Correlation between gene mutation status and molecular subtypes

Breast Invasive Carcinoma (Primary solid tumor)

15 July 2014 | analyses__2014_07_15

Maintainer Information

Citation Information

Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)

Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Correlation between gene mutation status and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1ST7NJ5

Overview

Introduction

This pipeline computes the correlation between significantly recurrent gene mutations and molecular subtypes.

Summary

Testing the association between mutation status of 152 genes and 12 molecular subtypes across 976 patients, 49 significant findings detected with P value < 0.05 and Q value < 0.25.

PIK3CA mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
TP53 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
CDH1 mutation correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
GATA3 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
MAP3K1 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
CBFB mutation correlated to 'MRNASEQ_CNMF'.
MAP2K4 mutation correlated to 'MIRSEQ_MATURE_CNMF'.

Results

Overview of the results

Table 1. Get Full Table Overview of the association between mutation status of 152 genes and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 49 significant findings detected.


		Clinical Features	MRNA CNMF	MRNA CHIERARCHICAL	CN CNMF	METHLYATION CNMF	RPPA CNMF	RPPA CHIERARCHICAL	MRNASEQ CNMF	MRNASEQ CHIERARCHICAL	MIRSEQ CNMF	MIRSEQ CHIERARCHICAL	MIRSEQ MATURE CNMF	MIRSEQ MATURE CHIERARCHICAL
	nMutated (%)	nWild-Type	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test
PIK3CA	316 (32%)	660	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	0.00013 (0.207)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)
TP53	295 (30%)	681	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)
GATA3	97 (10%)	879	1e-05 (0.0163)	1e-05 (0.0163)	0.00114 (1.00)	3e-05 (0.0478)	0.0158 (1.00)	0.00012 (0.191)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)
CDH1	106 (11%)	870	0.00035 (0.554)	0.00607 (1.00)	1e-05 (0.0163)	1e-05 (0.0163)	0.00852 (1.00)	0.0194 (1.00)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)	1e-05 (0.0163)
MAP3K1	70 (7%)	906	3e-05 (0.0478)	0.00015 (0.238)	0.00101 (1.00)	0.0507 (1.00)	0.00056 (0.884)	1e-05 (0.0163)	0.00021 (0.333)	6e-05 (0.0955)	0.00013 (0.207)	0.00021 (0.333)	0.00043 (0.68)	0.0208 (1.00)
CBFB	23 (2%)	953	0.0934 (1.00)	0.216 (1.00)	0.02 (1.00)	0.133 (1.00)	0.111 (1.00)	0.0811 (1.00)	3e-05 (0.0478)	0.00036 (0.57)	0.0133 (1.00)	0.00341 (1.00)	0.0052 (1.00)	0.00133 (1.00)
MAP2K4	32 (3%)	944	0.0576 (1.00)	0.00423 (1.00)	0.0419 (1.00)	0.047 (1.00)	0.00234 (1.00)	0.292 (1.00)	0.0058 (1.00)	0.00791 (1.00)	0.00046 (0.727)	0.00054 (0.853)	3e-05 (0.0478)	0.0016 (1.00)
RUNX1	29 (3%)	947	0.0159 (1.00)	0.0869 (1.00)	0.00508 (1.00)	0.168 (1.00)	1 (1.00)	0.299 (1.00)	0.0478 (1.00)	0.0299 (1.00)	0.0134 (1.00)	0.264 (1.00)	0.223 (1.00)	0.316 (1.00)
PTEN	35 (4%)	941	0.311 (1.00)	0.904 (1.00)	0.548 (1.00)	0.654 (1.00)	0.921 (1.00)	0.975 (1.00)	0.421 (1.00)	0.372 (1.00)	0.763 (1.00)	0.495 (1.00)	0.2 (1.00)	0.949 (1.00)
ARID1A	27 (3%)	949	0.303 (1.00)	0.94 (1.00)	0.0839 (1.00)	0.26 (1.00)	1 (1.00)	0.243 (1.00)	0.114 (1.00)	0.773 (1.00)	0.227 (1.00)	0.0708 (1.00)	0.151 (1.00)	0.381 (1.00)
MLL3	69 (7%)	907	0.669 (1.00)	0.154 (1.00)	0.387 (1.00)	0.356 (1.00)	0.638 (1.00)	0.527 (1.00)	0.0436 (1.00)	0.121 (1.00)	0.0624 (1.00)	0.364 (1.00)	0.177 (1.00)	0.219 (1.00)
FOXA1	23 (2%)	953	0.366 (1.00)	0.532 (1.00)	0.0538 (1.00)	0.0446 (1.00)	0.894 (1.00)	0.95 (1.00)	0.0731 (1.00)	0.177 (1.00)	0.134 (1.00)	0.695 (1.00)	0.0757 (1.00)	0.549 (1.00)
RBMX	14 (1%)	962	0.385 (1.00)	0.105 (1.00)	0.0973 (1.00)	0.141 (1.00)	0.556 (1.00)	0.585 (1.00)	0.0728 (1.00)	0.246 (1.00)	0.615 (1.00)	0.541 (1.00)	0.248 (1.00)	0.628 (1.00)
TBX3	27 (3%)	949	0.576 (1.00)	0.627 (1.00)	0.341 (1.00)	0.375 (1.00)	0.0828 (1.00)	0.975 (1.00)	0.143 (1.00)	0.388 (1.00)	0.0983 (1.00)	0.0855 (1.00)	0.387 (1.00)	0.0244 (1.00)
THEM5	11 (1%)	965	0.262 (1.00)	0.871 (1.00)	0.259 (1.00)	0.29 (1.00)	0.208 (1.00)	0.122 (1.00)	0.855 (1.00)	0.994 (1.00)	0.721 (1.00)	0.825 (1.00)	0.838 (1.00)	0.484 (1.00)
RB1	19 (2%)	957	0.88 (1.00)	0.303 (1.00)	0.0729 (1.00)	0.118 (1.00)	0.442 (1.00)	0.773 (1.00)	0.186 (1.00)	0.0279 (1.00)	0.0507 (1.00)	0.0312 (1.00)	0.00831 (1.00)	0.125 (1.00)
NF1	27 (3%)	949	0.574 (1.00)	0.804 (1.00)	0.481 (1.00)	0.152 (1.00)	0.937 (1.00)	0.261 (1.00)	0.0919 (1.00)	0.0989 (1.00)	0.847 (1.00)	0.87 (1.00)	0.479 (1.00)	0.758 (1.00)
ACTL6B	10 (1%)	966	0.35 (1.00)	0.287 (1.00)	0.0373 (1.00)	0.287 (1.00)	0.864 (1.00)	0.353 (1.00)	0.667 (1.00)	0.628 (1.00)	0.665 (1.00)	0.754 (1.00)	0.861 (1.00)	1 (1.00)
SPEN	32 (3%)	944	0.665 (1.00)	0.789 (1.00)	0.496 (1.00)	0.274 (1.00)	0.943 (1.00)	0.34 (1.00)	0.16 (1.00)	0.168 (1.00)	0.025 (1.00)	0.0291 (1.00)	0.362 (1.00)	0.0653 (1.00)
CDKN1B	10 (1%)	966	0.64 (1.00)	0.738 (1.00)	0.203 (1.00)	0.321 (1.00)	0.738 (1.00)	0.441 (1.00)	0.0825 (1.00)	0.174 (1.00)	0.0232 (1.00)	0.595 (1.00)	0.331 (1.00)	0.406 (1.00)
NCOR1	41 (4%)	935	0.74 (1.00)	0.967 (1.00)	0.969 (1.00)	0.646 (1.00)	0.436 (1.00)	0.524 (1.00)	0.656 (1.00)	0.161 (1.00)	0.862 (1.00)	0.301 (1.00)	1 (1.00)	0.179 (1.00)
SF3B1	16 (2%)	960	0.845 (1.00)	0.845 (1.00)	0.43 (1.00)	0.0462 (1.00)	0.451 (1.00)	0.164 (1.00)	0.53 (1.00)	0.709 (1.00)	0.0447 (1.00)	0.643 (1.00)	0.672 (1.00)	0.28 (1.00)
ZFP36L1	9 (1%)	967	0.403 (1.00)	0.898 (1.00)	0.00632 (1.00)	0.055 (1.00)	0.0264 (1.00)	0.231 (1.00)	0.454 (1.00)	0.156 (1.00)	0.532 (1.00)	0.655 (1.00)	1 (1.00)	0.859 (1.00)
KRAS	6 (1%)	970	0.54 (1.00)	0.632 (1.00)	0.353 (1.00)	0.258 (1.00)	0.2 (1.00)	0.712 (1.00)	0.315 (1.00)	0.37 (1.00)	0.667 (1.00)	0.642 (1.00)	0.743 (1.00)	0.103 (1.00)
TCP11	6 (1%)	970	0.783 (1.00)	0.512 (1.00)	0.481 (1.00)		0.863 (1.00)	0.919 (1.00)	0.771 (1.00)	0.773 (1.00)	0.887 (1.00)	0.73 (1.00)
AQP12A	6 (1%)	970	0.623 (1.00)	0.733 (1.00)	0.281 (1.00)	0.166 (1.00)	0.2 (1.00)	0.134 (1.00)	0.742 (1.00)	0.949 (1.00)	1 (1.00)	0.287 (1.00)	1 (1.00)	0.902 (1.00)
DLG1	13 (1%)	963	0.34 (1.00)	0.322 (1.00)	0.594 (1.00)	0.102 (1.00)	0.892 (1.00)	0.0959 (1.00)	0.0726 (1.00)	0.136 (1.00)	0.244 (1.00)	0.0194 (1.00)	0.744 (1.00)	0.431 (1.00)
MYB	12 (1%)	964	0.74 (1.00)	0.0284 (1.00)	0.266 (1.00)	0.619 (1.00)	1 (1.00)	0.685 (1.00)	0.901 (1.00)	0.11 (1.00)	0.579 (1.00)	0.784 (1.00)	0.0538 (1.00)	0.781 (1.00)
RPGR	19 (2%)	957	0.968 (1.00)	0.703 (1.00)	0.952 (1.00)	0.535 (1.00)	0.743 (1.00)	0.238 (1.00)	0.597 (1.00)	0.57 (1.00)	0.572 (1.00)	0.308 (1.00)	0.768 (1.00)	0.896 (1.00)
TBL1XR1	10 (1%)	966	0.158 (1.00)	0.0823 (1.00)	0.0501 (1.00)	0.926 (1.00)	0.448 (1.00)	0.134 (1.00)	0.0575 (1.00)	0.0342 (1.00)	0.237 (1.00)	0.393 (1.00)	0.64 (1.00)	0.204 (1.00)
KDM6A	16 (2%)	960	0.74 (1.00)	0.344 (1.00)	0.234 (1.00)	0.626 (1.00)	0.639 (1.00)	0.874 (1.00)	0.557 (1.00)	0.477 (1.00)	0.855 (1.00)	0.234 (1.00)	0.144 (1.00)	0.135 (1.00)
MYH9	18 (2%)	958	0.397 (1.00)	0.423 (1.00)	0.207 (1.00)	0.571 (1.00)	0.821 (1.00)	0.0208 (1.00)	0.445 (1.00)	0.605 (1.00)	0.757 (1.00)	0.91 (1.00)	0.64 (1.00)	0.275 (1.00)
HLA-C	9 (1%)	967	0.139 (1.00)	0.85 (1.00)	0.775 (1.00)	0.275 (1.00)	0.398 (1.00)	0.77 (1.00)	0.336 (1.00)	0.38 (1.00)	0.234 (1.00)	0.00634 (1.00)	0.141 (1.00)	0.112 (1.00)
RAB42	4 (0%)	972	0.405 (1.00)	0.0698 (1.00)	0.372 (1.00)		0.4 (1.00)	0.496 (1.00)	0.196 (1.00)	0.126 (1.00)	0.218 (1.00)	0.0108 (1.00)
FGFR2	11 (1%)	965	0.915 (1.00)	0.878 (1.00)	0.354 (1.00)	0.37 (1.00)	1 (1.00)	0.917 (1.00)	0.277 (1.00)	0.0731 (1.00)	0.545 (1.00)	0.6 (1.00)	0.245 (1.00)	0.66 (1.00)
ERBB2	21 (2%)	955	0.778 (1.00)	0.572 (1.00)	0.0408 (1.00)	0.0577 (1.00)	0.551 (1.00)	0.882 (1.00)	0.0879 (1.00)	0.148 (1.00)	0.00189 (1.00)	0.332 (1.00)	0.232 (1.00)	0.123 (1.00)
CTCF	17 (2%)	959	0.0588 (1.00)	0.0434 (1.00)	0.00385 (1.00)	0.0326 (1.00)	0.0631 (1.00)	0.126 (1.00)	0.0228 (1.00)	0.1 (1.00)	0.0355 (1.00)	0.0118 (1.00)	0.226 (1.00)	0.215 (1.00)
ZMYM3	14 (1%)	962	0.497 (1.00)	0.441 (1.00)	0.915 (1.00)	0.447 (1.00)	0.128 (1.00)	0.284 (1.00)	0.509 (1.00)	0.344 (1.00)	0.584 (1.00)	1 (1.00)	1 (1.00)	0.903 (1.00)
FRMPD2	12 (1%)	964	0.821 (1.00)	1 (1.00)	0.6 (1.00)	0.0963 (1.00)	0.467 (1.00)	0.883 (1.00)	0.538 (1.00)	0.0378 (1.00)	0.936 (1.00)	0.746 (1.00)	0.395 (1.00)	0.257 (1.00)
TFE3	7 (1%)	969	0.677 (1.00)	0.902 (1.00)	0.673 (1.00)	0.643 (1.00)	1 (1.00)	0.548 (1.00)	0.626 (1.00)	0.404 (1.00)	0.5 (1.00)	0.0238 (1.00)	0.512 (1.00)	0.649 (1.00)
GPS2	11 (1%)	965	0.0137 (1.00)	0.0478 (1.00)	0.0603 (1.00)	0.342 (1.00)	0.265 (1.00)	0.746 (1.00)	0.159 (1.00)	0.0952 (1.00)	0.405 (1.00)	0.633 (1.00)	1 (1.00)	0.207 (1.00)
DOCK11	20 (2%)	956	0.667 (1.00)	0.448 (1.00)	0.276 (1.00)	0.426 (1.00)	0.363 (1.00)	0.0652 (1.00)	0.26 (1.00)	0.0176 (1.00)	0.504 (1.00)	0.016 (1.00)	0.0407 (1.00)	0.167 (1.00)
HRNR	31 (3%)	945	0.988 (1.00)	0.782 (1.00)	0.143 (1.00)	0.747 (1.00)	0.592 (1.00)	0.72 (1.00)	0.987 (1.00)	0.702 (1.00)	0.484 (1.00)	0.217 (1.00)	0.908 (1.00)	0.52 (1.00)
CASZ1	14 (1%)	962	0.937 (1.00)	0.855 (1.00)	0.971 (1.00)	0.529 (1.00)	0.111 (1.00)	0.938 (1.00)	0.98 (1.00)	0.699 (1.00)	0.941 (1.00)	0.863 (1.00)	0.92 (1.00)	0.958 (1.00)
CDC42EP1	5 (1%)	971	0.52 (1.00)	0.463 (1.00)	0.513 (1.00)	0.259 (1.00)	1 (1.00)	0.584 (1.00)	0.254 (1.00)	0.555 (1.00)	0.612 (1.00)	0.0843 (1.00)
C1QTNF5	7 (1%)	969	0.647 (1.00)	0.199 (1.00)	0.508 (1.00)		0.645 (1.00)	0.711 (1.00)	0.529 (1.00)	0.285 (1.00)	0.303 (1.00)	0.00993 (1.00)	0.261 (1.00)	0.124 (1.00)
TGS1	13 (1%)	963	0.634 (1.00)	0.666 (1.00)	0.443 (1.00)	0.248 (1.00)	0.114 (1.00)	0.709 (1.00)	0.756 (1.00)	0.0796 (1.00)	0.193 (1.00)	0.155 (1.00)	0.802 (1.00)	0.0866 (1.00)
USP36	8 (1%)	968	0.837 (1.00)	0.183 (1.00)	1 (1.00)	1 (1.00)	0.714 (1.00)	0.315 (1.00)	0.554 (1.00)	0.128 (1.00)	0.904 (1.00)	0.363 (1.00)	1 (1.00)	0.902 (1.00)
ASB10	8 (1%)	968	0.944 (1.00)	0.0647 (1.00)	1 (1.00)	0.5 (1.00)			0.763 (1.00)	0.828 (1.00)	0.106 (1.00)	0.222 (1.00)	0.862 (1.00)	0.643 (1.00)
EIF4A2	9 (1%)	967	0.234 (1.00)	1 (1.00)	0.884 (1.00)	0.229 (1.00)	1 (1.00)	0.188 (1.00)	0.0391 (1.00)	0.0699 (1.00)	0.763 (1.00)	0.212 (1.00)	0.592 (1.00)	0.184 (1.00)
DNAH12	18 (2%)	958	1 (1.00)	0.734 (1.00)	0.627 (1.00)	0.41 (1.00)	0.453 (1.00)	0.879 (1.00)	0.156 (1.00)	0.926 (1.00)	0.715 (1.00)	0.697 (1.00)	0.287 (1.00)	0.253 (1.00)
RHBG	4 (0%)	972			0.829 (1.00)				0.188 (1.00)	0.17 (1.00)	0.492 (1.00)	0.281 (1.00)	0.291 (1.00)	0.505 (1.00)
PAX2	4 (0%)	972	0.945 (1.00)	0.335 (1.00)	0.371 (1.00)		0.296 (1.00)	0.379 (1.00)	0.318 (1.00)	0.254 (1.00)	0.0978 (1.00)	0.943 (1.00)
FXYD5	5 (1%)	971	0.564 (1.00)	0.787 (1.00)	0.567 (1.00)		0.642 (1.00)	1 (1.00)	0.178 (1.00)	0.484 (1.00)	0.337 (1.00)	0.398 (1.00)
BCORL1	15 (2%)	961	0.149 (1.00)	0.833 (1.00)	0.542 (1.00)	0.172 (1.00)	0.29 (1.00)	0.00796 (1.00)	0.447 (1.00)	0.331 (1.00)	0.303 (1.00)	0.872 (1.00)	0.381 (1.00)	0.641 (1.00)
ZNF362	5 (1%)	971	0.881 (1.00)	0.871 (1.00)	0.103 (1.00)		0.153 (1.00)	0.744 (1.00)	0.409 (1.00)	0.0502 (1.00)	0.237 (1.00)	0.0464 (1.00)
PTHLH	7 (1%)	969	0.229 (1.00)	0.897 (1.00)	0.0132 (1.00)	0.181 (1.00)	0.69 (1.00)	0.678 (1.00)	0.0489 (1.00)	0.646 (1.00)	0.16 (1.00)	0.595 (1.00)
GPRIN2	11 (1%)	965	0.602 (1.00)	0.627 (1.00)	0.887 (1.00)	0.64 (1.00)	0.877 (1.00)	0.0416 (1.00)	0.789 (1.00)	0.233 (1.00)	0.783 (1.00)	0.0682 (1.00)	0.588 (1.00)	0.22 (1.00)
ANKRD12	18 (2%)	958	0.277 (1.00)	0.132 (1.00)	0.563 (1.00)	0.875 (1.00)	0.385 (1.00)	0.121 (1.00)	0.19 (1.00)	0.0329 (1.00)	0.655 (1.00)	0.934 (1.00)	1 (1.00)	0.538 (1.00)
ZNF687	11 (1%)	965	0.342 (1.00)	0.129 (1.00)	0.347 (1.00)	0.132 (1.00)	0.13 (1.00)	0.0863 (1.00)	0.0397 (1.00)	0.131 (1.00)	0.224 (1.00)	0.0335 (1.00)	0.525 (1.00)	0.523 (1.00)
KCNN3	9 (1%)	967	0.145 (1.00)	0.509 (1.00)	0.216 (1.00)	0.0979 (1.00)	0.325 (1.00)	0.829 (1.00)	0.0756 (1.00)	0.156 (1.00)	0.259 (1.00)	0.579 (1.00)	0.279 (1.00)	0.527 (1.00)
ICOSLG	5 (1%)	971	0.769 (1.00)	0.131 (1.00)	0.0072 (1.00)	0.517 (1.00)			0.822 (1.00)	0.767 (1.00)	0.287 (1.00)	0.825 (1.00)
PIK3R1	15 (2%)	961	0.147 (1.00)	0.185 (1.00)	0.646 (1.00)	0.239 (1.00)	0.632 (1.00)	0.0117 (1.00)	0.13 (1.00)	0.071 (1.00)	0.0204 (1.00)	0.347 (1.00)	0.138 (1.00)	0.725 (1.00)
MR1	7 (1%)	969	0.213 (1.00)	0.703 (1.00)	0.894 (1.00)	0.346 (1.00)	1 (1.00)	1 (1.00)	0.432 (1.00)	0.641 (1.00)	0.645 (1.00)	0.221 (1.00)	0.288 (1.00)	0.796 (1.00)
CABYR	6 (1%)	970			0.904 (1.00)	0.34 (1.00)			0.0131 (1.00)	0.00028 (0.444)	0.525 (1.00)	0.227 (1.00)	0.0368 (1.00)	0.0992 (1.00)
AKT2	5 (1%)	971	0.141 (1.00)	1 (1.00)	0.623 (1.00)	0.243 (1.00)			0.118 (1.00)	0.216 (1.00)	0.0661 (1.00)	0.691 (1.00)	0.291 (1.00)	0.842 (1.00)
ZBTB7C	5 (1%)	971			0.46 (1.00)	0.8 (1.00)			0.88 (1.00)	0.49 (1.00)	0.741 (1.00)	0.397 (1.00)	0.779 (1.00)	0.945 (1.00)
RIBC1	4 (0%)	972	0.591 (1.00)	0.379 (1.00)	0.461 (1.00)	0.0537 (1.00)			0.706 (1.00)	1 (1.00)	0.395 (1.00)	0.845 (1.00)
CEP57	6 (1%)	970	0.374 (1.00)	0.276 (1.00)	0.104 (1.00)	0.198 (1.00)			0.143 (1.00)	0.751 (1.00)	0.0675 (1.00)	0.517 (1.00)	0.0604 (1.00)	0.174 (1.00)
TARBP2	6 (1%)	970	0.662 (1.00)	0.959 (1.00)	0.107 (1.00)	0.649 (1.00)	0.167 (1.00)	0.273 (1.00)	0.508 (1.00)	0.438 (1.00)	0.134 (1.00)	0.32 (1.00)	0.196 (1.00)	0.0108 (1.00)
OXCT2	4 (0%)	972	0.447 (1.00)	0.543 (1.00)	0.829 (1.00)				0.933 (1.00)	0.373 (1.00)	1 (1.00)	0.297 (1.00)
ANKRD20A4	7 (1%)	969	0.192 (1.00)	0.0963 (1.00)	0.802 (1.00)	0.877 (1.00)	0.779 (1.00)	0.656 (1.00)	0.0838 (1.00)	0.0794 (1.00)	1 (1.00)	0.61 (1.00)	0.636 (1.00)	0.513 (1.00)
HIST1H3B	11 (1%)	965	0.552 (1.00)	0.958 (1.00)	0.661 (1.00)	0.663 (1.00)	0.632 (1.00)	0.659 (1.00)	0.254 (1.00)	0.429 (1.00)	0.807 (1.00)	0.549 (1.00)	0.88 (1.00)	0.954 (1.00)
MED23	14 (1%)	962	0.0975 (1.00)	0.284 (1.00)	0.183 (1.00)	0.0421 (1.00)	0.155 (1.00)	0.677 (1.00)	0.138 (1.00)	0.00209 (1.00)	0.0429 (1.00)	0.201 (1.00)	0.12 (1.00)	0.547 (1.00)
MUC6	14 (1%)	962	0.0203 (1.00)	0.608 (1.00)	0.5 (1.00)	0.168 (1.00)	0.366 (1.00)	0.984 (1.00)	0.0597 (1.00)	0.253 (1.00)	0.167 (1.00)	0.0456 (1.00)	0.191 (1.00)	0.249 (1.00)
PSIP1	8 (1%)	968	0.69 (1.00)	0.717 (1.00)	0.475 (1.00)	0.875 (1.00)	0.691 (1.00)	1 (1.00)	0.544 (1.00)	0.828 (1.00)	0.191 (1.00)	0.91 (1.00)	1 (1.00)	0.296 (1.00)
PCNXL2	21 (2%)	955	0.954 (1.00)	0.937 (1.00)	0.623 (1.00)	0.909 (1.00)	0.483 (1.00)	0.323 (1.00)	0.936 (1.00)	0.338 (1.00)	0.644 (1.00)	0.771 (1.00)	0.666 (1.00)	0.516 (1.00)
SLC35B2	7 (1%)	969	1 (1.00)	0.245 (1.00)	0.96 (1.00)		0.558 (1.00)	0.557 (1.00)	0.965 (1.00)	0.829 (1.00)	0.718 (1.00)	0.664 (1.00)	0.862 (1.00)	0.759 (1.00)
ANGPT4	10 (1%)	966	0.202 (1.00)	1 (1.00)	0.26 (1.00)	0.135 (1.00)	0.517 (1.00)	0.548 (1.00)	0.00774 (1.00)	0.0742 (1.00)	0.191 (1.00)	0.378 (1.00)	0.719 (1.00)	0.387 (1.00)
MKL1	5 (1%)	971	0.901 (1.00)	0.685 (1.00)	0.347 (1.00)		0.779 (1.00)	0.0991 (1.00)	0.652 (1.00)	0.0645 (1.00)	0.526 (1.00)	0.856 (1.00)
NBPF9	5 (1%)	971	0.618 (1.00)	0.622 (1.00)	0.809 (1.00)		0.864 (1.00)	1 (1.00)	0.674 (1.00)	0.198 (1.00)	0.526 (1.00)	0.341 (1.00)
PRICKLE3	11 (1%)	965	0.261 (1.00)	0.0269 (1.00)	1 (1.00)	0.0472 (1.00)	0.511 (1.00)	0.588 (1.00)	0.3 (1.00)	0.34 (1.00)	0.803 (1.00)	0.553 (1.00)	0.521 (1.00)	0.119 (1.00)
CCDC82	6 (1%)	970	0.46 (1.00)	0.0582 (1.00)	0.713 (1.00)		0.0383 (1.00)	0.273 (1.00)	0.335 (1.00)	0.00539 (1.00)	0.341 (1.00)	0.345 (1.00)	0.107 (1.00)	0.962 (1.00)
CXCR3	6 (1%)	970	0.604 (1.00)	0.791 (1.00)	0.181 (1.00)	0.801 (1.00)	1 (1.00)	1 (1.00)	0.765 (1.00)	0.618 (1.00)	0.774 (1.00)	0.582 (1.00)	0.833 (1.00)	0.213 (1.00)
TPP2	8 (1%)	968	0.0876 (1.00)	0.946 (1.00)	0.912 (1.00)	0.675 (1.00)			0.626 (1.00)	0.392 (1.00)	0.608 (1.00)	0.758 (1.00)	0.521 (1.00)	0.941 (1.00)
C15ORF39	9 (1%)	967	0.604 (1.00)	0.51 (1.00)	0.00585 (1.00)	0.0156 (1.00)	0.64 (1.00)	0.498 (1.00)	0.0279 (1.00)	0.00111 (1.00)	0.0149 (1.00)	0.0178 (1.00)	0.00203 (1.00)	0.00097 (1.00)
SDC1	3 (0%)	973			0.867 (1.00)				0.338 (1.00)	0.00824 (1.00)	0.628 (1.00)	0.91 (1.00)
CASP8	12 (1%)	964	0.467 (1.00)	0.393 (1.00)	0.123 (1.00)	0.342 (1.00)	0.529 (1.00)	0.685 (1.00)	0.177 (1.00)	0.494 (1.00)	0.54 (1.00)	0.457 (1.00)	0.743 (1.00)	0.461 (1.00)
TNRC6B	18 (2%)	958	0.522 (1.00)	0.155 (1.00)	0.286 (1.00)	0.945 (1.00)	0.508 (1.00)	0.417 (1.00)	0.54 (1.00)	0.441 (1.00)	0.792 (1.00)	0.775 (1.00)	1 (1.00)	0.822 (1.00)
IRS4	11 (1%)	965	0.144 (1.00)	0.781 (1.00)	0.279 (1.00)	0.642 (1.00)	0.382 (1.00)	0.957 (1.00)	0.118 (1.00)	0.364 (1.00)	0.781 (1.00)	0.648 (1.00)	1 (1.00)	0.902 (1.00)
RHOA	6 (1%)	970	0.905 (1.00)	0.588 (1.00)	0.857 (1.00)	0.394 (1.00)	0.111 (1.00)	0.282 (1.00)	0.872 (1.00)	0.124 (1.00)	0.777 (1.00)	0.581 (1.00)	0.385 (1.00)	0.403 (1.00)
TTPAL	4 (0%)	972	0.238 (1.00)	0.305 (1.00)	0.179 (1.00)		0.645 (1.00)	0.46 (1.00)	0.386 (1.00)	0.326 (1.00)	0.215 (1.00)	0.28 (1.00)
MLL4	13 (1%)	963	0.401 (1.00)	0.511 (1.00)	0.85 (1.00)	0.59 (1.00)	0.131 (1.00)	0.392 (1.00)	0.303 (1.00)	0.222 (1.00)	0.18 (1.00)	0.102 (1.00)	0.126 (1.00)	0.223 (1.00)
ATHL1	10 (1%)	966	0.871 (1.00)	0.321 (1.00)	0.0502 (1.00)	0.334 (1.00)	1 (1.00)	0.708 (1.00)	1 (1.00)	0.0287 (1.00)	0.0853 (1.00)	0.171 (1.00)	0.124 (1.00)	0.197 (1.00)
TMEM120B	5 (1%)	971	0.257 (1.00)	0.251 (1.00)	0.933 (1.00)	1 (1.00)			0.0488 (1.00)	0.954 (1.00)	0.74 (1.00)	0.381 (1.00)	0.204 (1.00)	0.59 (1.00)
LILRA6	6 (1%)	970	0.658 (1.00)	0.222 (1.00)	0.748 (1.00)		0.207 (1.00)	0.61 (1.00)	0.983 (1.00)	0.964 (1.00)	1 (1.00)	0.478 (1.00)	1 (1.00)	0.712 (1.00)
MLH1	6 (1%)	970	0.797 (1.00)	0.731 (1.00)	1 (1.00)	0.868 (1.00)			0.716 (1.00)	0.416 (1.00)	0.184 (1.00)	0.802 (1.00)	1 (1.00)	0.963 (1.00)
NUP93	4 (0%)	972			0.0184 (1.00)	0.381 (1.00)			0.0273 (1.00)	0.594 (1.00)	0.79 (1.00)	0.761 (1.00)
ALDH1L1	9 (1%)	967	0.646 (1.00)	0.92 (1.00)	0.338 (1.00)	0.529 (1.00)	0.692 (1.00)	0.51 (1.00)	0.466 (1.00)	0.404 (1.00)	1 (1.00)	0.366 (1.00)	0.391 (1.00)	0.603 (1.00)
LRIG2	7 (1%)	969	0.564 (1.00)	0.0322 (1.00)	0.216 (1.00)	0.613 (1.00)	0.207 (1.00)	0.276 (1.00)	0.317 (1.00)	0.284 (1.00)	0.721 (1.00)	0.974 (1.00)	0.512 (1.00)	0.38 (1.00)
CCDC78	5 (1%)	971			0.437 (1.00)	0.667 (1.00)			0.654 (1.00)	0.173 (1.00)	1 (1.00)	0.923 (1.00)	0.74 (1.00)	0.743 (1.00)
GAL3ST1	5 (1%)	971			0.76 (1.00)	0.647 (1.00)			0.47 (1.00)	0.916 (1.00)	0.34 (1.00)	0.961 (1.00)	0.385 (1.00)	0.709 (1.00)
FAM20C	4 (0%)	972			0.603 (1.00)				0.853 (1.00)	0.24 (1.00)	0.818 (1.00)	0.643 (1.00)	0.292 (1.00)	0.357 (1.00)
RCC1	3 (0%)	973	0.717 (1.00)	0.111 (1.00)	0.197 (1.00)				0.441 (1.00)	0.417 (1.00)	1 (1.00)	0.402 (1.00)
SPTAN1	11 (1%)	965	0.787 (1.00)	0.644 (1.00)	0.624 (1.00)	0.784 (1.00)	0.113 (1.00)	0.0494 (1.00)	0.115 (1.00)	0.122 (1.00)	0.0927 (1.00)	0.445 (1.00)	0.13 (1.00)	0.265 (1.00)
CHD4	19 (2%)	957	0.231 (1.00)	0.356 (1.00)	0.458 (1.00)	0.0819 (1.00)	0.195 (1.00)	0.621 (1.00)	0.0322 (1.00)	0.157 (1.00)	0.167 (1.00)	0.0908 (1.00)	0.47 (1.00)	0.106 (1.00)
ZFP36L2	7 (1%)	969	0.396 (1.00)	1 (1.00)	0.0444 (1.00)	0.543 (1.00)	1 (1.00)	1 (1.00)	0.895 (1.00)	0.385 (1.00)	0.804 (1.00)	0.973 (1.00)	1 (1.00)	1 (1.00)
STAG2	13 (1%)	963	0.285 (1.00)	0.211 (1.00)	0.216 (1.00)	0.199 (1.00)	0.878 (1.00)	0.202 (1.00)	0.193 (1.00)	0.137 (1.00)	0.22 (1.00)	0.929 (1.00)	0.51 (1.00)	0.845 (1.00)
HIST1H2BC	6 (1%)	970	0.374 (1.00)	0.0461 (1.00)	0.786 (1.00)	0.349 (1.00)	0.392 (1.00)	0.244 (1.00)	0.322 (1.00)	0.553 (1.00)	0.886 (1.00)	0.514 (1.00)	1 (1.00)	0.443 (1.00)
BPHL	5 (1%)	971	0.471 (1.00)	0.468 (1.00)	0.686 (1.00)		0.691 (1.00)	0.464 (1.00)	0.117 (1.00)	0.172 (1.00)	0.285 (1.00)	0.855 (1.00)	0.509 (1.00)	0.381 (1.00)
ATP2A1	11 (1%)	965	1 (1.00)	0.683 (1.00)	0.837 (1.00)	0.735 (1.00)			0.714 (1.00)	0.332 (1.00)	1 (1.00)	0.901 (1.00)	0.548 (1.00)	0.949 (1.00)
LRRC37A3	10 (1%)	966	0.0364 (1.00)	0.553 (1.00)	0.938 (1.00)	0.885 (1.00)	0.399 (1.00)	0.771 (1.00)	0.176 (1.00)	0.452 (1.00)	0.559 (1.00)	0.606 (1.00)	0.392 (1.00)	0.0676 (1.00)
EPDR1	5 (1%)	971	0.314 (1.00)	0.823 (1.00)	0.686 (1.00)		0.555 (1.00)	0.133 (1.00)	0.207 (1.00)	0.626 (1.00)	0.82 (1.00)	0.718 (1.00)	0.383 (1.00)	0.0971 (1.00)
EXOC4	8 (1%)	968	0.0106 (1.00)	0.658 (1.00)	0.347 (1.00)	0.0754 (1.00)			0.0116 (1.00)	0.0146 (1.00)	0.492 (1.00)	0.589 (1.00)	0.395 (1.00)	0.152 (1.00)
C11ORF49	5 (1%)	971			0.166 (1.00)	0.382 (1.00)			0.116 (1.00)	0.027 (1.00)	0.0507 (1.00)	0.0928 (1.00)	0.0065 (1.00)	0.218 (1.00)
ACTG1	8 (1%)	968	0.286 (1.00)	0.39 (1.00)	0.958 (1.00)	0.0416 (1.00)			0.588 (1.00)	0.5 (1.00)	0.819 (1.00)	0.0818 (1.00)	1 (1.00)	0.114 (1.00)
ANXA11	3 (0%)	973	0.671 (1.00)	0.499 (1.00)	0.463 (1.00)		0.0617 (1.00)	0.898 (1.00)	0.303 (1.00)	0.953 (1.00)	0.632 (1.00)	0.757 (1.00)
PFKP	7 (1%)	969	0.407 (1.00)	0.013 (1.00)	0.229 (1.00)	0.698 (1.00)	0.282 (1.00)	0.227 (1.00)	0.473 (1.00)	0.365 (1.00)	0.376 (1.00)	0.0979 (1.00)	0.289 (1.00)	0.506 (1.00)
GYLTL1B	4 (0%)	972	0.419 (1.00)	0.72 (1.00)	1 (1.00)		0.688 (1.00)	0.532 (1.00)	0.687 (1.00)	0.47 (1.00)	0.82 (1.00)	0.473 (1.00)
ANGPTL6	3 (0%)	973			0.865 (1.00)				0.545 (1.00)	0.907 (1.00)
SP3	7 (1%)	969	0.88 (1.00)	0.552 (1.00)	0.553 (1.00)	0.91 (1.00)			0.198 (1.00)	0.459 (1.00)	0.246 (1.00)	0.594 (1.00)	0.26 (1.00)	0.831 (1.00)
RUFY1	6 (1%)	970	0.386 (1.00)	0.731 (1.00)	0.343 (1.00)	0.162 (1.00)			0.847 (1.00)	0.00535 (1.00)	0.667 (1.00)	0.345 (1.00)	0.319 (1.00)	0.64 (1.00)
LIFR	9 (1%)	967	0.325 (1.00)	0.481 (1.00)	0.211 (1.00)	0.279 (1.00)	0.00796 (1.00)	0.072 (1.00)	0.476 (1.00)	0.08 (1.00)	0.439 (1.00)	1 (1.00)	1 (1.00)	0.815 (1.00)
OR6C76	7 (1%)	969	0.291 (1.00)	0.342 (1.00)	0.422 (1.00)	0.735 (1.00)	0.519 (1.00)	0.711 (1.00)	0.503 (1.00)	0.873 (1.00)	0.499 (1.00)	0.239 (1.00)	0.532 (1.00)	0.489 (1.00)
HCFC2	10 (1%)	966	0.0304 (1.00)	0.551 (1.00)	0.158 (1.00)	0.843 (1.00)			0.0278 (1.00)	0.7 (1.00)	0.923 (1.00)	1 (1.00)	1 (1.00)	1 (1.00)
ACOT2	5 (1%)	971	0.185 (1.00)	0.343 (1.00)	0.414 (1.00)	0.108 (1.00)			0.736 (1.00)	0.933 (1.00)	0.338 (1.00)	0.923 (1.00)
KIAA0430	15 (2%)	961	0.672 (1.00)	0.747 (1.00)	0.143 (1.00)	0.151 (1.00)	0.327 (1.00)	0.275 (1.00)	0.581 (1.00)	0.586 (1.00)	1 (1.00)	0.808 (1.00)	0.741 (1.00)	0.231 (1.00)
GTF2IRD2	8 (1%)	968	0.573 (1.00)	0.96 (1.00)	0.0191 (1.00)	0.519 (1.00)	0.384 (1.00)	0.957 (1.00)	0.65 (1.00)	0.707 (1.00)	0.503 (1.00)	0.559 (1.00)	0.687 (1.00)	0.021 (1.00)
NPAS4	9 (1%)	967	0.673 (1.00)	0.146 (1.00)	0.166 (1.00)	0.537 (1.00)	0.835 (1.00)	0.883 (1.00)	0.232 (1.00)	0.0575 (1.00)	0.147 (1.00)	0.134 (1.00)	0.389 (1.00)	0.598 (1.00)
JAK1	11 (1%)	965	0.498 (1.00)	0.476 (1.00)	0.286 (1.00)	0.462 (1.00)	1 (1.00)	0.731 (1.00)	0.271 (1.00)	0.318 (1.00)	0.0517 (1.00)	0.5 (1.00)	0.231 (1.00)	0.579 (1.00)
FGFR3	4 (0%)	972	0.0743 (1.00)	0.922 (1.00)	0.897 (1.00)				0.435 (1.00)	0.638 (1.00)	0.217 (1.00)	0.246 (1.00)
FBXW7	15 (2%)	961	0.812 (1.00)	0.535 (1.00)	0.168 (1.00)	0.00416 (1.00)	0.779 (1.00)	0.548 (1.00)	0.129 (1.00)	0.0699 (1.00)	0.304 (1.00)	0.09 (1.00)	0.342 (1.00)	0.121 (1.00)
OR2T8	6 (1%)	970			0.782 (1.00)	0.691 (1.00)			0.766 (1.00)	0.619 (1.00)	0.03 (1.00)	0.157 (1.00)	0.164 (1.00)	0.631 (1.00)
SHANK2	15 (2%)	961	0.105 (1.00)	0.196 (1.00)	0.833 (1.00)	0.129 (1.00)	0.0686 (1.00)	0.124 (1.00)	0.234 (1.00)	0.227 (1.00)	0.54 (1.00)	0.634 (1.00)	0.4 (1.00)	0.711 (1.00)
TRMT2A	7 (1%)	969	0.954 (1.00)	0.922 (1.00)	0.722 (1.00)	0.54 (1.00)	0.393 (1.00)	0.616 (1.00)	0.779 (1.00)	0.444 (1.00)	0.889 (1.00)	0.782 (1.00)	0.392 (1.00)	0.642 (1.00)
SHISA4	5 (1%)	971	0.0874 (1.00)	0.732 (1.00)	0.0503 (1.00)	0.115 (1.00)			0.129 (1.00)	0.358 (1.00)	0.461 (1.00)	0.857 (1.00)
CCNL2	7 (1%)	969	0.863 (1.00)	0.856 (1.00)	1 (1.00)	0.348 (1.00)			0.15 (1.00)	0.725 (1.00)	0.426 (1.00)	0.63 (1.00)	1 (1.00)	0.901 (1.00)
SEC14L5	7 (1%)	969	0.214 (1.00)	0.00238 (1.00)	0.125 (1.00)	0.648 (1.00)	0.392 (1.00)	0.103 (1.00)	0.405 (1.00)	0.0361 (1.00)	0.0582 (1.00)	0.0427 (1.00)	0.0235 (1.00)	0.59 (1.00)
SARM1	6 (1%)	970	0.559 (1.00)	0.116 (1.00)	0.681 (1.00)		0.644 (1.00)	0.0365 (1.00)	0.286 (1.00)	0.0322 (1.00)	0.0848 (1.00)	0.328 (1.00)	0.105 (1.00)	0.217 (1.00)
CLEC18B	6 (1%)	970	0.567 (1.00)	1 (1.00)	0.65 (1.00)	0.679 (1.00)	0.4 (1.00)	0.546 (1.00)	0.659 (1.00)	0.887 (1.00)	0.776 (1.00)	0.783 (1.00)	0.51 (1.00)	0.617 (1.00)
GIPC3	4 (0%)	972	0.832 (1.00)	0.497 (1.00)	0.461 (1.00)		1 (1.00)	0.17 (1.00)	0.636 (1.00)	0.709 (1.00)	0.579 (1.00)	0.846 (1.00)
HPS3	9 (1%)	967	0.12 (1.00)	0.511 (1.00)	0.199 (1.00)	0.207 (1.00)	0.112 (1.00)	0.0497 (1.00)	0.135 (1.00)	0.005 (1.00)	0.0467 (1.00)	0.0425 (1.00)	0.143 (1.00)	0.0598 (1.00)
OR2T35	4 (0%)	972	1 (1.00)	0.0943 (1.00)	0.828 (1.00)				0.904 (1.00)	0.872 (1.00)	0.58 (1.00)	0.54 (1.00)
PPIL2	6 (1%)	970			0.498 (1.00)	0.678 (1.00)			0.427 (1.00)	0.674 (1.00)	1 (1.00)	0.922 (1.00)	0.0596 (1.00)	0.711 (1.00)
ZNF397	7 (1%)	969	0.072 (1.00)	0.849 (1.00)	0.461 (1.00)	0.594 (1.00)			0.809 (1.00)	0.393 (1.00)	0.573 (1.00)	0.321 (1.00)	0.56 (1.00)	0.523 (1.00)
MLL	17 (2%)	959	0.653 (1.00)	0.647 (1.00)	0.287 (1.00)	0.233 (1.00)	0.777 (1.00)	0.248 (1.00)	0.531 (1.00)	0.241 (1.00)	0.66 (1.00)	0.243 (1.00)	0.301 (1.00)	0.301 (1.00)
ACVR1B	7 (1%)	969	0.89 (1.00)	1 (1.00)	0.904 (1.00)	0.87 (1.00)	0.559 (1.00)	0.097 (1.00)	0.729 (1.00)	0.369 (1.00)	0.271 (1.00)	0.589 (1.00)	0.291 (1.00)	0.589 (1.00)
GPR158	3 (0%)	973			1 (1.00)				0.444 (1.00)	0.216 (1.00)	0.114 (1.00)	0.0762 (1.00)
ARHGEF15	9 (1%)	967	0.462 (1.00)	0.2 (1.00)	0.73 (1.00)	0.541 (1.00)	0.893 (1.00)	0.744 (1.00)	0.658 (1.00)	0.284 (1.00)	0.245 (1.00)	0.776 (1.00)	0.288 (1.00)	0.798 (1.00)
TXNDC2	4 (0%)	972			0.504 (1.00)	0.616 (1.00)			0.522 (1.00)	0.247 (1.00)	0.218 (1.00)	0.508 (1.00)	0.105 (1.00)	0.556 (1.00)
COL9A2	3 (0%)	973			0.359 (1.00)	0.215 (1.00)			0.418 (1.00)	0.203 (1.00)
PARP4	12 (1%)	964	0.735 (1.00)	0.82 (1.00)	0.454 (1.00)	0.149 (1.00)			0.19 (1.00)	0.0595 (1.00)	0.0487 (1.00)	0.47 (1.00)	0.181 (1.00)	0.494 (1.00)

'PIK3CA MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S1. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PIK3CA MUTATED	7	13	23	8	61	23	8	21
PIK3CA WILD-TYPE	14	25	91	89	47	50	11	18

Figure S1. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'PIK3CA MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S2. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PIK3CA MUTATED	19	70	39	5	31
PIK3CA WILD-TYPE	77	82	77	84	25

Figure S2. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S3. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
PIK3CA MUTATED	147	52	53	51	11
PIK3CA WILD-TYPE	220	174	38	190	26

Figure S3. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PIK3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S4. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
PIK3CA MUTATED	7	81	53	31	36
PIK3CA WILD-TYPE	109	100	104	52	75

Figure S4. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PIK3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.21

Table S5. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
PIK3CA MUTATED	27	49	46
PIK3CA WILD-TYPE	119	80	72

Figure S5. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'PIK3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S6. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
PIK3CA MUTATED	30	51	12	23	6
PIK3CA WILD-TYPE	29	58	78	81	25

Figure S6. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S7. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
PIK3CA MUTATED	8	62	120	59	39	19	9
PIK3CA WILD-TYPE	171	73	95	97	186	29	6

Figure S7. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S8. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
PIK3CA MUTATED	7	102	92	69	31	15
PIK3CA WILD-TYPE	161	120	96	103	140	37

Figure S8. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S9. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
PIK3CA MUTATED	119	153	42
PIK3CA WILD-TYPE	151	260	232

Figure S9. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S10. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
PIK3CA MUTATED	70	57	153	7	27
PIK3CA WILD-TYPE	82	117	237	118	89

Figure S10. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S11. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
PIK3CA MUTATED	94	88	29
PIK3CA WILD-TYPE	154	129	158

Figure S11. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S12. Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
PIK3CA MUTATED	5	28	76	31	55	16
PIK3CA WILD-TYPE	110	35	113	86	53	44

Figure S12. Get High-res Image Gene #1: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S13. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TP53 MUTATED	7	6	18	73	6	41	7	6
TP53 WILD-TYPE	14	32	96	24	102	32	12	33

Figure S13. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'TP53 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S14. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TP53 MUTATED	12	17	65	68	2
TP53 WILD-TYPE	84	135	51	21	54

Figure S14. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S15. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TP53 MUTATED	47	52	10	174	9
TP53 WILD-TYPE	320	174	81	67	28

Figure S15. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S16. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
TP53 MUTATED	85	13	48	11	33
TP53 WILD-TYPE	31	168	109	72	78

Figure S16. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S17. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TP53 MUTATED	94	10	33
TP53 WILD-TYPE	52	119	85

Figure S17. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S18. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TP53 MUTATED	4	18	67	30	18
TP53 WILD-TYPE	55	91	23	74	13

Figure S18. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S19. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TP53 MUTATED	131	12	17	90	31	7	6
TP53 WILD-TYPE	48	123	198	66	194	41	9

Figure S19. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S20. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TP53 MUTATED	125	24	13	73	19	40
TP53 WILD-TYPE	43	198	175	99	152	12

Figure S20. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S21. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TP53 MUTATED	30	81	177
TP53 WILD-TYPE	240	332	97

Figure S21. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S22. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TP53 MUTATED	12	14	92	94	76
TP53 WILD-TYPE	140	160	298	31	40

Figure S22. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S23. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
TP53 MUTATED	42	24	130
TP53 WILD-TYPE	206	193	57

Figure S23. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S24. Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
TP53 MUTATED	83	5	42	14	8	44
TP53 WILD-TYPE	32	58	147	103	100	16

Figure S24. Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'CDH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.00035 (Fisher's exact test), Q value = 0.55

Table S25. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CDH1 MUTATED	0	6	2	1	10	6	1	7
CDH1 WILD-TYPE	21	32	112	96	98	67	18	32

Figure S25. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'CDH1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00607 (Fisher's exact test), Q value = 1

Table S26. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CDH1 MUTATED	4	19	7	1	2
CDH1 WILD-TYPE	92	133	109	88	54

Figure S26. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'CDH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S27. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CDH1 MUTATED	62	12	24	2	4
CDH1 WILD-TYPE	305	214	67	239	33

Figure S27. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CDH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S28. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CDH1 MUTATED	0	25	19	18	20
CDH1 WILD-TYPE	116	156	138	65	91

Figure S28. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CDH1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00852 (Fisher's exact test), Q value = 1

Table S29. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CDH1 MUTATED	5	4	14
CDH1 WILD-TYPE	141	125	104

Figure S29. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'CDH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0194 (Fisher's exact test), Q value = 1

Table S30. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CDH1 MUTATED	1	12	1	7	2
CDH1 WILD-TYPE	58	97	89	97	29

Figure S30. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'CDH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S31. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CDH1 MUTATED	1	32	34	11	12	15	1
CDH1 WILD-TYPE	178	103	181	145	213	33	14

Figure S31. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'CDH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S32. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CDH1 MUTATED	1	59	20	15	8	3
CDH1 WILD-TYPE	167	163	168	157	163	49

Figure S32. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CDH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S33. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CDH1 MUTATED	76	24	4
CDH1 WILD-TYPE	194	389	270

Figure S33. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CDH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S34. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CDH1 MUTATED	54	17	31	0	2
CDH1 WILD-TYPE	98	157	359	125	114

Figure S34. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S35. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
CDH1 MUTATED	13	64	3
CDH1 WILD-TYPE	235	153	184

Figure S35. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'CDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S36. Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
CDH1 MUTATED	0	9	12	5	52	2
CDH1 WILD-TYPE	115	54	177	112	56	58

Figure S36. Get High-res Image Gene #3: 'CDH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'GATA3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S37. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GATA3 MUTATED	1	6	27	2	18	4	2	0
GATA3 WILD-TYPE	20	32	87	95	90	69	17	39

Figure S37. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'GATA3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S38. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GATA3 MUTATED	28	22	5	1	4
GATA3 WILD-TYPE	68	130	111	88	52

Figure S38. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'GATA3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00114 (Fisher's exact test), Q value = 1

Table S39. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
GATA3 MUTATED	43	30	12	10	1
GATA3 WILD-TYPE	324	196	79	231	36

Figure S39. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'GATA3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.048

Table S40. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
GATA3 MUTATED	0	22	19	11	5
GATA3 WILD-TYPE	116	159	138	72	106

Figure S40. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'GATA3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0158 (Fisher's exact test), Q value = 1

Table S41. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
GATA3 MUTATED	12	24	10
GATA3 WILD-TYPE	134	105	108

Figure S41. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'GATA3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00012 (Fisher's exact test), Q value = 0.19

Table S42. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
GATA3 MUTATED	12	8	2	21	3
GATA3 WILD-TYPE	47	101	88	83	28

Figure S42. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'GATA3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S43. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
GATA3 MUTATED	1	14	33	6	41	1	0
GATA3 WILD-TYPE	178	121	182	150	184	47	15

Figure S43. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'GATA3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S44. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
GATA3 MUTATED	0	12	36	15	33	0
GATA3 WILD-TYPE	168	210	152	157	138	52

Figure S44. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'GATA3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S45. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
GATA3 MUTATED	21	65	9
GATA3 WILD-TYPE	249	348	265

Figure S45. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'GATA3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S46. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
GATA3 MUTATED	11	24	56	0	4
GATA3 WILD-TYPE	141	150	334	125	112

Figure S46. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'GATA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S47. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
GATA3 MUTATED	47	16	4
GATA3 WILD-TYPE	201	201	183

Figure S47. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'GATA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S48. Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
GATA3 MUTATED	0	7	37	17	6	0
GATA3 WILD-TYPE	115	56	152	100	102	60

Figure S48. Get High-res Image Gene #4: 'GATA3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.048

Table S49. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MAP3K1 MUTATED	5	1	12	1	16	1	0	3
MAP3K1 WILD-TYPE	16	37	102	96	92	72	19	36

Figure S49. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00015 (Fisher's exact test), Q value = 0.24

Table S50. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MAP3K1 MUTATED	9	13	4	1	12
MAP3K1 WILD-TYPE	87	139	112	88	44

Figure S50. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00101 (Fisher's exact test), Q value = 1

Table S51. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
MAP3K1 MUTATED	41	14	7	6	2
MAP3K1 WILD-TYPE	326	212	84	235	35

Figure S51. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MAP3K1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0507 (Fisher's exact test), Q value = 1

Table S52. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
MAP3K1 MUTATED	3	18	5	5	7
MAP3K1 WILD-TYPE	113	163	152	78	104

'MAP3K1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00056 (Fisher's exact test), Q value = 0.88

Table S53. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
MAP3K1 MUTATED	4	20	12
MAP3K1 WILD-TYPE	142	109	106

Figure S52. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'MAP3K1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.016

Table S54. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
MAP3K1 MUTATED	16	14	1	5	0
MAP3K1 WILD-TYPE	43	95	89	99	31

Figure S53. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00021 (Fisher's exact test), Q value = 0.33

Table S55. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
MAP3K1 MUTATED	3	14	24	4	21	4	0
MAP3K1 WILD-TYPE	176	121	191	152	204	44	15

Figure S54. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6e-05 (Fisher's exact test), Q value = 0.095

Table S56. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
MAP3K1 MUTATED	3	19	23	8	17	0
MAP3K1 WILD-TYPE	165	203	165	164	154	52

Figure S55. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.21

Table S57. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
MAP3K1 MUTATED	27	37	6
MAP3K1 WILD-TYPE	243	376	268

Figure S56. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00021 (Fisher's exact test), Q value = 0.33

Table S58. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
MAP3K1 MUTATED	19	21	24	2	4
MAP3K1 WILD-TYPE	133	153	366	123	112

Figure S57. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00043 (Fisher's exact test), Q value = 0.68

Table S59. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
MAP3K1 MUTATED	26	18	3
MAP3K1 WILD-TYPE	222	199	184

Figure S58. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0208 (Fisher's exact test), Q value = 1

Table S60. Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
MAP3K1 MUTATED	3	8	12	12	11	1
MAP3K1 WILD-TYPE	112	55	177	105	97	59

Figure S59. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RUNX1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0159 (Fisher's exact test), Q value = 1

Table S61. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RUNX1 MUTATED	3	1	3	0	5	2	0	4
RUNX1 WILD-TYPE	18	37	111	97	103	71	19	35

Figure S60. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'RUNX1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0869 (Fisher's exact test), Q value = 1

Table S62. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RUNX1 MUTATED	3	10	3	0	2
RUNX1 WILD-TYPE	93	142	113	89	54

'RUNX1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00508 (Fisher's exact test), Q value = 1

Table S63. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
RUNX1 MUTATED	17	3	6	2	0
RUNX1 WILD-TYPE	350	223	85	239	37

Figure S61. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RUNX1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.168 (Fisher's exact test), Q value = 1

Table S64. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
RUNX1 MUTATED	2	3	4	6	4
RUNX1 WILD-TYPE	114	178	153	77	107

'RUNX1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S65. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
RUNX1 MUTATED	4	3	3
RUNX1 WILD-TYPE	142	126	115

'RUNX1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.299 (Fisher's exact test), Q value = 1

Table S66. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
RUNX1 MUTATED	1	4	0	4	1
RUNX1 WILD-TYPE	58	105	90	100	30

'RUNX1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0478 (Fisher's exact test), Q value = 1

Table S67. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
RUNX1 MUTATED	1	7	10	6	3	2	0
RUNX1 WILD-TYPE	178	128	205	150	222	46	15

Figure S62. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RUNX1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0299 (Fisher's exact test), Q value = 1

Table S68. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
RUNX1 MUTATED	1	9	8	9	2	0
RUNX1 WILD-TYPE	167	213	180	163	169	52

Figure S63. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0134 (Fisher's exact test), Q value = 1

Table S69. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
RUNX1 MUTATED	12	15	2
RUNX1 WILD-TYPE	258	398	272

Figure S64. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.264 (Fisher's exact test), Q value = 1

Table S70. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
RUNX1 MUTATED	8	5	13	1	2
RUNX1 WILD-TYPE	144	169	377	124	114

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.223 (Fisher's exact test), Q value = 1

Table S71. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
RUNX1 MUTATED	7	10	3
RUNX1 WILD-TYPE	241	207	184

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.316 (Fisher's exact test), Q value = 1

Table S72. Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
RUNX1 MUTATED	1	3	6	2	6	2
RUNX1 WILD-TYPE	114	60	183	115	102	58

'PTEN MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 1

Table S73. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PTEN MUTATED	2	2	3	1	4	1	0	0
PTEN WILD-TYPE	19	36	111	96	104	72	19	39

'PTEN MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.904 (Fisher's exact test), Q value = 1

Table S74. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PTEN MUTATED	3	5	3	1	1
PTEN WILD-TYPE	93	147	113	88	55

'PTEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.548 (Fisher's exact test), Q value = 1

Table S75. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
PTEN MUTATED	14	6	6	8	1
PTEN WILD-TYPE	353	220	85	233	36

'PTEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.654 (Fisher's exact test), Q value = 1

Table S76. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
PTEN MUTATED	6	5	9	3	6
PTEN WILD-TYPE	110	176	148	80	105

'PTEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.921 (Fisher's exact test), Q value = 1

Table S77. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
PTEN MUTATED	3	4	3
PTEN WILD-TYPE	143	125	115

'PTEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.975 (Fisher's exact test), Q value = 1

Table S78. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
PTEN MUTATED	2	3	2	3	0
PTEN WILD-TYPE	57	106	88	101	31

'PTEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.421 (Fisher's exact test), Q value = 1

Table S79. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
PTEN MUTATED	4	8	6	8	7	1	1
PTEN WILD-TYPE	175	127	209	148	218	47	14

'PTEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.372 (Fisher's exact test), Q value = 1

Table S80. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
PTEN MUTATED	5	7	7	10	3	3
PTEN WILD-TYPE	163	215	181	162	168	49

'PTEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.763 (Fisher's exact test), Q value = 1

Table S81. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
PTEN MUTATED	11	16	8
PTEN WILD-TYPE	259	397	266

'PTEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.495 (Fisher's exact test), Q value = 1

Table S82. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
PTEN MUTATED	8	3	15	4	5
PTEN WILD-TYPE	144	171	375	121	111

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.2 (Fisher's exact test), Q value = 1

Table S83. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
PTEN MUTATED	7	13	6
PTEN WILD-TYPE	241	204	181

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.949 (Fisher's exact test), Q value = 1

Table S84. Gene #7: 'PTEN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
PTEN MUTATED	5	3	6	4	5	3
PTEN WILD-TYPE	110	60	183	113	103	57

'ARID1A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.303 (Fisher's exact test), Q value = 1

Table S85. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ARID1A MUTATED	3	1	4	2	3	1	0	1
ARID1A WILD-TYPE	18	37	110	95	105	72	19	38

'ARID1A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.94 (Fisher's exact test), Q value = 1

Table S86. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ARID1A MUTATED	4	5	3	2	1
ARID1A WILD-TYPE	92	147	113	87	55

'ARID1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0839 (Fisher's exact test), Q value = 1

Table S87. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
ARID1A MUTATED	9	11	1	3	2
ARID1A WILD-TYPE	358	215	90	238	35

'ARID1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 1

Table S88. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
ARID1A MUTATED	1	6	6	4	1
ARID1A WILD-TYPE	115	175	151	79	110

'ARID1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S89. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
ARID1A MUTATED	4	3	3
ARID1A WILD-TYPE	142	126	115

'ARID1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.243 (Fisher's exact test), Q value = 1

Table S90. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
ARID1A MUTATED	2	1	1	4	2
ARID1A WILD-TYPE	57	108	89	100	29

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.114 (Fisher's exact test), Q value = 1

Table S91. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
ARID1A MUTATED	2	3	3	5	13	1	0
ARID1A WILD-TYPE	177	132	212	151	212	47	15

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.773 (Fisher's exact test), Q value = 1

Table S92. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
ARID1A MUTATED	2	7	5	6	6	1
ARID1A WILD-TYPE	166	215	183	166	165	51

'ARID1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.227 (Fisher's exact test), Q value = 1

Table S93. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
ARID1A MUTATED	8	15	4
ARID1A WILD-TYPE	262	398	270

'ARID1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0708 (Fisher's exact test), Q value = 1

Table S94. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
ARID1A MUTATED	1	10	10	2	4
ARID1A WILD-TYPE	151	164	380	123	112

'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.151 (Fisher's exact test), Q value = 1

Table S95. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
ARID1A MUTATED	6	7	1
ARID1A WILD-TYPE	242	210	186

'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.381 (Fisher's exact test), Q value = 1

Table S96. Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
ARID1A MUTATED	0	1	4	4	3	2
ARID1A WILD-TYPE	115	62	185	113	105	58

'CBFB MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0934 (Fisher's exact test), Q value = 1

Table S97. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CBFB MUTATED	1	1	0	1	6	2	0	0
CBFB WILD-TYPE	20	37	114	96	102	71	19	39

'CBFB MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.216 (Fisher's exact test), Q value = 1

Table S98. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CBFB MUTATED	0	6	2	1	2
CBFB WILD-TYPE	96	146	114	88	54

'CBFB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.02 (Fisher's exact test), Q value = 1

Table S99. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CBFB MUTATED	13	4	5	1	0
CBFB WILD-TYPE	354	222	86	240	37

Figure S65. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CBFB MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.133 (Fisher's exact test), Q value = 1

Table S100. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CBFB MUTATED	0	7	4	3	1
CBFB WILD-TYPE	116	174	153	80	110

'CBFB MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 1

Table S101. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CBFB MUTATED	1	6	3
CBFB WILD-TYPE	145	123	115

'CBFB MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0811 (Fisher's exact test), Q value = 1

Table S102. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CBFB MUTATED	5	2	2	1	0
CBFB WILD-TYPE	54	107	88	103	31

'CBFB MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.048

Table S103. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CBFB MUTATED	1	3	17	2	0	0	0
CBFB WILD-TYPE	178	132	198	154	225	48	15

Figure S66. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'CBFB MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00036 (Fisher's exact test), Q value = 0.57

Table S104. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CBFB MUTATED	1	3	14	3	1	1
CBFB WILD-TYPE	167	219	174	169	170	51

Figure S67. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CBFB MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0133 (Fisher's exact test), Q value = 1

Table S105. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CBFB MUTATED	10	11	1
CBFB WILD-TYPE	260	402	273

Figure S68. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CBFB MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00341 (Fisher's exact test), Q value = 1

Table S106. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CBFB MUTATED	7	1	14	0	0
CBFB WILD-TYPE	145	173	376	125	116

Figure S69. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CBFB MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0052 (Fisher's exact test), Q value = 1

Table S107. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
CBFB MUTATED	11	4	0
CBFB WILD-TYPE	237	213	187

Figure S70. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'CBFB MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00133 (Fisher's exact test), Q value = 1

Table S108. Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
CBFB MUTATED	0	6	7	1	1	0
CBFB WILD-TYPE	115	57	182	116	107	60

Figure S71. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'MLL3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.669 (Fisher's exact test), Q value = 1

Table S109. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MLL3 MUTATED	1	1	8	5	12	4	1	4
MLL3 WILD-TYPE	20	37	106	92	96	69	18	35

'MLL3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.154 (Fisher's exact test), Q value = 1

Table S110. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MLL3 MUTATED	6	10	6	5	9
MLL3 WILD-TYPE	90	142	110	84	47

'MLL3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.387 (Fisher's exact test), Q value = 1

Table S111. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
MLL3 MUTATED	29	16	9	11	2
MLL3 WILD-TYPE	338	210	82	230	35

'MLL3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.356 (Fisher's exact test), Q value = 1

Table S112. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
MLL3 MUTATED	5	18	14	7	6
MLL3 WILD-TYPE	111	163	143	76	105

'MLL3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.638 (Fisher's exact test), Q value = 1

Table S113. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
MLL3 MUTATED	10	6	9
MLL3 WILD-TYPE	136	123	109

'MLL3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.527 (Fisher's exact test), Q value = 1

Table S114. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
MLL3 MUTATED	6	6	7	4	2
MLL3 WILD-TYPE	53	103	83	100	29

'MLL3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0436 (Fisher's exact test), Q value = 1

Table S115. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
MLL3 MUTATED	8	9	24	14	14	0	0
MLL3 WILD-TYPE	171	126	191	142	211	48	15

Figure S72. Get High-res Image Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MLL3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.121 (Fisher's exact test), Q value = 1

Table S116. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
MLL3 MUTATED	8	11	20	17	10	3
MLL3 WILD-TYPE	160	211	168	155	161	49

'MLL3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0624 (Fisher's exact test), Q value = 1

Table S117. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
MLL3 MUTATED	20	35	11
MLL3 WILD-TYPE	250	378	263

'MLL3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.364 (Fisher's exact test), Q value = 1

Table S118. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
MLL3 MUTATED	11	14	31	4	6
MLL3 WILD-TYPE	141	160	359	121	110

'MLL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.177 (Fisher's exact test), Q value = 1

Table S119. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
MLL3 MUTATED	20	14	7
MLL3 WILD-TYPE	228	203	180

'MLL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.219 (Fisher's exact test), Q value = 1

Table S120. Gene #10: 'MLL3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
MLL3 MUTATED	3	2	17	6	8	5
MLL3 WILD-TYPE	112	61	172	111	100	55

'FOXA1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.366 (Fisher's exact test), Q value = 1

Table S121. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FOXA1 MUTATED	0	0	3	0	1	2	0	2
FOXA1 WILD-TYPE	21	38	111	97	107	71	19	37

'FOXA1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.532 (Fisher's exact test), Q value = 1

Table S122. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FOXA1 MUTATED	3	2	2	0	1
FOXA1 WILD-TYPE	93	150	114	89	55

'FOXA1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0538 (Fisher's exact test), Q value = 1

Table S123. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
FOXA1 MUTATED	14	5	3	1	0
FOXA1 WILD-TYPE	353	221	88	240	37

'FOXA1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0446 (Fisher's exact test), Q value = 1

Table S124. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
FOXA1 MUTATED	0	5	9	1	2
FOXA1 WILD-TYPE	116	176	148	82	109

Figure S73. Get High-res Image Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'FOXA1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.894 (Fisher's exact test), Q value = 1

Table S125. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
FOXA1 MUTATED	2	3	2
FOXA1 WILD-TYPE	144	126	116

'FOXA1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.95 (Fisher's exact test), Q value = 1

Table S126. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
FOXA1 MUTATED	1	2	1	3	0
FOXA1 WILD-TYPE	58	107	89	101	31

'FOXA1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0731 (Fisher's exact test), Q value = 1

Table S127. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
FOXA1 MUTATED	1	2	8	4	4	4	0
FOXA1 WILD-TYPE	178	133	207	152	221	44	15

'FOXA1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.177 (Fisher's exact test), Q value = 1

Table S128. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
FOXA1 MUTATED	1	10	4	5	3	0
FOXA1 WILD-TYPE	167	212	184	167	168	52

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.134 (Fisher's exact test), Q value = 1

Table S129. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
FOXA1 MUTATED	10	10	3
FOXA1 WILD-TYPE	260	403	271

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.695 (Fisher's exact test), Q value = 1

Table S130. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
FOXA1 MUTATED	5	5	10	1	2
FOXA1 WILD-TYPE	147	169	380	124	114

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0757 (Fisher's exact test), Q value = 1

Table S131. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
FOXA1 MUTATED	9	7	1
FOXA1 WILD-TYPE	239	210	186

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.549 (Fisher's exact test), Q value = 1

Table S132. Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
FOXA1 MUTATED	1	3	7	2	3	1
FOXA1 WILD-TYPE	114	60	182	115	105	59

'MAP2K4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0576 (Fisher's exact test), Q value = 1

Table S133. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MAP2K4 MUTATED	0	3	3	0	8	2	1	2
MAP2K4 WILD-TYPE	21	35	111	97	100	71	18	37

'MAP2K4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00423 (Fisher's exact test), Q value = 1

Table S134. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MAP2K4 MUTATED	2	9	2	0	6
MAP2K4 WILD-TYPE	94	143	114	89	50

Figure S74. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0419 (Fisher's exact test), Q value = 1

Table S135. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
MAP2K4 MUTATED	13	7	7	3	2
MAP2K4 WILD-TYPE	354	219	84	238	35

Figure S75. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MAP2K4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.047 (Fisher's exact test), Q value = 1

Table S136. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
MAP2K4 MUTATED	1	13	7	2	2
MAP2K4 WILD-TYPE	115	168	150	81	109

Figure S76. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'MAP2K4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00234 (Fisher's exact test), Q value = 1

Table S137. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
MAP2K4 MUTATED	0	5	8
MAP2K4 WILD-TYPE	146	124	110

Figure S77. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'MAP2K4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.292 (Fisher's exact test), Q value = 1

Table S138. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
MAP2K4 MUTATED	2	7	1	3	0
MAP2K4 WILD-TYPE	57	102	89	101	31

'MAP2K4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0058 (Fisher's exact test), Q value = 1

Table S139. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
MAP2K4 MUTATED	0	3	12	3	12	1	1
MAP2K4 WILD-TYPE	179	132	203	153	213	47	14

Figure S78. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00791 (Fisher's exact test), Q value = 1

Table S140. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
MAP2K4 MUTATED	0	10	8	4	10	0
MAP2K4 WILD-TYPE	168	212	180	168	161	52

Figure S79. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00046 (Fisher's exact test), Q value = 0.73

Table S141. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
MAP2K4 MUTATED	6	24	2
MAP2K4 WILD-TYPE	264	389	272

Figure S80. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00054 (Fisher's exact test), Q value = 0.85

Table S142. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
MAP2K4 MUTATED	1	12	18	0	1
MAP2K4 WILD-TYPE	151	162	372	125	115

Figure S81. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.048

Table S143. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
MAP2K4 MUTATED	17	3	0
MAP2K4 WILD-TYPE	231	214	187

Figure S82. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0016 (Fisher's exact test), Q value = 1

Table S144. Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
MAP2K4 MUTATED	0	1	14	4	1	0
MAP2K4 WILD-TYPE	115	62	175	113	107	60

Figure S83. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RBMX MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.385 (Fisher's exact test), Q value = 1

Table S145. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RBMX MUTATED	0	0	0	3	2	0	0	1
RBMX WILD-TYPE	21	38	114	94	106	73	19	38

'RBMX MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.105 (Fisher's exact test), Q value = 1

Table S146. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RBMX MUTATED	0	3	0	3	0
RBMX WILD-TYPE	96	149	116	86	56

'RBMX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0973 (Fisher's exact test), Q value = 1

Table S147. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
RBMX MUTATED	6	0	1	6	1
RBMX WILD-TYPE	361	226	90	235	36

'RBMX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.141 (Fisher's exact test), Q value = 1

Table S148. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
RBMX MUTATED	3	0	4	2	2
RBMX WILD-TYPE	113	181	153	81	109

'RBMX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.556 (Fisher's exact test), Q value = 1

Table S149. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
RBMX MUTATED	2	2	0
RBMX WILD-TYPE	144	127	118

'RBMX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.585 (Fisher's exact test), Q value = 1

Table S150. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
RBMX MUTATED	1	1	2	0	0
RBMX WILD-TYPE	58	108	88	104	31

'RBMX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0728 (Fisher's exact test), Q value = 1

Table S151. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
RBMX MUTATED	5	2	3	2	0	1	1
RBMX WILD-TYPE	174	133	212	154	225	47	14

'RBMX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.246 (Fisher's exact test), Q value = 1

Table S152. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
RBMX MUTATED	5	4	2	2	0	1
RBMX WILD-TYPE	163	218	186	170	171	51

'RBMX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.615 (Fisher's exact test), Q value = 1

Table S153. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
RBMX MUTATED	3	5	6
RBMX WILD-TYPE	267	408	268

'RBMX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.541 (Fisher's exact test), Q value = 1

Table S154. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
RBMX MUTATED	2	1	5	3	3
RBMX WILD-TYPE	150	173	385	122	113

'RBMX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.248 (Fisher's exact test), Q value = 1

Table S155. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
RBMX MUTATED	2	2	5
RBMX WILD-TYPE	246	215	182

'RBMX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.628 (Fisher's exact test), Q value = 1

Table S156. Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
RBMX MUTATED	3	1	1	1	2	1
RBMX WILD-TYPE	112	62	188	116	106	59

'TBX3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.576 (Fisher's exact test), Q value = 1

Table S157. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TBX3 MUTATED	0	1	3	2	7	1	0	2
TBX3 WILD-TYPE	21	37	111	95	101	72	19	37

'TBX3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.627 (Fisher's exact test), Q value = 1

Table S158. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TBX3 MUTATED	3	6	3	1	3
TBX3 WILD-TYPE	93	146	113	88	53

'TBX3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.341 (Fisher's exact test), Q value = 1

Table S159. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TBX3 MUTATED	13	6	4	3	1
TBX3 WILD-TYPE	354	220	87	238	36

'TBX3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.375 (Fisher's exact test), Q value = 1

Table S160. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
TBX3 MUTATED	1	7	2	3	3
TBX3 WILD-TYPE	115	174	155	80	108

'TBX3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0828 (Fisher's exact test), Q value = 1

Table S161. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TBX3 MUTATED	1	3	6
TBX3 WILD-TYPE	145	126	112

'TBX3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.975 (Fisher's exact test), Q value = 1

Table S162. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TBX3 MUTATED	2	3	2	3	0
TBX3 WILD-TYPE	57	106	88	101	31

'TBX3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.143 (Fisher's exact test), Q value = 1

Table S163. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TBX3 MUTATED	2	8	9	2	5	1	0
TBX3 WILD-TYPE	177	127	206	154	220	47	15

'TBX3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.388 (Fisher's exact test), Q value = 1

Table S164. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TBX3 MUTATED	2	10	7	4	3	1
TBX3 WILD-TYPE	166	212	181	168	168	51

'TBX3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0983 (Fisher's exact test), Q value = 1

Table S165. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TBX3 MUTATED	10	14	3
TBX3 WILD-TYPE	260	399	271

'TBX3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0855 (Fisher's exact test), Q value = 1

Table S166. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TBX3 MUTATED	8	8	8	1	2
TBX3 WILD-TYPE	144	166	382	124	114

'TBX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.387 (Fisher's exact test), Q value = 1

Table S167. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
TBX3 MUTATED	6	7	2
TBX3 WILD-TYPE	242	210	185

'TBX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0244 (Fisher's exact test), Q value = 1

Table S168. Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
TBX3 MUTATED	1	4	2	1	6	1
TBX3 WILD-TYPE	114	59	187	116	102	59

Figure S84. Get High-res Image Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'THEM5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.262 (Fisher's exact test), Q value = 1

Table S169. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
THEM5 MUTATED	1	0	1	0	3	0	0	0
THEM5 WILD-TYPE	20	38	113	97	105	73	19	39

'THEM5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.871 (Fisher's exact test), Q value = 1

Table S170. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
THEM5 MUTATED	1	2	1	0	1
THEM5 WILD-TYPE	95	150	115	89	55

'THEM5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 1

Table S171. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
THEM5 MUTATED	2	3	3	3	0
THEM5 WILD-TYPE	365	223	88	238	37

'THEM5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.29 (Fisher's exact test), Q value = 1

Table S172. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
THEM5 MUTATED	0	1	3	1	3
THEM5 WILD-TYPE	116	180	154	82	108

'THEM5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 1

Table S173. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
THEM5 MUTATED	1	3	0
THEM5 WILD-TYPE	145	126	118

'THEM5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.122 (Fisher's exact test), Q value = 1

Table S174. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
THEM5 MUTATED	2	0	0	2	0
THEM5 WILD-TYPE	57	109	90	102	31

'THEM5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.855 (Fisher's exact test), Q value = 1

Table S175. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
THEM5 MUTATED	1	1	3	1	3	1	0
THEM5 WILD-TYPE	178	134	212	155	222	47	15

'THEM5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.994 (Fisher's exact test), Q value = 1

Table S176. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
THEM5 MUTATED	1	3	2	2	2	0
THEM5 WILD-TYPE	167	219	186	170	169	52

'THEM5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.721 (Fisher's exact test), Q value = 1

Table S177. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
THEM5 MUTATED	4	4	2
THEM5 WILD-TYPE	266	409	272

'THEM5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.825 (Fisher's exact test), Q value = 1

Table S178. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
THEM5 MUTATED	1	2	6	1	0
THEM5 WILD-TYPE	151	172	384	124	116

'THEM5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.838 (Fisher's exact test), Q value = 1

Table S179. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
THEM5 MUTATED	3	4	2
THEM5 WILD-TYPE	245	213	185

'THEM5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.484 (Fisher's exact test), Q value = 1

Table S180. Gene #15: 'THEM5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
THEM5 MUTATED	1	0	2	4	2	0
THEM5 WILD-TYPE	114	63	187	113	106	60

'RB1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.88 (Fisher's exact test), Q value = 1

Table S181. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RB1 MUTATED	0	0	2	4	2	2	0	0
RB1 WILD-TYPE	21	38	112	93	106	71	19	39

'RB1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 1

Table S182. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RB1 MUTATED	2	1	4	3	0
RB1 WILD-TYPE	94	151	112	86	56

'RB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0729 (Fisher's exact test), Q value = 1

Table S183. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
RB1 MUTATED	3	4	4	8	0
RB1 WILD-TYPE	364	222	87	233	37

'RB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.118 (Fisher's exact test), Q value = 1

Table S184. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
RB1 MUTATED	5	2	2	2	0
RB1 WILD-TYPE	111	179	155	81	111

'RB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 1

Table S185. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
RB1 MUTATED	5	3	1
RB1 WILD-TYPE	141	126	117

'RB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.773 (Fisher's exact test), Q value = 1

Table S186. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
RB1 MUTATED	1	2	4	2	0
RB1 WILD-TYPE	58	107	86	102	31

'RB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.186 (Fisher's exact test), Q value = 1

Table S187. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
RB1 MUTATED	7	0	4	5	3	0	0
RB1 WILD-TYPE	172	135	211	151	222	48	15

'RB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0279 (Fisher's exact test), Q value = 1

Table S188. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
RB1 MUTATED	6	0	2	6	4	1
RB1 WILD-TYPE	162	222	186	166	167	51

Figure S85. Get High-res Image Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0507 (Fisher's exact test), Q value = 1

Table S189. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
RB1 MUTATED	1	7	8
RB1 WILD-TYPE	269	406	266

'RB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0312 (Fisher's exact test), Q value = 1

Table S190. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
RB1 MUTATED	0	2	6	2	6
RB1 WILD-TYPE	152	172	384	123	110

Figure S86. Get High-res Image Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00831 (Fisher's exact test), Q value = 1

Table S191. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
RB1 MUTATED	5	0	7
RB1 WILD-TYPE	243	217	180

Figure S87. Get High-res Image Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.125 (Fisher's exact test), Q value = 1

Table S192. Gene #16: 'RB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
RB1 MUTATED	4	1	2	2	0	3
RB1 WILD-TYPE	111	62	187	115	108	57

'NF1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.574 (Fisher's exact test), Q value = 1

Table S193. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
NF1 MUTATED	1	0	2	3	4	2	0	3
NF1 WILD-TYPE	20	38	112	94	104	71	19	36

'NF1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.804 (Fisher's exact test), Q value = 1

Table S194. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
NF1 MUTATED	2	4	3	3	3
NF1 WILD-TYPE	94	148	113	86	53

'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.481 (Fisher's exact test), Q value = 1

Table S195. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
NF1 MUTATED	13	3	3	7	0
NF1 WILD-TYPE	354	223	88	234	37

'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.152 (Fisher's exact test), Q value = 1

Table S196. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
NF1 MUTATED	3	2	7	1	6
NF1 WILD-TYPE	113	179	150	82	105

'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.937 (Fisher's exact test), Q value = 1

Table S197. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
NF1 MUTATED	4	5	4
NF1 WILD-TYPE	142	124	114

'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.261 (Fisher's exact test), Q value = 1

Table S198. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
NF1 MUTATED	0	6	2	5	0
NF1 WILD-TYPE	59	103	88	99	31

'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0919 (Fisher's exact test), Q value = 1

Table S199. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
NF1 MUTATED	6	2	4	8	3	3	1
NF1 WILD-TYPE	173	133	211	148	222	45	14

'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0989 (Fisher's exact test), Q value = 1

Table S200. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
NF1 MUTATED	6	7	1	9	3	1
NF1 WILD-TYPE	162	215	187	163	168	51

'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.847 (Fisher's exact test), Q value = 1

Table S201. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
NF1 MUTATED	8	12	6
NF1 WILD-TYPE	262	401	268

'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.87 (Fisher's exact test), Q value = 1

Table S202. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
NF1 MUTATED	4	4	11	5	2
NF1 WILD-TYPE	148	170	379	120	114

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.479 (Fisher's exact test), Q value = 1

Table S203. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
NF1 MUTATED	9	4	4
NF1 WILD-TYPE	239	213	183

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.758 (Fisher's exact test), Q value = 1

Table S204. Gene #17: 'NF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
NF1 MUTATED	3	1	7	1	3	2
NF1 WILD-TYPE	112	62	182	116	105	58

'ACTL6B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.35 (Fisher's exact test), Q value = 1

Table S205. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ACTL6B MUTATED	1	0	1	2	0	2	0	0
ACTL6B WILD-TYPE	20	38	113	95	108	71	19	39

'ACTL6B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.287 (Fisher's exact test), Q value = 1

Table S206. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ACTL6B MUTATED	1	0	2	2	1
ACTL6B WILD-TYPE	95	152	114	87	55

'ACTL6B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0373 (Fisher's exact test), Q value = 1

Table S207. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
ACTL6B MUTATED	2	1	0	5	2
ACTL6B WILD-TYPE	365	225	91	236	35

Figure S88. Get High-res Image Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ACTL6B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.287 (Fisher's exact test), Q value = 1

Table S208. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
ACTL6B MUTATED	3	3	1	0	0
ACTL6B WILD-TYPE	113	178	156	83	111

'ACTL6B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.864 (Fisher's exact test), Q value = 1

Table S209. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
ACTL6B MUTATED	2	1	2
ACTL6B WILD-TYPE	144	128	116

'ACTL6B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.353 (Fisher's exact test), Q value = 1

Table S210. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
ACTL6B MUTATED	0	3	2	0	0
ACTL6B WILD-TYPE	59	106	88	104	31

'ACTL6B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.667 (Fisher's exact test), Q value = 1

Table S211. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
ACTL6B MUTATED	3	0	2	2	2	1	0
ACTL6B WILD-TYPE	176	135	213	154	223	47	15

'ACTL6B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.628 (Fisher's exact test), Q value = 1

Table S212. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
ACTL6B MUTATED	3	1	1	2	2	1
ACTL6B WILD-TYPE	165	221	187	170	169	51

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.665 (Fisher's exact test), Q value = 1

Table S213. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
ACTL6B MUTATED	2	6	2
ACTL6B WILD-TYPE	268	407	272

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.754 (Fisher's exact test), Q value = 1

Table S214. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
ACTL6B MUTATED	1	3	3	2	1
ACTL6B WILD-TYPE	151	171	387	123	115

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.861 (Fisher's exact test), Q value = 1

Table S215. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
ACTL6B MUTATED	2	1	2
ACTL6B WILD-TYPE	246	216	185

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S216. Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
ACTL6B MUTATED	1	0	2	1	1	0
ACTL6B WILD-TYPE	114	63	187	116	107	60

'SPEN MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.665 (Fisher's exact test), Q value = 1

Table S217. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SPEN MUTATED	0	1	4	2	8	3	1	1
SPEN WILD-TYPE	21	37	110	95	100	70	18	38

'SPEN MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.789 (Fisher's exact test), Q value = 1

Table S218. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SPEN MUTATED	4	8	5	2	1
SPEN WILD-TYPE	92	144	111	87	55

'SPEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.496 (Fisher's exact test), Q value = 1

Table S219. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
SPEN MUTATED	15	5	4	5	1
SPEN WILD-TYPE	352	221	87	236	36

'SPEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.274 (Fisher's exact test), Q value = 1

Table S220. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
SPEN MUTATED	1	6	9	3	5
SPEN WILD-TYPE	115	175	148	80	106

'SPEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.943 (Fisher's exact test), Q value = 1

Table S221. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
SPEN MUTATED	6	4	4
SPEN WILD-TYPE	140	125	114

'SPEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.34 (Fisher's exact test), Q value = 1

Table S222. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
SPEN MUTATED	1	5	2	3	3
SPEN WILD-TYPE	58	104	88	101	28

'SPEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.16 (Fisher's exact test), Q value = 1

Table S223. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
SPEN MUTATED	2	4	10	5	7	2	2
SPEN WILD-TYPE	177	131	205	151	218	46	13

'SPEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.168 (Fisher's exact test), Q value = 1

Table S224. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
SPEN MUTATED	2	7	7	11	4	1
SPEN WILD-TYPE	166	215	181	161	167	51

'SPEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.025 (Fisher's exact test), Q value = 1

Table S225. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
SPEN MUTATED	10	19	3
SPEN WILD-TYPE	260	394	271

Figure S89. Get High-res Image Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'SPEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0291 (Fisher's exact test), Q value = 1

Table S226. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
SPEN MUTATED	3	7	20	2	0
SPEN WILD-TYPE	149	167	370	123	116

Figure S90. Get High-res Image Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'SPEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.362 (Fisher's exact test), Q value = 1

Table S227. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
SPEN MUTATED	5	7	2
SPEN WILD-TYPE	243	210	185

'SPEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0653 (Fisher's exact test), Q value = 1

Table S228. Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
SPEN MUTATED	0	1	7	1	5	0
SPEN WILD-TYPE	115	62	182	116	103	60

'CDKN1B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.64 (Fisher's exact test), Q value = 1

Table S229. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CDKN1B MUTATED	0	0	1	0	3	1	0	1
CDKN1B WILD-TYPE	21	38	113	97	105	72	19	38

'CDKN1B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S230. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CDKN1B MUTATED	1	3	1	0	1
CDKN1B WILD-TYPE	95	149	115	89	55

'CDKN1B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 1

Table S231. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CDKN1B MUTATED	5	1	3	1	0
CDKN1B WILD-TYPE	362	225	88	240	37

'CDKN1B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.321 (Fisher's exact test), Q value = 1

Table S232. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CDKN1B MUTATED	0	3	0	1	1
CDKN1B WILD-TYPE	116	178	157	82	110

'CDKN1B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S233. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CDKN1B MUTATED	1	2	2
CDKN1B WILD-TYPE	145	127	116

'CDKN1B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.441 (Fisher's exact test), Q value = 1

Table S234. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CDKN1B MUTATED	2	2	0	1	0
CDKN1B WILD-TYPE	57	107	90	103	31

'CDKN1B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0825 (Fisher's exact test), Q value = 1

Table S235. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CDKN1B MUTATED	0	1	5	2	1	0	1
CDKN1B WILD-TYPE	179	134	210	154	224	48	14

'CDKN1B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 1

Table S236. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CDKN1B MUTATED	0	4	4	2	0	0
CDKN1B WILD-TYPE	168	218	184	170	171	52

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0232 (Fisher's exact test), Q value = 1

Table S237. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CDKN1B MUTATED	6	4	0
CDKN1B WILD-TYPE	264	409	274

Figure S91. Get High-res Image Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.595 (Fisher's exact test), Q value = 1

Table S238. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CDKN1B MUTATED	2	2	6	0	0
CDKN1B WILD-TYPE	150	172	384	125	116

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 1

Table S239. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
CDKN1B MUTATED	3	3	0
CDKN1B WILD-TYPE	245	214	187

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.406 (Fisher's exact test), Q value = 1

Table S240. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
CDKN1B MUTATED	0	1	3	0	2	0
CDKN1B WILD-TYPE	115	62	186	117	106	60

'NCOR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S241. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
NCOR1 MUTATED	0	2	4	3	7	3	0	0
NCOR1 WILD-TYPE	21	36	110	94	101	70	19	39

'NCOR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S242. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
NCOR1 MUTATED	3	6	4	3	3
NCOR1 WILD-TYPE	93	146	112	86	53

'NCOR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.969 (Fisher's exact test), Q value = 1

Table S243. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
NCOR1 MUTATED	16	10	4	8	1
NCOR1 WILD-TYPE	351	216	87	233	36

'NCOR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S244. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
NCOR1 MUTATED	4	7	9	6	4
NCOR1 WILD-TYPE	112	174	148	77	107

'NCOR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.436 (Fisher's exact test), Q value = 1

Table S245. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
NCOR1 MUTATED	5	2	5
NCOR1 WILD-TYPE	141	127	113

'NCOR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.524 (Fisher's exact test), Q value = 1

Table S246. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
NCOR1 MUTATED	1	5	2	2	2
NCOR1 WILD-TYPE	58	104	88	102	29

'NCOR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S247. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
NCOR1 MUTATED	6	6	10	10	7	1	1
NCOR1 WILD-TYPE	173	129	205	146	218	47	14

'NCOR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.161 (Fisher's exact test), Q value = 1

Table S248. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
NCOR1 MUTATED	6	7	8	14	4	2
NCOR1 WILD-TYPE	162	215	180	158	167	50

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S249. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
NCOR1 MUTATED	12	19	10
NCOR1 WILD-TYPE	258	394	264

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.301 (Fisher's exact test), Q value = 1

Table S250. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
NCOR1 MUTATED	7	3	22	5	4
NCOR1 WILD-TYPE	145	171	368	120	112

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S251. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
NCOR1 MUTATED	9	8	7
NCOR1 WILD-TYPE	239	209	180

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.179 (Fisher's exact test), Q value = 1

Table S252. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
NCOR1 MUTATED	3	1	10	1	7	2
NCOR1 WILD-TYPE	112	62	179	116	101	58

'SF3B1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.845 (Fisher's exact test), Q value = 1

Table S253. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SF3B1 MUTATED	0	0	1	1	3	2	0	1
SF3B1 WILD-TYPE	21	38	113	96	105	71	19	38

'SF3B1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.845 (Fisher's exact test), Q value = 1

Table S254. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SF3B1 MUTATED	1	4	2	1	0
SF3B1 WILD-TYPE	95	148	114	88	56

'SF3B1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.43 (Fisher's exact test), Q value = 1

Table S255. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
SF3B1 MUTATED	6	7	1	2	0
SF3B1 WILD-TYPE	361	219	90	239	37

'SF3B1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0462 (Fisher's exact test), Q value = 1

Table S256. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
SF3B1 MUTATED	0	7	5	2	0
SF3B1 WILD-TYPE	116	174	152	81	111

Figure S92. Get High-res Image Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'SF3B1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S257. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
SF3B1 MUTATED	1	1	3
SF3B1 WILD-TYPE	145	128	115

'SF3B1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.164 (Fisher's exact test), Q value = 1

Table S258. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
SF3B1 MUTATED	0	4	1	0	0
SF3B1 WILD-TYPE	59	105	89	104	31

'SF3B1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.53 (Fisher's exact test), Q value = 1

Table S259. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
SF3B1 MUTATED	1	3	6	3	2	1	0
SF3B1 WILD-TYPE	178	132	209	153	223	47	15

'SF3B1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S260. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
SF3B1 MUTATED	1	5	4	4	2	0
SF3B1 WILD-TYPE	167	217	184	168	169	52

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0447 (Fisher's exact test), Q value = 1

Table S261. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
SF3B1 MUTATED	8	7	1
SF3B1 WILD-TYPE	262	406	273

Figure S93. Get High-res Image Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.643 (Fisher's exact test), Q value = 1

Table S262. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
SF3B1 MUTATED	3	5	5	1	2
SF3B1 WILD-TYPE	149	169	385	124	114

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S263. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
SF3B1 MUTATED	4	3	1
SF3B1 WILD-TYPE	244	214	186

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S264. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
SF3B1 MUTATED	0	1	2	4	1	0
SF3B1 WILD-TYPE	115	62	187	113	107	60

'ZFP36L1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.403 (Fisher's exact test), Q value = 1

Table S265. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZFP36L1 MUTATED	1	0	1	0	1	1	0	1
ZFP36L1 WILD-TYPE	20	38	113	97	107	72	19	38

'ZFP36L1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S266. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZFP36L1 MUTATED	1	2	2	0	0
ZFP36L1 WILD-TYPE	95	150	114	89	56

'ZFP36L1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00632 (Fisher's exact test), Q value = 1

Table S267. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
ZFP36L1 MUTATED	1	4	3	0	1
ZFP36L1 WILD-TYPE	366	222	88	241	36

Figure S94. Get High-res Image Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZFP36L1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.055 (Fisher's exact test), Q value = 1

Table S268. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
ZFP36L1 MUTATED	1	0	4	0	0
ZFP36L1 WILD-TYPE	115	181	153	83	111

'ZFP36L1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0264 (Fisher's exact test), Q value = 1

Table S269. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
ZFP36L1 MUTATED	0	0	3
ZFP36L1 WILD-TYPE	146	129	115

Figure S95. Get High-res Image Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'ZFP36L1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S270. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
ZFP36L1 MUTATED	0	3	0	0	0
ZFP36L1 WILD-TYPE	59	106	90	104	31

'ZFP36L1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.454 (Fisher's exact test), Q value = 1

Table S271. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
ZFP36L1 MUTATED	1	0	1	2	5	0	0
ZFP36L1 WILD-TYPE	178	135	214	154	220	48	15

'ZFP36L1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.156 (Fisher's exact test), Q value = 1

Table S272. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
ZFP36L1 MUTATED	1	1	0	2	4	1
ZFP36L1 WILD-TYPE	167	221	188	170	167	51

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.532 (Fisher's exact test), Q value = 1

Table S273. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
ZFP36L1 MUTATED	3	5	1
ZFP36L1 WILD-TYPE	267	408	273

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.655 (Fisher's exact test), Q value = 1

Table S274. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
ZFP36L1 MUTATED	0	2	4	1	2
ZFP36L1 WILD-TYPE	152	172	386	124	114

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S275. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
ZFP36L1 MUTATED	2	2	1
ZFP36L1 WILD-TYPE	246	215	186

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.859 (Fisher's exact test), Q value = 1

Table S276. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
ZFP36L1 MUTATED	1	0	2	1	0	1
ZFP36L1 WILD-TYPE	114	63	187	116	108	59

'KRAS MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.54 (Fisher's exact test), Q value = 1

Table S277. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KRAS MUTATED	0	0	0	1	2	0	0	1
KRAS WILD-TYPE	21	38	114	96	106	73	19	38

'KRAS MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S278. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
KRAS MUTATED	0	2	1	0	1
KRAS WILD-TYPE	96	150	115	89	55

'KRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.353 (Fisher's exact test), Q value = 1

Table S279. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
KRAS MUTATED	5	0	0	1	0
KRAS WILD-TYPE	362	226	91	240	37

'KRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.258 (Fisher's exact test), Q value = 1

Table S280. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
KRAS MUTATED	0	2	0	0	2
KRAS WILD-TYPE	116	179	157	83	109

'KRAS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.2 (Fisher's exact test), Q value = 1

Table S281. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
KRAS MUTATED	0	1	2
KRAS WILD-TYPE	146	128	116

'KRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.712 (Fisher's exact test), Q value = 1

Table S282. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
KRAS MUTATED	1	1	1	0	0
KRAS WILD-TYPE	58	108	89	104	31

'KRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.315 (Fisher's exact test), Q value = 1

Table S283. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
KRAS MUTATED	0	1	3	2	0	0	0
KRAS WILD-TYPE	179	134	212	154	225	48	15

'KRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.37 (Fisher's exact test), Q value = 1

Table S284. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
KRAS MUTATED	0	2	2	1	0	1
KRAS WILD-TYPE	168	220	186	171	171	51

'KRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.667 (Fisher's exact test), Q value = 1

Table S285. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
KRAS MUTATED	1	4	1
KRAS WILD-TYPE	269	409	273

'KRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S286. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
KRAS MUTATED	1	0	4	0	1
KRAS WILD-TYPE	151	174	386	125	115

'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S287. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
KRAS MUTATED	3	1	1
KRAS WILD-TYPE	245	216	186

'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.103 (Fisher's exact test), Q value = 1

Table S288. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
KRAS MUTATED	0	2	2	0	0	1
KRAS WILD-TYPE	115	61	187	117	108	59

'TCP11 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S289. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TCP11 MUTATED	0	1	2	1	1	0	0	1
TCP11 WILD-TYPE	21	37	112	96	107	73	19	38

'TCP11 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S290. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TCP11 MUTATED	2	3	0	1	0
TCP11 WILD-TYPE	94	149	116	88	56

'TCP11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.481 (Fisher's exact test), Q value = 1

Table S291. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TCP11 MUTATED	3	1	0	1	1
TCP11 WILD-TYPE	364	225	91	240	36

'TCP11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S292. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TCP11 MUTATED	2	1	2
TCP11 WILD-TYPE	144	128	116

'TCP11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.919 (Fisher's exact test), Q value = 1

Table S293. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TCP11 MUTATED	0	2	1	2	0
TCP11 WILD-TYPE	59	107	89	102	31

'TCP11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.771 (Fisher's exact test), Q value = 1

Table S294. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TCP11 MUTATED	1	2	1	0	2	0	0
TCP11 WILD-TYPE	178	133	214	156	223	48	15

'TCP11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.773 (Fisher's exact test), Q value = 1

Table S295. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TCP11 MUTATED	1	3	1	1	0	0
TCP11 WILD-TYPE	167	219	187	171	171	52

'TCP11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.887 (Fisher's exact test), Q value = 1

Table S296. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TCP11 MUTATED	2	3	1
TCP11 WILD-TYPE	268	410	273

'TCP11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.73 (Fisher's exact test), Q value = 1

Table S297. Gene #25: 'TCP11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TCP11 MUTATED	2	1	2	1	0
TCP11 WILD-TYPE	150	173	388	124	116

'AQP12A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S298. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
AQP12A MUTATED	0	1	1	0	1	0	0	0
AQP12A WILD-TYPE	21	37	113	97	107	73	19	39

'AQP12A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.733 (Fisher's exact test), Q value = 1

Table S299. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
AQP12A MUTATED	1	2	0	0	0
AQP12A WILD-TYPE	95	150	116	89	56

'AQP12A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 1

Table S300. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
AQP12A MUTATED	1	4	0	1	0
AQP12A WILD-TYPE	366	222	91	240	37

'AQP12A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.166 (Fisher's exact test), Q value = 1

Table S301. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
AQP12A MUTATED	1	0	3	0	0
AQP12A WILD-TYPE	115	181	154	83	111

'AQP12A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.2 (Fisher's exact test), Q value = 1

Table S302. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
AQP12A MUTATED	0	1	2
AQP12A WILD-TYPE	146	128	116

'AQP12A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.134 (Fisher's exact test), Q value = 1

Table S303. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
AQP12A MUTATED	0	0	0	3	0
AQP12A WILD-TYPE	59	109	90	101	31

'AQP12A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.742 (Fisher's exact test), Q value = 1

Table S304. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
AQP12A MUTATED	0	1	2	2	1	0	0
AQP12A WILD-TYPE	179	134	213	154	224	48	15

'AQP12A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.949 (Fisher's exact test), Q value = 1

Table S305. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
AQP12A MUTATED	1	1	1	1	2	0
AQP12A WILD-TYPE	167	221	187	171	169	52

'AQP12A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S306. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
AQP12A MUTATED	1	3	2
AQP12A WILD-TYPE	269	410	272

'AQP12A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.287 (Fisher's exact test), Q value = 1

Table S307. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
AQP12A MUTATED	0	3	2	1	0
AQP12A WILD-TYPE	152	171	388	124	116

'AQP12A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S308. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
AQP12A MUTATED	2	1	1
AQP12A WILD-TYPE	246	216	186

'AQP12A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S309. Gene #26: 'AQP12A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
AQP12A MUTATED	1	0	2	0	1	0
AQP12A WILD-TYPE	114	63	187	117	107	60

'DLG1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.34 (Fisher's exact test), Q value = 1

Table S310. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
DLG1 MUTATED	0	2	1	0	2	2	0	0
DLG1 WILD-TYPE	21	36	113	97	106	71	19	39

'DLG1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.322 (Fisher's exact test), Q value = 1

Table S311. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
DLG1 MUTATED	0	4	2	0	1
DLG1 WILD-TYPE	96	148	114	89	55

'DLG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.594 (Fisher's exact test), Q value = 1

Table S312. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
DLG1 MUTATED	6	1	1	5	0
DLG1 WILD-TYPE	361	225	90	236	37

'DLG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.102 (Fisher's exact test), Q value = 1

Table S313. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
DLG1 MUTATED	3	1	1	0	4
DLG1 WILD-TYPE	113	180	156	83	107

'DLG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.892 (Fisher's exact test), Q value = 1

Table S314. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
DLG1 MUTATED	2	3	2
DLG1 WILD-TYPE	144	126	116

'DLG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0959 (Fisher's exact test), Q value = 1

Table S315. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
DLG1 MUTATED	2	2	0	1	2
DLG1 WILD-TYPE	57	107	90	103	29

'DLG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0726 (Fisher's exact test), Q value = 1

Table S316. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
DLG1 MUTATED	2	2	1	5	1	1	1
DLG1 WILD-TYPE	177	133	214	151	224	47	14

'DLG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.136 (Fisher's exact test), Q value = 1

Table S317. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
DLG1 MUTATED	1	4	2	4	0	2
DLG1 WILD-TYPE	167	218	186	168	171	50

'DLG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.244 (Fisher's exact test), Q value = 1

Table S318. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
DLG1 MUTATED	3	3	6
DLG1 WILD-TYPE	267	410	268

'DLG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0194 (Fisher's exact test), Q value = 1

Table S319. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
DLG1 MUTATED	0	1	6	0	5
DLG1 WILD-TYPE	152	173	384	125	111

Figure S96. Get High-res Image Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DLG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.744 (Fisher's exact test), Q value = 1

Table S320. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
DLG1 MUTATED	2	3	3
DLG1 WILD-TYPE	246	214	184

'DLG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 1

Table S321. Gene #27: 'DLG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
DLG1 MUTATED	1	1	3	0	1	2
DLG1 WILD-TYPE	114	62	186	117	107	58

'MYB MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S322. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MYB MUTATED	0	0	2	2	4	0	0	1
MYB WILD-TYPE	21	38	112	95	104	73	19	38

'MYB MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0284 (Fisher's exact test), Q value = 1

Table S323. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MYB MUTATED	0	2	1	2	4
MYB WILD-TYPE	96	150	115	87	52

Figure S97. Get High-res Image Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MYB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.266 (Fisher's exact test), Q value = 1

Table S324. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
MYB MUTATED	6	1	3	2	0
MYB WILD-TYPE	361	225	88	239	37

'MYB MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.619 (Fisher's exact test), Q value = 1

Table S325. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
MYB MUTATED	2	1	1	1	0
MYB WILD-TYPE	114	180	156	82	111

'MYB MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S326. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
MYB MUTATED	2	2	1
MYB WILD-TYPE	144	127	117

'MYB MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S327. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
MYB MUTATED	2	1	1	1	0
MYB WILD-TYPE	57	108	89	103	31

'MYB MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.901 (Fisher's exact test), Q value = 1

Table S328. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
MYB MUTATED	3	1	3	1	3	1	0
MYB WILD-TYPE	176	134	212	155	222	47	15

'MYB MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.11 (Fisher's exact test), Q value = 1

Table S329. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
MYB MUTATED	3	2	6	1	0	0
MYB WILD-TYPE	165	220	182	171	171	52

'MYB MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S330. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
MYB MUTATED	3	7	2
MYB WILD-TYPE	267	406	272

'MYB MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S331. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
MYB MUTATED	1	4	5	1	1
MYB WILD-TYPE	151	170	385	124	115

'MYB MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0538 (Fisher's exact test), Q value = 1

Table S332. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
MYB MUTATED	5	0	1
MYB WILD-TYPE	243	217	186

'MYB MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.781 (Fisher's exact test), Q value = 1

Table S333. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
MYB MUTATED	2	1	2	1	0	0
MYB WILD-TYPE	113	62	187	116	108	60

'RPGR MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S334. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RPGR MUTATED	0	1	3	3	2	2	1	1
RPGR WILD-TYPE	21	37	111	94	106	71	18	38

'RPGR MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.703 (Fisher's exact test), Q value = 1

Table S335. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RPGR MUTATED	3	5	2	3	0
RPGR WILD-TYPE	93	147	114	86	56

'RPGR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.952 (Fisher's exact test), Q value = 1

Table S336. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
RPGR MUTATED	6	5	2	4	0
RPGR WILD-TYPE	361	221	89	237	37

'RPGR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.535 (Fisher's exact test), Q value = 1

Table S337. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
RPGR MUTATED	2	2	5	1	4
RPGR WILD-TYPE	114	179	152	82	107

'RPGR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S338. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
RPGR MUTATED	5	4	2
RPGR WILD-TYPE	141	125	116

'RPGR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.238 (Fisher's exact test), Q value = 1

Table S339. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
RPGR MUTATED	0	2	3	6	0
RPGR WILD-TYPE	59	107	87	98	31

'RPGR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.597 (Fisher's exact test), Q value = 1

Table S340. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
RPGR MUTATED	4	1	4	4	5	0	1
RPGR WILD-TYPE	175	134	211	152	220	48	14

'RPGR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.57 (Fisher's exact test), Q value = 1

Table S341. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
RPGR MUTATED	4	4	1	5	4	1
RPGR WILD-TYPE	164	218	187	167	167	51

'RPGR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S342. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
RPGR MUTATED	3	9	6
RPGR WILD-TYPE	267	404	268

'RPGR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.308 (Fisher's exact test), Q value = 1

Table S343. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
RPGR MUTATED	2	3	9	0	4
RPGR WILD-TYPE	150	171	381	125	112

'RPGR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.768 (Fisher's exact test), Q value = 1

Table S344. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
RPGR MUTATED	4	2	3
RPGR WILD-TYPE	244	215	184

'RPGR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.896 (Fisher's exact test), Q value = 1

Table S345. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
RPGR MUTATED	2	0	4	1	1	1
RPGR WILD-TYPE	113	63	185	116	107	59

'TBL1XR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.158 (Fisher's exact test), Q value = 1

Table S346. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TBL1XR1 MUTATED	1	0	1	0	5	1	0	0
TBL1XR1 WILD-TYPE	20	38	113	97	103	72	19	39

'TBL1XR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0823 (Fisher's exact test), Q value = 1

Table S347. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TBL1XR1 MUTATED	0	3	2	0	3
TBL1XR1 WILD-TYPE	96	149	114	89	53

'TBL1XR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0501 (Fisher's exact test), Q value = 1

Table S348. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TBL1XR1 MUTATED	6	1	3	0	0
TBL1XR1 WILD-TYPE	361	225	88	241	37

'TBL1XR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.926 (Fisher's exact test), Q value = 1

Table S349. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
TBL1XR1 MUTATED	0	1	1	0	1
TBL1XR1 WILD-TYPE	116	180	156	83	110

'TBL1XR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.448 (Fisher's exact test), Q value = 1

Table S350. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TBL1XR1 MUTATED	2	4	1
TBL1XR1 WILD-TYPE	144	125	117

'TBL1XR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.134 (Fisher's exact test), Q value = 1

Table S351. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TBL1XR1 MUTATED	3	2	0	1	1
TBL1XR1 WILD-TYPE	56	107	90	103	30

'TBL1XR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0575 (Fisher's exact test), Q value = 1

Table S352. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TBL1XR1 MUTATED	0	2	6	2	0	0	0
TBL1XR1 WILD-TYPE	179	133	209	154	225	48	15

'TBL1XR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0342 (Fisher's exact test), Q value = 1

Table S353. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TBL1XR1 MUTATED	0	3	6	1	0	0
TBL1XR1 WILD-TYPE	168	219	182	171	171	52

Figure S98. Get High-res Image Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.237 (Fisher's exact test), Q value = 1

Table S354. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TBL1XR1 MUTATED	2	7	1
TBL1XR1 WILD-TYPE	268	406	273

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.393 (Fisher's exact test), Q value = 1

Table S355. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TBL1XR1 MUTATED	2	1	7	0	0
TBL1XR1 WILD-TYPE	150	173	383	125	116

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.64 (Fisher's exact test), Q value = 1

Table S356. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
TBL1XR1 MUTATED	4	2	1
TBL1XR1 WILD-TYPE	244	215	186

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.204 (Fisher's exact test), Q value = 1

Table S357. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
TBL1XR1 MUTATED	0	1	5	0	1	0
TBL1XR1 WILD-TYPE	115	62	184	117	107	60

'KDM6A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S358. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KDM6A MUTATED	0	1	1	2	3	0	0	1
KDM6A WILD-TYPE	21	37	113	95	105	73	19	38

'KDM6A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.344 (Fisher's exact test), Q value = 1

Table S359. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
KDM6A MUTATED	2	4	0	2	0
KDM6A WILD-TYPE	94	148	116	87	56

'KDM6A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.234 (Fisher's exact test), Q value = 1

Table S360. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
KDM6A MUTATED	5	3	4	3	1
KDM6A WILD-TYPE	362	223	87	238	36

'KDM6A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S361. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
KDM6A MUTATED	2	3	3	2	0
KDM6A WILD-TYPE	114	178	154	81	111

'KDM6A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S362. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
KDM6A MUTATED	4	2	1
KDM6A WILD-TYPE	142	127	117

'KDM6A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.874 (Fisher's exact test), Q value = 1

Table S363. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
KDM6A MUTATED	1	1	2	3	0
KDM6A WILD-TYPE	58	108	88	101	31

'KDM6A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S364. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
KDM6A MUTATED	5	3	1	2	4	1	0
KDM6A WILD-TYPE	174	132	214	154	221	47	15

'KDM6A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S365. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
KDM6A MUTATED	5	4	1	4	2	0
KDM6A WILD-TYPE	163	218	187	168	169	52

'KDM6A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.855 (Fisher's exact test), Q value = 1

Table S366. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
KDM6A MUTATED	5	6	5
KDM6A WILD-TYPE	265	407	269

'KDM6A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.234 (Fisher's exact test), Q value = 1

Table S367. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
KDM6A MUTATED	1	5	4	4	2
KDM6A WILD-TYPE	151	169	386	121	114

'KDM6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 1

Table S368. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
KDM6A MUTATED	6	1	5
KDM6A WILD-TYPE	242	216	182

'KDM6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.135 (Fisher's exact test), Q value = 1

Table S369. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
KDM6A MUTATED	5	1	5	0	1	0
KDM6A WILD-TYPE	110	62	184	117	107	60

'MYH9 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 1

Table S370. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MYH9 MUTATED	0	1	0	2	2	1	1	1
MYH9 WILD-TYPE	21	37	114	95	106	72	18	38

'MYH9 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.423 (Fisher's exact test), Q value = 1

Table S371. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MYH9 MUTATED	0	4	3	1	0
MYH9 WILD-TYPE	96	148	113	88	56

'MYH9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 1

Table S372. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
MYH9 MUTATED	11	3	0	2	0
MYH9 WILD-TYPE	356	223	91	239	37

'MYH9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.571 (Fisher's exact test), Q value = 1

Table S373. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
MYH9 MUTATED	2	3	6	1	1
MYH9 WILD-TYPE	114	178	151	82	110

'MYH9 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.821 (Fisher's exact test), Q value = 1

Table S374. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
MYH9 MUTATED	4	2	2
MYH9 WILD-TYPE	142	127	116

'MYH9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0208 (Fisher's exact test), Q value = 1

Table S375. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
MYH9 MUTATED	1	3	1	0	3
MYH9 WILD-TYPE	58	106	89	104	28

Figure S99. Get High-res Image Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'MYH9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.445 (Fisher's exact test), Q value = 1

Table S376. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
MYH9 MUTATED	3	3	5	5	1	1	0
MYH9 WILD-TYPE	176	132	210	151	224	47	15

'MYH9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.605 (Fisher's exact test), Q value = 1

Table S377. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
MYH9 MUTATED	3	5	4	3	1	2
MYH9 WILD-TYPE	165	217	184	169	170	50

'MYH9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S378. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
MYH9 MUTATED	6	8	4
MYH9 WILD-TYPE	264	405	270

'MYH9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.91 (Fisher's exact test), Q value = 1

Table S379. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
MYH9 MUTATED	3	4	7	3	1
MYH9 WILD-TYPE	149	170	383	122	115

'MYH9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.64 (Fisher's exact test), Q value = 1

Table S380. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
MYH9 MUTATED	4	6	3
MYH9 WILD-TYPE	244	211	184

'MYH9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.275 (Fisher's exact test), Q value = 1

Table S381. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
MYH9 MUTATED	2	0	3	1	4	3
MYH9 WILD-TYPE	113	63	186	116	104	57

'HLA-C MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.139 (Fisher's exact test), Q value = 1

Table S382. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HLA-C MUTATED	0	1	0	0	0	1	0	1
HLA-C WILD-TYPE	21	37	114	97	108	72	19	38

'HLA-C MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S383. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HLA-C MUTATED	0	2	1	0	0
HLA-C WILD-TYPE	96	150	115	89	56

'HLA-C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S384. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
HLA-C MUTATED	3	2	0	4	0
HLA-C WILD-TYPE	364	224	91	237	37

'HLA-C MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.275 (Fisher's exact test), Q value = 1

Table S385. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
HLA-C MUTATED	4	2	1	0	1
HLA-C WILD-TYPE	112	179	156	83	110

'HLA-C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.398 (Fisher's exact test), Q value = 1

Table S386. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
HLA-C MUTATED	1	0	2
HLA-C WILD-TYPE	145	129	116

'HLA-C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S387. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
HLA-C MUTATED	0	1	0	2	0
HLA-C WILD-TYPE	59	108	90	102	31

'HLA-C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 1

Table S388. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
HLA-C MUTATED	4	1	3	1	0	0	0
HLA-C WILD-TYPE	175	134	212	155	225	48	15

'HLA-C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.38 (Fisher's exact test), Q value = 1

Table S389. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
HLA-C MUTATED	4	2	2	1	0	0
HLA-C WILD-TYPE	164	220	186	171	171	52

'HLA-C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.234 (Fisher's exact test), Q value = 1

Table S390. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
HLA-C MUTATED	2	2	5
HLA-C WILD-TYPE	268	411	269

'HLA-C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00634 (Fisher's exact test), Q value = 1

Table S391. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
HLA-C MUTATED	1	3	0	4	1
HLA-C WILD-TYPE	151	171	390	121	115

Figure S100. Get High-res Image Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'HLA-C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.141 (Fisher's exact test), Q value = 1

Table S392. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
HLA-C MUTATED	1	1	4
HLA-C WILD-TYPE	247	216	183

'HLA-C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.112 (Fisher's exact test), Q value = 1

Table S393. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
HLA-C MUTATED	4	0	1	0	1	0
HLA-C WILD-TYPE	111	63	188	117	107	60

'RAB42 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 1

Table S394. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RAB42 MUTATED	0	0	0	3	1	0	0	0
RAB42 WILD-TYPE	21	38	114	94	107	73	19	39

'RAB42 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0698 (Fisher's exact test), Q value = 1

Table S395. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RAB42 MUTATED	0	1	0	3	0
RAB42 WILD-TYPE	96	151	116	86	56

'RAB42 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.372 (Fisher's exact test), Q value = 1

Table S396. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
RAB42 MUTATED	1	0	0	3	0
RAB42 WILD-TYPE	366	226	91	238	37

'RAB42 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.4 (Fisher's exact test), Q value = 1

Table S397. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
RAB42 MUTATED	1	0	2
RAB42 WILD-TYPE	145	129	116

'RAB42 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.496 (Fisher's exact test), Q value = 1

Table S398. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
RAB42 MUTATED	0	1	2	0	0
RAB42 WILD-TYPE	59	108	88	104	31

'RAB42 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.196 (Fisher's exact test), Q value = 1

Table S399. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
RAB42 MUTATED	3	0	1	0	0	0	0
RAB42 WILD-TYPE	176	135	214	156	225	48	15

'RAB42 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 1

Table S400. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
RAB42 MUTATED	3	1	0	0	0	0
RAB42 WILD-TYPE	165	221	188	172	171	52

'RAB42 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.218 (Fisher's exact test), Q value = 1

Table S401. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
RAB42 MUTATED	0	1	3
RAB42 WILD-TYPE	270	412	271

'RAB42 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0108 (Fisher's exact test), Q value = 1

Table S402. Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
RAB42 MUTATED	0	1	0	3	0
RAB42 WILD-TYPE	152	173	390	122	116

Figure S101. Get High-res Image Gene #34: 'RAB42 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'FGFR2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.915 (Fisher's exact test), Q value = 1

Table S403. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FGFR2 MUTATED	0	0	1	1	2	2	0	0
FGFR2 WILD-TYPE	21	38	113	96	106	71	19	39

'FGFR2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S404. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FGFR2 MUTATED	1	1	2	1	1
FGFR2 WILD-TYPE	95	151	114	88	55

'FGFR2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.354 (Fisher's exact test), Q value = 1

Table S405. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
FGFR2 MUTATED	3	3	3	2	0
FGFR2 WILD-TYPE	364	223	88	239	37

'FGFR2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.37 (Fisher's exact test), Q value = 1

Table S406. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
FGFR2 MUTATED	0	1	3	1	0
FGFR2 WILD-TYPE	116	180	154	82	111

'FGFR2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S407. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
FGFR2 MUTATED	2	2	1
FGFR2 WILD-TYPE	144	127	117

'FGFR2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.917 (Fisher's exact test), Q value = 1

Table S408. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
FGFR2 MUTATED	0	2	1	2	0
FGFR2 WILD-TYPE	59	107	89	102	31

'FGFR2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.277 (Fisher's exact test), Q value = 1

Table S409. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
FGFR2 MUTATED	1	0	3	3	3	0	1
FGFR2 WILD-TYPE	178	135	212	153	222	48	14

'FGFR2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0731 (Fisher's exact test), Q value = 1

Table S410. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
FGFR2 MUTATED	1	1	1	6	1	1
FGFR2 WILD-TYPE	167	221	187	166	170	51

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.545 (Fisher's exact test), Q value = 1

Table S411. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
FGFR2 MUTATED	2	4	5
FGFR2 WILD-TYPE	268	409	269

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S412. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
FGFR2 MUTATED	0	3	6	1	1
FGFR2 WILD-TYPE	152	171	384	124	115

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.245 (Fisher's exact test), Q value = 1

Table S413. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
FGFR2 MUTATED	1	2	4
FGFR2 WILD-TYPE	247	215	183

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.66 (Fisher's exact test), Q value = 1

Table S414. Gene #35: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
FGFR2 MUTATED	0	0	3	1	2	1
FGFR2 WILD-TYPE	115	63	186	116	106	59

'ERBB2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.778 (Fisher's exact test), Q value = 1

Table S415. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ERBB2 MUTATED	1	1	2	1	3	3	0	1
ERBB2 WILD-TYPE	20	37	112	96	105	70	19	38

'ERBB2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S416. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ERBB2 MUTATED	2	6	3	1	0
ERBB2 WILD-TYPE	94	146	113	88	56

'ERBB2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0408 (Fisher's exact test), Q value = 1

Table S417. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
ERBB2 MUTATED	11	2	5	2	0
ERBB2 WILD-TYPE	356	224	86	239	37

Figure S102. Get High-res Image Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ERBB2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0577 (Fisher's exact test), Q value = 1

Table S418. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
ERBB2 MUTATED	0	1	4	3	4
ERBB2 WILD-TYPE	116	180	153	80	107

'ERBB2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.551 (Fisher's exact test), Q value = 1

Table S419. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
ERBB2 MUTATED	2	2	4
ERBB2 WILD-TYPE	144	127	114

'ERBB2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.882 (Fisher's exact test), Q value = 1

Table S420. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
ERBB2 MUTATED	1	2	1	3	1
ERBB2 WILD-TYPE	58	107	89	101	30

'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0879 (Fisher's exact test), Q value = 1

Table S421. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
ERBB2 MUTATED	1	5	4	8	3	0	0
ERBB2 WILD-TYPE	178	130	211	148	222	48	15

'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.148 (Fisher's exact test), Q value = 1

Table S422. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
ERBB2 MUTATED	1	7	2	5	3	3
ERBB2 WILD-TYPE	167	215	186	167	168	49

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00189 (Fisher's exact test), Q value = 1

Table S423. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
ERBB2 MUTATED	10	10	0
ERBB2 WILD-TYPE	260	403	274

Figure S103. Get High-res Image Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.332 (Fisher's exact test), Q value = 1

Table S424. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
ERBB2 MUTATED	5	4	8	0	3
ERBB2 WILD-TYPE	147	170	382	125	113

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 1

Table S425. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
ERBB2 MUTATED	5	6	1
ERBB2 WILD-TYPE	243	211	186

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.123 (Fisher's exact test), Q value = 1

Table S426. Gene #36: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
ERBB2 MUTATED	0	2	3	1	3	3
ERBB2 WILD-TYPE	115	61	186	116	105	57

'CTCF MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0588 (Fisher's exact test), Q value = 1

Table S427. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CTCF MUTATED	1	0	2	1	8	0	0	1
CTCF WILD-TYPE	20	38	112	96	100	73	19	38

'CTCF MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0434 (Fisher's exact test), Q value = 1

Table S428. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CTCF MUTATED	3	3	1	1	5
CTCF WILD-TYPE	93	149	115	88	51

Figure S104. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'CTCF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00385 (Fisher's exact test), Q value = 1

Table S429. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CTCF MUTATED	14	1	0	1	1
CTCF WILD-TYPE	353	225	91	240	36

Figure S105. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CTCF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0326 (Fisher's exact test), Q value = 1

Table S430. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CTCF MUTATED	0	8	1	1	1
CTCF WILD-TYPE	116	173	156	82	110

Figure S106. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CTCF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0631 (Fisher's exact test), Q value = 1

Table S431. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CTCF MUTATED	1	7	3
CTCF WILD-TYPE	145	122	115

'CTCF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 1

Table S432. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CTCF MUTATED	5	3	1	2	0
CTCF WILD-TYPE	54	106	89	102	31

'CTCF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0228 (Fisher's exact test), Q value = 1

Table S433. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CTCF MUTATED	1	3	10	1	1	1	0
CTCF WILD-TYPE	178	132	205	155	224	47	15

Figure S107. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'CTCF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.1 (Fisher's exact test), Q value = 1

Table S434. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CTCF MUTATED	1	3	8	1	4	0
CTCF WILD-TYPE	167	219	180	171	167	52

'CTCF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0355 (Fisher's exact test), Q value = 1

Table S435. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CTCF MUTATED	4	12	1
CTCF WILD-TYPE	266	401	273

Figure S108. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CTCF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0118 (Fisher's exact test), Q value = 1

Table S436. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CTCF MUTATED	2	9	5	0	1
CTCF WILD-TYPE	150	165	385	125	115

Figure S109. Get High-res Image Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CTCF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S437. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
CTCF MUTATED	6	1	2
CTCF WILD-TYPE	242	216	185

'CTCF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.215 (Fisher's exact test), Q value = 1

Table S438. Gene #37: 'CTCF MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
CTCF MUTATED	1	0	2	5	1	0
CTCF WILD-TYPE	114	63	187	112	107	60

'ZMYM3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.497 (Fisher's exact test), Q value = 1

Table S439. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZMYM3 MUTATED	1	0	1	4	4	1	0	0
ZMYM3 WILD-TYPE	20	38	113	93	104	72	19	39

'ZMYM3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.441 (Fisher's exact test), Q value = 1

Table S440. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZMYM3 MUTATED	1	4	1	4	1
ZMYM3 WILD-TYPE	95	148	115	85	55

'ZMYM3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.915 (Fisher's exact test), Q value = 1

Table S441. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
ZMYM3 MUTATED	7	2	1	4	0
ZMYM3 WILD-TYPE	360	224	90	237	37

'ZMYM3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S442. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
ZMYM3 MUTATED	3	1	1	0	1
ZMYM3 WILD-TYPE	113	180	156	83	110

'ZMYM3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.128 (Fisher's exact test), Q value = 1

Table S443. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
ZMYM3 MUTATED	5	2	0
ZMYM3 WILD-TYPE	141	127	118

'ZMYM3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.284 (Fisher's exact test), Q value = 1

Table S444. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
ZMYM3 MUTATED	1	0	3	2	1
ZMYM3 WILD-TYPE	58	109	87	102	30

'ZMYM3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 1

Table S445. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
ZMYM3 MUTATED	4	0	5	1	4	0	0
ZMYM3 WILD-TYPE	175	135	210	155	221	48	15

'ZMYM3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.344 (Fisher's exact test), Q value = 1

Table S446. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
ZMYM3 MUTATED	4	1	4	4	1	0
ZMYM3 WILD-TYPE	164	221	184	168	170	52

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S447. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
ZMYM3 MUTATED	2	7	5
ZMYM3 WILD-TYPE	268	406	269

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S448. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
ZMYM3 MUTATED	2	2	6	2	2
ZMYM3 WILD-TYPE	150	172	384	123	114

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S449. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
ZMYM3 MUTATED	3	2	2
ZMYM3 WILD-TYPE	245	215	185

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S450. Gene #38: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
ZMYM3 MUTATED	1	0	3	1	2	0
ZMYM3 WILD-TYPE	114	63	186	116	106	60

'FRMPD2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.821 (Fisher's exact test), Q value = 1

Table S451. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FRMPD2 MUTATED	0	1	1	1	1	2	0	0
FRMPD2 WILD-TYPE	21	37	113	96	107	71	19	39

'FRMPD2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S452. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FRMPD2 MUTATED	1	2	2	1	0
FRMPD2 WILD-TYPE	95	150	114	88	56

'FRMPD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S453. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
FRMPD2 MUTATED	4	3	0	4	1
FRMPD2 WILD-TYPE	363	223	91	237	36

'FRMPD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0963 (Fisher's exact test), Q value = 1

Table S454. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
FRMPD2 MUTATED	4	0	3	1	1
FRMPD2 WILD-TYPE	112	181	154	82	110

'FRMPD2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 1

Table S455. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
FRMPD2 MUTATED	2	0	2
FRMPD2 WILD-TYPE	144	129	116

'FRMPD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.883 (Fisher's exact test), Q value = 1

Table S456. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
FRMPD2 MUTATED	0	1	1	2	0
FRMPD2 WILD-TYPE	59	108	89	102	31

'FRMPD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.538 (Fisher's exact test), Q value = 1

Table S457. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
FRMPD2 MUTATED	4	1	2	3	1	1	0
FRMPD2 WILD-TYPE	175	134	213	153	224	47	15

'FRMPD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0378 (Fisher's exact test), Q value = 1

Table S458. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
FRMPD2 MUTATED	4	3	0	5	0	0
FRMPD2 WILD-TYPE	164	219	188	167	171	52

Figure S110. Get High-res Image Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S459. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
FRMPD2 MUTATED	3	5	4
FRMPD2 WILD-TYPE	267	408	270

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.746 (Fisher's exact test), Q value = 1

Table S460. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
FRMPD2 MUTATED	2	1	5	3	1
FRMPD2 WILD-TYPE	150	173	385	122	115

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 1

Table S461. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
FRMPD2 MUTATED	1	2	3
FRMPD2 WILD-TYPE	247	215	184

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.257 (Fisher's exact test), Q value = 1

Table S462. Gene #39: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
FRMPD2 MUTATED	3	0	1	0	2	0
FRMPD2 WILD-TYPE	112	63	188	117	106	60

'TFE3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.677 (Fisher's exact test), Q value = 1

Table S463. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TFE3 MUTATED	1	1	1	2	1	1	0	0
TFE3 WILD-TYPE	20	37	113	95	107	72	19	39

'TFE3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S464. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TFE3 MUTATED	1	2	2	2	0
TFE3 WILD-TYPE	95	150	114	87	56

'TFE3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.673 (Fisher's exact test), Q value = 1

Table S465. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TFE3 MUTATED	2	1	1	3	0
TFE3 WILD-TYPE	365	225	90	238	37

'TFE3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.643 (Fisher's exact test), Q value = 1

Table S466. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
TFE3 MUTATED	1	1	0	1	1
TFE3 WILD-TYPE	115	180	157	82	110

'TFE3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S467. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TFE3 MUTATED	1	1	1
TFE3 WILD-TYPE	145	128	117

'TFE3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.548 (Fisher's exact test), Q value = 1

Table S468. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TFE3 MUTATED	0	0	1	2	0
TFE3 WILD-TYPE	59	109	89	102	31

'TFE3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S469. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TFE3 MUTATED	2	2	0	1	2	0	0
TFE3 WILD-TYPE	177	133	215	155	223	48	15

'TFE3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.404 (Fisher's exact test), Q value = 1

Table S470. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TFE3 MUTATED	2	1	0	1	2	1
TFE3 WILD-TYPE	166	221	188	171	169	51

'TFE3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.5 (Fisher's exact test), Q value = 1

Table S471. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TFE3 MUTATED	3	2	2
TFE3 WILD-TYPE	267	411	272

'TFE3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0238 (Fisher's exact test), Q value = 1

Table S472. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TFE3 MUTATED	1	2	0	1	3
TFE3 WILD-TYPE	151	172	390	124	113

Figure S111. Get High-res Image Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TFE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S473. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
TFE3 MUTATED	2	0	1
TFE3 WILD-TYPE	246	217	186

'TFE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.649 (Fisher's exact test), Q value = 1

Table S474. Gene #40: 'TFE3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
TFE3 MUTATED	1	1	1	0	0	0
TFE3 WILD-TYPE	114	62	188	117	108	60

'GPS2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0137 (Fisher's exact test), Q value = 1

Table S475. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GPS2 MUTATED	0	4	2	0	1	0	0	1
GPS2 WILD-TYPE	21	34	112	97	107	73	19	38

Figure S112. Get High-res Image Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'GPS2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0478 (Fisher's exact test), Q value = 1

Table S476. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GPS2 MUTATED	2	6	0	0	0
GPS2 WILD-TYPE	94	146	116	89	56

Figure S113. Get High-res Image Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'GPS2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0603 (Fisher's exact test), Q value = 1

Table S477. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
GPS2 MUTATED	9	2	0	0	0
GPS2 WILD-TYPE	358	224	91	241	37

'GPS2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.342 (Fisher's exact test), Q value = 1

Table S478. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
GPS2 MUTATED	2	1	4	1	0
GPS2 WILD-TYPE	114	180	153	82	111

'GPS2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.265 (Fisher's exact test), Q value = 1

Table S479. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
GPS2 MUTATED	0	2	2
GPS2 WILD-TYPE	146	127	116

'GPS2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.746 (Fisher's exact test), Q value = 1

Table S480. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
GPS2 MUTATED	1	1	0	2	0
GPS2 WILD-TYPE	58	108	90	102	31

'GPS2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 1

Table S481. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
GPS2 MUTATED	0	2	1	3	3	2	0
GPS2 WILD-TYPE	179	133	214	153	222	46	15

'GPS2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0952 (Fisher's exact test), Q value = 1

Table S482. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
GPS2 MUTATED	0	5	1	1	2	2
GPS2 WILD-TYPE	168	217	187	171	169	50

'GPS2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 1

Table S483. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
GPS2 MUTATED	5	3	3
GPS2 WILD-TYPE	265	410	271

'GPS2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.633 (Fisher's exact test), Q value = 1

Table S484. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
GPS2 MUTATED	2	3	4	0	2
GPS2 WILD-TYPE	150	171	386	125	114

'GPS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S485. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
GPS2 MUTATED	2	2	1
GPS2 WILD-TYPE	246	215	186

'GPS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.207 (Fisher's exact test), Q value = 1

Table S486. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
GPS2 MUTATED	0	0	2	0	1	2
GPS2 WILD-TYPE	115	63	187	117	107	58

'DOCK11 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.667 (Fisher's exact test), Q value = 1

Table S487. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
DOCK11 MUTATED	0	0	3	4	1	3	0	0
DOCK11 WILD-TYPE	21	38	111	93	107	70	19	39

'DOCK11 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.448 (Fisher's exact test), Q value = 1

Table S488. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
DOCK11 MUTATED	2	2	5	2	0
DOCK11 WILD-TYPE	94	150	111	87	56

'DOCK11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.276 (Fisher's exact test), Q value = 1

Table S489. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
DOCK11 MUTATED	8	2	1	9	0
DOCK11 WILD-TYPE	359	224	90	232	37

'DOCK11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S490. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
DOCK11 MUTATED	2	2	5	0	3
DOCK11 WILD-TYPE	114	179	152	83	108

'DOCK11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.363 (Fisher's exact test), Q value = 1

Table S491. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
DOCK11 MUTATED	5	2	1
DOCK11 WILD-TYPE	141	127	117

'DOCK11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0652 (Fisher's exact test), Q value = 1

Table S492. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
DOCK11 MUTATED	0	0	4	4	0
DOCK11 WILD-TYPE	59	109	86	100	31

'DOCK11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 1

Table S493. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
DOCK11 MUTATED	5	1	2	7	5	0	0
DOCK11 WILD-TYPE	174	134	213	149	220	48	15

'DOCK11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0176 (Fisher's exact test), Q value = 1

Table S494. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
DOCK11 MUTATED	4	2	1	8	2	3
DOCK11 WILD-TYPE	164	220	187	164	169	49

Figure S114. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.504 (Fisher's exact test), Q value = 1

Table S495. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
DOCK11 MUTATED	4	8	8
DOCK11 WILD-TYPE	266	405	266

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.016 (Fisher's exact test), Q value = 1

Table S496. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
DOCK11 MUTATED	1	1	10	1	7
DOCK11 WILD-TYPE	151	173	380	124	109

Figure S115. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0407 (Fisher's exact test), Q value = 1

Table S497. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
DOCK11 MUTATED	2	3	8
DOCK11 WILD-TYPE	246	214	179

Figure S116. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.167 (Fisher's exact test), Q value = 1

Table S498. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
DOCK11 MUTATED	3	0	3	1	2	4
DOCK11 WILD-TYPE	112	63	186	116	106	56

'HRNR MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.988 (Fisher's exact test), Q value = 1

Table S499. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HRNR MUTATED	0	1	5	5	4	4	0	1
HRNR WILD-TYPE	21	37	109	92	104	69	19	38

'HRNR MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.782 (Fisher's exact test), Q value = 1

Table S500. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HRNR MUTATED	2	7	4	5	2
HRNR WILD-TYPE	94	145	112	84	54

'HRNR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.143 (Fisher's exact test), Q value = 1

Table S501. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
HRNR MUTATED	13	3	4	8	3
HRNR WILD-TYPE	354	223	87	233	34

'HRNR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.747 (Fisher's exact test), Q value = 1

Table S502. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
HRNR MUTATED	4	6	3	4	3
HRNR WILD-TYPE	112	175	154	79	108

'HRNR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.592 (Fisher's exact test), Q value = 1

Table S503. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
HRNR MUTATED	4	6	6
HRNR WILD-TYPE	142	123	112

'HRNR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S504. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
HRNR MUTATED	2	3	3	6	2
HRNR WILD-TYPE	57	106	87	98	29

'HRNR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.987 (Fisher's exact test), Q value = 1

Table S505. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
HRNR MUTATED	7	4	7	6	6	1	0
HRNR WILD-TYPE	172	131	208	150	219	47	15

'HRNR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.702 (Fisher's exact test), Q value = 1

Table S506. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
HRNR MUTATED	7	8	5	4	4	3
HRNR WILD-TYPE	161	214	183	168	167	49

'HRNR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.484 (Fisher's exact test), Q value = 1

Table S507. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
HRNR MUTATED	6	13	11
HRNR WILD-TYPE	264	400	263

'HRNR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.217 (Fisher's exact test), Q value = 1

Table S508. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
HRNR MUTATED	3	9	10	2	6
HRNR WILD-TYPE	149	165	380	123	110

'HRNR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.908 (Fisher's exact test), Q value = 1

Table S509. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
HRNR MUTATED	7	6	4
HRNR WILD-TYPE	241	211	183

'HRNR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.52 (Fisher's exact test), Q value = 1

Table S510. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
HRNR MUTATED	4	0	4	4	2	3
HRNR WILD-TYPE	111	63	185	113	106	57

'CASZ1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.937 (Fisher's exact test), Q value = 1

Table S511. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CASZ1 MUTATED	0	1	1	2	2	1	0	0
CASZ1 WILD-TYPE	21	37	113	95	106	72	19	39

'CASZ1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.855 (Fisher's exact test), Q value = 1

Table S512. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CASZ1 MUTATED	1	3	1	2	0
CASZ1 WILD-TYPE	95	149	115	87	56

'CASZ1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.971 (Fisher's exact test), Q value = 1

Table S513. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CASZ1 MUTATED	5	4	1	3	0
CASZ1 WILD-TYPE	362	222	90	238	37

'CASZ1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S514. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CASZ1 MUTATED	3	2	4	0	1
CASZ1 WILD-TYPE	113	179	153	83	110

'CASZ1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 1

Table S515. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CASZ1 MUTATED	1	0	3
CASZ1 WILD-TYPE	145	129	115

'CASZ1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.938 (Fisher's exact test), Q value = 1

Table S516. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CASZ1 MUTATED	0	2	1	1	0
CASZ1 WILD-TYPE	59	107	89	103	31

'CASZ1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.98 (Fisher's exact test), Q value = 1

Table S517. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CASZ1 MUTATED	4	2	3	2	3	0	0
CASZ1 WILD-TYPE	175	133	212	154	222	48	15

'CASZ1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.699 (Fisher's exact test), Q value = 1

Table S518. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CASZ1 MUTATED	4	2	2	4	2	0
CASZ1 WILD-TYPE	164	220	186	168	169	52

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.941 (Fisher's exact test), Q value = 1

Table S519. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CASZ1 MUTATED	4	6	3
CASZ1 WILD-TYPE	266	407	271

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S520. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CASZ1 MUTATED	2	2	5	3	1
CASZ1 WILD-TYPE	150	172	385	122	115

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.92 (Fisher's exact test), Q value = 1

Table S521. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
CASZ1 MUTATED	4	3	2
CASZ1 WILD-TYPE	244	214	185

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.958 (Fisher's exact test), Q value = 1

Table S522. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
CASZ1 MUTATED	2	1	3	1	2	0
CASZ1 WILD-TYPE	113	62	186	116	106	60

'CDC42EP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.52 (Fisher's exact test), Q value = 1

Table S523. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CDC42EP1 MUTATED	0	0	1	2	0	0	0	1
CDC42EP1 WILD-TYPE	21	38	113	95	108	73	19	38

'CDC42EP1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.463 (Fisher's exact test), Q value = 1

Table S524. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CDC42EP1 MUTATED	1	1	0	2	0
CDC42EP1 WILD-TYPE	95	151	116	87	56

'CDC42EP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.513 (Fisher's exact test), Q value = 1

Table S525. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
CDC42EP1 MUTATED	2	0	1	2	0
CDC42EP1 WILD-TYPE	365	226	90	239	37

'CDC42EP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 1

Table S526. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
CDC42EP1 MUTATED	0	1	0	0	2
CDC42EP1 WILD-TYPE	116	180	157	83	109

'CDC42EP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S527. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
CDC42EP1 MUTATED	2	1	1
CDC42EP1 WILD-TYPE	144	128	117

'CDC42EP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S528. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
CDC42EP1 MUTATED	1	1	2	0	0
CDC42EP1 WILD-TYPE	58	108	88	104	31

'CDC42EP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 1

Table S529. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
CDC42EP1 MUTATED	2	1	0	0	1	1	0
CDC42EP1 WILD-TYPE	177	134	215	156	224	47	15

'CDC42EP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S530. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
CDC42EP1 MUTATED	2	2	0	0	1	0
CDC42EP1 WILD-TYPE	166	220	188	172	170	52

'CDC42EP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.612 (Fisher's exact test), Q value = 1

Table S531. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
CDC42EP1 MUTATED	2	1	2
CDC42EP1 WILD-TYPE	268	412	272

'CDC42EP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0843 (Fisher's exact test), Q value = 1

Table S532. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
CDC42EP1 MUTATED	1	1	0	1	2
CDC42EP1 WILD-TYPE	151	173	390	124	114

'C1QTNF5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.647 (Fisher's exact test), Q value = 1

Table S533. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
C1QTNF5 MUTATED	0	0	2	0	0	1	0	0
C1QTNF5 WILD-TYPE	21	38	112	97	108	72	19	39

'C1QTNF5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S534. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
C1QTNF5 MUTATED	2	0	1	0	0
C1QTNF5 WILD-TYPE	94	152	115	89	56

'C1QTNF5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.508 (Fisher's exact test), Q value = 1

Table S535. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
C1QTNF5 MUTATED	2	1	2	2	0
C1QTNF5 WILD-TYPE	365	225	89	239	37

'C1QTNF5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.645 (Fisher's exact test), Q value = 1

Table S536. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
C1QTNF5 MUTATED	2	0	1
C1QTNF5 WILD-TYPE	144	129	117

'C1QTNF5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.711 (Fisher's exact test), Q value = 1

Table S537. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
C1QTNF5 MUTATED	1	1	1	0	0
C1QTNF5 WILD-TYPE	58	108	89	104	31

'C1QTNF5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S538. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
C1QTNF5 MUTATED	0	1	1	3	2	0	0
C1QTNF5 WILD-TYPE	179	134	214	153	223	48	15

'C1QTNF5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.285 (Fisher's exact test), Q value = 1

Table S539. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
C1QTNF5 MUTATED	0	2	0	2	2	1
C1QTNF5 WILD-TYPE	168	220	188	170	169	51

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.303 (Fisher's exact test), Q value = 1

Table S540. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
C1QTNF5 MUTATED	3	1	3
C1QTNF5 WILD-TYPE	267	412	271

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00993 (Fisher's exact test), Q value = 1

Table S541. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
C1QTNF5 MUTATED	1	4	0	0	2
C1QTNF5 WILD-TYPE	151	170	390	125	114

Figure S117. Get High-res Image Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.261 (Fisher's exact test), Q value = 1

Table S542. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
C1QTNF5 MUTATED	1	3	0
C1QTNF5 WILD-TYPE	247	214	187

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.124 (Fisher's exact test), Q value = 1

Table S543. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
C1QTNF5 MUTATED	0	0	1	0	3	0
C1QTNF5 WILD-TYPE	115	63	188	117	105	60

'TGS1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S544. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TGS1 MUTATED	1	0	1	1	1	2	0	0
TGS1 WILD-TYPE	20	38	113	96	107	71	19	39

'TGS1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S545. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TGS1 MUTATED	1	1	3	1	0
TGS1 WILD-TYPE	95	151	113	88	56

'TGS1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.443 (Fisher's exact test), Q value = 1

Table S546. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
TGS1 MUTATED	7	2	0	2	1
TGS1 WILD-TYPE	360	224	91	239	36

'TGS1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.248 (Fisher's exact test), Q value = 1

Table S547. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
TGS1 MUTATED	0	4	4	0	3
TGS1 WILD-TYPE	116	177	153	83	108

'TGS1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.114 (Fisher's exact test), Q value = 1

Table S548. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
TGS1 MUTATED	1	0	3
TGS1 WILD-TYPE	145	129	115

'TGS1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S549. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
TGS1 MUTATED	0	1	1	1	1
TGS1 WILD-TYPE	59	108	89	103	30

'TGS1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.756 (Fisher's exact test), Q value = 1

Table S550. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
TGS1 MUTATED	2	1	3	4	2	1	0
TGS1 WILD-TYPE	177	134	212	152	223	47	15

'TGS1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0796 (Fisher's exact test), Q value = 1

Table S551. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
TGS1 MUTATED	1	2	3	6	0	1
TGS1 WILD-TYPE	167	220	185	166	171	51

'TGS1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S552. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
TGS1 MUTATED	4	8	1
TGS1 WILD-TYPE	266	405	273

'TGS1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.155 (Fisher's exact test), Q value = 1

Table S553. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
TGS1 MUTATED	3	1	9	0	0
TGS1 WILD-TYPE	149	173	381	125	116

'TGS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.802 (Fisher's exact test), Q value = 1

Table S554. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187
TGS1 MUTATED	3	3	1
TGS1 WILD-TYPE	245	214	186

'TGS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0866 (Fisher's exact test), Q value = 1

Table S555. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	115	63	189	117	108	60
TGS1 MUTATED	0	0	3	0	4	0
TGS1 WILD-TYPE	115	63	186	117	104	60

'USP36 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S556. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
USP36 MUTATED	0	0	2	3	2	0	0	0
USP36 WILD-TYPE	21	38	112	94	106	73	19	39

'USP36 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.183 (Fisher's exact test), Q value = 1

Table S557. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
USP36 MUTATED	2	1	0	3	1
USP36 WILD-TYPE	94	151	116	86	55

'USP36 MUTATION STATUS' versus 'CN_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S558. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	367	226	91	241	37
USP36 MUTATED	3	2	1	2	0
USP36 WILD-TYPE	364	224	90	239	37

'USP36 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S559. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	116	181	157	83	111
USP36 MUTATED	1	1	1	0	0
USP36 WILD-TYPE	115	180	156	83	111

'USP36 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.714 (Fisher's exact test), Q value = 1

Table S560. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	146	129	118
USP36 MUTATED	3	3	1
USP36 WILD-TYPE	143	126	117

'USP36 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.315 (Fisher's exact test), Q value = 1

Table S561. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	59	109	90	104	31
USP36 MUTATED	1	0	3	3	0
USP36 WILD-TYPE	58	109	87	101	31

'USP36 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S562. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7
ALL	179	135	215	156	225	48	15
USP36 MUTATED	3	0	2	0	3	0	0
USP36 WILD-TYPE	176	135	213	156	222	48	15

'USP36 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.128 (Fisher's exact test), Q value = 1

Table S563. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	168	222	188	172	171	52
USP36 MUTATED	3	0	2	0	3	0
USP36 WILD-TYPE	165	222	186	172	168	52

'USP36 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.904 (Fisher's exact test), Q value = 1

Table S564. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	270	413	274
USP36 MUTATED	2	3	3
USP36 WILD-TYPE	268	410	271

'USP36 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.363 (Fisher's exact test), Q value = 1

Table S565. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	152	174	390	125	116
USP36 MUTATED	1	1	3	3	0
USP36 WILD-TYPE	151	173	387	122	116

'USP36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S566. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	248	217	187