 561 CCND1 GATA3 832 CCND1 GLI1 768 CCND1 GSTP1 609 CCND1 HIC1 196 CCND1 ID1 860 CCND1 IGF1 960 CCND1 IGF1R 764 CCND1 IGFBP3 297 CCND1 IL6 830 CCND1 JUN 991 CCND1 KRT18 563 CCND1 KRT19 201 CCND1 KRT5 502 CCND1 KRT8 303 CCND1 MAPK1 960 CCND1 MAPK3 960 CCND1 MAPK8 820 CCND1 MGMT 317 CCND1 MLH1 582 CCND1 MMP2 756 CCND1 MMP9 819 CCND1 MUC1 878 CCND1 MYC 992 CCND1 NME1 505 CCND1 NOTCH1 985 CCND1 NR3C1 223 CCND1 PGR 961 CCND1 PLAU 555 CCND1 PRDM2 228 CCND1 PTEN 989 CCND1 PTGS2 820 CCND1 RARB 462 CCND1 RASSF1 939 CCND1 RB1 999 CCND1 SFN 710 CCND1 SFRP1 756 CCND1 SNAI2 602 CCND1 SRC 909 CCND1 TGFB1 884 CCND1 THBS1 293 CCND1 TP53 982 CCND1 TP73 664 CCND1 TWIST1 215 CCND1 VEGFA 828 CCND1 XBP1 238 CCND2 CCNE1 257 CCND2 CDH1 640 CCND2 CDH13 628 CCND2 CDK2 998 CCND2 CDKN1A 999 CCND2 CDKN1C 918 CCND2 CDKN2A 987 CCND2 CTNNB1 993 CCND2 CTSD 151 CCND2 EGF 302 CCND2 EGFR 583 CCND2 ERBB2 440 CCND2 ESR1 234 CCND2 ESR2 193 CCND2 GATA3 241 CCND2 GLI1 772 CCND2 GRB7 428 CCND2 GSTP1 569 CCND2 HIC1 455 CCND2 IGF1 298 CCND2 IL6 267 CCND2 JUN 660 CCND2 KRT18 333 CCND2 KRT8 191 CCND2 MAPK1 188 CCND2 MAPK3 302 CCND2 MAPK8 364 CCND2 MGMT 308 CCND2 MKI67 290 CCND2 MLH1 157 CCND2 MMP2 268 CCND2 MYC 996 CCND2 NME1 459 CCND2 NOTCH1 675 CCND2 NR3C1 413 CCND2 PGR 159 CCND2 PLAU 341 CCND2 PTEN 235 CCND2 PTGS2 185 CCND2 PYCARD 183 CCND2 RARB 508 CCND2 RASSF1 820 CCND2 RB1 998 CCND2 SERPINE1 227 CCND2 SFN 358 CCND2 SFRP1 712 CCND2 SNAI2 313 CCND2 SRC 236 CCND2 TGFB1 612 CCND2 THBS1 180 CCND2 TP53 768 CCND2 TWIST1 460 CCND2 XBP1 174 CCNE1 CDH1 396 CCNE1 CDH13 252 CCNE1 CDK2 999 CCNE1 CDKN1A 999 CCNE1 CDKN1C 833 CCNE1 CDKN2A 706 CCNE1 CTNNB1 377 CCNE1 CTSD 241 CCNE1 EGF 282 CCNE1 EGFR 552 CCNE1 ERBB2 799 CCNE1 ESR1 597 CCNE1 GATA3 201 CCNE1 GRB7 385 CCNE1 IGF1R 199 CCNE1 JUN 154 CCNE1 KRT18 312 CCNE1 KRT19 215 CCNE1 KRT5 462 CCNE1 KRT8 228 CCNE1 MAPK1 162 CCNE1 MAPK3 400 CCNE1 MMP9 217 CCNE1 MYC 747 CCNE1 NOTCH1 568 CCNE1 NR3C1 278 CCNE1 PGR 182 CCNE1 PLAU 219 CCNE1 PTEN 342 CCNE1 PTGS2 190 CCNE1 RB1 995 CCNE1 SLC39A6 500 CCNE1 SRC 275 CCNE1 TGFB1 292 CCNE1 TP53 804 CCNE1 TP73 447 CDH1 CDH13 163 CDH1 CDK2 325 CDH1 CDKN1A 612 CDH1 CDKN1C 279 CDH1 CDKN2A 821 CDH1 CTNNB1 999 CDH1 CTSD 490 CDH1 EGF 961 CDH1 EGFR 986 CDH1 ERBB2 964 CDH1 ESR1 978 CDH1 ESR2 685 CDH1 FOXA1 499 CDH1 GATA3 279 CDH1 GLI1 945 CDH1 GSTP1 786 CDH1 HIC1 780 CDH1 ID1 907 CDH1 IGF1 301 CDH1 IGF1R 563 CDH1 IGFBP3 217 CDH1 KRT18 789 CDH1 KRT19 786 CDH1 KRT5 772 CDH1 KRT8 756 CDH1 MAPK1 215 CDH1 MAPK3 275 CDH1 MAPK8 815 CDH1 MGMT 786 CDH1 MLH1 852 CDH1 MMP2 822 CDH1 MMP9 786 CDH1 MUC1 818 CDH1 MYC 961 CDH1 NME1 953 CDH1 NOTCH1 804 CDH1 NR3C1 229 CDH1 PGR 813 CDH1 PLAU 764 CDH1 PRDM2 435 CDH1 PTEN 823 CDH1 PTGS2 954 CDH1 PYCARD 301 CDH1 RARB 774 CDH1 RASSF1 823 CDH1 RB1 655 CDH1 SERPINE1 281 CDH1 SFN 286 CDH1 SFRP1 746 CDH1 SLC39A6 591 CDH1 SNAI2 978 CDH1 SRC 984 CDH1 TFF3 716 CDH1 TGFB1 740 CDH1 THBS1 809 CDH1 TP53 904 CDH1 TP73 259 CDH1 TWIST1 962 CDH1 VEGFA 961 CDH13 CDK2 228 CDH13 CDKN1A 579 CDH13 CDKN1C 230 CDH13 CDKN2A 813 CDH13 CTNNB1 567 CDH13 EGF 249 CDH13 EGFR 384 CDH13 ERBB2 355 CDH13 ESR1 416 CDH13 GSTP1 752 CDH13 HIC1 569 CDH13 IL6 216 CDH13 MAPK3 217 CDH13 MGMT 772 CDH13 MLH1 776 CDH13 MMP9 224 CDH13 MUC1 255 CDH13 MYC 363 CDH13 NR3C1 224 CDH13 PGR 170 CDH13 PRDM2 191 CDH13 PTEN 284 CDH13 PTGS2 298 CDH13 PYCARD 458 CDH13 RARB 746 CDH13 RASSF1 966 CDH13 RB1 708 CDH13 SFN 313 CDH13 SFRP1 508 CDH13 SNAI2 204 CDH13 TGFB1 285 CDH13 TP53 610 CDH13 TP73 710 CDH13 TWIST1 333 CDK2 CDKN1A 999 CDK2 CDKN1C 946 CDK2 CDKN2A 887 CDK2 CTNNB1 196 CDK2 EGF 937 CDK2 EGFR 267 CDK2 ERBB2 323 CDK2 ESR1 608 CDK2 GLI1 815 CDK2 GRB7 157 CDK2 IGF1 243 CDK2 IGF1R 162 CDK2 IL6 215 CDK2 JUN 803 CDK2 KRT18 172 CDK2 KRT5 218 CDK2 MAPK1 910 CDK2 MAPK3 911 CDK2 MAPK8 190 CDK2 MGMT 648 CDK2 MLH1 477 CDK2 MYC 976 CDK2 NME1 151 CDK2 NOTCH1 260 CDK2 NR3C1 307 CDK2 PGR 308 CDK2 PTEN 577 CDK2 RARB 190 CDK2 RB1 999 CDK2 SNAI2 221 CDK2 SRC 232 CDK2 TGFB1 733 CDK2 THBS1 278 CDK2 TP53 999 CDK2 TP73 818 CDKN1A CDKN1C 242 CDKN1A CDKN2A 962 CDKN1A CTNNB1 401 CDKN1A CTSD 246 CDKN1A EGF 771 CDKN1A EGFR 901 CDKN1A ERBB2 782 CDKN1A ESR1 812 CDKN1A GLI1 291 CDKN1A ID1 355 CDKN1A IGF1 851 CDKN1A IGFBP3 745 CDKN1A IL6 847 CDKN1A JUN 916 CDKN1A KRT18 223 CDKN1A KRT8 349 CDKN1A MAPK1 317 CDKN1A MAPK3 476 CDKN1A MAPK8 961 CDKN1A MGMT 776 CDKN1A MKI67 524 CDKN1A MLH1 604 CDKN1A MMP2 279 CDKN1A MMP9 403 CDKN1A MUC1 276 CDKN1A MYC 998 CDKN1A NOTCH1 424 CDKN1A NR3C1 247 CDKN1A PLAU 174 CDKN1A PRDM2 230 CDKN1A PTEN 890 CDKN1A RARB 508 CDKN1A RASSF1 364 CDKN1A RB1 998 CDKN1A SERPINE1 221 CDKN1A SFN 380 CDKN1A SNAI2 325 CDKN1A SRC 298 CDKN1A TGFB1 945 CDKN1A THBS1 280 CDKN1A TP53 999 CDKN1A TP73 829 CDKN1A TWIST1 275 CDKN1A VEGFA 241 CDKN1C CDKN2A 758 CDKN1C CTNNB1 293 CDKN1C EGF 216 CDKN1C EGFR 216 CDKN1C GATA3 212 CDKN1C GLI1 221 CDKN1C GRB7 246 CDKN1C HIC1 243 CDKN1C IGF1 695 CDKN1C IGF1R 415 CDKN1C IGFBP3 221 CDKN1C JUN 215 CDKN1C MAPK3 215 CDKN1C MGMT 254 CDKN1C MYC 298 CDKN1C NOTCH1 282 CDKN1C NR3C1 215 CDKN1C PLAU 154 CDKN1C PTEN 166 CDKN1C RB1 385 CDKN1C SNAI2 224 CDKN1C SRC 216 CDKN1C TGFB1 215 CDKN1C TP53 770 CDKN1C TP73 467 CDKN2A CTNNB1 831 CDKN2A EGF 215 CDKN2A EGFR 842 CDKN2A ERBB2 703 CDKN2A ESR1 215 CDKN2A GATA3 216 CDKN2A GLI1 278 CDKN2A GSTP1 776 CDKN2A HIC1 809 CDKN2A ID1 855 CDKN2A IGF1 236 CDKN2A IGF1R 174 CDKN2A IL6 215 CDKN2A JUN 832 CDKN2A MAPK1 215 CDKN2A MAPK3 216 CDKN2A MAPK8 215 CDKN2A MGMT 869 CDKN2A MLH1 822 CDKN2A MYC 984 CDKN2A NME1 162 CDKN2A NOTCH1 224 CDKN2A NR3C1 215 CDKN2A PGR 215 CDKN2A PLAU 215 CDKN2A PRDM2 301 CDKN2A PTEN 936 CDKN2A PTGS2 832 CDKN2A PYCARD 215 CDKN2A RARB 758 CDKN2A RASSF1 915 CDKN2A RB1 979 CDKN2A SERPINE1 215 CDKN2A SFN 281 CDKN2A SFRP1 490 CDKN2A SRC 215 CDKN2A TGFB1 218 CDKN2A THBS1 791 CDKN2A TP53 999 CDKN2A TP73 860 CDKN2A VEGFA 215 CSF1 EGF 360 CSF1 EGFR 229 CSF1 ERBB2 218 CSF1 ESR1 216 CSF1 GATA3 290 CSF1 IGF1 174 CSF1 IL6 964 CSF1 JUN 907 CSF1 MAPK1 235 CSF1 MAPK3 216 CSF1 MAPK8 168 CSF1 MMP9 577 CSF1 MYC 633 CSF1 NOTCH1 190 CSF1 PLAU 202 CSF1 PTEN 217 CSF1 PYCARD 152 CSF1 SFN 167 CSF1 SFRP1 418 CSF1 SRC 366 CSF1 TGFB1 663 CSF1 THBS1 180 CSF1 VEGFA 949 CST6 CTSD 290 CST6 ERBB2 201 CST6 ESR1 171 CST6 ESR2 307 CST6 GSTP1 363 CST6 KRT19 388 CST6 MMP2 235 CST6 PGR 235 CST6 SFRP1 505 CTNNB1 CTSD 216 CTNNB1 EGF 924 CTNNB1 EGFR 997 CTNNB1 ERBB2 999 CTNNB1 ESR1 965 CTNNB1 FOXA1 258 CTNNB1 GATA3 303 CTNNB1 GLI1 879 CTNNB1 GSTP1 204 CTNNB1 HIC1 856 CTNNB1 IGF1 923 CTNNB1 IGF1R 935 CTNNB1 IL6 223 CTNNB1 JUN 970 CTNNB1 KRT19 565 CTNNB1 KRT8 288 CTNNB1 MAPK1 218 CTNNB1 MAPK3 485 CTNNB1 MAPK8 958 CTNNB1 MGMT 457 CTNNB1 MLH1 777 CTNNB1 MMP2 961 CTNNB1 MMP9 960 CTNNB1 MUC1 999 CTNNB1 MYC 998 CTNNB1 NME1 820 CTNNB1 NOTCH1 999 CTNNB1 NR3C1 218 CTNNB1 PGR 230 CTNNB1 PLAU 347 CTNNB1 PRDM2 255 CTNNB1 PTEN 939 CTNNB1 PTGS2 970 CTNNB1 RARB 372 CTNNB1 RASSF1 500 CTNNB1 RB1 321 CTNNB1 SERPINE1 821 CTNNB1 SFRP1 924 CTNNB1 SLIT2 302 CTNNB1 SNAI2 954 CTNNB1 SRC 998 CTNNB1 TFF3 441 CTNNB1 TGFB1 223 CTNNB1 THBS1 454 CTNNB1 TP53 864 CTNNB1 TWIST1 548 CTNNB1 VEGFA 994 CTSD EGF 896 CTSD EGFR 832 CTSD ERBB2 786 CTSD ESR1 980 CTSD ESR2 520 CTSD IGF1 845 CTSD IGFBP3 649 CTSD MAPK1 213 CTSD MMP2 408 CTSD MMP9 205 CTSD MYC 277 CTSD NME1 724 CTSD PGR 786 CTSD PLAU 822 CTSD SERPINE1 783 CTSD SFN 188 CTSD TGFB1 216 CTSD THBS1 184 CTSD TP53 980 CTSD VEGFA 218 EGF EGFR 999 EGF ERBB2 999 EGF ESR1 965 EGF ESR2 961 EGF GLI1 215 EGF GRB7 703 EGF IGF1 990 EGF IGF1R 992 EGF IGFBP3 956 EGF IL6 543 EGF JUN 962 EGF KRT18 226 EGF KRT19 929 EGF KRT5 317 EGF MAPK1 996 EGF MAPK3 996 EGF MAPK8 820 EGF MLH1 230 EGF MMP2 936 EGF MMP9 961 EGF MUC1 234 EGF MYC 961 EGF NOTCH1 493 EGF NR3C1 253 EGF PGR 961 EGF PLAU 894 EGF PRDM2 154 EGF PTEN 738 EGF PTGS2 948 EGF RB1 261 EGF SERPINE1 991 EGF SFRP1 216 EGF SNAI2 895 EGF SRC 999 EGF TFF3 728 EGF TGFB1 989 EGF THBS1 551 EGF TP53 215 EGF TP73 189 EGF VEGFA 955 EGFR ERBB2 999 EGFR ESR1 996 EGFR ESR2 822 EGFR GLI1 693 EGFR GRB7 921 EGFR IGF1 991 EGFR IGF1R 757 EGFR IGFBP3 847 EGFR IL6 833 EGFR JUN 961 EGFR KRT18 385 EGFR KRT19 710 EGFR KRT5 893 EGFR KRT8 616 EGFR MAPK1 974 EGFR MAPK3 935 EGFR MAPK8 382 EGFR MGMT 725 EGFR MLH1 215 EGFR MMP2 821 EGFR MMP9 824 EGFR MUC1 995 EGFR MYC 821 EGFR NME1 627 EGFR NOTCH1 962 EGFR NR3C1 266 EGFR PGR 786 EGFR PLAU 589 EGFR PRDM2 230 EGFR PTEN 932 EGFR PTGS2 962 EGFR RARB 160 EGFR RASSF1 501 EGFR RB1 521 EGFR SERPINE1 313 EGFR SFN 615 EGFR SNAI2 404 EGFR SRC 999 EGFR TFF3 252 EGFR TGFB1 393 EGFR THBS1 152 EGFR TP53 997 EGFR VEGFA 993 ERBB2 ESR1 997 ERBB2 ESR2 963 ERBB2 FOXA1 398 ERBB2 GATA3 298 ERBB2 GLI1 207 ERBB2 GRB7 997 ERBB2 GSTP1 151 ERBB2 IGF1 922 ERBB2 IGF1R 390 ERBB2 IL6 223 ERBB2 JUN 895 ERBB2 KRT19 778 ERBB2 KRT5 852 ERBB2 KRT8 750 ERBB2 MAPK1 849 ERBB2 MAPK3 859 ERBB2 MGMT 322 ERBB2 MLH1 690 ERBB2 MMP2 909 ERBB2 MMP9 563 ERBB2 MUC1 947 ERBB2 MYC 981 ERBB2 NME1 784 ERBB2 NOTCH1 224 ERBB2 NR3C1 279 ERBB2 PGR 863 ERBB2 PLAU 766 ERBB2 PRDM2 157 ERBB2 PTEN 928 ERBB2 PTGS2 952 ERBB2 RASSF1 291 ERBB2 RB1 885 ERBB2 SERPINE1 308 ERBB2 SNAI2 219 ERBB2 SRC 855 ERBB2 TGFB1 216 ERBB2 THBS1 152 ERBB2 TP53 990 ERBB2 TWIST1 216 ERBB2 VEGFA 991 ESR1 ESR2 981 ESR1 FOXA1 976 ESR1 GATA3 941 ESR1 GLI1 216 ESR1 GRB7 618 ESR1 GSTP1 573 ESR1 HIC1 698 ESR1 IGF1 996 ESR1 IGF1R 999 ESR1 IGFBP3 285 ESR1 IL6 888 ESR1 JUN 984 ESR1 KRT18 469 ESR1 KRT19 505 ESR1 KRT5 821 ESR1 KRT8 748 ESR1 MAPK1 956 ESR1 MAPK3 921 ESR1 MAPK8 216 ESR1 MGMT 967 ESR1 MLH1 324 ESR1 MMP2 232 ESR1 MMP9 219 ESR1 MUC1 713 ESR1 MYC 998 ESR1 NME1 825 ESR1 NOTCH1 800 ESR1 NR3C1 294 ESR1 PGR 706 ESR1 PLAU 329 ESR1 PRDM2 974 ESR1 PTEN 762 ESR1 PTGS2 284 ESR1 RARB 916 ESR1 RASSF1 659 ESR1 RB1 755 ESR1 SERPINE1 832 ESR1 SFRP1 195 ESR1 SLC39A6 671 ESR1 SNAI2 235 ESR1 SRC 999 ESR1 TFF3 303 ESR1 TGFB1 252 ESR1 THBS1 161 ESR1 TP53 985 ESR1 TP73 187 ESR1 VEGFA 856 ESR1 XBP1 996 ESR2 FOXA1 165 ESR2 GLI1 291 ESR2 IGF1 927 ESR2 IGF1R 726 ESR2 IGFBP3 152 ESR2 IL6 215 ESR2 JUN 566 ESR2 KRT18 279 ESR2 KRT19 154 ESR2 KRT5 334 ESR2 KRT8 182 ESR2 MAPK1 373 ESR2 MAPK3 550 ESR2 MAPK8 215 ESR2 MLH1 221 ESR2 MMP9 156 ESR2 MUC1 160 ESR2 MYC 786 ESR2 NME1 605 ESR2 NOTCH1 215 ESR2 NR3C1 258 ESR2 PGR 268 ESR2 PRDM2 176 ESR2 PTEN 277 ESR2 PTGS2 253 ESR2 RARB 901 ESR2 RASSF1 157 ESR2 SRC 985 ESR2 TGFB1 275 ESR2 TP53 819 ESR2 VEGFA 174 FOXA1 GATA3 808 FOXA1 GLI1 243 FOXA1 GRB7 385 FOXA1 IL6 229 FOXA1 KRT5 279 FOXA1 MAPK8 216 FOXA1 MMP9 221 FOXA1 MUC1 162 FOXA1 MYC 282 FOXA1 NOTCH1 170 FOXA1 NR3C1 395 FOXA1 PGR 492 FOXA1 TFF3 595 FOXA1 TGFB1 151 FOXA1 THBS1 196 FOXA1 XBP1 964 GATA3 GRB7 202 GATA3 IL6 217 GATA3 JUN 330 GATA3 KRT19 215 GATA3 KRT5 327 GATA3 MAPK8 215 GATA3 MGMT 157 GATA3 MYC 800 GATA3 NOTCH1 951 GATA3 NR3C1 276 GATA3 PGR 152 GATA3 PYCARD 152 GATA3 RARB 357 GATA3 RB1 216 GATA3 SERPINE1 369 GATA3 SLC39A6 623 GATA3 SRC 215 GATA3 TGFB1 276 GATA3 TP53 215 GATA3 XBP1 446 GLI1 IGF1 283 GLI1 IGFBP3 285 GLI1 IL6 215 GLI1 JUN 282 GLI1 KRT19 817 GLI1 KRT5 168 GLI1 MAPK1 216 GLI1 MAPK3 215 GLI1 MGMT 195 GLI1 MYC 516 GLI1 NOTCH1 803 GLI1 NR3C1 217 GLI1 PGR 152 GLI1 PTEN 298 GLI1 RB1 288 GLI1 SFRP1 748 GLI1 SNAI2 150 GLI1 TGFB1 219 GLI1 TP53 289 GLI1 TWIST1 162 GLI1 XBP1 357 GRB7 IGF1 442 GRB7 IGF1R 480 GRB7 KRT18 313 GRB7 KRT19 216 GRB7 MAPK1 224 GRB7 MAPK3 221 GRB7 MGMT 216 GRB7 MUC1 162 GRB7 PTGS2 196 GRB7 SFN 371 GRB7 SRC 941 GSTP1 HIC1 766 GSTP1 JUN 949 GSTP1 KRT19 152 GSTP1 KRT5 208 GSTP1 KRT8 162 GSTP1 MAPK1 185 GSTP1 MAPK8 991 GSTP1 MGMT 786 GSTP1 MKI67 227 GSTP1 MLH1 784 GSTP1 MYC 170 GSTP1 NME1 224 GSTP1 NR3C1 224 GSTP1 PGR 238 GSTP1 PRDM2 511 GSTP1 PTEN 571 GSTP1 PTGS2 744 GSTP1 PYCARD 223 GSTP1 RARB 762 GSTP1 RASSF1 786 GSTP1 RB1 675 GSTP1 SFN 702 GSTP1 SFRP1 706 GSTP1 SRC 177 GSTP1 TGFB1 332 GSTP1 THBS1 774 GSTP1 TP53 953 GSTP1 TP73 424 GSTP1 VEGFA 223 HIC1 MGMT 878 HIC1 MLH1 821 HIC1 MYC 298 HIC1 NR3C1 234 HIC1 PRDM2 327 HIC1 PTEN 454 HIC1 PTGS2 506 HIC1 PYCARD 317 HIC1 RARB 649 HIC1 RASSF1 784 HIC1 RB1 734 HIC1 SFN 540 HIC1 SFRP1 651 HIC1 THBS1 734 HIC1 TP53 995 HIC1 TP73 468 ID1 MKI67 215 ID1 MMP9 323 ID1 MYC 312 ID1 PTEN 800 ID1 RASSF1 826 ID1 SRC 283 ID1 THBS1 163 IGF1 IGF1R 999 IGF1 IGFBP3 999 IGF1 IL6 983 IGF1 JUN 932 IGF1 MAPK1 980 IGF1 MAPK3 981 IGF1 MAPK8 382 IGF1 MMP2 985 IGF1 MMP9 226 IGF1 MYC 832 IGF1 NOTCH1 235 IGF1 NR3C1 215 IGF1 PGR 931 IGF1 PLAU 842 IGF1 PRDM2 174 IGF1 PTEN 818 IGF1 PTGS2 841 IGF1 PYCARD 217 IGF1 RB1 253 IGF1 SERPINE1 215 IGF1 SLC39A6 254 IGF1 SRC 997 IGF1 TGFB1 908 IGF1 THBS1 863 IGF1 TP53 841 IGF1 TWIST1 800 IGF1 VEGFA 989 IGF1 XBP1 221 IGF1R IGFBP3 995 IGF1R IL6 229 IGF1R JUN 424 IGF1R KRT19 154 IGF1R KRT5 348 IGF1R MAPK1 927 IGF1R MAPK3 929 IGF1R MAPK8 291 IGF1R MLH1 279 IGF1R MMP2 288 IGF1R MMP9 229 IGF1R MYC 176 IGF1R NME1 227 IGF1R PGR 594 IGF1R PLAU 404 IGF1R PRDM2 215 IGF1R PTEN 837 IGF1R PYCARD 226 IGF1R RARB 274 IGF1R RB1 275 IGF1R SRC 967 IGF1R TGFB1 338 IGF1R THBS1 214 IGF1R TP53 935 IGF1R VEGFA 960 IGF1R XBP1 246 IGFBP3 IL6 346 IGFBP3 JUN 216 IGFBP3 MAPK1 245 IGFBP3 MAPK3 332 IGFBP3 MAPK8 223 IGFBP3 MMP2 963 IGFBP3 MMP9 329 IGFBP3 PLAU 185 IGFBP3 PYCARD 246 IGFBP3 SERPINE1 227 IGFBP3 SRC 270 IGFBP3 TGFB1 298 IGFBP3 THBS1 151 IGFBP3 TP53 978 IGFBP3 TP73 385 IGFBP3 VEGFA 645 IL6 JUN 996 IL6 KRT5 221 IL6 MAPK1 892 IL6 MAPK3 952 IL6 MAPK8 970 IL6 MLH1 215 IL6 MMP2 961 IL6 MMP9 993 IL6 MUC1 832 IL6 MYC 878 IL6 NOTCH1 839 IL6 NR3C1 947 IL6 PGR 215 IL6 PLAU 216 IL6 PRDM2 653 IL6 PTEN 389 IL6 PTGS2 996 IL6 PYCARD 555 IL6 RB1 808 IL6 SERPINE1 964 IL6 SLC39A6 237 IL6 SRC 240 IL6 TFF3 223 IL6 TGFB1 971 IL6 THBS1 301 IL6 TP53 838 IL6 TP73 218 IL6 VEGFA 987 IL6 XBP1 330 JUN KRT18 639 JUN KRT5 899 JUN KRT8 366 JUN MAPK1 998 JUN MAPK3 995 JUN MAPK8 999 JUN MKI67 179 JUN MLH1 215 JUN MMP2 995 JUN MMP9 963 JUN MUC1 619 JUN MYC 982 JUN NME1 863 JUN NOTCH1 923 JUN NR3C1 994 JUN PGR 703 JUN PLAU 996 JUN PRDM2 690 JUN PTEN 612 JUN PTGS2 995 JUN PYCARD 217 JUN RARB 778 JUN RB1 991 JUN SERPINE1 918 JUN SFN 358 JUN SRC 820 JUN TFF3 657 JUN TGFB1 823 JUN THBS1 629 JUN TP53 965 JUN TP73 239 JUN VEGFA 960 JUN XBP1 551 KRT18 KRT19 226 KRT18 KRT5 964 KRT18 KRT8 999 KRT18 MAPK8 218 KRT18 MYC 163 KRT18 NME1 176 KRT18 SERPINE1 619 KRT18 SNAI2 278 KRT18 SRC 163 KRT18 TWIST1 190 KRT19 KRT5 191 KRT19 KRT8 329 KRT19 MAPK8 267 KRT19 MUC1 784 KRT19 PGR 538 KRT19 PLAU 480 KRT19 PRDM2 244 KRT19 RB1 152 KRT19 SFN 179 KRT19 SFRP1 183 KRT19 SRC 221 KRT19 TFF3 363 KRT19 TGFB1 318 KRT19 TP53 951 KRT19 VEGFA 210 KRT19 XBP1 234 KRT5 KRT8 904 KRT5 MAPK1 277 KRT5 MLH1 285 KRT5 MMP2 152 KRT5 MMP9 218 KRT5 MUC1 510 KRT5 NOTCH1 284 KRT5 PGR 836 KRT5 PTEN 301 KRT5 RB1 217 KRT5 SERPINE1 226 KRT5 SFN 375 KRT5 SLC39A6 408 KRT5 SNAI2 154 KRT5 SRC 215 KRT5 TGFB1 280 KRT5 THBS1 224 KRT5 TP53 810 KRT5 TWIST1 160 KRT8 MAPK1 871 KRT8 MAPK3 706 KRT8 MAPK8 748 KRT8 MMP2 171 KRT8 MUC1 285 KRT8 MYC 159 KRT8 NME1 285 KRT8 PGR 683 KRT8 PLAU 157 KRT8 PYCARD 240 KRT8 RARB 259 KRT8 SFN 321 KRT8 SNAI2 180 KRT8 SRC 275 KRT8 TFF3 162 KRT8 TGFB1 218 KRT8 TP53 902 KRT8 XBP1 160 MAPK1 MAPK3 904 MAPK1 MAPK8 670 MAPK1 MLH1 215 MAPK1 MMP2 274 MAPK1 MMP9 942 MAPK1 MYC 998 MAPK1 NOTCH1 226 MAPK1 NR3C1 619 MAPK1 PGR 619 MAPK1 PLAU 924 MAPK1 PTEN 429 MAPK1 PTGS2 993 MAPK1 RB1 723 MAPK1 SERPINE1 285 MAPK1 SNAI2 815 MAPK1 SRC 927 MAPK1 TGFB1 916 MAPK1 THBS1 275 MAPK1 TP53 975 MAPK1 TWIST1 219 MAPK1 VEGFA 685 MAPK3 MAPK8 674 MAPK3 MLH1 215 MAPK3 MMP2 936 MAPK3 MMP9 974 MAPK3 MYC 995 MAPK3 NME1 177 MAPK3 NR3C1 215 MAPK3 PGR 277 MAPK3 PLAU 934 MAPK3 PTEN 238 MAPK3 PTGS2 995 MAPK3 PYCARD 728 MAPK3 RB1 243 MAPK3 SERPINE1 152 MAPK3 SNAI2 815 MAPK3 SRC 326 MAPK3 TGFB1 924 MAPK3 THBS1 469 MAPK3 TP53 743 MAPK3 TWIST1 235 MAPK3 VEGFA 972 MAPK8 MLH1 216 MAPK8 MMP2 961 MAPK8 MMP9 964 MAPK8 MYC 968 MAPK8 NOTCH1 275 MAPK8 NR3C1 953 MAPK8 PGR 807 MAPK8 PLAU 817 MAPK8 PRDM2 892 MAPK8 PTEN 550 MAPK8 PTGS2 962 MAPK8 PYCARD 408 MAPK8 RASSF1 579 MAPK8 RB1 682 MAPK8 SERPINE1 957 MAPK8 SFN 547 MAPK8 SFRP1 515 MAPK8 SLIT2 208 MAPK8 SRC 365 MAPK8 TGFB1 411 MAPK8 TP53 999 MAPK8 TP73 800 MAPK8 TWIST1 215 MAPK8 VEGFA 960 MAPK8 XBP1 818 MGMT MLH1 840 MGMT NME1 188 MGMT PRDM2 688 MGMT PTEN 815 MGMT PTGS2 468 MGMT PYCARD 593 MGMT RARB 770 MGMT RASSF1 786 MGMT RB1 817 MGMT SFN 179 MGMT SFRP1 639 MGMT THBS1 782 MGMT TP53 962 MGMT TP73 736 MKI67 MMP2 402 MKI67 MYC 170 MKI67 PLAU 165 MKI67 RASSF1 310 MKI67 RB1 163 MKI67 SRC 322 MKI67 VEGFA 281 MLH1 MMP2 217 MLH1 MMP9 216 MLH1 MYC 925 MLH1 NME1 159 MLH1 NR3C1 224 MLH1 PGR 304 MLH1 PRDM2 692 MLH1 PTEN 949 MLH1 PTGS2 652 MLH1 PYCARD 281 MLH1 RARB 744 MLH1 RASSF1 786 MLH1 RB1 795 MLH1 SFN 151 MLH1 SFRP1 683 MLH1 SRC 215 MLH1 TGFB1 216 MLH1 THBS1 770 MLH1 TP53 995 MLH1 TP73 614 MLH1 TWIST1 759 MMP2 MYC 800 MMP2 NME1 752 MMP2 NOTCH1 215 MMP2 NR3C1 216 MMP2 PGR 282 MMP2 PLAU 786 MMP2 PTEN 418 MMP2 PTGS2 817 MMP2 RB1 283 MMP2 SERPINE1 829 MMP2 SNAI2 490 MMP2 SRC 994 MMP2 TGFB1 988 MMP2 THBS1 865 MMP2 TP53 982 MMP2 VEGFA 968 MMP9 MYC 949 MMP9 NME1 937 MMP9 NOTCH1 832 MMP9 PGR 353 MMP9 PLAU 981 MMP9 PRDM2 282 MMP9 PTEN 400 MMP9 PTGS2 824 MMP9 RB1 832 MMP9 SERPINE1 841 MMP9 SFN 351 MMP9 SNAI2 452 MMP9 SRC 995 MMP9 TGFB1 992 MMP9 THBS1 975 MMP9 TP53 235 MMP9 TP73 156 MMP9 VEGFA 983 MUC1 MYC 165 MUC1 NME1 205 MUC1 PGR 363 MUC1 PTEN 232 MUC1 RB1 816 MUC1 SRC 957 MUC1 TFF3 695 MUC1 TGFB1 219 MUC1 THBS1 283 MUC1 TP53 953 MUC1 TP73 201 MYC NME1 954 MYC NOTCH1 808 MYC NR3C1 851 MYC PGR 761 MYC PLAU 928 MYC PRDM2 221 MYC PTEN 806 MYC PTGS2 637 MYC RARB 337 MYC RASSF1 228 MYC RB1 998 MYC SFN 246 MYC SFRP1 939 MYC SRC 821 MYC TGFB1 821 MYC THBS1 585 MYC TP53 997 MYC TP73 900 MYC TWIST1 216 MYC VEGFA 954 MYC XBP1 257 NME1 NR3C1 776 NME1 PGR 526 NME1 PLAU 216 NME1 PTEN 307 NME1 PTGS2 815 NME1 PYCARD 167 NME1 RASSF1 156 NME1 RB1 681 NME1 SFN 188 NME1 TGFB1 171 NME1 TP53 962 NME1 VEGFA 534 NOTCH1 NR3C1 274 NOTCH1 PGR 151 NOTCH1 PLAU 428 NOTCH1 PTEN 937 NOTCH1 PTGS2 481 NOTCH1 RARB 276 NOTCH1 RB1 443 NOTCH1 SERPINE1 215 NOTCH1 SFN 355 NOTCH1 SFRP1 677 NOTCH1 SNAI2 542 NOTCH1 SRC 221 NOTCH1 TGFB1 218 NOTCH1 TP53 849 NOTCH1 TP73 218 NOTCH1 TWIST1 388 NOTCH1 VEGFA 960 NR3C1 PGR 180 NR3C1 PTEN 224 NR3C1 PTGS2 302 NR3C1 RARB 163 NR3C1 RB1 365 NR3C1 SERPINE1 924 NR3C1 SFN 619 NR3C1 SRC 641 NR3C1 TGFB1 215 NR3C1 THBS1 216 NR3C1 TP53 906 NR3C1 VEGFA 217 NR3C1 XBP1 226 PGR PLAU 706 PGR PTEN 617 PGR PTGS2 739 PGR RB1 851 PGR SERPINE1 424 PGR SLC39A6 193 PGR SNAI2 229 PGR SRC 708 PGR TGFB1 215 PGR THBS1 151 PGR TP53 838 PGR TWIST1 284 PGR VEGFA 546 PLAU PRDM2 163 PLAU PTEN 215 PLAU PTGS2 300 PLAU RARB 174 PLAU RASSF1 174 PLAU SERPINE1 999 PLAU SRC 733 PLAU TGFB1 795 PLAU THBS1 664 PLAU TP53 825 PLAU VEGFA 961 PLAU XBP1 438 PRDM2 PTEN 223 PRDM2 PTGS2 692 PRDM2 PYCARD 317 PRDM2 RASSF1 722 PRDM2 RB1 697 PRDM2 SERPINE1 235 PRDM2 SFN 201 PRDM2 SFRP1 361 PRDM2 SRC 242 PRDM2 TGFB1 241 PRDM2 TP53 233 PRDM2 TP73 702 PRDM2 VEGFA 643 PRDM2 XBP1 208 PTEN PTGS2 319 PTEN RARB 226 PTEN RASSF1 772 PTEN RB1 876 PTEN SERPINE1 215 PTEN SLIT2 167 PTEN SNAI2 246 PTEN SRC 857 PTEN TGFB1 277 PTEN THBS1 462 PTEN TP53 999 PTEN TP73 232 PTEN VEGFA 959 PTGS2 PYCARD 230 PTGS2 RARB 403 PTGS2 RASSF1 731 PTGS2 SERPINE1 456 PTGS2 SFN 700 PTGS2 SRC 924 PTGS2 TFF3 836 PTGS2 TGFB1 832 PTGS2 THBS1 491 PTGS2 TP53 982 PTGS2 VEGFA 970 PYCARD RASSF1 700 PYCARD SLIT2 469 PYCARD SRC 216 PYCARD TGFB1 226 PYCARD THBS1 151 PYCARD TP53 907 RARB RASSF1 784 RARB RB1 550 RARB SFN 671 RARB SFRP1 675 RARB THBS1 271 RARB TP53 430 RARB TWIST1 218 RASSF1 RB1 546 RASSF1 SFN 685 RASSF1 SFRP1 772 RASSF1 THBS1 734 RASSF1 TP53 960 RASSF1 TP73 819 RASSF1 TWIST1 690 RB1 SRC 814 RB1 TGFB1 416 RB1 THBS1 759 RB1 TP53 999 RB1 TP73 889 RB1 TWIST1 223 RB1 VEGFA 800 SERPINE1 SRC 218 SERPINE1 TGFB1 996 SERPINE1 THBS1 945 SERPINE1 TP53 916 SERPINE1 TP73 229 SERPINE1 VEGFA 960 SFN SFRP1 286 SFN THBS1 267 SFN TP53 959 SFN TP73 399 SFN TWIST1 156 SFRP1 SNAI2 567 SFRP1 TFF3 241 SFRP1 TWIST1 419 SFRP1 VEGFA 151 SLC39A6 SNAI2 338 SLC39A6 TGFB1 218 SLC39A6 XBP1 407 SLIT2 SRC 191 SNAI2 TGFB1 297 SNAI2 TP53 920 SNAI2 TWIST1 894 SRC TGFB1 215 SRC THBS1 447 SRC TP53 215 SRC TWIST1 800 SRC VEGFA 996 TFF3 TGFB1 223 TFF3 XBP1 475 TGFB1 THBS1 913 TGFB1 TP53 705 TGFB1 TP73 218 TGFB1 VEGFA 966 THBS1 TP53 962 THBS1 TP73 650 THBS1 TWIST1 218 THBS1 VEGFA 933 TP53 TP73 970 TP53 TWIST1 833 TP53 VEGFA 961 TP73 TWIST1 165
In [4]:
G = nx.Graph()
for i in data_array:
G.add_edge(i[0],i[1])
In [52]:
len(G.nodes),len(G.edges)
Out[52]:
(84, 1900)
In [22]:
plt.figure(figsize=(20,10))
nx.draw(G,with_labels=True)
In [23]:
degree_freq = np.array(nx.degree_histogram(G)).astype('float')
plt.figure(figsize=(12, 8))
plt.stem(degree_freq)
plt.ylabel("Frequence")
plt.xlabel("Degree")
plt.show()
In [26]:
nodes = list(G.nodes)
G2 = igraph.Graph.Adjacency((nx.to_numpy_matrix(G) > 0).tolist())
G2 = G2.as_undirected()
G2.vs["name"]=nodes
Each line is a community in each of the output. 7 different algortihms from igraph package is applied on the graph.¶
In [29]:
communities = []
community = G2.community_walktrap()
cluster = community.as_clustering()
#cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ABCG2,AR,BAD,CCNE1,CSF1,CST6,CTSD,EGF,EGFR,ERBB2,ESR1,ESR2,FOXA1,GATA3,GLI1,GRB7,IGF1,IGF1R,IGFBP3,IL6,JUN,KRT18,KRT19,KRT5,KRT8,MAPK1,MAPK3,MMP2,MMP9,MUC1,NOTCH1,PGR,PLAU,SERPINE1,SNAI2,TGFB1,VEGFA ABCB1,AKT1,APC,ATM,BCL2,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CDH1,CDK2,CDKN1A,CDKN1C,CTNNB1,MAPK8,MYC,NME1,NR3C1,PRDM2,PTEN,PTGS2,RB1,SRC,TP53,TWIST1 CDH13,CDKN2A,GSTP1,HIC1,ID1,MGMT,MKI67,MLH1,PYCARD,RARB,RASSF1,SFN,SFRP1,THBS1,TP73 SLC39A6,TFF3,XBP1 ADAM23 SLIT2
In [30]:
communities = []
community = G2.community_edge_betweenness()
cluster = community.as_clustering()
#cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
AKT1,APC,AR,ATM,BAD,BCL2,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CCNE1,CDH1,CDH13,CDK2,CDKN1A,CDKN2A,CTNNB1,EGF,EGFR,ERBB2,ESR1,ESR2,GLI1,IGF1,IGF1R,IL6,JUN,KRT5,MAPK1,MAPK3,MAPK8,MLH1,MMP2,MMP9,MYC,NME1,NOTCH1,NR3C1,PGR,PLAU,PRDM2,PTEN,PTGS2,RB1,SERPINE1,SRC,TGFB1,THBS1,TP53,VEGFA ABCB1 ABCG2 ADAM23 CTSD GSTP1 MGMT KRT18 KRT19 KRT8 CDKN1C CSF1 CST6 FOXA1 GATA3 GRB7 HIC1 IGFBP3 MUC1 RASSF1 SFN SFRP1 SLIT2 SNAI2 TFF3 TWIST1 XBP1 TP73 MKI67 SLC39A6 ID1 PYCARD RARB
In [37]:
communities = []
community = G2.community_fastgreedy()
cluster = community.as_clustering()
#cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
AR,ATM,BAD,BCL2,BRCA2,CCND1,CCNE1,CDK2,CDKN1A,CDKN1C,CSF1,CTSD,EGF,EGFR,ESR2,GLI1,GRB7,ID1,IGF1,IGF1R,IGFBP3,JUN,KRT18,KRT5,MAPK1,MAPK3,MKI67,MMP2,MMP9,MUC1,MYC,NOTCH1,PLAU,PTEN,SNAI2,SRC,TGFB1,VEGFA ABCB1,ABCG2,ADAM23,BIRC5,BRCA1,CCNA1,CCND2,CDH1,CDH13,CDKN2A,CTNNB1,ERBB2,GSTP1,HIC1,KRT8,MGMT,MLH1,NME1,PRDM2,PTGS2,PYCARD,RARB,RASSF1,RB1,SFN,SFRP1,THBS1,TP53,TP73,TWIST1 AKT1,APC,CST6,ESR1,FOXA1,GATA3,IL6,KRT19,MAPK8,NR3C1,PGR,SERPINE1,SLC39A6,SLIT2,TFF3,XBP1
In [47]:
communities = []
community = G2.community_infomap()
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ABCB1,ABCG2,ADAM23,AKT1,APC,AR,ATM,BAD,BCL2,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CCNE1,CDH1,CDH13,CDK2,CDKN1A,CDKN1C,CDKN2A,CSF1,CST6,CTNNB1,CTSD,EGF,EGFR,ERBB2,ESR1,ESR2,FOXA1,GATA3,GLI1,GRB7,GSTP1,HIC1,ID1,IGF1,IGF1R,IGFBP3,IL6,JUN,KRT18,KRT19,KRT5,KRT8,MAPK1,MAPK3,MAPK8,MGMT,MKI67,MLH1,MMP2,MMP9,MUC1,MYC,NME1,NOTCH1,NR3C1,PGR,PLAU,PRDM2,PTEN,PTGS2,PYCARD,RARB,RASSF1,RB1,SERPINE1,SFN,SFRP1,SLC39A6,SLIT2,SNAI2,SRC,TFF3,TGFB1,THBS1,TP53,TP73,TWIST1,VEGFA,XBP1
In [53]:
communities = []
community = G2.community_leading_eigenvector()
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ADAM23,APC,ATM,BCL2,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CDH1,CDH13,CDK2,CDKN1A,CDKN1C,CDKN2A,CTNNB1,GATA3,GSTP1,HIC1,ID1,MGMT,MKI67,MLH1,MYC,NME1,NR3C1,PRDM2,PTEN,PTGS2,PYCARD,RARB,RASSF1,RB1,SFN,SFRP1,THBS1,TP53,TP73,TWIST1 ABCB1,ABCG2,AKT1,AR,CCNE1,CST6,EGF,EGFR,ERBB2,ESR1,ESR2,FOXA1,GLI1,GRB7,IL6,KRT18,KRT19,KRT5,KRT8,MUC1,NOTCH1,PGR,SLC39A6,SNAI2,TFF3,TGFB1,XBP1 BAD,CSF1,CTSD,IGF1,IGF1R,IGFBP3,JUN,MAPK1,MAPK3,MAPK8,MMP2,MMP9,PLAU,SERPINE1,SLIT2,SRC,VEGFA
In [54]:
communities = []
community = G2.community_label_propagation()
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ABCB1,ABCG2,ADAM23,AKT1,APC,AR,ATM,BAD,BCL2,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CCNE1,CDH1,CDH13,CDK2,CDKN1A,CDKN1C,CDKN2A,CSF1,CST6,CTNNB1,CTSD,EGF,EGFR,ERBB2,ESR1,ESR2,FOXA1,GATA3,GLI1,GRB7,GSTP1,HIC1,ID1,IGF1,IGF1R,IGFBP3,IL6,JUN,KRT18,KRT19,KRT5,KRT8,MAPK1,MAPK3,MAPK8,MGMT,MKI67,MLH1,MMP2,MMP9,MUC1,MYC,NME1,NOTCH1,NR3C1,PGR,PLAU,PRDM2,PTEN,PTGS2,PYCARD,RARB,RASSF1,RB1,SERPINE1,SFN,SFRP1,SLC39A6,SLIT2,SNAI2,SRC,TFF3,TGFB1,THBS1,TP53,TP73,TWIST1,VEGFA,XBP1
In [55]:
communities = []
community = G2.community_multilevel()
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ADAM23,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CDH1,CDH13,CDKN2A,GSTP1,HIC1,ID1,MGMT,MKI67,MLH1,MYC,NME1,PRDM2,PTGS2,PYCARD,RARB,RASSF1,RB1,SFN,SFRP1,THBS1,TP53,TP73,TWIST1 APC,AR,ATM,BAD,BCL2,CSF1,CTNNB1,CTSD,IGF1,IGF1R,IGFBP3,IL6,MAPK1,MAPK3,MAPK8,MMP2,MMP9,PLAU,PTEN,SERPINE1,SLIT2,SRC,VEGFA ABCB1,ABCG2,AKT1,CCNE1,CDK2,CDKN1A,CDKN1C,EGF,EGFR,GLI1,GRB7,JUN,KRT18,NOTCH1,NR3C1,SNAI2 CST6,ERBB2,ESR1,ESR2,FOXA1,GATA3,KRT19,KRT5,KRT8,MUC1,PGR,SLC39A6,TFF3,TGFB1,XBP1
In [56]:
communities = []
community = G2.community_spinglass()
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ABCB1,AR,BAD,BCL2,CSF1,CTSD,EGF,EGFR,ESR2,IGF1,IGF1R,IGFBP3,IL6,JUN,MAPK1,MAPK3,MAPK8,MMP2,MMP9,NME1,PLAU,PRDM2,PTEN,PTGS2,PYCARD,SERPINE1,SLIT2,SRC,TGFB1,TP53,VEGFA ADAM23,APC,ATM,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CDH13,CDK2,CDKN1A,CDKN1C,CDKN2A,GSTP1,HIC1,ID1,MGMT,MKI67,MLH1,MYC,NOTCH1,NR3C1,RARB,RASSF1,RB1,SFN,SFRP1,THBS1,TP73,TWIST1 ABCG2,AKT1,CCNE1,CDH1,CST6,CTNNB1,ERBB2,ESR1,FOXA1,GATA3,GLI1,GRB7,KRT18,KRT19,KRT5,KRT8,MUC1,PGR,SLC39A6,SNAI2,TFF3,XBP1
In [65]:
communities = []
community = G2.community_leiden(objective_function="modularity",
weights=None,
resolution_parameter=1.0,
beta=0.01,
initial_membership=None,
n_iterations=2,
node_weights=None)
#cluster = community.as_clustering()
cluster = community
for i in cluster:
c = []
for j in i:
c.append(nodes[j])
communities.append(c)
communities.sort(key=len,reverse=True)
for i in communities:
i.sort()
print(",".join(i))
ADAM23,APC,BIRC5,BRCA1,BRCA2,CCNA1,CCND1,CCND2,CDH1,CDH13,CDK2,CDKN1A,CDKN1C,CDKN2A,CTNNB1,GSTP1,HIC1,ID1,MGMT,MKI67,MLH1,MYC,NME1,NR3C1,RARB,RASSF1,RB1,SFN,SFRP1,THBS1,TP73,TWIST1 ABCB1,AR,ATM,BAD,BCL2,CSF1,CTSD,EGF,EGFR,ESR2,IGF1,IGF1R,IGFBP3,IL6,JUN,MAPK1,MAPK3,MAPK8,MMP2,MMP9,PLAU,PRDM2,PTEN,PTGS2,PYCARD,SERPINE1,SLIT2,SRC,TGFB1,TP53,VEGFA ABCG2,AKT1,CCNE1,CST6,ERBB2,ESR1,FOXA1,GATA3,GLI1,GRB7,KRT18,KRT19,KRT5,KRT8,MUC1,NOTCH1,PGR,SLC39A6,SNAI2,TFF3,XBP1
In [ ]: