Correlation between gene mutation status and molecular subtypes

Adrenocortical Carcinoma (Primary solid tumor)

21 August 2015 | analyses__2015_08_21

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 (2015): Correlation between gene mutation status and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1QR4W81

Overview

Introduction

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

Summary

Testing the association between mutation status of 116 genes and 10 molecular subtypes across 62 patients, one significant finding detected with P value < 0.05 and Q value < 0.25.

CTNNB1 mutation correlated to 'MIRSEQ_CNMF'.

Results

Overview of the results

Table 1. Get Full Table Overview of the association between mutation status of 116 genes and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, one significant finding detected.


		Clinical Features	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
CTNNB1	8 (13%)	54	0.396 (1.00)	0.0609 (1.00)	0.639 (1.00)	0.314 (1.00)	0.00545 (1.00)	0.00625 (1.00)	8e-05 (0.0928)	0.17 (1.00)	0.0458 (1.00)	0.547 (1.00)
ZFPM1	24 (39%)	38	0.804 (1.00)	0.815 (1.00)	0.718 (1.00)	0.871 (1.00)	0.373 (1.00)	0.746 (1.00)	0.824 (1.00)	0.922 (1.00)	0.383 (1.00)	0.743 (1.00)
LACTB	19 (31%)	43	0.438 (1.00)	0.689 (1.00)	0.686 (1.00)	0.567 (1.00)	1 (1.00)	0.318 (1.00)	0.377 (1.00)	0.751 (1.00)	0.322 (1.00)	0.179 (1.00)
CCDC102A	17 (27%)	45	0.0186 (1.00)	0.934 (1.00)	0.67 (1.00)	0.506 (1.00)	0.975 (1.00)	0.823 (1.00)	0.498 (1.00)	0.469 (1.00)	0.806 (1.00)	0.511 (1.00)
ZNF517	13 (21%)	49	0.167 (1.00)	0.981 (1.00)	1 (1.00)		0.821 (1.00)	0.951 (1.00)	0.173 (1.00)	0.696 (1.00)	0.724 (1.00)	0.775 (1.00)
MAL2	11 (18%)	51	0.499 (1.00)	0.312 (1.00)	1 (1.00)	1 (1.00)	0.255 (1.00)	0.506 (1.00)	0.223 (1.00)	0.268 (1.00)	1 (1.00)	0.869 (1.00)
TOR3A	12 (19%)	50	0.612 (1.00)	0.0135 (1.00)	0.153 (1.00)	0.313 (1.00)	0.674 (1.00)	0.0054 (1.00)	1 (1.00)	0.843 (1.00)	0.911 (1.00)	0.808 (1.00)
TP53	13 (21%)	49	0.114 (1.00)	0.818 (1.00)	0.221 (1.00)	0.603 (1.00)	0.0208 (1.00)	0.321 (1.00)	0.00523 (1.00)	0.598 (1.00)	0.0493 (1.00)	0.185 (1.00)
CLDN23	10 (16%)	52	0.567 (1.00)	0.25 (1.00)	1 (1.00)	0.35 (1.00)	0.0295 (1.00)	0.211 (1.00)	0.0975 (1.00)	0.182 (1.00)	0.417 (1.00)	0.544 (1.00)
GDF1	5 (8%)	57	0.859 (1.00)	0.286 (1.00)	1 (1.00)		0.436 (1.00)	0.354 (1.00)	0.0553 (1.00)	0.511 (1.00)	0.172 (1.00)	0.173 (1.00)
LZTR1	6 (10%)	56	0.0525 (1.00)	0.852 (1.00)	1 (1.00)		0.0883 (1.00)	0.117 (1.00)	0.401 (1.00)	0.0154 (1.00)	1 (1.00)	0.455 (1.00)
ANKRD43	19 (31%)	43	0.161 (1.00)	0.564 (1.00)	0.686 (1.00)	0.603 (1.00)	0.28 (1.00)	0.228 (1.00)	0.367 (1.00)	0.102 (1.00)	0.606 (1.00)	0.463 (1.00)
KCNK17	9 (15%)	53	0.204 (1.00)	0.0403 (1.00)	0.0178 (1.00)	0.442 (1.00)	0.104 (1.00)	0.00892 (1.00)	0.889 (1.00)	0.546 (1.00)	0.718 (1.00)	0.445 (1.00)
RINL	8 (13%)	54	0.341 (1.00)	0.676 (1.00)	1 (1.00)	0.579 (1.00)	0.469 (1.00)	0.277 (1.00)	0.761 (1.00)	0.17 (1.00)	0.348 (1.00)	0.749 (1.00)
ZAR1	11 (18%)	51	0.645 (1.00)	0.67 (1.00)	1 (1.00)	0.792 (1.00)	0.622 (1.00)	0.869 (1.00)	0.714 (1.00)	0.971 (1.00)	1 (1.00)	0.602 (1.00)
APOE	7 (11%)	55	1 (1.00)	0.595 (1.00)	1 (1.00)	0.382 (1.00)	0.0592 (1.00)	0.399 (1.00)	0.193 (1.00)	0.791 (1.00)	0.42 (1.00)	1 (1.00)
GPRIN2	8 (13%)	54	0.867 (1.00)	0.383 (1.00)	1 (1.00)	0.694 (1.00)	0.681 (1.00)	0.4 (1.00)	0.581 (1.00)	0.755 (1.00)	0.594 (1.00)	0.18 (1.00)
ASPDH	8 (13%)	54	0.295 (1.00)	0.691 (1.00)	1 (1.00)	0.315 (1.00)	0.0234 (1.00)	0.396 (1.00)	0.476 (1.00)	0.0323 (1.00)	0.211 (1.00)	0.0812 (1.00)
ERCC2	10 (16%)	52	1 (1.00)	0.233 (1.00)	0.0377 (1.00)	0.231 (1.00)	0.482 (1.00)	0.174 (1.00)	0.599 (1.00)	0.27 (1.00)	0.336 (1.00)	0.207 (1.00)
IDUA	8 (13%)	54	0.384 (1.00)	0.852 (1.00)	1 (1.00)	0.792 (1.00)	0.509 (1.00)	0.549 (1.00)	0.199 (1.00)	0.43 (1.00)	0.458 (1.00)	0.647 (1.00)
C1ORF106	9 (15%)	53	0.841 (1.00)	0.47 (1.00)	0.639 (1.00)	0.0469 (1.00)	0.34 (1.00)	0.759 (1.00)	0.474 (1.00)	0.689 (1.00)	0.053 (1.00)	1 (1.00)
C10ORF95	6 (10%)	56	0.199 (1.00)	0.379 (1.00)	1 (1.00)		0.514 (1.00)	1 (1.00)	0.488 (1.00)	0.359 (1.00)	1 (1.00)	1 (1.00)
RGS9BP	8 (13%)	54	0.724 (1.00)	0.629 (1.00)	1 (1.00)	0.129 (1.00)	1 (1.00)	0.934 (1.00)	0.218 (1.00)	0.962 (1.00)	0.342 (1.00)	0.75 (1.00)
THEM4	5 (8%)	57	0.279 (1.00)	0.766 (1.00)	1 (1.00)		0.438 (1.00)	0.877 (1.00)	0.179 (1.00)	0.109 (1.00)	0.231 (1.00)	0.262 (1.00)
TSC22D2	8 (13%)	54	0.946 (1.00)	0.541 (1.00)	1 (1.00)	0.954 (1.00)	0.779 (1.00)	0.817 (1.00)	0.76 (1.00)	0.432 (1.00)	0.347 (1.00)	1 (1.00)
SYT8	8 (13%)	54	0.441 (1.00)	0.44 (1.00)	1 (1.00)	1 (1.00)	0.0417 (1.00)	0.176 (1.00)	1 (1.00)	0.184 (1.00)	0.749 (1.00)	0.497 (1.00)
PLIN5	5 (8%)	57	0.502 (1.00)	0.695 (1.00)	1 (1.00)	0.383 (1.00)	0.8 (1.00)	0.668 (1.00)	0.266 (1.00)	0.268 (1.00)	0.511 (1.00)	0.0476 (1.00)
LRIG1	16 (26%)	46	0.542 (1.00)	0.959 (1.00)	1 (1.00)	1 (1.00)	0.864 (1.00)	0.61 (1.00)	0.364 (1.00)	0.43 (1.00)	0.577 (1.00)	0.903 (1.00)
HHIPL1	6 (10%)	56	0.277 (1.00)	0.436 (1.00)	0.484 (1.00)		0.632 (1.00)	0.513 (1.00)	0.204 (1.00)	0.425 (1.00)	0.202 (1.00)	0.334 (1.00)
CCDC105	6 (10%)	56	1 (1.00)	0.0114 (1.00)	0.226 (1.00)	0.676 (1.00)	0.939 (1.00)	0.794 (1.00)	1 (1.00)	0.0538 (1.00)	0.216 (1.00)	0.208 (1.00)
C19ORF10	7 (11%)	55	0.783 (1.00)	0.423 (1.00)	0.6 (1.00)	0.394 (1.00)	0.24 (1.00)	0.124 (1.00)	0.551 (1.00)	0.863 (1.00)	0.639 (1.00)	0.714 (1.00)
OPRD1	12 (19%)	50	0.967 (1.00)	0.435 (1.00)	0.655 (1.00)	0.48 (1.00)	0.798 (1.00)	0.96 (1.00)	0.298 (1.00)	0.611 (1.00)	1 (1.00)	0.513 (1.00)
ATXN1	10 (16%)	52	0.556 (1.00)	0.139 (1.00)	0.6 (1.00)	0.916 (1.00)	0.24 (1.00)	0.654 (1.00)	0.286 (1.00)	0.871 (1.00)	0.236 (1.00)	0.316 (1.00)
AATK	6 (10%)	56	0.139 (1.00)	0.333 (1.00)	1 (1.00)		0.438 (1.00)	0.356 (1.00)	1 (1.00)	0.545 (1.00)	1 (1.00)	0.62 (1.00)
ZNF628	7 (11%)	55	0.209 (1.00)	0.926 (1.00)	1 (1.00)	0.672 (1.00)	0.307 (1.00)	0.114 (1.00)	0.0913 (1.00)	0.502 (1.00)	0.283 (1.00)	0.544 (1.00)
KRTAP4-5	5 (8%)	57	0.632 (1.00)	0.285 (1.00)	0.484 (1.00)		0.909 (1.00)	0.875 (1.00)	1 (1.00)	0.84 (1.00)	0.434 (1.00)	1 (1.00)
NOXA1	5 (8%)	57	0.142 (1.00)	0.515 (1.00)	1 (1.00)		0.223 (1.00)	0.445 (1.00)	0.294 (1.00)	0.349 (1.00)	0.255 (1.00)	0.719 (1.00)
TRIOBP	10 (16%)	52	0.622 (1.00)	0.229 (1.00)	0.583 (1.00)	0.128 (1.00)	1 (1.00)	0.111 (1.00)	0.713 (1.00)	0.872 (1.00)	1 (1.00)	0.774 (1.00)
ZNF598	12 (19%)	50	0.108 (1.00)	0.315 (1.00)	1 (1.00)	0.748 (1.00)	0.49 (1.00)	0.952 (1.00)	1 (1.00)	0.224 (1.00)	0.902 (1.00)	1 (1.00)
IRX3	5 (8%)	57	0.144 (1.00)	0.704 (1.00)	0.484 (1.00)		0.524 (1.00)	0.12 (1.00)	0.176 (1.00)	0.778 (1.00)	0.23 (1.00)	0.452 (1.00)
WDR34	5 (8%)	57	0.629 (1.00)	0.829 (1.00)	0.484 (1.00)		0.865 (1.00)	0.813 (1.00)	0.843 (1.00)	0.547 (1.00)	0.844 (1.00)	0.332 (1.00)
BHLHE22	5 (8%)	57	0.426 (1.00)	0.0735 (1.00)	1 (1.00)	0.916 (1.00)	0.118 (1.00)	0.814 (1.00)	0.583 (1.00)	0.837 (1.00)	0.726 (1.00)	0.835 (1.00)
PANK2	5 (8%)	57	0.631 (1.00)	0.434 (1.00)	0.226 (1.00)	0.353 (1.00)	0.114 (1.00)	0.0504 (1.00)	0.427 (1.00)	0.349 (1.00)	1 (1.00)	0.255 (1.00)
FPGS	5 (8%)	57	1 (1.00)	1 (1.00)	1 (1.00)	0.351 (1.00)	0.667 (1.00)	0.601 (1.00)	0.0556 (1.00)	0.623 (1.00)	0.823 (1.00)	0.617 (1.00)
GLTPD2	6 (10%)	56	0.879 (1.00)	0.841 (1.00)	0.484 (1.00)		0.829 (1.00)	0.397 (1.00)	0.549 (1.00)	0.529 (1.00)	0.873 (1.00)	0.132 (1.00)
TNIP2	5 (8%)	57	0.631 (1.00)	0.705 (1.00)	1 (1.00)		0.738 (1.00)	0.877 (1.00)	1 (1.00)	0.414 (1.00)	1 (1.00)	0.453 (1.00)
AKAP2	6 (10%)	56	0.114 (1.00)	0.841 (1.00)	1 (1.00)	0.753 (1.00)	0.83 (1.00)	0.594 (1.00)	0.747 (1.00)	0.282 (1.00)	0.749 (1.00)	0.41 (1.00)
RREB1	5 (8%)	57	0.728 (1.00)	0.85 (1.00)	0.206 (1.00)		0.619 (1.00)	1 (1.00)	0.526 (1.00)	0.548 (1.00)	0.172 (1.00)	0.352 (1.00)
TPO	12 (19%)	50	0.262 (1.00)	0.3 (1.00)	0.102 (1.00)	0.693 (1.00)	0.176 (1.00)	0.125 (1.00)	0.098 (1.00)	0.343 (1.00)	1 (1.00)	0.17 (1.00)
OBSCN	18 (29%)	44	0.311 (1.00)	0.519 (1.00)	1 (1.00)	0.544 (1.00)	0.672 (1.00)	0.807 (1.00)	0.15 (1.00)	0.498 (1.00)	1 (1.00)	0.385 (1.00)
SNED1	5 (8%)	57	0.628 (1.00)	0.311 (1.00)	0.464 (1.00)		0.397 (1.00)	0.667 (1.00)	0.0936 (1.00)	0.663 (1.00)	1 (1.00)	0.543 (1.00)
MEN1	5 (8%)	57	0.417 (1.00)	0.0491 (1.00)	0.484 (1.00)		0.0129 (1.00)	0.00621 (1.00)	0.206 (1.00)	0.0428 (1.00)	0.14 (1.00)	0.204 (1.00)
BTBD11	6 (10%)	56	1 (1.00)	0.313 (1.00)	1 (1.00)		0.485 (1.00)	1 (1.00)	0.486 (1.00)	0.185 (1.00)	0.726 (1.00)	0.333 (1.00)
RNF149	4 (6%)	58	0.339 (1.00)	0.0368 (1.00)	0.583 (1.00)	0.955 (1.00)	0.439 (1.00)	0.6 (1.00)	0.317 (1.00)	0.261 (1.00)	0.664 (1.00)	0.173 (1.00)
KIAA1984	4 (6%)	58	0.419 (1.00)	0.709 (1.00)	0.226 (1.00)	0.506 (1.00)	0.127 (1.00)	0.0494 (1.00)	0.0318 (1.00)	0.585 (1.00)	0.665 (1.00)	0.796 (1.00)
CCDC150	4 (6%)	58	0.177 (1.00)	0.85 (1.00)	0.226 (1.00)	0.601 (1.00)	0.241 (1.00)	0.119 (1.00)	0.4 (1.00)	0.214 (1.00)	1 (1.00)	0.453 (1.00)
FAM18B2	4 (6%)	58	0.749 (1.00)	0.333 (1.00)	1 (1.00)		0.166 (1.00)	0.483 (1.00)	0.314 (1.00)	0.51 (1.00)	0.824 (1.00)	0.172 (1.00)
MUC5B	22 (35%)	40	1 (1.00)	0.627 (1.00)	1 (1.00)	0.812 (1.00)	0.734 (1.00)	0.673 (1.00)	0.715 (1.00)	0.615 (1.00)	1 (1.00)	0.529 (1.00)
PTPLA	4 (6%)	58	0.421 (1.00)	0.323 (1.00)	1 (1.00)		0.338 (1.00)	0.443 (1.00)	0.777 (1.00)	1 (1.00)	0.774 (1.00)	1 (1.00)
SRPX	3 (5%)	59	0.754 (1.00)	0.113 (1.00)	1 (1.00)		0.617 (1.00)	1 (1.00)	0.777 (1.00)	0.717 (1.00)	1 (1.00)	0.402 (1.00)
GARS	19 (31%)	43	0.073 (1.00)	0.091 (1.00)	0.228 (1.00)	0.334 (1.00)	0.338 (1.00)	0.102 (1.00)	0.121 (1.00)	0.403 (1.00)	0.213 (1.00)	0.394 (1.00)
PRSS27	3 (5%)	59	1 (1.00)	0.91 (1.00)	1 (1.00)		0.62 (1.00)	0.0523 (1.00)	0.129 (1.00)	1 (1.00)	0.614 (1.00)	0.557 (1.00)
SEMA5B	8 (13%)	54	0.337 (1.00)	0.269 (1.00)	0.311 (1.00)	0.173 (1.00)	0.398 (1.00)	0.212 (1.00)	0.649 (1.00)	0.303 (1.00)	0.362 (1.00)	0.412 (1.00)
CD320	4 (6%)	58	1 (1.00)	0.851 (1.00)	1 (1.00)		0.738 (1.00)	0.658 (1.00)	0.399 (1.00)	0.228 (1.00)	0.23 (1.00)	0.26 (1.00)
TAF5	4 (6%)	58	1 (1.00)	0.77 (1.00)	0.583 (1.00)	0.955 (1.00)	1 (1.00)	0.876 (1.00)	0.00949 (1.00)	0.117 (1.00)	0.0557 (1.00)	0.0146 (1.00)
NEFH	6 (10%)	56	0.0516 (1.00)	0.172 (1.00)	0.484 (1.00)		0.113 (1.00)	0.0519 (1.00)	0.399 (1.00)	0.212 (1.00)	0.668 (1.00)	0.453 (1.00)
DMKN	3 (5%)	59	1 (1.00)	0.328 (1.00)	0.464 (1.00)		0.618 (1.00)	0.444 (1.00)	0.00601 (1.00)	0.567 (1.00)	0.254 (1.00)	1 (1.00)
NPTX1	3 (5%)	59	0.641 (1.00)	1 (1.00)	0.464 (1.00)		1 (1.00)	0.813 (1.00)	0.583 (1.00)	0.794 (1.00)	0.351 (1.00)	0.555 (1.00)
NOTCH2	5 (8%)	57	0.279 (1.00)	0.896 (1.00)	1 (1.00)		0.522 (1.00)	0.115 (1.00)	0.0307 (1.00)	0.319 (1.00)	0.667 (1.00)	0.795 (1.00)
RNF39	5 (8%)	57	0.726 (1.00)	0.378 (1.00)	0.6 (1.00)	0.794 (1.00)	0.175 (1.00)	0.265 (1.00)	0.159 (1.00)	0.7 (1.00)	0.239 (1.00)	0.685 (1.00)
KBTBD13	9 (15%)	53	0.458 (1.00)	0.114 (1.00)	0.311 (1.00)	0.791 (1.00)	0.685 (1.00)	0.118 (1.00)	1 (1.00)	0.328 (1.00)	1 (1.00)	0.603 (1.00)
IER5	3 (5%)	59	0.199 (1.00)		0.464 (1.00)
SCRT1	3 (5%)	59	1 (1.00)	0.429 (1.00)	0.464 (1.00)		0.475 (1.00)	0.617 (1.00)	0.432 (1.00)	0.795 (1.00)	0.467 (1.00)	1 (1.00)
KNDC1	9 (15%)	53	0.353 (1.00)	0.0652 (1.00)	1 (1.00)	0.552 (1.00)	0.0271 (1.00)	0.324 (1.00)	0.42 (1.00)	0.366 (1.00)	0.191 (1.00)	0.382 (1.00)
MAP1S	5 (8%)	57	0.155 (1.00)	0.276 (1.00)	1 (1.00)	0.418 (1.00)	0.397 (1.00)	1 (1.00)	1 (1.00)	0.834 (1.00)	0.421 (1.00)	0.836 (1.00)
RGMB	6 (10%)	56	0.652 (1.00)		1 (1.00)
LRP11	6 (10%)	56	1 (1.00)	0.082 (1.00)	1 (1.00)		0.798 (1.00)	0.665 (1.00)	0.581 (1.00)	0.936 (1.00)	0.84 (1.00)	0.837 (1.00)
AR	4 (6%)	58	0.419 (1.00)	0.516 (1.00)	1 (1.00)	0.955 (1.00)	0.476 (1.00)	0.443 (1.00)	0.429 (1.00)	1 (1.00)	0.253 (1.00)	1 (1.00)
VARS	6 (10%)	56	1 (1.00)	0.424 (1.00)	0.226 (1.00)	0.383 (1.00)	0.218 (1.00)	0.0665 (1.00)	0.646 (1.00)	0.864 (1.00)	0.751 (1.00)	1 (1.00)
SEZ6L2	8 (13%)	54	0.38 (1.00)	0.665 (1.00)	1 (1.00)	0.788 (1.00)	0.827 (1.00)	1 (1.00)	0.46 (1.00)	0.631 (1.00)	1 (1.00)	0.849 (1.00)
PABPC1	4 (6%)	58	0.42 (1.00)		0.464 (1.00)
FANK1	3 (5%)	59	1 (1.00)	0.325 (1.00)	1 (1.00)		0.857 (1.00)	0.285 (1.00)	0.777 (1.00)	0.235 (1.00)	0.775 (1.00)	0.258 (1.00)
NMU	5 (8%)	57	0.914 (1.00)	1 (1.00)	0.464 (1.00)		0.0703 (1.00)	0.614 (1.00)	1 (1.00)	0.545 (1.00)	0.826 (1.00)	0.621 (1.00)
ADAD2	4 (6%)	58	0.418 (1.00)	0.574 (1.00)	1 (1.00)		0.74 (1.00)	0.171 (1.00)	0.00931 (1.00)	0.511 (1.00)	0.0572 (1.00)	0.353 (1.00)
CLIC6	5 (8%)	57	0.632 (1.00)	1 (1.00)	0.206 (1.00)		0.666 (1.00)	0.118 (1.00)	0.177 (1.00)	0.584 (1.00)	0.293 (1.00)	1 (1.00)
PCDHB13	5 (8%)	57	0.394 (1.00)	0.141 (1.00)	0.484 (1.00)		0.127 (1.00)	0.355 (1.00)	0.666 (1.00)	0.0608 (1.00)	0.438 (1.00)	0.453 (1.00)
PLEC	13 (21%)	49	0.426 (1.00)	0.673 (1.00)	0.333 (1.00)	0.0461 (1.00)	0.207 (1.00)	0.717 (1.00)	0.598 (1.00)	0.634 (1.00)	0.142 (1.00)	0.625 (1.00)
AMDHD1	10 (16%)	52	0.658 (1.00)	0.76 (1.00)	0.226 (1.00)	0.352 (1.00)	0.59 (1.00)	0.137 (1.00)	0.176 (1.00)	0.851 (1.00)	0.902 (1.00)	0.683 (1.00)
DSPP	9 (15%)	53	0.609 (1.00)	0.0606 (1.00)	1 (1.00)	0.692 (1.00)	1 (1.00)	0.482 (1.00)	0.444 (1.00)	0.538 (1.00)	0.9 (1.00)	1 (1.00)
TMEM189	3 (5%)	59	0.195 (1.00)		0.464 (1.00)
CRIPAK	10 (16%)	52	0.385 (1.00)	0.927 (1.00)	0.6 (1.00)	0.934 (1.00)	0.487 (1.00)	0.689 (1.00)	0.894 (1.00)	0.329 (1.00)	0.477 (1.00)	0.365 (1.00)
PDCD6	3 (5%)	59	0.299 (1.00)	0.649 (1.00)	0.464 (1.00)				1 (1.00)	0.64 (1.00)	1 (1.00)	1 (1.00)
MAP7	3 (5%)	59	1 (1.00)	0.65 (1.00)	0.464 (1.00)		1 (1.00)	0.814 (1.00)	0.582 (1.00)	0.792 (1.00)	1 (1.00)	0.557 (1.00)
NOM1	6 (10%)	56	1 (1.00)	0.313 (1.00)	1 (1.00)		0.864 (1.00)	1 (1.00)	1 (1.00)	0.788 (1.00)	0.42 (1.00)	1 (1.00)
SHOX2	3 (5%)	59	0.408 (1.00)		0.464 (1.00)
HSD17B1	4 (6%)	58	0.914 (1.00)	0.0499 (1.00)	0.583 (1.00)	0.506 (1.00)	0.909 (1.00)	0.00801 (1.00)	1 (1.00)	0.842 (1.00)	0.547 (1.00)	0.796 (1.00)
PRKAR1A	6 (10%)	56	0.615 (1.00)	1 (1.00)	0.6 (1.00)	0.793 (1.00)	0.277 (1.00)	0.402 (1.00)	0.103 (1.00)	0.591 (1.00)	0.0477 (1.00)	0.587 (1.00)
KRTAP5-5	3 (5%)	59	1 (1.00)
DLEU7	3 (5%)	59	0.528 (1.00)		1 (1.00)
FEZ2	3 (5%)	59	0.463 (1.00)	0.355 (1.00)	1 (1.00)		0.219 (1.00)	0.815 (1.00)	0.193 (1.00)	0.794 (1.00)	0.774 (1.00)	0.557 (1.00)
RASIP1	6 (10%)	56	0.36 (1.00)	0.349 (1.00)	1 (1.00)		0.0412 (1.00)	0.188 (1.00)	0.0551 (1.00)	0.7 (1.00)	0.418 (1.00)	0.713 (1.00)
JMJD4	3 (5%)	59	1 (1.00)		0.484 (1.00)
COQ2	5 (8%)	57	0.36 (1.00)	0.766 (1.00)	1 (1.00)		0.438 (1.00)	0.601 (1.00)	1 (1.00)	0.671 (1.00)	0.549 (1.00)	0.619 (1.00)
UQCRFS1	5 (8%)	57	0.753 (1.00)	0.587 (1.00)	0.484 (1.00)		1 (1.00)	0.877 (1.00)	0.488 (1.00)	0.203 (1.00)	0.842 (1.00)	0.333 (1.00)
C9ORF66	5 (8%)	57	1 (1.00)	0.928 (1.00)	1 (1.00)		1 (1.00)	0.512 (1.00)	0.576 (1.00)	0.936 (1.00)	0.348 (1.00)	0.542 (1.00)
POLRMT	4 (6%)	58	0.305 (1.00)	0.0299 (1.00)	0.0873 (1.00)	0.348 (1.00)	0.363 (1.00)	0.0596 (1.00)	0.242 (1.00)	0.258 (1.00)	0.356 (1.00)	0.175 (1.00)
ADAMTS7	4 (6%)	58	0.2 (1.00)	0.479 (1.00)	0.0873 (1.00)	0.348 (1.00)	0.0894 (1.00)	0.435 (1.00)	0.082 (1.00)	0.257 (1.00)	0.122 (1.00)	0.0376 (1.00)
BTNL9	4 (6%)	58	1 (1.00)	0.112 (1.00)	1 (1.00)		0.144 (1.00)	0.0975 (1.00)	0.13 (1.00)	1 (1.00)	0.255 (1.00)	1 (1.00)
NF1	7 (11%)	55	0.251 (1.00)	0.903 (1.00)	0.102 (1.00)	0.394 (1.00)	0.361 (1.00)	0.192 (1.00)	0.281 (1.00)	0.886 (1.00)	1 (1.00)	0.0996 (1.00)
ZNF814	3 (5%)	59	1 (1.00)		1 (1.00)
RNF135	3 (5%)	59	0.752 (1.00)		0.464 (1.00)
CSGALNACT2	3 (5%)	59	0.161 (1.00)	0.0363 (1.00)	0.464 (1.00)		0.773 (1.00)	0.813 (1.00)	0.581 (1.00)	0.875 (1.00)	0.35 (1.00)	0.404 (1.00)
SPIRE2	3 (5%)	59	0.3 (1.00)	0.0382 (1.00)	1 (1.00)		1 (1.00)	0.815 (1.00)	1 (1.00)	0.792 (1.00)	1 (1.00)	1 (1.00)
CYP4A22	4 (6%)	58	0.177 (1.00)	0.706 (1.00)	1 (1.00)		0.168 (1.00)	0.483 (1.00)	0.179 (1.00)	0.197 (1.00)	0.0825 (1.00)	0.617 (1.00)
HLA-A	3 (5%)	59	1 (1.00)	1 (1.00)	1 (1.00)		0.856 (1.00)	0.193 (1.00)	1 (1.00)	0.506 (1.00)	0.777 (1.00)	0.254 (1.00)
GLI3	5 (8%)	57	0.859 (1.00)	0.433 (1.00)			0.911 (1.00)	0.877 (1.00)	0.125 (1.00)	0.415 (1.00)	0.29 (1.00)	0.258 (1.00)

'ZFPM1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZFPM1 MUTATED	10	8	3	3
ZFPM1 WILD-TYPE	11	12	7	6

'ZFPM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.815 (Fisher's exact test), Q value = 1

Table S2. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ZFPM1 MUTATED	6	4	4	5	2
ZFPM1 WILD-TYPE	7	4	10	8	5

'ZFPM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.718 (Fisher's exact test), Q value = 1

Table S3. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZFPM1 MUTATED	5	7
ZFPM1 WILD-TYPE	8	8

'ZFPM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S4. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ZFPM1 MUTATED	2	4	1	1	1	1	1	1
ZFPM1 WILD-TYPE	3	2	4	2	2	0	2	1

'ZFPM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.373 (Fisher's exact test), Q value = 1

Table S5. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ZFPM1 MUTATED	7	1	7	6
ZFPM1 WILD-TYPE	9	7	7	10

'ZFPM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.746 (Fisher's exact test), Q value = 1

Table S6. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ZFPM1 MUTATED	8	6	1	6
ZFPM1 WILD-TYPE	8	10	3	12

'ZFPM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.824 (Fisher's exact test), Q value = 1

Table S7. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ZFPM1 MUTATED	10	5	6
ZFPM1 WILD-TYPE	16	6	12

'ZFPM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.922 (Fisher's exact test), Q value = 1

Table S8. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ZFPM1 MUTATED	5	8	2	5	1
ZFPM1 WILD-TYPE	8	10	6	9	1

'ZFPM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 1

Table S9. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ZFPM1 MUTATED	9	7	5
ZFPM1 WILD-TYPE	12	7	14

'ZFPM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S10. Gene #1: 'ZFPM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ZFPM1 MUTATED	12	7	2
ZFPM1 WILD-TYPE	18	9	6

'LACTB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 1

Table S11. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
LACTB MUTATED	6	5	3	5
LACTB WILD-TYPE	15	15	7	4

'LACTB MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.689 (Fisher's exact test), Q value = 1

Table S12. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
LACTB MUTATED	2	3	5	4	3
LACTB WILD-TYPE	11	5	9	9	4

'LACTB MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.686 (Fisher's exact test), Q value = 1

Table S13. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
LACTB MUTATED	3	5
LACTB WILD-TYPE	10	10

'LACTB MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S14. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
LACTB MUTATED	2	1	2	0	2	0	0	1
LACTB WILD-TYPE	3	5	3	3	1	1	3	1

'LACTB MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S15. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
LACTB MUTATED	5	2	5	5
LACTB WILD-TYPE	11	6	9	11

'LACTB MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.318 (Fisher's exact test), Q value = 1

Table S16. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
LACTB MUTATED	4	5	3	5
LACTB WILD-TYPE	12	11	1	13

'LACTB MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.377 (Fisher's exact test), Q value = 1

Table S17. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
LACTB MUTATED	6	5	6
LACTB WILD-TYPE	20	6	12

'LACTB MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.751 (Fisher's exact test), Q value = 1

Table S18. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
LACTB MUTATED	4	5	4	4	0
LACTB WILD-TYPE	9	13	4	10	2

'LACTB MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.322 (Fisher's exact test), Q value = 1

Table S19. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
LACTB MUTATED	8	2	7
LACTB WILD-TYPE	13	12	12

'LACTB MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.179 (Fisher's exact test), Q value = 1

Table S20. Gene #2: 'LACTB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
LACTB MUTATED	8	4	5
LACTB WILD-TYPE	22	12	3

'CCDC102A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0186 (Fisher's exact test), Q value = 1

Table S21. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CCDC102A MUTATED	4	8	0	5
CCDC102A WILD-TYPE	17	12	10	4

Figure S1. Get High-res Image Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'CCDC102A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S22. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CCDC102A MUTATED	3	2	4	4	3
CCDC102A WILD-TYPE	10	6	10	9	4

'CCDC102A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.67 (Fisher's exact test), Q value = 1

Table S23. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CCDC102A MUTATED	4	3
CCDC102A WILD-TYPE	9	12

'CCDC102A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S24. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CCDC102A MUTATED	1	1	0	1	1	1	1	1
CCDC102A WILD-TYPE	4	5	5	2	2	0	2	1

'CCDC102A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S25. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CCDC102A MUTATED	4	3	4	5
CCDC102A WILD-TYPE	12	5	10	11

'CCDC102A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.823 (Fisher's exact test), Q value = 1

Table S26. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CCDC102A MUTATED	4	4	1	7
CCDC102A WILD-TYPE	12	12	3	11

'CCDC102A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.498 (Fisher's exact test), Q value = 1

Table S27. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CCDC102A MUTATED	7	2	7
CCDC102A WILD-TYPE	19	9	11

'CCDC102A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.469 (Fisher's exact test), Q value = 1

Table S28. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CCDC102A MUTATED	2	6	4	4	0
CCDC102A WILD-TYPE	11	12	4	10	2

'CCDC102A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.806 (Fisher's exact test), Q value = 1

Table S29. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CCDC102A MUTATED	7	3	6
CCDC102A WILD-TYPE	14	11	13

'CCDC102A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.511 (Fisher's exact test), Q value = 1

Table S30. Gene #3: 'CCDC102A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CCDC102A MUTATED	7	6	3
CCDC102A WILD-TYPE	23	10	5

'ZNF517 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.167 (Fisher's exact test), Q value = 1

Table S31. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZNF517 MUTATED	7	5	0	1
ZNF517 WILD-TYPE	14	15	10	8

'ZNF517 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.981 (Fisher's exact test), Q value = 1

Table S32. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ZNF517 MUTATED	3	1	2	2	1
ZNF517 WILD-TYPE	10	7	12	11	6

'ZNF517 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S33. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZNF517 MUTATED	1	1
ZNF517 WILD-TYPE	12	14

'ZNF517 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.821 (Fisher's exact test), Q value = 1

Table S34. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ZNF517 MUTATED	4	1	2	2
ZNF517 WILD-TYPE	12	7	12	14

'ZNF517 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.951 (Fisher's exact test), Q value = 1

Table S35. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ZNF517 MUTATED	3	2	1	3
ZNF517 WILD-TYPE	13	14	3	15

'ZNF517 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.173 (Fisher's exact test), Q value = 1

Table S36. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ZNF517 MUTATED	3	4	2
ZNF517 WILD-TYPE	23	7	16

'ZNF517 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.696 (Fisher's exact test), Q value = 1

Table S37. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ZNF517 MUTATED	1	3	1	4	0
ZNF517 WILD-TYPE	12	15	7	10	2

'ZNF517 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.724 (Fisher's exact test), Q value = 1

Table S38. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ZNF517 MUTATED	4	3	2
ZNF517 WILD-TYPE	17	11	17

'ZNF517 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S39. Gene #4: 'ZNF517 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ZNF517 MUTATED	5	2	2
ZNF517 WILD-TYPE	25	14	6

'MAL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.499 (Fisher's exact test), Q value = 1

Table S40. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
MAL2 MUTATED	4	5	2	0
MAL2 WILD-TYPE	17	15	8	9

'MAL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.312 (Fisher's exact test), Q value = 1

Table S41. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
MAL2 MUTATED	3	2	0	2	1
MAL2 WILD-TYPE	10	6	14	11	6

'MAL2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S42. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
MAL2 MUTATED	2	2
MAL2 WILD-TYPE	11	13

'MAL2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S43. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
MAL2 MUTATED	1	1	1	1	0	0	0	0
MAL2 WILD-TYPE	4	5	4	2	3	1	3	2

'MAL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.255 (Fisher's exact test), Q value = 1

Table S44. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
MAL2 MUTATED	3	2	0	3
MAL2 WILD-TYPE	13	6	14	13

'MAL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S45. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
MAL2 MUTATED	4	1	0	3
MAL2 WILD-TYPE	12	15	4	15

'MAL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S46. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
MAL2 MUTATED	2	3	3
MAL2 WILD-TYPE	24	8	15

'MAL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.268 (Fisher's exact test), Q value = 1

Table S47. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
MAL2 MUTATED	0	3	1	4	0
MAL2 WILD-TYPE	13	15	7	10	2

'MAL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S48. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
MAL2 MUTATED	3	2	3
MAL2 WILD-TYPE	18	12	16

'MAL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.869 (Fisher's exact test), Q value = 1

Table S49. Gene #5: 'MAL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
MAL2 MUTATED	4	3	1
MAL2 WILD-TYPE	26	13	7

'TOR3A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.612 (Fisher's exact test), Q value = 1

Table S50. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TOR3A MUTATED	6	3	1	1
TOR3A WILD-TYPE	15	17	9	8

'TOR3A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0135 (Fisher's exact test), Q value = 1

Table S51. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TOR3A MUTATED	0	0	4	6	1
TOR3A WILD-TYPE	13	8	10	7	6

Figure S2. Get High-res Image Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'TOR3A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.153 (Fisher's exact test), Q value = 1

Table S52. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TOR3A MUTATED	4	1
TOR3A WILD-TYPE	9	14

'TOR3A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.313 (Fisher's exact test), Q value = 1

Table S53. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TOR3A MUTATED	0	1	2	0	0	1	1	0
TOR3A WILD-TYPE	5	5	3	3	3	0	2	2

'TOR3A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.674 (Fisher's exact test), Q value = 1

Table S54. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TOR3A MUTATED	2	1	4	4
TOR3A WILD-TYPE	14	7	10	12

'TOR3A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0054 (Fisher's exact test), Q value = 1

Table S55. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TOR3A MUTATED	0	3	3	5
TOR3A WILD-TYPE	16	13	1	13

Figure S3. Get High-res Image Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'TOR3A MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S56. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TOR3A MUTATED	5	2	4
TOR3A WILD-TYPE	21	9	14

'TOR3A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.843 (Fisher's exact test), Q value = 1

Table S57. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TOR3A MUTATED	2	5	2	2	0
TOR3A WILD-TYPE	11	13	6	12	2

'TOR3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.911 (Fisher's exact test), Q value = 1

Table S58. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TOR3A MUTATED	5	2	4
TOR3A WILD-TYPE	16	12	15

'TOR3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.808 (Fisher's exact test), Q value = 1

Table S59. Gene #6: 'TOR3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TOR3A MUTATED	6	4	1
TOR3A WILD-TYPE	24	12	7

'TP53 MUTATION STATUS' versus 'CN_CNMF'

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

Table S60. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TP53 MUTATED	6	1	3	3
TP53 WILD-TYPE	15	19	7	6

'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.818 (Fisher's exact test), Q value = 1

Table S61. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TP53 MUTATED	2	3	3	3	1
TP53 WILD-TYPE	11	5	11	10	6

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.221 (Fisher's exact test), Q value = 1

Table S62. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TP53 MUTATED	2	6
TP53 WILD-TYPE	11	9

'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.603 (Fisher's exact test), Q value = 1

Table S63. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TP53 MUTATED	3	2	0	1	1	0	1	0
TP53 WILD-TYPE	2	4	5	2	2	1	2	2

'TP53 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S64. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TP53 MUTATED	4	2	6	0
TP53 WILD-TYPE	12	6	8	16

Figure S4. Get High-res Image Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S65. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TP53 MUTATED	4	4	2	2
TP53 WILD-TYPE	12	12	2	16

'TP53 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00523 (Fisher's exact test), Q value = 1

Table S66. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TP53 MUTATED	7	5	0
TP53 WILD-TYPE	19	6	18

Figure S5. Get High-res Image Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.598 (Fisher's exact test), Q value = 1

Table S67. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TP53 MUTATED	4	2	2	4	0
TP53 WILD-TYPE	9	16	6	10	2

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0493 (Fisher's exact test), Q value = 1

Table S68. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TP53 MUTATED	8	3	1
TP53 WILD-TYPE	13	11	18

Figure S6. Get High-res Image Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 1

Table S69. Gene #7: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TP53 MUTATED	9	1	2
TP53 WILD-TYPE	21	15	6

'CLDN23 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S70. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CLDN23 MUTATED	2	5	1	2
CLDN23 WILD-TYPE	19	15	9	7

'CLDN23 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 1

Table S71. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CLDN23 MUTATED	1	2	1	3	3
CLDN23 WILD-TYPE	12	6	13	10	4

'CLDN23 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S72. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CLDN23 MUTATED	1	2
CLDN23 WILD-TYPE	12	13

'CLDN23 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S73. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CLDN23 MUTATED	1	0	0	0	1	0	0	1
CLDN23 WILD-TYPE	4	6	5	3	2	1	3	1

'CLDN23 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0295 (Fisher's exact test), Q value = 1

Table S74. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CLDN23 MUTATED	1	1	1	7
CLDN23 WILD-TYPE	15	7	13	9

Figure S7. Get High-res Image Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'CLDN23 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.211 (Fisher's exact test), Q value = 1

Table S75. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CLDN23 MUTATED	3	1	0	6
CLDN23 WILD-TYPE	13	15	4	12

'CLDN23 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0975 (Fisher's exact test), Q value = 1

Table S76. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CLDN23 MUTATED	2	2	6
CLDN23 WILD-TYPE	24	9	12

'CLDN23 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.182 (Fisher's exact test), Q value = 1

Table S77. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CLDN23 MUTATED	1	4	3	1	1
CLDN23 WILD-TYPE	12	14	5	13	1

'CLDN23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.417 (Fisher's exact test), Q value = 1

Table S78. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CLDN23 MUTATED	4	1	5
CLDN23 WILD-TYPE	17	13	14

'CLDN23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.544 (Fisher's exact test), Q value = 1

Table S79. Gene #8: 'CLDN23 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CLDN23 MUTATED	4	4	2
CLDN23 WILD-TYPE	26	12	6

'GDF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.859 (Fisher's exact test), Q value = 1

Table S80. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
GDF1 MUTATED	2	2	0	1
GDF1 WILD-TYPE	19	18	10	8

'GDF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 1

Table S81. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
GDF1 MUTATED	0	0	3	1	0
GDF1 WILD-TYPE	13	8	11	12	7

'GDF1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S82. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
GDF1 MUTATED	1	1
GDF1 WILD-TYPE	12	14

'GDF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.436 (Fisher's exact test), Q value = 1

Table S83. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
GDF1 MUTATED	0	1	2	1
GDF1 WILD-TYPE	16	7	12	15

'GDF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.354 (Fisher's exact test), Q value = 1

Table S84. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
GDF1 MUTATED	0	3	0	1
GDF1 WILD-TYPE	16	13	4	17

'GDF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0553 (Fisher's exact test), Q value = 1

Table S85. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
GDF1 MUTATED	0	2	2
GDF1 WILD-TYPE	26	9	16

'GDF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.511 (Fisher's exact test), Q value = 1

Table S86. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
GDF1 MUTATED	0	3	0	1	0
GDF1 WILD-TYPE	13	15	8	13	2

'GDF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.172 (Fisher's exact test), Q value = 1

Table S87. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
GDF1 MUTATED	0	2	2
GDF1 WILD-TYPE	21	12	17

'GDF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 1

Table S88. Gene #9: 'GDF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
GDF1 MUTATED	1	3	0
GDF1 WILD-TYPE	29	13	8

'LZTR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0525 (Fisher's exact test), Q value = 1

Table S89. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
LZTR1 MUTATED	5	0	1	0
LZTR1 WILD-TYPE	16	20	9	9

'LZTR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.852 (Fisher's exact test), Q value = 1

Table S90. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
LZTR1 MUTATED	2	0	1	1	0
LZTR1 WILD-TYPE	11	8	13	12	7

'LZTR1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S91. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
LZTR1 MUTATED	0	1
LZTR1 WILD-TYPE	13	14

'LZTR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0883 (Fisher's exact test), Q value = 1

Table S92. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
LZTR1 MUTATED	3	1	0	0
LZTR1 WILD-TYPE	13	7	14	16

'LZTR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.117 (Fisher's exact test), Q value = 1

Table S93. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
LZTR1 MUTATED	2	1	1	0
LZTR1 WILD-TYPE	14	15	3	18

'LZTR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.401 (Fisher's exact test), Q value = 1

Table S94. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
LZTR1 MUTATED	3	1	0
LZTR1 WILD-TYPE	23	10	18

'LZTR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0154 (Fisher's exact test), Q value = 1

Table S95. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
LZTR1 MUTATED	0	0	0	3	1
LZTR1 WILD-TYPE	13	18	8	11	1

Figure S8. Get High-res Image Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'LZTR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S96. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
LZTR1 MUTATED	2	1	1
LZTR1 WILD-TYPE	19	13	18

'LZTR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.455 (Fisher's exact test), Q value = 1

Table S97. Gene #10: 'LZTR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
LZTR1 MUTATED	3	0	1
LZTR1 WILD-TYPE	27	16	7

'ANKRD43 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 1

Table S98. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ANKRD43 MUTATED	6	6	6	1
ANKRD43 WILD-TYPE	15	14	4	8

'ANKRD43 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.564 (Fisher's exact test), Q value = 1

Table S99. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ANKRD43 MUTATED	5	3	5	2	1
ANKRD43 WILD-TYPE	8	5	9	11	6

'ANKRD43 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.686 (Fisher's exact test), Q value = 1

Table S100. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ANKRD43 MUTATED	3	5
ANKRD43 WILD-TYPE	10	10

'ANKRD43 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.603 (Fisher's exact test), Q value = 1

Table S101. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ANKRD43 MUTATED	2	2	0	1	1	1	1	0
ANKRD43 WILD-TYPE	3	4	5	2	2	0	2	2

'ANKRD43 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S102. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ANKRD43 MUTATED	4	3	6	2
ANKRD43 WILD-TYPE	12	5	8	14

'ANKRD43 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.228 (Fisher's exact test), Q value = 1

Table S103. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ANKRD43 MUTATED	5	7	0	3
ANKRD43 WILD-TYPE	11	9	4	15

'ANKRD43 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.367 (Fisher's exact test), Q value = 1

Table S104. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ANKRD43 MUTATED	9	4	3
ANKRD43 WILD-TYPE	17	7	15

'ANKRD43 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.102 (Fisher's exact test), Q value = 1

Table S105. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ANKRD43 MUTATED	6	4	0	6	0
ANKRD43 WILD-TYPE	7	14	8	8	2

'ANKRD43 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.606 (Fisher's exact test), Q value = 1

Table S106. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ANKRD43 MUTATED	7	5	4
ANKRD43 WILD-TYPE	14	9	15

'ANKRD43 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.463 (Fisher's exact test), Q value = 1

Table S107. Gene #11: 'ANKRD43 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ANKRD43 MUTATED	11	3	2
ANKRD43 WILD-TYPE	19	13	6

'KCNK17 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.204 (Fisher's exact test), Q value = 1

Table S108. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KCNK17 MUTATED	3	1	2	3
KCNK17 WILD-TYPE	18	19	8	6

'KCNK17 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0403 (Fisher's exact test), Q value = 1

Table S109. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
KCNK17 MUTATED	0	2	5	1	0
KCNK17 WILD-TYPE	13	6	9	12	7

Figure S9. Get High-res Image Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'KCNK17 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0178 (Fisher's exact test), Q value = 1

Table S110. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
KCNK17 MUTATED	0	6
KCNK17 WILD-TYPE	13	9

Figure S10. Get High-res Image Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'KCNK17 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S111. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
KCNK17 MUTATED	1	3	0	0	1	0	0	1
KCNK17 WILD-TYPE	4	3	5	3	2	1	3	1

'KCNK17 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.104 (Fisher's exact test), Q value = 1

Table S112. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
KCNK17 MUTATED	1	1	5	1
KCNK17 WILD-TYPE	15	7	9	15

'KCNK17 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00892 (Fisher's exact test), Q value = 1

Table S113. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
KCNK17 MUTATED	0	6	1	1
KCNK17 WILD-TYPE	16	10	3	17

Figure S11. Get High-res Image Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'KCNK17 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.889 (Fisher's exact test), Q value = 1

Table S114. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
KCNK17 MUTATED	4	2	2
KCNK17 WILD-TYPE	22	9	16

'KCNK17 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.546 (Fisher's exact test), Q value = 1

Table S115. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
KCNK17 MUTATED	3	1	2	2	0
KCNK17 WILD-TYPE	10	17	6	12	2

'KCNK17 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.718 (Fisher's exact test), Q value = 1

Table S116. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
KCNK17 MUTATED	4	1	3
KCNK17 WILD-TYPE	17	13	16

'KCNK17 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.445 (Fisher's exact test), Q value = 1

Table S117. Gene #12: 'KCNK17 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
KCNK17 MUTATED	5	1	2
KCNK17 WILD-TYPE	25	15	6

'RINL MUTATION STATUS' versus 'CN_CNMF'

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

Table S118. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RINL MUTATED	5	2	0	1
RINL WILD-TYPE	16	18	10	8

'RINL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.676 (Fisher's exact test), Q value = 1

Table S119. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RINL MUTATED	3	1	1	2	0
RINL WILD-TYPE	10	7	13	11	7

'RINL MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S120. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RINL MUTATED	2	2
RINL WILD-TYPE	11	13

'RINL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S121. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
RINL MUTATED	1	0	1	0	1	0	0	1
RINL WILD-TYPE	4	6	4	3	2	1	3	1

'RINL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.469 (Fisher's exact test), Q value = 1

Table S122. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RINL MUTATED	4	1	1	1
RINL WILD-TYPE	12	7	13	15

'RINL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.277 (Fisher's exact test), Q value = 1

Table S123. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RINL MUTATED	4	1	1	1
RINL WILD-TYPE	12	15	3	17

'RINL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S124. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RINL MUTATED	3	2	2
RINL WILD-TYPE	23	9	16

'RINL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 1

Table S125. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RINL MUTATED	0	3	0	4	0
RINL WILD-TYPE	13	15	8	10	2

'RINL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.348 (Fisher's exact test), Q value = 1

Table S126. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RINL MUTATED	1	3	3
RINL WILD-TYPE	20	11	16

'RINL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S127. Gene #13: 'RINL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RINL MUTATED	3	3	1
RINL WILD-TYPE	27	13	7

'ZAR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.645 (Fisher's exact test), Q value = 1

Table S128. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZAR1 MUTATED	4	3	1	3
ZAR1 WILD-TYPE	17	17	9	6

'ZAR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.67 (Fisher's exact test), Q value = 1

Table S129. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ZAR1 MUTATED	3	1	1	2	2
ZAR1 WILD-TYPE	10	7	13	11	5

'ZAR1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S130. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZAR1 MUTATED	2	2
ZAR1 WILD-TYPE	11	13

'ZAR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S131. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ZAR1 MUTATED	0	2	1	0	1	0	0	0
ZAR1 WILD-TYPE	5	4	4	3	2	1	3	2

'ZAR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.622 (Fisher's exact test), Q value = 1

Table S132. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ZAR1 MUTATED	3	0	2	4
ZAR1 WILD-TYPE	13	8	12	12

'ZAR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.869 (Fisher's exact test), Q value = 1

Table S133. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ZAR1 MUTATED	3	2	0	4
ZAR1 WILD-TYPE	13	14	4	14

'ZAR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.714 (Fisher's exact test), Q value = 1

Table S134. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ZAR1 MUTATED	4	1	4
ZAR1 WILD-TYPE	22	10	14

'ZAR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.971 (Fisher's exact test), Q value = 1

Table S135. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ZAR1 MUTATED	2	4	1	2	0
ZAR1 WILD-TYPE	11	14	7	12	2

'ZAR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S136. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ZAR1 MUTATED	4	2	3
ZAR1 WILD-TYPE	17	12	16

'ZAR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.602 (Fisher's exact test), Q value = 1

Table S137. Gene #14: 'ZAR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ZAR1 MUTATED	4	4	1
ZAR1 WILD-TYPE	26	12	7

'CTNNB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.396 (Fisher's exact test), Q value = 1

Table S138. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CTNNB1 MUTATED	5	2	1	0
CTNNB1 WILD-TYPE	16	18	9	9

'CTNNB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0609 (Fisher's exact test), Q value = 1

Table S139. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CTNNB1 MUTATED	3	3	1	0	0
CTNNB1 WILD-TYPE	10	5	13	13	7

'CTNNB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S140. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CTNNB1 MUTATED	3	2
CTNNB1 WILD-TYPE	10	13

'CTNNB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.314 (Fisher's exact test), Q value = 1

Table S141. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CTNNB1 MUTATED	2	1	0	0	2	0	0	0
CTNNB1 WILD-TYPE	3	5	5	3	1	1	3	2

'CTNNB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00545 (Fisher's exact test), Q value = 1

Table S142. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CTNNB1 MUTATED	4	3	0	0
CTNNB1 WILD-TYPE	12	5	14	16

Figure S12. Get High-res Image Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'CTNNB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00625 (Fisher's exact test), Q value = 1

Table S143. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CTNNB1 MUTATED	6	1	0	0
CTNNB1 WILD-TYPE	10	15	4	18

Figure S13. Get High-res Image Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.093

Table S144. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CTNNB1 MUTATED	1	6	0
CTNNB1 WILD-TYPE	25	5	18

Figure S14. Get High-res Image Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 1

Table S145. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CTNNB1 MUTATED	0	3	0	4	0
CTNNB1 WILD-TYPE	13	15	8	10	2

'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0458 (Fisher's exact test), Q value = 1

Table S146. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CTNNB1 MUTATED	3	4	0
CTNNB1 WILD-TYPE	18	10	19

Figure S15. Get High-res Image Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.547 (Fisher's exact test), Q value = 1

Table S147. Gene #15: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CTNNB1 MUTATED	4	3	0
CTNNB1 WILD-TYPE	26	13	8

'APOE MUTATION STATUS' versus 'CN_CNMF'

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

Table S148. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
APOE MUTATED	3	2	1	1
APOE WILD-TYPE	18	18	9	8

'APOE MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.595 (Fisher's exact test), Q value = 1

Table S149. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
APOE MUTATED	1	0	3	2	0
APOE WILD-TYPE	12	8	11	11	7

'APOE MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S150. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
APOE MUTATED	1	2
APOE WILD-TYPE	12	13

'APOE MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.382 (Fisher's exact test), Q value = 1

Table S151. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
APOE MUTATED	0	1	0	0	0	0	1	1
APOE WILD-TYPE	5	5	5	3	3	1	2	1

'APOE MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0592 (Fisher's exact test), Q value = 1

Table S152. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
APOE MUTATED	2	0	4	0
APOE WILD-TYPE	14	8	10	16

'APOE MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.399 (Fisher's exact test), Q value = 1

Table S153. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
APOE MUTATED	1	3	1	1
APOE WILD-TYPE	15	13	3	17

'APOE MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S154. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
APOE MUTATED	2	3	1
APOE WILD-TYPE	24	8	17

'APOE MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.791 (Fisher's exact test), Q value = 1

Table S155. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
APOE MUTATED	1	3	0	2	0
APOE WILD-TYPE	12	15	8	12	2

'APOE MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 1

Table S156. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
APOE MUTATED	2	3	1
APOE WILD-TYPE	19	11	18

'APOE MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S157. Gene #16: 'APOE MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
APOE MUTATED	3	2	1
APOE WILD-TYPE	27	14	7

'GPRIN2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.867 (Fisher's exact test), Q value = 1

Table S158. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
GPRIN2 MUTATED	2	3	2	1
GPRIN2 WILD-TYPE	19	17	8	8

'GPRIN2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 1

Table S159. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
GPRIN2 MUTATED	1	0	4	1	1
GPRIN2 WILD-TYPE	12	8	10	12	6

'GPRIN2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S160. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
GPRIN2 MUTATED	2	2
GPRIN2 WILD-TYPE	11	13

'GPRIN2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.694 (Fisher's exact test), Q value = 1

Table S161. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
GPRIN2 MUTATED	0	1	1	0	1	0	0	1
GPRIN2 WILD-TYPE	5	5	4	3	2	1	3	1

'GPRIN2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.681 (Fisher's exact test), Q value = 1

Table S162. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
GPRIN2 MUTATED	1	1	3	2
GPRIN2 WILD-TYPE	15	7	11	14

'GPRIN2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.4 (Fisher's exact test), Q value = 1

Table S163. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
GPRIN2 MUTATED	1	4	0	2
GPRIN2 WILD-TYPE	15	12	4	16

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.581 (Fisher's exact test), Q value = 1

Table S164. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
GPRIN2 MUTATED	2	2	3
GPRIN2 WILD-TYPE	24	9	15

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.755 (Fisher's exact test), Q value = 1

Table S165. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
GPRIN2 MUTATED	1	4	1	1	0
GPRIN2 WILD-TYPE	12	14	7	13	2

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.594 (Fisher's exact test), Q value = 1

Table S166. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
GPRIN2 MUTATED	2	3	2
GPRIN2 WILD-TYPE	19	11	17

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.18 (Fisher's exact test), Q value = 1

Table S167. Gene #17: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
GPRIN2 MUTATED	2	4	1
GPRIN2 WILD-TYPE	28	12	7

'ASPDH MUTATION STATUS' versus 'CN_CNMF'

P value = 0.295 (Fisher's exact test), Q value = 1

Table S168. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ASPDH MUTATED	3	2	3	0
ASPDH WILD-TYPE	18	18	7	9

'ASPDH MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.691 (Fisher's exact test), Q value = 1

Table S169. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ASPDH MUTATED	3	1	3	1	0
ASPDH WILD-TYPE	10	7	11	12	7

'ASPDH MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S170. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ASPDH MUTATED	2	3
ASPDH WILD-TYPE	11	12

'ASPDH MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.315 (Fisher's exact test), Q value = 1

Table S171. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ASPDH MUTATED	0	3	0	1	0	0	1	0
ASPDH WILD-TYPE	5	3	5	2	3	1	2	2

'ASPDH MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0234 (Fisher's exact test), Q value = 1

Table S172. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ASPDH MUTATED	3	0	5	0
ASPDH WILD-TYPE	13	8	9	16

Figure S16. Get High-res Image Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'ASPDH MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.396 (Fisher's exact test), Q value = 1

Table S173. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ASPDH MUTATED	3	4	0	1
ASPDH WILD-TYPE	13	12	4	17

'ASPDH MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.476 (Fisher's exact test), Q value = 1

Table S174. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ASPDH MUTATED	5	2	1
ASPDH WILD-TYPE	21	9	17

'ASPDH MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0323 (Fisher's exact test), Q value = 1

Table S175. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ASPDH MUTATED	4	0	0	4	0
ASPDH WILD-TYPE	9	18	8	10	2

Figure S17. Get High-res Image Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'ASPDH MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 1

Table S176. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ASPDH MUTATED	3	4	1
ASPDH WILD-TYPE	18	10	18

'ASPDH MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0812 (Fisher's exact test), Q value = 1

Table S177. Gene #18: 'ASPDH MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ASPDH MUTATED	7	0	1
ASPDH WILD-TYPE	23	16	7

'ERCC2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S178. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ERCC2 MUTATED	4	3	2	1
ERCC2 WILD-TYPE	17	17	8	8

'ERCC2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.233 (Fisher's exact test), Q value = 1

Table S179. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ERCC2 MUTATED	4	3	2	1	0
ERCC2 WILD-TYPE	9	5	12	12	7

'ERCC2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0377 (Fisher's exact test), Q value = 1

Table S180. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ERCC2 MUTATED	1	7
ERCC2 WILD-TYPE	12	8

Figure S18. Get High-res Image Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'ERCC2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S181. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ERCC2 MUTATED	2	3	0	1	0	1	0	1
ERCC2 WILD-TYPE	3	3	5	2	3	0	3	1

'ERCC2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.482 (Fisher's exact test), Q value = 1

Table S182. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ERCC2 MUTATED	4	2	3	1
ERCC2 WILD-TYPE	12	6	11	15

'ERCC2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 1

Table S183. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ERCC2 MUTATED	5	4	0	1
ERCC2 WILD-TYPE	11	12	4	17

'ERCC2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.599 (Fisher's exact test), Q value = 1

Table S184. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ERCC2 MUTATED	6	2	2
ERCC2 WILD-TYPE	20	9	16

'ERCC2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.27 (Fisher's exact test), Q value = 1

Table S185. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ERCC2 MUTATED	3	2	0	5	0
ERCC2 WILD-TYPE	10	16	8	9	2

'ERCC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 1

Table S186. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ERCC2 MUTATED	6	2	2
ERCC2 WILD-TYPE	15	12	17

'ERCC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.207 (Fisher's exact test), Q value = 1

Table S187. Gene #19: 'ERCC2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ERCC2 MUTATED	8	2	0
ERCC2 WILD-TYPE	22	14	8

'IDUA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.384 (Fisher's exact test), Q value = 1

Table S188. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
IDUA MUTATED	5	1	1	1
IDUA WILD-TYPE	16	19	9	8

'IDUA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.852 (Fisher's exact test), Q value = 1

Table S189. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
IDUA MUTATED	2	1	3	1	0
IDUA WILD-TYPE	11	7	11	12	7

'IDUA MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S190. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
IDUA MUTATED	2	2
IDUA WILD-TYPE	11	13

'IDUA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S191. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
IDUA MUTATED	1	0	1	1	1	0	0	0
IDUA WILD-TYPE	4	6	4	2	2	1	3	2

'IDUA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 1

Table S192. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
IDUA MUTATED	3	2	1	1
IDUA WILD-TYPE	13	6	13	15

'IDUA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S193. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
IDUA MUTATED	3	3	0	1
IDUA WILD-TYPE	13	13	4	17

'IDUA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S194. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
IDUA MUTATED	3	3	1
IDUA WILD-TYPE	23	8	17

'IDUA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.43 (Fisher's exact test), Q value = 1

Table S195. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
IDUA MUTATED	1	2	0	4	0
IDUA WILD-TYPE	12	16	8	10	2

'IDUA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.458 (Fisher's exact test), Q value = 1

Table S196. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
IDUA MUTATED	4	2	1
IDUA WILD-TYPE	17	12	18

'IDUA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.647 (Fisher's exact test), Q value = 1

Table S197. Gene #20: 'IDUA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
IDUA MUTATED	5	2	0
IDUA WILD-TYPE	25	14	8

'C1ORF106 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S198. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
C1ORF106 MUTATED	4	2	2	1
C1ORF106 WILD-TYPE	17	18	8	8

'C1ORF106 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.47 (Fisher's exact test), Q value = 1

Table S199. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
C1ORF106 MUTATED	3	0	2	1	2
C1ORF106 WILD-TYPE	10	8	12	12	5

'C1ORF106 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S200. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
C1ORF106 MUTATED	3	2
C1ORF106 WILD-TYPE	10	13

'C1ORF106 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0469 (Fisher's exact test), Q value = 1

Table S201. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
C1ORF106 MUTATED	1	0	0	2	2	0	0	0
C1ORF106 WILD-TYPE	4	6	5	1	1	1	3	2

Figure S19. Get High-res Image Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'C1ORF106 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S202. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
C1ORF106 MUTATED	4	2	1	1
C1ORF106 WILD-TYPE	12	6	13	15

'C1ORF106 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.759 (Fisher's exact test), Q value = 1

Table S203. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
C1ORF106 MUTATED	3	2	1	2
C1ORF106 WILD-TYPE	13	14	3	16

'C1ORF106 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.474 (Fisher's exact test), Q value = 1

Table S204. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
C1ORF106 MUTATED	5	2	1
C1ORF106 WILD-TYPE	21	9	17

'C1ORF106 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.689 (Fisher's exact test), Q value = 1

Table S205. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
C1ORF106 MUTATED	1	2	2	3	0
C1ORF106 WILD-TYPE	12	16	6	11	2

'C1ORF106 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.053 (Fisher's exact test), Q value = 1

Table S206. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
C1ORF106 MUTATED	5	3	0
C1ORF106 WILD-TYPE	16	11	19

'C1ORF106 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S207. Gene #21: 'C1ORF106 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
C1ORF106 MUTATED	5	2	1
C1ORF106 WILD-TYPE	25	14	7

'C10ORF95 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S208. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
C10ORF95 MUTATED	2	0	2	1
C10ORF95 WILD-TYPE	19	20	8	8

'C10ORF95 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.379 (Fisher's exact test), Q value = 1

Table S209. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
C10ORF95 MUTATED	1	0	3	0	1
C10ORF95 WILD-TYPE	12	8	11	13	6

'C10ORF95 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S210. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
C10ORF95 MUTATED	1	1
C10ORF95 WILD-TYPE	12	14

'C10ORF95 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.514 (Fisher's exact test), Q value = 1

Table S211. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
C10ORF95 MUTATED	1	2	1	1
C10ORF95 WILD-TYPE	15	6	13	15

'C10ORF95 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S212. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
C10ORF95 MUTATED	1	2	0	2
C10ORF95 WILD-TYPE	15	14	4	16

'C10ORF95 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.488 (Fisher's exact test), Q value = 1

Table S213. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
C10ORF95 MUTATED	4	0	1
C10ORF95 WILD-TYPE	22	11	17

'C10ORF95 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.359 (Fisher's exact test), Q value = 1

Table S214. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
C10ORF95 MUTATED	1	1	1	1	1
C10ORF95 WILD-TYPE	12	17	7	13	1

'C10ORF95 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S215. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
C10ORF95 MUTATED	2	1	1
C10ORF95 WILD-TYPE	19	13	18

'C10ORF95 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S216. Gene #22: 'C10ORF95 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
C10ORF95 MUTATED	3	1	0
C10ORF95 WILD-TYPE	27	15	8

'RGS9BP MUTATION STATUS' versus 'CN_CNMF'

P value = 0.724 (Fisher's exact test), Q value = 1

Table S217. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RGS9BP MUTATED	3	3	2	0
RGS9BP WILD-TYPE	18	17	8	9

'RGS9BP MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.629 (Fisher's exact test), Q value = 1

Table S218. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RGS9BP MUTATED	3	0	3	1	1
RGS9BP WILD-TYPE	10	8	11	12	6

'RGS9BP MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S219. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RGS9BP MUTATED	1	2
RGS9BP WILD-TYPE	12	13

'RGS9BP MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.129 (Fisher's exact test), Q value = 1

Table S220. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
RGS9BP MUTATED	0	2	0	0	0	1	0	0
RGS9BP WILD-TYPE	5	4	5	3	3	0	3	2

'RGS9BP MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S221. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RGS9BP MUTATED	2	1	2	2
RGS9BP WILD-TYPE	14	7	12	14

'RGS9BP MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S222. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RGS9BP MUTATED	2	3	0	2
RGS9BP WILD-TYPE	14	13	4	16

'RGS9BP MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.218 (Fisher's exact test), Q value = 1

Table S223. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RGS9BP MUTATED	2	3	3
RGS9BP WILD-TYPE	24	8	15

'RGS9BP MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.962 (Fisher's exact test), Q value = 1

Table S224. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RGS9BP MUTATED	2	2	1	3	0
RGS9BP WILD-TYPE	11	16	7	11	2

'RGS9BP MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.342 (Fisher's exact test), Q value = 1

Table S225. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RGS9BP MUTATED	2	4	2
RGS9BP WILD-TYPE	19	10	17

'RGS9BP MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.75 (Fisher's exact test), Q value = 1

Table S226. Gene #23: 'RGS9BP MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RGS9BP MUTATED	4	2	2
RGS9BP WILD-TYPE	26	14	6

'THEM4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.279 (Fisher's exact test), Q value = 1

Table S227. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
THEM4 MUTATED	3	0	1	1
THEM4 WILD-TYPE	18	20	9	8

'THEM4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.766 (Fisher's exact test), Q value = 1

Table S228. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
THEM4 MUTATED	1	1	1	0	1
THEM4 WILD-TYPE	12	7	13	13	6

'THEM4 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S229. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
THEM4 MUTATED	0	1
THEM4 WILD-TYPE	13	14

'THEM4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 1

Table S230. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
THEM4 MUTATED	1	1	2	0
THEM4 WILD-TYPE	15	7	12	16

'THEM4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S231. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
THEM4 MUTATED	2	1	0	1
THEM4 WILD-TYPE	14	15	4	17

'THEM4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.179 (Fisher's exact test), Q value = 1

Table S232. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
THEM4 MUTATED	2	2	0
THEM4 WILD-TYPE	24	9	18

'THEM4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.109 (Fisher's exact test), Q value = 1

Table S233. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
THEM4 MUTATED	0	0	1	3	0
THEM4 WILD-TYPE	13	18	7	11	2

'THEM4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S234. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
THEM4 MUTATED	3	1	0
THEM4 WILD-TYPE	18	13	19

'THEM4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S235. Gene #24: 'THEM4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
THEM4 MUTATED	4	0	0
THEM4 WILD-TYPE	26	16	8

'TSC22D2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.946 (Fisher's exact test), Q value = 1

Table S236. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TSC22D2 MUTATED	4	2	1	1
TSC22D2 WILD-TYPE	17	18	9	8

'TSC22D2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S237. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TSC22D2 MUTATED	2	0	2	1	2
TSC22D2 WILD-TYPE	11	8	12	12	5

'TSC22D2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S238. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TSC22D2 MUTATED	1	2
TSC22D2 WILD-TYPE	12	13

'TSC22D2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.954 (Fisher's exact test), Q value = 1

Table S239. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TSC22D2 MUTATED	0	1	1	0	1	0	0	0
TSC22D2 WILD-TYPE	5	5	4	3	2	1	3	2

'TSC22D2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.779 (Fisher's exact test), Q value = 1

Table S240. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TSC22D2 MUTATED	3	0	2	2
TSC22D2 WILD-TYPE	13	8	12	14

'TSC22D2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.817 (Fisher's exact test), Q value = 1

Table S241. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TSC22D2 MUTATED	2	2	1	2
TSC22D2 WILD-TYPE	14	14	3	16

'TSC22D2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S242. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TSC22D2 MUTATED	3	2	2
TSC22D2 WILD-TYPE	23	9	16

'TSC22D2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.432 (Fisher's exact test), Q value = 1

Table S243. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TSC22D2 MUTATED	1	2	0	4	0
TSC22D2 WILD-TYPE	12	16	8	10	2

'TSC22D2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.347 (Fisher's exact test), Q value = 1

Table S244. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TSC22D2 MUTATED	1	3	3
TSC22D2 WILD-TYPE	20	11	16

'TSC22D2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S245. Gene #25: 'TSC22D2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TSC22D2 MUTATED	4	2	1
TSC22D2 WILD-TYPE	26	14	7

'SYT8 MUTATION STATUS' versus 'CN_CNMF'

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

Table S246. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SYT8 MUTATED	1	4	2	1
SYT8 WILD-TYPE	20	16	8	8

'SYT8 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.44 (Fisher's exact test), Q value = 1

Table S247. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SYT8 MUTATED	0	2	2	1	1
SYT8 WILD-TYPE	13	6	12	12	6

'SYT8 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S248. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SYT8 MUTATED	1	2
SYT8 WILD-TYPE	12	13

'SYT8 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S249. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
SYT8 MUTATED	1	1	1	0	0	0	0	0
SYT8 WILD-TYPE	4	5	4	3	3	1	3	2

'SYT8 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0417 (Fisher's exact test), Q value = 1

Table S250. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SYT8 MUTATED	0	3	1	2
SYT8 WILD-TYPE	16	5	13	14

Figure S20. Get High-res Image Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'SYT8 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.176 (Fisher's exact test), Q value = 1

Table S251. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SYT8 MUTATED	0	4	0	2
SYT8 WILD-TYPE	16	12	4	16

'SYT8 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S252. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SYT8 MUTATED	3	1	2
SYT8 WILD-TYPE	23	10	16

'SYT8 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.184 (Fisher's exact test), Q value = 1

Table S253. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SYT8 MUTATED	1	3	1	0	1
SYT8 WILD-TYPE	12	15	7	14	1

'SYT8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S254. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SYT8 MUTATED	2	1	3
SYT8 WILD-TYPE	19	13	16

'SYT8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.497 (Fisher's exact test), Q value = 1

Table S255. Gene #26: 'SYT8 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SYT8 MUTATED	3	3	0
SYT8 WILD-TYPE	27	13	8

'PLIN5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.502 (Fisher's exact test), Q value = 1

Table S256. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PLIN5 MUTATED	1	3	0	1
PLIN5 WILD-TYPE	20	17	10	8

'PLIN5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S257. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PLIN5 MUTATED	1	2	1	1	0
PLIN5 WILD-TYPE	12	6	13	12	7

'PLIN5 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S258. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PLIN5 MUTATED	1	2
PLIN5 WILD-TYPE	12	13

'PLIN5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.383 (Fisher's exact test), Q value = 1

Table S259. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
PLIN5 MUTATED	0	1	0	0	1	0	0	1
PLIN5 WILD-TYPE	5	5	5	3	2	1	3	1

'PLIN5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S260. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PLIN5 MUTATED	1	1	2	1
PLIN5 WILD-TYPE	15	7	12	15

'PLIN5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S261. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PLIN5 MUTATED	1	3	0	1
PLIN5 WILD-TYPE	15	13	4	17

'PLIN5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.266 (Fisher's exact test), Q value = 1

Table S262. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PLIN5 MUTATED	1	2	2
PLIN5 WILD-TYPE	25	9	16

'PLIN5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.268 (Fisher's exact test), Q value = 1

Table S263. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PLIN5 MUTATED	1	4	0	0	0
PLIN5 WILD-TYPE	12	14	8	14	2

'PLIN5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.511 (Fisher's exact test), Q value = 1

Table S264. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PLIN5 MUTATED	1	1	3
PLIN5 WILD-TYPE	20	13	16

'PLIN5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0476 (Fisher's exact test), Q value = 1

Table S265. Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PLIN5 MUTATED	1	4	0
PLIN5 WILD-TYPE	29	12	8

Figure S21. Get High-res Image Gene #27: 'PLIN5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'LRIG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.542 (Fisher's exact test), Q value = 1

Table S266. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
LRIG1 MUTATED	5	4	3	4
LRIG1 WILD-TYPE	16	16	7	5

'LRIG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.959 (Fisher's exact test), Q value = 1

Table S267. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
LRIG1 MUTATED	3	2	2	3	1
LRIG1 WILD-TYPE	10	6	12	10	6

'LRIG1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S268. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
LRIG1 MUTATED	2	2
LRIG1 WILD-TYPE	11	13

'LRIG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S269. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
LRIG1 MUTATED	1	1	1	1	0	0	0	0
LRIG1 WILD-TYPE	4	5	4	2	3	1	3	2

'LRIG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S270. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
LRIG1 MUTATED	2	2	3	3
LRIG1 WILD-TYPE	14	6	11	13

'LRIG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.61 (Fisher's exact test), Q value = 1

Table S271. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
LRIG1 MUTATED	3	2	0	5
LRIG1 WILD-TYPE	13	14	4	13

'LRIG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S272. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
LRIG1 MUTATED	4	4	3
LRIG1 WILD-TYPE	22	7	15

'LRIG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.43 (Fisher's exact test), Q value = 1

Table S273. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
LRIG1 MUTATED	1	3	3	4	0
LRIG1 WILD-TYPE	12	15	5	10	2

'LRIG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.577 (Fisher's exact test), Q value = 1

Table S274. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
LRIG1 MUTATED	3	4	4
LRIG1 WILD-TYPE	18	10	15

'LRIG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S275. Gene #28: 'LRIG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
LRIG1 MUTATED	7	3	1
LRIG1 WILD-TYPE	23	13	7

'HHIPL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.277 (Fisher's exact test), Q value = 1

Table S276. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
HHIPL1 MUTATED	3	1	0	2
HHIPL1 WILD-TYPE	18	19	10	7

'HHIPL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.436 (Fisher's exact test), Q value = 1

Table S277. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
HHIPL1 MUTATED	2	0	0	2	1
HHIPL1 WILD-TYPE	11	8	14	11	6

'HHIPL1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S278. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
HHIPL1 MUTATED	0	2
HHIPL1 WILD-TYPE	13	13

'HHIPL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S279. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
HHIPL1 MUTATED	3	0	1	1
HHIPL1 WILD-TYPE	13	8	13	15

'HHIPL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.513 (Fisher's exact test), Q value = 1

Table S280. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
HHIPL1 MUTATED	2	1	1	1
HHIPL1 WILD-TYPE	14	15	3	17

'HHIPL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.204 (Fisher's exact test), Q value = 1

Table S281. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
HHIPL1 MUTATED	4	1	0
HHIPL1 WILD-TYPE	22	10	18

'HHIPL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.425 (Fisher's exact test), Q value = 1

Table S282. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
HHIPL1 MUTATED	2	0	1	2	0
HHIPL1 WILD-TYPE	11	18	7	12	2

'HHIPL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 1

Table S283. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
HHIPL1 MUTATED	4	0	1
HHIPL1 WILD-TYPE	17	14	18

'HHIPL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.334 (Fisher's exact test), Q value = 1

Table S284. Gene #29: 'HHIPL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
HHIPL1 MUTATED	4	0	1
HHIPL1 WILD-TYPE	26	16	7

'CCDC105 MUTATION STATUS' versus 'CN_CNMF'

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

Table S285. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CCDC105 MUTATED	2	2	1	1
CCDC105 WILD-TYPE	19	18	9	8

'CCDC105 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0114 (Fisher's exact test), Q value = 1

Table S286. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CCDC105 MUTATED	1	3	0	0	2
CCDC105 WILD-TYPE	12	5	14	13	5

Figure S22. Get High-res Image Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'CCDC105 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S287. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CCDC105 MUTATED	0	3
CCDC105 WILD-TYPE	13	12

'CCDC105 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.676 (Fisher's exact test), Q value = 1

Table S288. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CCDC105 MUTATED	1	1	0	0	0	0	0	1
CCDC105 WILD-TYPE	4	5	5	3	3	1	3	1

'CCDC105 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.939 (Fisher's exact test), Q value = 1

Table S289. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CCDC105 MUTATED	1	1	2	2
CCDC105 WILD-TYPE	15	7	12	14

'CCDC105 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S290. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CCDC105 MUTATED	3	1	0	2
CCDC105 WILD-TYPE	13	15	4	16

'CCDC105 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S291. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CCDC105 MUTATED	3	1	2
CCDC105 WILD-TYPE	23	10	16

'CCDC105 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S292. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CCDC105 MUTATED	1	0	2	2	1
CCDC105 WILD-TYPE	12	18	6	12	1

'CCDC105 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S293. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CCDC105 MUTATED	4	0	2
CCDC105 WILD-TYPE	17	14	17

'CCDC105 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S294. Gene #30: 'CCDC105 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CCDC105 MUTATED	5	0	1
CCDC105 WILD-TYPE	25	16	7

'C19ORF10 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S295. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
C19ORF10 MUTATED	3	2	0	1
C19ORF10 WILD-TYPE	18	18	10	8

'C19ORF10 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.423 (Fisher's exact test), Q value = 1

Table S296. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
C19ORF10 MUTATED	2	1	3	0	0
C19ORF10 WILD-TYPE	11	7	11	13	7

'C19ORF10 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S297. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
C19ORF10 MUTATED	1	3
C19ORF10 WILD-TYPE	12	12

'C19ORF10 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S298. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
C19ORF10 MUTATED	0	2	0	0	1	0	0	1
C19ORF10 WILD-TYPE	5	4	5	3	2	1	3	1

'C19ORF10 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.24 (Fisher's exact test), Q value = 1

Table S299. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
C19ORF10 MUTATED	2	2	2	0
C19ORF10 WILD-TYPE	14	6	12	16

'C19ORF10 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.124 (Fisher's exact test), Q value = 1

Table S300. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
C19ORF10 MUTATED	2	4	0	0
C19ORF10 WILD-TYPE	14	12	4	18

'C19ORF10 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.551 (Fisher's exact test), Q value = 1

Table S301. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
C19ORF10 MUTATED	3	2	1
C19ORF10 WILD-TYPE	23	9	17

'C19ORF10 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S302. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
C19ORF10 MUTATED	2	2	0	2	0
C19ORF10 WILD-TYPE	11	16	8	12	2

'C19ORF10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S303. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
C19ORF10 MUTATED	3	2	1
C19ORF10 WILD-TYPE	18	12	18

'C19ORF10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.714 (Fisher's exact test), Q value = 1

Table S304. Gene #31: 'C19ORF10 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
C19ORF10 MUTATED	4	2	0
C19ORF10 WILD-TYPE	26	14	8

'OPRD1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S305. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
OPRD1 MUTATED	5	4	2	1
OPRD1 WILD-TYPE	16	16	8	8

'OPRD1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.435 (Fisher's exact test), Q value = 1

Table S306. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
OPRD1 MUTATED	3	1	3	1	3
OPRD1 WILD-TYPE	10	7	11	12	4

'OPRD1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.655 (Fisher's exact test), Q value = 1

Table S307. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
OPRD1 MUTATED	2	4
OPRD1 WILD-TYPE	11	11

'OPRD1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.48 (Fisher's exact test), Q value = 1

Table S308. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
OPRD1 MUTATED	0	2	1	1	2	0	0	0
OPRD1 WILD-TYPE	5	4	4	2	1	1	3	2

'OPRD1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.798 (Fisher's exact test), Q value = 1

Table S309. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
OPRD1 MUTATED	4	2	3	2
OPRD1 WILD-TYPE	12	6	11	14

'OPRD1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.96 (Fisher's exact test), Q value = 1

Table S310. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
OPRD1 MUTATED	3	4	1	3
OPRD1 WILD-TYPE	13	12	3	15

'OPRD1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.298 (Fisher's exact test), Q value = 1

Table S311. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
OPRD1 MUTATED	5	4	2
OPRD1 WILD-TYPE	21	7	16

'OPRD1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.611 (Fisher's exact test), Q value = 1

Table S312. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
OPRD1 MUTATED	1	5	1	4	0
OPRD1 WILD-TYPE	12	13	7	10	2

'OPRD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S313. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
OPRD1 MUTATED	4	3	4
OPRD1 WILD-TYPE	17	11	15

'OPRD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.513 (Fisher's exact test), Q value = 1

Table S314. Gene #32: 'OPRD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
OPRD1 MUTATED	5	5	1
OPRD1 WILD-TYPE	25	11	7

'ATXN1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S315. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ATXN1 MUTATED	2	4	3	1
ATXN1 WILD-TYPE	19	16	7	8

'ATXN1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.139 (Fisher's exact test), Q value = 1

Table S316. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ATXN1 MUTATED	1	4	2	1	1
ATXN1 WILD-TYPE	12	4	12	12	6

'ATXN1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S317. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ATXN1 MUTATED	1	3
ATXN1 WILD-TYPE	12	12

'ATXN1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.916 (Fisher's exact test), Q value = 1

Table S318. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ATXN1 MUTATED	2	1	1	0	0	0	0	0
ATXN1 WILD-TYPE	3	5	4	3	3	1	3	2

'ATXN1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.24 (Fisher's exact test), Q value = 1

Table S319. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ATXN1 MUTATED	2	3	3	1
ATXN1 WILD-TYPE	14	5	11	15

'ATXN1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S320. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ATXN1 MUTATED	3	4	0	2
ATXN1 WILD-TYPE	13	12	4	16

'ATXN1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 1

Table S321. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ATXN1 MUTATED	5	3	1
ATXN1 WILD-TYPE	21	8	17

'ATXN1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S322. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ATXN1 MUTATED	2	2	2	3	0
ATXN1 WILD-TYPE	11	16	6	11	2

'ATXN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.236 (Fisher's exact test), Q value = 1

Table S323. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ATXN1 MUTATED	6	1	2
ATXN1 WILD-TYPE	15	13	17

'ATXN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S324. Gene #33: 'ATXN1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ATXN1 MUTATED	7	2	0
ATXN1 WILD-TYPE	23	14	8

'AATK MUTATION STATUS' versus 'CN_CNMF'

P value = 0.139 (Fisher's exact test), Q value = 1

Table S325. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
AATK MUTATED	0	4	1	1
AATK WILD-TYPE	21	16	9	8

'AATK MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.333 (Fisher's exact test), Q value = 1

Table S326. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
AATK MUTATED	0	1	2	0	1
AATK WILD-TYPE	13	7	12	13	6

'AATK MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S327. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
AATK MUTATED	1	1
AATK WILD-TYPE	12	14

'AATK MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 1

Table S328. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
AATK MUTATED	0	1	2	1
AATK WILD-TYPE	16	7	12	15

'AATK MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S329. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
AATK MUTATED	0	3	0	1
AATK WILD-TYPE	16	13	4	17

'AATK MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S330. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
AATK MUTATED	2	1	1
AATK WILD-TYPE	24	10	17

'AATK MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.545 (Fisher's exact test), Q value = 1

Table S331. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
AATK MUTATED	2	2	0	0	0
AATK WILD-TYPE	11	16	8	14	2

'AATK MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S332. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
AATK MUTATED	2	1	1
AATK WILD-TYPE	19	13	18

'AATK MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S333. Gene #34: 'AATK MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
AATK MUTATED	2	2	0
AATK WILD-TYPE	28	14	8

'ZNF628 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.209 (Fisher's exact test), Q value = 1

Table S334. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZNF628 MUTATED	5	1	0	1
ZNF628 WILD-TYPE	16	19	10	8

'ZNF628 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.926 (Fisher's exact test), Q value = 1

Table S335. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ZNF628 MUTATED	2	1	1	1	0
ZNF628 WILD-TYPE	11	7	13	12	7

'ZNF628 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S336. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZNF628 MUTATED	1	2
ZNF628 WILD-TYPE	12	13

'ZNF628 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S337. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ZNF628 MUTATED	1	1	0	0	0	0	0	1
ZNF628 WILD-TYPE	4	5	5	3	3	1	3	1

'ZNF628 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.307 (Fisher's exact test), Q value = 1

Table S338. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ZNF628 MUTATED	3	1	1	0
ZNF628 WILD-TYPE	13	7	13	16

'ZNF628 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S339. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ZNF628 MUTATED	3	1	1	0
ZNF628 WILD-TYPE	13	15	3	18

'ZNF628 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0913 (Fisher's exact test), Q value = 1

Table S340. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ZNF628 MUTATED	1	3	1
ZNF628 WILD-TYPE	25	8	17

'ZNF628 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.502 (Fisher's exact test), Q value = 1

Table S341. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ZNF628 MUTATED	0	3	0	2	0
ZNF628 WILD-TYPE	13	15	8	12	2

'ZNF628 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.283 (Fisher's exact test), Q value = 1

Table S342. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ZNF628 MUTATED	1	3	1
ZNF628 WILD-TYPE	20	11	18

'ZNF628 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.544 (Fisher's exact test), Q value = 1

Table S343. Gene #35: 'ZNF628 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ZNF628 MUTATED	2	2	1
ZNF628 WILD-TYPE	28	14	7

'KRTAP4-5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S344. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KRTAP4-5 MUTATED	2	3	0	0
KRTAP4-5 WILD-TYPE	19	17	10	9

'KRTAP4-5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.285 (Fisher's exact test), Q value = 1

Table S345. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
KRTAP4-5 MUTATED	1	2	0	1	0
KRTAP4-5 WILD-TYPE	12	6	14	12	7

'KRTAP4-5 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S346. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
KRTAP4-5 MUTATED	0	2
KRTAP4-5 WILD-TYPE	13	13

'KRTAP4-5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.909 (Fisher's exact test), Q value = 1

Table S347. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
KRTAP4-5 MUTATED	2	0	1	1
KRTAP4-5 WILD-TYPE	14	8	13	15

'KRTAP4-5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S348. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
KRTAP4-5 MUTATED	2	1	0	1
KRTAP4-5 WILD-TYPE	14	15	4	17

'KRTAP4-5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S349. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
KRTAP4-5 MUTATED	2	1	1
KRTAP4-5 WILD-TYPE	24	10	17

'KRTAP4-5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.84 (Fisher's exact test), Q value = 1

Table S350. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
KRTAP4-5 MUTATED	1	1	0	2	0
KRTAP4-5 WILD-TYPE	12	17	8	12	2

'KRTAP4-5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.434 (Fisher's exact test), Q value = 1

Table S351. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
KRTAP4-5 MUTATED	3	0	1
KRTAP4-5 WILD-TYPE	18	14	18

'KRTAP4-5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S352. Gene #36: 'KRTAP4-5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
KRTAP4-5 MUTATED	3	1	0
KRTAP4-5 WILD-TYPE	27	15	8

'NOXA1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 1

Table S353. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NOXA1 MUTATED	3	0	2	0
NOXA1 WILD-TYPE	18	20	8	9

'NOXA1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.515 (Fisher's exact test), Q value = 1

Table S354. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NOXA1 MUTATED	2	0	1	0	0
NOXA1 WILD-TYPE	11	8	13	13	7

'NOXA1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S355. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NOXA1 MUTATED	1	1
NOXA1 WILD-TYPE	12	14

'NOXA1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S356. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NOXA1 MUTATED	2	1	0	0
NOXA1 WILD-TYPE	14	7	14	16

'NOXA1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.445 (Fisher's exact test), Q value = 1

Table S357. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NOXA1 MUTATED	2	1	0	0
NOXA1 WILD-TYPE	14	15	4	18

'NOXA1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 1

Table S358. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NOXA1 MUTATED	3	0	0
NOXA1 WILD-TYPE	23	11	18

'NOXA1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.349 (Fisher's exact test), Q value = 1

Table S359. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NOXA1 MUTATED	1	0	0	2	0
NOXA1 WILD-TYPE	12	18	8	12	2

'NOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.255 (Fisher's exact test), Q value = 1

Table S360. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NOXA1 MUTATED	1	2	0
NOXA1 WILD-TYPE	20	12	19

'NOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.719 (Fisher's exact test), Q value = 1

Table S361. Gene #37: 'NOXA1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NOXA1 MUTATED	3	0	0
NOXA1 WILD-TYPE	27	16	8

'TRIOBP MUTATION STATUS' versus 'CN_CNMF'

P value = 0.622 (Fisher's exact test), Q value = 1

Table S362. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TRIOBP MUTATED	4	4	2	0
TRIOBP WILD-TYPE	17	16	8	9

'TRIOBP MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.229 (Fisher's exact test), Q value = 1

Table S363. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TRIOBP MUTATED	3	1	0	3	2
TRIOBP WILD-TYPE	10	7	14	10	5

'TRIOBP MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S364. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TRIOBP MUTATED	2	1
TRIOBP WILD-TYPE	11	14

'TRIOBP MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.128 (Fisher's exact test), Q value = 1

Table S365. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TRIOBP MUTATED	1	0	0	0	0	0	2	0
TRIOBP WILD-TYPE	4	6	5	3	3	1	1	2

'TRIOBP MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S366. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TRIOBP MUTATED	2	1	2	3
TRIOBP WILD-TYPE	14	7	12	13

'TRIOBP MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S367. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TRIOBP MUTATED	3	0	0	5
TRIOBP WILD-TYPE	13	16	4	13

'TRIOBP MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S368. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TRIOBP MUTATED	4	1	4
TRIOBP WILD-TYPE	22	10	14

'TRIOBP MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.872 (Fisher's exact test), Q value = 1

Table S369. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TRIOBP MUTATED	2	2	2	3	0
TRIOBP WILD-TYPE	11	16	6	11	2

'TRIOBP MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S370. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TRIOBP MUTATED	4	2	3
TRIOBP WILD-TYPE	17	12	16

'TRIOBP MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S371. Gene #38: 'TRIOBP MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TRIOBP MUTATED	5	2	2
TRIOBP WILD-TYPE	25	14	6

'ZNF598 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 1

Table S372. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZNF598 MUTATED	8	2	1	1
ZNF598 WILD-TYPE	13	18	9	8

'ZNF598 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.315 (Fisher's exact test), Q value = 1

Table S373. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ZNF598 MUTATED	3	0	2	4	0
ZNF598 WILD-TYPE	10	8	12	9	7

'ZNF598 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S374. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZNF598 MUTATED	3	3
ZNF598 WILD-TYPE	10	12

'ZNF598 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.748 (Fisher's exact test), Q value = 1

Table S375. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ZNF598 MUTATED	1	0	2	1	1	0	1	0
ZNF598 WILD-TYPE	4	6	3	2	2	1	2	2

'ZNF598 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.49 (Fisher's exact test), Q value = 1

Table S376. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ZNF598 MUTATED	4	0	3	2
ZNF598 WILD-TYPE	12	8	11	14

'ZNF598 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.952 (Fisher's exact test), Q value = 1

Table S377. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ZNF598 MUTATED	3	2	1	3
ZNF598 WILD-TYPE	13	14	3	15

'ZNF598 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S378. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ZNF598 MUTATED	4	2	3
ZNF598 WILD-TYPE	22	9	15

'ZNF598 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.224 (Fisher's exact test), Q value = 1

Table S379. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ZNF598 MUTATED	1	3	0	5	0
ZNF598 WILD-TYPE	12	15	8	9	2

'ZNF598 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S380. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ZNF598 MUTATED	3	2	4
ZNF598 WILD-TYPE	18	12	15

'ZNF598 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S381. Gene #39: 'ZNF598 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ZNF598 MUTATED	5	3	1
ZNF598 WILD-TYPE	25	13	7

'IRX3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 1

Table S382. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
IRX3 MUTATED	3	0	2	0
IRX3 WILD-TYPE	18	20	8	9

'IRX3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.704 (Fisher's exact test), Q value = 1

Table S383. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
IRX3 MUTATED	0	1	2	1	0
IRX3 WILD-TYPE	13	7	12	12	7

'IRX3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S384. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
IRX3 MUTATED	0	2
IRX3 WILD-TYPE	13	13

'IRX3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.524 (Fisher's exact test), Q value = 1

Table S385. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
IRX3 MUTATED	2	1	1	0
IRX3 WILD-TYPE	14	7	13	16

'IRX3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 1

Table S386. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
IRX3 MUTATED	1	2	1	0
IRX3 WILD-TYPE	15	14	3	18

'IRX3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.176 (Fisher's exact test), Q value = 1

Table S387. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
IRX3 MUTATED	2	2	0
IRX3 WILD-TYPE	24	9	18

'IRX3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.778 (Fisher's exact test), Q value = 1

Table S388. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
IRX3 MUTATED	2	1	0	1	0
IRX3 WILD-TYPE	11	17	8	13	2

'IRX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 1

Table S389. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
IRX3 MUTATED	3	1	0
IRX3 WILD-TYPE	18	13	19

'IRX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.452 (Fisher's exact test), Q value = 1

Table S390. Gene #40: 'IRX3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
IRX3 MUTATED	3	0	1
IRX3 WILD-TYPE	27	16	7

'WDR34 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.629 (Fisher's exact test), Q value = 1

Table S391. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
WDR34 MUTATED	3	1	0	1
WDR34 WILD-TYPE	18	19	10	8

'WDR34 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.829 (Fisher's exact test), Q value = 1

Table S392. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
WDR34 MUTATED	2	0	1	1	1
WDR34 WILD-TYPE	11	8	13	12	6

'WDR34 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S393. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
WDR34 MUTATED	0	2
WDR34 WILD-TYPE	13	13

'WDR34 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.865 (Fisher's exact test), Q value = 1

Table S394. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
WDR34 MUTATED	2	0	1	2
WDR34 WILD-TYPE	14	8	13	14

'WDR34 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.813 (Fisher's exact test), Q value = 1

Table S395. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
WDR34 MUTATED	2	2	0	1
WDR34 WILD-TYPE	14	14	4	17

'WDR34 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.843 (Fisher's exact test), Q value = 1

Table S396. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
WDR34 MUTATED	3	1	1
WDR34 WILD-TYPE	23	10	17

'WDR34 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.547 (Fisher's exact test), Q value = 1

Table S397. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
WDR34 MUTATED	1	1	0	3	0
WDR34 WILD-TYPE	12	17	8	11	2

'WDR34 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S398. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
WDR34 MUTATED	2	2	1
WDR34 WILD-TYPE	19	12	18

'WDR34 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.332 (Fisher's exact test), Q value = 1

Table S399. Gene #41: 'WDR34 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
WDR34 MUTATED	4	0	1
WDR34 WILD-TYPE	26	16	7

'BHLHE22 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S400. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
BHLHE22 MUTATED	1	2	2	0
BHLHE22 WILD-TYPE	20	18	8	9

'BHLHE22 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0735 (Fisher's exact test), Q value = 1

Table S401. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
BHLHE22 MUTATED	0	3	1	1	0
BHLHE22 WILD-TYPE	13	5	13	12	7

'BHLHE22 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S402. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
BHLHE22 MUTATED	2	2
BHLHE22 WILD-TYPE	11	13

'BHLHE22 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.916 (Fisher's exact test), Q value = 1

Table S403. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
BHLHE22 MUTATED	2	1	1	0	0	0	0	0
BHLHE22 WILD-TYPE	3	5	4	3	3	1	3	2

'BHLHE22 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S404. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
BHLHE22 MUTATED	0	2	2	1
BHLHE22 WILD-TYPE	16	6	12	15

'BHLHE22 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.814 (Fisher's exact test), Q value = 1

Table S405. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
BHLHE22 MUTATED	2	2	0	1
BHLHE22 WILD-TYPE	14	14	4	17

'BHLHE22 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S406. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
BHLHE22 MUTATED	2	2	1
BHLHE22 WILD-TYPE	24	9	17

'BHLHE22 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S407. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
BHLHE22 MUTATED	2	2	0	1	0
BHLHE22 WILD-TYPE	11	16	8	13	2

'BHLHE22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.726 (Fisher's exact test), Q value = 1

Table S408. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
BHLHE22 MUTATED	3	1	1
BHLHE22 WILD-TYPE	18	13	18

'BHLHE22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S409. Gene #42: 'BHLHE22 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
BHLHE22 MUTATED	3	2	0
BHLHE22 WILD-TYPE	27	14	8

'PANK2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.631 (Fisher's exact test), Q value = 1

Table S410. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PANK2 MUTATED	3	1	0	1
PANK2 WILD-TYPE	18	19	10	8

'PANK2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.434 (Fisher's exact test), Q value = 1

Table S411. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PANK2 MUTATED	2	0	0	1	0
PANK2 WILD-TYPE	11	8	14	12	7

'PANK2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S412. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PANK2 MUTATED	0	3
PANK2 WILD-TYPE	13	12

'PANK2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S413. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
PANK2 MUTATED	2	0	0	0	1	0	0	0
PANK2 WILD-TYPE	3	6	5	3	2	1	3	2

'PANK2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S414. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PANK2 MUTATED	3	0	0	0
PANK2 WILD-TYPE	13	8	14	16

'PANK2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0504 (Fisher's exact test), Q value = 1

Table S415. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PANK2 MUTATED	2	0	1	0
PANK2 WILD-TYPE	14	16	3	18

'PANK2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.427 (Fisher's exact test), Q value = 1

Table S416. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PANK2 MUTATED	2	1	0
PANK2 WILD-TYPE	24	10	18

'PANK2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.349 (Fisher's exact test), Q value = 1

Table S417. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PANK2 MUTATED	1	0	0	2	0
PANK2 WILD-TYPE	12	18	8	12	2

'PANK2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S418. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PANK2 MUTATED	1	1	1
PANK2 WILD-TYPE	20	13	18

'PANK2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.255 (Fisher's exact test), Q value = 1

Table S419. Gene #43: 'PANK2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PANK2 MUTATED	2	0	1
PANK2 WILD-TYPE	28	16	7

'FPGS MUTATION STATUS' versus 'CN_CNMF'

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

Table S420. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
FPGS MUTATED	2	2	1	0
FPGS WILD-TYPE	19	18	9	9

'FPGS MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S421. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
FPGS MUTATED	1	1	1	1	0
FPGS WILD-TYPE	12	7	13	12	7

'FPGS MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S422. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
FPGS MUTATED	1	2
FPGS WILD-TYPE	12	13

'FPGS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.351 (Fisher's exact test), Q value = 1

Table S423. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
FPGS MUTATED	1	1	0	0	0	1	0	0
FPGS WILD-TYPE	4	5	5	3	3	0	3	2

'FPGS MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S424. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
FPGS MUTATED	1	1	0	2
FPGS WILD-TYPE	15	7	14	14

'FPGS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S425. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
FPGS MUTATED	2	0	0	2
FPGS WILD-TYPE	14	16	4	16

'FPGS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0556 (Fisher's exact test), Q value = 1

Table S426. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
FPGS MUTATED	0	2	2
FPGS WILD-TYPE	26	9	16

'FPGS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S427. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
FPGS MUTATED	0	2	0	2	0
FPGS WILD-TYPE	13	16	8	12	2

'FPGS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.823 (Fisher's exact test), Q value = 1

Table S428. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
FPGS MUTATED	1	1	2
FPGS WILD-TYPE	20	13	17

'FPGS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S429. Gene #44: 'FPGS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
FPGS MUTATED	2	2	0
FPGS WILD-TYPE	28	14	8

'GLTPD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.879 (Fisher's exact test), Q value = 1

Table S430. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
GLTPD2 MUTATED	3	1	1	1
GLTPD2 WILD-TYPE	18	19	9	8

'GLTPD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S431. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
GLTPD2 MUTATED	1	0	2	2	1
GLTPD2 WILD-TYPE	12	8	12	11	6

'GLTPD2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S432. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
GLTPD2 MUTATED	0	2
GLTPD2 WILD-TYPE	13	13

'GLTPD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.829 (Fisher's exact test), Q value = 1

Table S433. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
GLTPD2 MUTATED	2	0	2	2
GLTPD2 WILD-TYPE	14	8	12	14

'GLTPD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.397 (Fisher's exact test), Q value = 1

Table S434. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
GLTPD2 MUTATED	1	3	1	1
GLTPD2 WILD-TYPE	15	13	3	17

'GLTPD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S435. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
GLTPD2 MUTATED	3	2	1
GLTPD2 WILD-TYPE	23	9	17

'GLTPD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S436. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
GLTPD2 MUTATED	2	1	0	3	0
GLTPD2 WILD-TYPE	11	17	8	11	2

'GLTPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.873 (Fisher's exact test), Q value = 1

Table S437. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
GLTPD2 MUTATED	3	1	2
GLTPD2 WILD-TYPE	18	13	17

'GLTPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.132 (Fisher's exact test), Q value = 1

Table S438. Gene #45: 'GLTPD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
GLTPD2 MUTATED	4	0	2
GLTPD2 WILD-TYPE	26	16	6

'TNIP2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.631 (Fisher's exact test), Q value = 1

Table S439. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TNIP2 MUTATED	3	1	0	1
TNIP2 WILD-TYPE	18	19	10	8

'TNIP2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.705 (Fisher's exact test), Q value = 1

Table S440. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TNIP2 MUTATED	1	1	2	0	0
TNIP2 WILD-TYPE	12	7	12	13	7

'TNIP2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S441. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TNIP2 MUTATED	0	1
TNIP2 WILD-TYPE	13	14

'TNIP2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S442. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TNIP2 MUTATED	1	0	2	1
TNIP2 WILD-TYPE	15	8	12	15

'TNIP2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S443. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TNIP2 MUTATED	1	2	0	1
TNIP2 WILD-TYPE	15	14	4	17

'TNIP2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S444. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TNIP2 MUTATED	2	1	1
TNIP2 WILD-TYPE	24	10	17

'TNIP2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.414 (Fisher's exact test), Q value = 1

Table S445. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TNIP2 MUTATED	1	0	1	2	0
TNIP2 WILD-TYPE	12	18	7	12	2

'TNIP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S446. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TNIP2 MUTATED	2	1	1
TNIP2 WILD-TYPE	19	13	18

'TNIP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S447. Gene #46: 'TNIP2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TNIP2 MUTATED	3	0	1
TNIP2 WILD-TYPE	27	16	7

'AKAP2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S448. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
AKAP2 MUTATED	1	1	1	3
AKAP2 WILD-TYPE	20	19	9	6

'AKAP2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S449. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
AKAP2 MUTATED	1	0	2	2	1
AKAP2 WILD-TYPE	12	8	12	11	6

'AKAP2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S450. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
AKAP2 MUTATED	2	3
AKAP2 WILD-TYPE	11	12

'AKAP2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.753 (Fisher's exact test), Q value = 1

Table S451. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
AKAP2 MUTATED	1	1	2	0	0	0	0	1
AKAP2 WILD-TYPE	4	5	3	3	3	1	3	1

'AKAP2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.83 (Fisher's exact test), Q value = 1

Table S452. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
AKAP2 MUTATED	2	0	2	2
AKAP2 WILD-TYPE	14	8	12	14

'AKAP2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.594 (Fisher's exact test), Q value = 1

Table S453. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
AKAP2 MUTATED	1	2	1	2
AKAP2 WILD-TYPE	15	14	3	16

'AKAP2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.747 (Fisher's exact test), Q value = 1

Table S454. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
AKAP2 MUTATED	2	1	3
AKAP2 WILD-TYPE	24	10	15

'AKAP2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 1

Table S455. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
AKAP2 MUTATED	2	4	0	0	0
AKAP2 WILD-TYPE	11	14	8	14	2

'AKAP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S456. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
AKAP2 MUTATED	2	1	3
AKAP2 WILD-TYPE	19	13	16

'AKAP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.41 (Fisher's exact test), Q value = 1

Table S457. Gene #47: 'AKAP2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
AKAP2 MUTATED	2	3	1
AKAP2 WILD-TYPE	28	13	7

'RREB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.728 (Fisher's exact test), Q value = 1

Table S458. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RREB1 MUTATED	3	1	1	0
RREB1 WILD-TYPE	18	19	9	9

'RREB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S459. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RREB1 MUTATED	2	0	1	1	0
RREB1 WILD-TYPE	11	8	13	12	7

'RREB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.206 (Fisher's exact test), Q value = 1

Table S460. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RREB1 MUTATED	2	0
RREB1 WILD-TYPE	11	15

'RREB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.619 (Fisher's exact test), Q value = 1

Table S461. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RREB1 MUTATED	1	1	1	0
RREB1 WILD-TYPE	15	7	13	16

'RREB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S462. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RREB1 MUTATED	1	1	0	1
RREB1 WILD-TYPE	15	15	4	17

'RREB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.526 (Fisher's exact test), Q value = 1

Table S463. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RREB1 MUTATED	1	1	2
RREB1 WILD-TYPE	25	10	16

'RREB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S464. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RREB1 MUTATED	2	2	0	0	0
RREB1 WILD-TYPE	11	16	8	14	2

'RREB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.172 (Fisher's exact test), Q value = 1

Table S465. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RREB1 MUTATED	0	2	2
RREB1 WILD-TYPE	21	12	17

'RREB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.352 (Fisher's exact test), Q value = 1

Table S466. Gene #48: 'RREB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RREB1 MUTATED	1	2	1
RREB1 WILD-TYPE	29	14	7

'TPO MUTATION STATUS' versus 'CN_CNMF'

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

Table S467. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TPO MUTATED	7	2	1	2
TPO WILD-TYPE	14	18	9	7

'TPO MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 1

Table S468. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TPO MUTATED	3	3	1	2	0
TPO WILD-TYPE	10	5	13	11	7

'TPO MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.102 (Fisher's exact test), Q value = 1

Table S469. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TPO MUTATED	0	4
TPO WILD-TYPE	13	11

'TPO MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S470. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TPO MUTATED	2	1	0	0	1	0	0	0
TPO WILD-TYPE	3	5	5	3	2	1	3	2

'TPO MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.176 (Fisher's exact test), Q value = 1

Table S471. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TPO MUTATED	5	2	1	1
TPO WILD-TYPE	11	6	13	15

'TPO MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S472. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TPO MUTATED	4	2	2	1
TPO WILD-TYPE	12	14	2	17

'TPO MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.098 (Fisher's exact test), Q value = 1

Table S473. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TPO MUTATED	4	4	1
TPO WILD-TYPE	22	7	17

'TPO MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.343 (Fisher's exact test), Q value = 1

Table S474. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TPO MUTATED	1	2	1	5	0
TPO WILD-TYPE	12	16	7	9	2

'TPO MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S475. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TPO MUTATED	4	2	3
TPO WILD-TYPE	17	12	16

'TPO MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 1

Table S476. Gene #49: 'TPO MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TPO MUTATED	5	1	3
TPO WILD-TYPE	25	15	5

'OBSCN MUTATION STATUS' versus 'CN_CNMF'

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

Table S477. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
OBSCN MUTATED	9	6	1	2
OBSCN WILD-TYPE	12	14	9	7

'OBSCN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.519 (Fisher's exact test), Q value = 1

Table S478. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
OBSCN MUTATED	4	4	2	4	2
OBSCN WILD-TYPE	9	4	12	9	5

'OBSCN MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S479. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
OBSCN MUTATED	4	4
OBSCN WILD-TYPE	9	11

'OBSCN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.544 (Fisher's exact test), Q value = 1

Table S480. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
OBSCN MUTATED	1	2	1	0	2	0	2	0
OBSCN WILD-TYPE	4	4	4	3	1	1	1	2

'OBSCN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S481. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
OBSCN MUTATED	6	2	5	3
OBSCN WILD-TYPE	10	6	9	13

'OBSCN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.807 (Fisher's exact test), Q value = 1

Table S482. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
OBSCN MUTATED	5	4	2	5
OBSCN WILD-TYPE	11	12	2	13

'OBSCN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.15 (Fisher's exact test), Q value = 1

Table S483. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
OBSCN MUTATED	6	6	4
OBSCN WILD-TYPE	20	5	14

'OBSCN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.498 (Fisher's exact test), Q value = 1

Table S484. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
OBSCN MUTATED	2	5	3	6	0
OBSCN WILD-TYPE	11	13	5	8	2

'OBSCN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S485. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
OBSCN MUTATED	6	4	6
OBSCN WILD-TYPE	15	10	13

'OBSCN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S486. Gene #50: 'OBSCN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
OBSCN MUTATED	8	4	4
OBSCN WILD-TYPE	22	12	4

'SNED1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S487. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SNED1 MUTATED	3	1	0	1
SNED1 WILD-TYPE	18	19	10	8

'SNED1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S488. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SNED1 MUTATED	2	2	1	0	0
SNED1 WILD-TYPE	11	6	13	13	7

'SNED1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S489. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SNED1 MUTATED	1	0
SNED1 WILD-TYPE	12	15

'SNED1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 1

Table S490. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SNED1 MUTATED	3	1	0	1
SNED1 WILD-TYPE	13	7	14	15

'SNED1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S491. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SNED1 MUTATED	3	1	0	1
SNED1 WILD-TYPE	13	15	4	17

'SNED1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0936 (Fisher's exact test), Q value = 1

Table S492. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SNED1 MUTATED	1	3	1
SNED1 WILD-TYPE	25	8	17

'SNED1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.663 (Fisher's exact test), Q value = 1

Table S493. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SNED1 MUTATED	0	2	1	2	0
SNED1 WILD-TYPE	13	16	7	12	2

'SNED1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S494. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SNED1 MUTATED	2	1	2
SNED1 WILD-TYPE	19	13	17

'SNED1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.543 (Fisher's exact test), Q value = 1

Table S495. Gene #51: 'SNED1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SNED1 MUTATED	2	2	1
SNED1 WILD-TYPE	28	14	7

'MEN1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.417 (Fisher's exact test), Q value = 1

Table S496. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
MEN1 MUTATED	1	1	2	0
MEN1 WILD-TYPE	20	19	8	9

'MEN1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0491 (Fisher's exact test), Q value = 1

Table S497. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
MEN1 MUTATED	0	1	4	0	0
MEN1 WILD-TYPE	13	7	10	13	7

Figure S23. Get High-res Image Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'MEN1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S498. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
MEN1 MUTATED	0	2
MEN1 WILD-TYPE	13	13

'MEN1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0129 (Fisher's exact test), Q value = 1

Table S499. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
MEN1 MUTATED	0	1	4	0
MEN1 WILD-TYPE	16	7	10	16

Figure S24. Get High-res Image Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'MEN1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00621 (Fisher's exact test), Q value = 1

Table S500. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
MEN1 MUTATED	0	5	0	0
MEN1 WILD-TYPE	16	11	4	18

Figure S25. Get High-res Image Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'MEN1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.206 (Fisher's exact test), Q value = 1

Table S501. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
MEN1 MUTATED	4	1	0
MEN1 WILD-TYPE	22	10	18

'MEN1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0428 (Fisher's exact test), Q value = 1

Table S502. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
MEN1 MUTATED	4	0	0	1	0
MEN1 WILD-TYPE	9	18	8	13	2

Figure S26. Get High-res Image Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'MEN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.14 (Fisher's exact test), Q value = 1

Table S503. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
MEN1 MUTATED	4	1	0
MEN1 WILD-TYPE	17	13	19

'MEN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.204 (Fisher's exact test), Q value = 1

Table S504. Gene #52: 'MEN1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
MEN1 MUTATED	5	0	0
MEN1 WILD-TYPE	25	16	8

'BTBD11 MUTATION STATUS' versus 'CN_CNMF'

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

Table S505. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
BTBD11 MUTATED	2	2	1	1
BTBD11 WILD-TYPE	19	18	9	8

'BTBD11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 1

Table S506. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
BTBD11 MUTATED	1	1	1	0	2
BTBD11 WILD-TYPE	12	7	13	13	5

'BTBD11 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S507. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
BTBD11 MUTATED	0	1
BTBD11 WILD-TYPE	13	14

'BTBD11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.485 (Fisher's exact test), Q value = 1

Table S508. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
BTBD11 MUTATED	1	0	3	1
BTBD11 WILD-TYPE	15	8	11	15

'BTBD11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S509. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
BTBD11 MUTATED	1	2	0	2
BTBD11 WILD-TYPE	15	14	4	16

'BTBD11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.486 (Fisher's exact test), Q value = 1

Table S510. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
BTBD11 MUTATED	4	0	1
BTBD11 WILD-TYPE	22	11	17

'BTBD11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 1

Table S511. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
BTBD11 MUTATED	2	0	2	1	0
BTBD11 WILD-TYPE	11	18	6	13	2

'BTBD11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.726 (Fisher's exact test), Q value = 1

Table S512. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
BTBD11 MUTATED	3	1	1
BTBD11 WILD-TYPE	18	13	18

'BTBD11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.333 (Fisher's exact test), Q value = 1

Table S513. Gene #53: 'BTBD11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
BTBD11 MUTATED	4	0	1
BTBD11 WILD-TYPE	26	16	7

'RNF149 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.339 (Fisher's exact test), Q value = 1

Table S514. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RNF149 MUTATED	0	2	1	1
RNF149 WILD-TYPE	21	18	9	8

'RNF149 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0368 (Fisher's exact test), Q value = 1

Table S515. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RNF149 MUTATED	0	0	2	0	2
RNF149 WILD-TYPE	13	8	12	13	5

Figure S27. Get High-res Image Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'RNF149 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S516. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RNF149 MUTATED	2	1
RNF149 WILD-TYPE	11	14

'RNF149 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.955 (Fisher's exact test), Q value = 1

Table S517. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
RNF149 MUTATED	0	1	1	0	1	0	0	0
RNF149 WILD-TYPE	5	5	4	3	2	1	3	2

'RNF149 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S518. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RNF149 MUTATED	0	1	2	1
RNF149 WILD-TYPE	16	7	12	15

'RNF149 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S519. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RNF149 MUTATED	0	2	0	2
RNF149 WILD-TYPE	16	14	4	16

'RNF149 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.317 (Fisher's exact test), Q value = 1

Table S520. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RNF149 MUTATED	1	2	1
RNF149 WILD-TYPE	25	9	17

'RNF149 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S521. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RNF149 MUTATED	0	3	1	0	0
RNF149 WILD-TYPE	13	15	7	14	2

'RNF149 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.664 (Fisher's exact test), Q value = 1

Table S522. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RNF149 MUTATED	1	2	1
RNF149 WILD-TYPE	20	12	18

'RNF149 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 1

Table S523. Gene #54: 'RNF149 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RNF149 MUTATED	1	3	0
RNF149 WILD-TYPE	29	13	8

'KIAA1984 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.419 (Fisher's exact test), Q value = 1

Table S524. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KIAA1984 MUTATED	2	0	1	1
KIAA1984 WILD-TYPE	19	20	9	8

'KIAA1984 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S525. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
KIAA1984 MUTATED	0	1	2	1	0
KIAA1984 WILD-TYPE	13	7	12	12	7

'KIAA1984 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S526. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
KIAA1984 MUTATED	0	3
KIAA1984 WILD-TYPE	13	12

'KIAA1984 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S527. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
KIAA1984 MUTATED	0	2	0	0	1	0	0	0
KIAA1984 WILD-TYPE	5	4	5	3	2	1	3	2

'KIAA1984 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 1

Table S528. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
KIAA1984 MUTATED	1	0	3	0
KIAA1984 WILD-TYPE	15	8	11	16

'KIAA1984 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0494 (Fisher's exact test), Q value = 1

Table S529. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
KIAA1984 MUTATED	0	3	1	0
KIAA1984 WILD-TYPE	16	13	3	18

Figure S28. Get High-res Image Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'KIAA1984 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0318 (Fisher's exact test), Q value = 1

Table S530. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
KIAA1984 MUTATED	1	3	0
KIAA1984 WILD-TYPE	25	8	18

Figure S29. Get High-res Image Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'KIAA1984 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S531. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
KIAA1984 MUTATED	0	1	1	2	0
KIAA1984 WILD-TYPE	13	17	7	12	2

'KIAA1984 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S532. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
KIAA1984 MUTATED	1	2	1
KIAA1984 WILD-TYPE	20	12	18

'KIAA1984 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S533. Gene #55: 'KIAA1984 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
KIAA1984 MUTATED	2	1	1
KIAA1984 WILD-TYPE	28	15	7

'CCDC150 MUTATION STATUS' versus 'CN_CNMF'

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

Table S534. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CCDC150 MUTATED	2	0	2	0
CCDC150 WILD-TYPE	19	20	8	9

'CCDC150 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S535. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CCDC150 MUTATED	2	0	1	1	0
CCDC150 WILD-TYPE	11	8	13	12	7

'CCDC150 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S536. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CCDC150 MUTATED	0	3
CCDC150 WILD-TYPE	13	12

'CCDC150 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S537. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CCDC150 MUTATED	0	1	0	1	1	0	0	0
CCDC150 WILD-TYPE	5	5	5	2	2	1	3	2

'CCDC150 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.241 (Fisher's exact test), Q value = 1

Table S538. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CCDC150 MUTATED	3	0	1	0
CCDC150 WILD-TYPE	13	8	13	16

'CCDC150 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.119 (Fisher's exact test), Q value = 1

Table S539. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CCDC150 MUTATED	2	1	1	0
CCDC150 WILD-TYPE	14	15	3	18

'CCDC150 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.4 (Fisher's exact test), Q value = 1

Table S540. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CCDC150 MUTATED	3	1	0
CCDC150 WILD-TYPE	23	10	18

'CCDC150 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.214 (Fisher's exact test), Q value = 1

Table S541. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CCDC150 MUTATED	1	0	0	3	0
CCDC150 WILD-TYPE	12	18	8	11	2

'CCDC150 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S542. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CCDC150 MUTATED	2	1	1
CCDC150 WILD-TYPE	19	13	18

'CCDC150 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S543. Gene #56: 'CCDC150 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CCDC150 MUTATED	3	0	1
CCDC150 WILD-TYPE	27	16	7

'FAM18B2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S544. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
FAM18B2 MUTATED	2	1	0	1
FAM18B2 WILD-TYPE	19	19	10	8

'FAM18B2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.333 (Fisher's exact test), Q value = 1

Table S545. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
FAM18B2 MUTATED	1	2	1	0	0
FAM18B2 WILD-TYPE	12	6	13	13	7

'FAM18B2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S546. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
FAM18B2 MUTATED	1	1
FAM18B2 WILD-TYPE	12	14

'FAM18B2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.166 (Fisher's exact test), Q value = 1

Table S547. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
FAM18B2 MUTATED	1	2	1	0
FAM18B2 WILD-TYPE	15	6	13	16

'FAM18B2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.483 (Fisher's exact test), Q value = 1

Table S548. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
FAM18B2 MUTATED	2	2	0	0
FAM18B2 WILD-TYPE	14	14	4	18

'FAM18B2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.314 (Fisher's exact test), Q value = 1

Table S549. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
FAM18B2 MUTATED	1	2	1
FAM18B2 WILD-TYPE	25	9	17

'FAM18B2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S550. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
FAM18B2 MUTATED	0	3	0	1	0
FAM18B2 WILD-TYPE	13	15	8	13	2

'FAM18B2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.824 (Fisher's exact test), Q value = 1

Table S551. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
FAM18B2 MUTATED	1	1	2
FAM18B2 WILD-TYPE	20	13	17

'FAM18B2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.172 (Fisher's exact test), Q value = 1

Table S552. Gene #57: 'FAM18B2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
FAM18B2 MUTATED	1	3	0
FAM18B2 WILD-TYPE	29	13	8

'MUC5B MUTATION STATUS' versus 'CN_CNMF'

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

Table S553. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
MUC5B MUTATED	8	7	3	3
MUC5B WILD-TYPE	13	13	7	6

'MUC5B MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S554. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
MUC5B MUTATED	3	3	6	4	4
MUC5B WILD-TYPE	10	5	8	9	3

'MUC5B MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S555. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
MUC5B MUTATED	5	6
MUC5B WILD-TYPE	8	9

'MUC5B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.812 (Fisher's exact test), Q value = 1

Table S556. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
MUC5B MUTATED	2	2	2	0	2	0	2	1
MUC5B WILD-TYPE	3	4	3	3	1	1	1	1

'MUC5B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.734 (Fisher's exact test), Q value = 1

Table S557. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
MUC5B MUTATED	5	3	7	5
MUC5B WILD-TYPE	11	5	7	11

'MUC5B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.673 (Fisher's exact test), Q value = 1

Table S558. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
MUC5B MUTATED	4	7	2	7
MUC5B WILD-TYPE	12	9	2	11

'MUC5B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S559. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
MUC5B MUTATED	8	5	7
MUC5B WILD-TYPE	18	6	11

'MUC5B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S560. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
MUC5B MUTATED	3	7	4	6	0
MUC5B WILD-TYPE	10	11	4	8	2

'MUC5B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S561. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
MUC5B MUTATED	7	5	7
MUC5B WILD-TYPE	14	9	12

'MUC5B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S562. Gene #58: 'MUC5B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
MUC5B MUTATED	9	6	4
MUC5B WILD-TYPE	21	10	4

'PTPLA MUTATION STATUS' versus 'CN_CNMF'

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

Table S563. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PTPLA MUTATED	2	0	1	1
PTPLA WILD-TYPE	19	20	9	8

'PTPLA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.323 (Fisher's exact test), Q value = 1

Table S564. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PTPLA MUTATED	0	1	2	0	0
PTPLA WILD-TYPE	13	7	12	13	7

'PTPLA MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S565. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PTPLA MUTATED	0	1
PTPLA WILD-TYPE	13	14

'PTPLA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.338 (Fisher's exact test), Q value = 1

Table S566. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PTPLA MUTATED	1	0	2	0
PTPLA WILD-TYPE	15	8	12	16

'PTPLA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 1

Table S567. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PTPLA MUTATED	1	2	0	0
PTPLA WILD-TYPE	15	14	4	18

'PTPLA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S568. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PTPLA MUTATED	1	1	1
PTPLA WILD-TYPE	25	10	17

'PTPLA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S569. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PTPLA MUTATED	1	1	0	1	0
PTPLA WILD-TYPE	12	17	8	13	2

'PTPLA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S570. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PTPLA MUTATED	2	0	1
PTPLA WILD-TYPE	19	14	18

'PTPLA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S571. Gene #59: 'PTPLA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PTPLA MUTATED	2	1	0
PTPLA WILD-TYPE	28	15	8

'SRPX MUTATION STATUS' versus 'CN_CNMF'

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

Table S572. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SRPX MUTATED	1	2	0	0
SRPX WILD-TYPE	20	18	10	9

'SRPX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 1

Table S573. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SRPX MUTATED	0	2	0	1	0
SRPX WILD-TYPE	13	6	14	12	7

'SRPX MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S574. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SRPX MUTATED	1	1
SRPX WILD-TYPE	12	14

'SRPX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S575. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SRPX MUTATED	0	1	1	1
SRPX WILD-TYPE	16	7	13	15

'SRPX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S576. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SRPX MUTATED	1	1	0	1
SRPX WILD-TYPE	15	15	4	17

'SRPX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S577. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SRPX MUTATED	1	1	1
SRPX WILD-TYPE	25	10	17

'SRPX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.717 (Fisher's exact test), Q value = 1

Table S578. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SRPX MUTATED	1	2	0	0	0
SRPX WILD-TYPE	12	16	8	14	2

'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S579. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SRPX MUTATED	1	1	1
SRPX WILD-TYPE	20	13	18

'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.402 (Fisher's exact test), Q value = 1

Table S580. Gene #60: 'SRPX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SRPX MUTATED	1	2	0
SRPX WILD-TYPE	29	14	8

'GARS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.073 (Fisher's exact test), Q value = 1

Table S581. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
GARS MUTATED	5	4	4	6
GARS WILD-TYPE	16	16	6	3

'GARS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.091 (Fisher's exact test), Q value = 1

Table S582. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
GARS MUTATED	2	0	4	5	4
GARS WILD-TYPE	11	8	10	8	3

'GARS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.228 (Fisher's exact test), Q value = 1

Table S583. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
GARS MUTATED	6	3
GARS WILD-TYPE	7	12

'GARS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.334 (Fisher's exact test), Q value = 1

Table S584. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
GARS MUTATED	2	1	4	1	0	0	1	0
GARS WILD-TYPE	3	5	1	2	3	1	2	2

'GARS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.338 (Fisher's exact test), Q value = 1

Table S585. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
GARS MUTATED	3	1	4	7
GARS WILD-TYPE	13	7	10	9

'GARS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.102 (Fisher's exact test), Q value = 1

Table S586. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
GARS MUTATED	2	3	2	8
GARS WILD-TYPE	14	13	2	10

'GARS MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S587. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
GARS MUTATED	6	1	8
GARS WILD-TYPE	20	10	10

'GARS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.403 (Fisher's exact test), Q value = 1

Table S588. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
GARS MUTATED	3	6	4	2	0
GARS WILD-TYPE	10	12	4	12	2

'GARS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.213 (Fisher's exact test), Q value = 1

Table S589. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
GARS MUTATED	5	2	8
GARS WILD-TYPE	16	12	11

'GARS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S590. Gene #61: 'GARS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
GARS MUTATED	6	6	3
GARS WILD-TYPE	24	10	5

'PRSS27 MUTATION STATUS' versus 'CN_CNMF'

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

Table S591. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PRSS27 MUTATED	1	1	1	0
PRSS27 WILD-TYPE	20	19	9	9

'PRSS27 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.91 (Fisher's exact test), Q value = 1

Table S592. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PRSS27 MUTATED	0	1	1	1	0
PRSS27 WILD-TYPE	13	7	13	12	7

'PRSS27 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S593. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PRSS27 MUTATED	0	1
PRSS27 WILD-TYPE	13	14

'PRSS27 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S594. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PRSS27 MUTATED	1	1	1	0
PRSS27 WILD-TYPE	15	7	13	16

'PRSS27 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0523 (Fisher's exact test), Q value = 1

Table S595. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PRSS27 MUTATED	0	2	1	0
PRSS27 WILD-TYPE	16	14	3	18

'PRSS27 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.129 (Fisher's exact test), Q value = 1

Table S596. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PRSS27 MUTATED	1	2	0
PRSS27 WILD-TYPE	25	9	18

'PRSS27 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S597. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PRSS27 MUTATED	1	1	0	1	0
PRSS27 WILD-TYPE	12	17	8	13	2

'PRSS27 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.614 (Fisher's exact test), Q value = 1

Table S598. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PRSS27 MUTATED	1	0	2
PRSS27 WILD-TYPE	20	14	17

'PRSS27 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S599. Gene #62: 'PRSS27 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PRSS27 MUTATED	1	1	1
PRSS27 WILD-TYPE	29	15	7

'SEMA5B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.337 (Fisher's exact test), Q value = 1

Table S600. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SEMA5B MUTATED	5	2	0	1
SEMA5B WILD-TYPE	16	18	10	8

'SEMA5B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.269 (Fisher's exact test), Q value = 1

Table S601. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SEMA5B MUTATED	2	1	0	3	0
SEMA5B WILD-TYPE	11	7	14	10	7

'SEMA5B MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S602. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SEMA5B MUTATED	3	1
SEMA5B WILD-TYPE	10	14

'SEMA5B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 1

Table S603. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
SEMA5B MUTATED	2	0	1	0	0	1	0	0
SEMA5B WILD-TYPE	3	6	4	3	3	0	3	2

'SEMA5B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.398 (Fisher's exact test), Q value = 1

Table S604. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SEMA5B MUTATED	3	1	0	2
SEMA5B WILD-TYPE	13	7	14	14

'SEMA5B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.212 (Fisher's exact test), Q value = 1

Table S605. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SEMA5B MUTATED	3	0	1	2
SEMA5B WILD-TYPE	13	16	3	16

'SEMA5B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.649 (Fisher's exact test), Q value = 1

Table S606. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SEMA5B MUTATED	2	2	2
SEMA5B WILD-TYPE	24	9	16

'SEMA5B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S607. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SEMA5B MUTATED	0	4	0	2	0
SEMA5B WILD-TYPE	13	14	8	12	2

'SEMA5B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S608. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SEMA5B MUTATED	1	3	2
SEMA5B WILD-TYPE	20	11	17

'SEMA5B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.412 (Fisher's exact test), Q value = 1

Table S609. Gene #63: 'SEMA5B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SEMA5B MUTATED	2	3	1
SEMA5B WILD-TYPE	28	13	7

'CD320 MUTATION STATUS' versus 'CN_CNMF'

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

Table S610. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CD320 MUTATED	2	1	1	0
CD320 WILD-TYPE	19	19	9	9

'CD320 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S611. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CD320 MUTATED	1	0	1	2	0
CD320 WILD-TYPE	12	8	13	11	7

'CD320 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S612. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CD320 MUTATED	1	1
CD320 WILD-TYPE	12	14

'CD320 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S613. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CD320 MUTATED	1	0	2	1
CD320 WILD-TYPE	15	8	12	15

'CD320 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S614. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CD320 MUTATED	1	1	1	1
CD320 WILD-TYPE	15	15	3	17

'CD320 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.399 (Fisher's exact test), Q value = 1

Table S615. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CD320 MUTATED	3	1	0
CD320 WILD-TYPE	23	10	18

'CD320 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.228 (Fisher's exact test), Q value = 1

Table S616. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CD320 MUTATED	1	0	2	1	0
CD320 WILD-TYPE	12	18	6	13	2

'CD320 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 1

Table S617. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CD320 MUTATED	3	1	0
CD320 WILD-TYPE	18	13	19

'CD320 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S618. Gene #64: 'CD320 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CD320 MUTATED	4	0	0
CD320 WILD-TYPE	26	16	8

'TAF5 MUTATION STATUS' versus 'CN_CNMF'

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

Table S619. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TAF5 MUTATED	2	1	1	0
TAF5 WILD-TYPE	19	19	9	9

'TAF5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S620. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
TAF5 MUTATED	1	1	1	0	1
TAF5 WILD-TYPE	12	7	13	13	6

'TAF5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S621. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TAF5 MUTATED	2	1
TAF5 WILD-TYPE	11	14

'TAF5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.955 (Fisher's exact test), Q value = 1

Table S622. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
TAF5 MUTATED	1	1	0	0	1	0	0	0
TAF5 WILD-TYPE	4	5	5	3	2	1	3	2

'TAF5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S623. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
TAF5 MUTATED	1	1	1	1
TAF5 WILD-TYPE	15	7	13	15

'TAF5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S624. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
TAF5 MUTATED	2	1	0	1
TAF5 WILD-TYPE	14	15	4	17

'TAF5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00949 (Fisher's exact test), Q value = 1

Table S625. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
TAF5 MUTATED	0	3	1
TAF5 WILD-TYPE	26	8	17

Figure S30. Get High-res Image Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'TAF5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.117 (Fisher's exact test), Q value = 1

Table S626. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
TAF5 MUTATED	0	4	0	0	0
TAF5 WILD-TYPE	13	14	8	14	2

'TAF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0557 (Fisher's exact test), Q value = 1

Table S627. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
TAF5 MUTATED	0	3	1
TAF5 WILD-TYPE	21	11	18

'TAF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0146 (Fisher's exact test), Q value = 1

Table S628. Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
TAF5 MUTATED	0	4	0
TAF5 WILD-TYPE	30	12	8

Figure S31. Get High-res Image Gene #65: 'TAF5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NEFH MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0516 (Fisher's exact test), Q value = 1

Table S629. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NEFH MUTATED	5	0	1	0
NEFH WILD-TYPE	16	20	9	9

'NEFH MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.172 (Fisher's exact test), Q value = 1

Table S630. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NEFH MUTATED	3	0	0	1	0
NEFH WILD-TYPE	10	8	14	12	7

'NEFH MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S631. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NEFH MUTATED	0	2
NEFH WILD-TYPE	13	13

'NEFH MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 1

Table S632. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NEFH MUTATED	3	0	0	0
NEFH WILD-TYPE	13	8	14	16

'NEFH MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0519 (Fisher's exact test), Q value = 1

Table S633. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NEFH MUTATED	2	0	1	0
NEFH WILD-TYPE	14	16	3	18

'NEFH MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.399 (Fisher's exact test), Q value = 1

Table S634. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NEFH MUTATED	3	1	0
NEFH WILD-TYPE	23	10	18

'NEFH MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.212 (Fisher's exact test), Q value = 1

Table S635. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NEFH MUTATED	1	0	0	3	0
NEFH WILD-TYPE	12	18	8	11	2

'NEFH MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S636. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NEFH MUTATED	1	2	1
NEFH WILD-TYPE	20	12	18

'NEFH MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S637. Gene #66: 'NEFH MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NEFH MUTATED	3	0	1
NEFH WILD-TYPE	27	16	7

'DMKN MUTATION STATUS' versus 'CN_CNMF'

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

Table S638. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
DMKN MUTATED	2	1	0	0
DMKN WILD-TYPE	19	19	10	9

'DMKN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.328 (Fisher's exact test), Q value = 1

Table S639. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
DMKN MUTATED	0	1	2	0	0
DMKN WILD-TYPE	13	7	12	13	7

'DMKN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S640. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
DMKN MUTATED	1	0
DMKN WILD-TYPE	12	15

'DMKN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.618 (Fisher's exact test), Q value = 1

Table S641. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
DMKN MUTATED	1	1	1	0
DMKN WILD-TYPE	15	7	13	16

'DMKN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.444 (Fisher's exact test), Q value = 1

Table S642. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
DMKN MUTATED	1	2	0	0
DMKN WILD-TYPE	15	14	4	18

'DMKN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00601 (Fisher's exact test), Q value = 1

Table S643. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
DMKN MUTATED	0	3	0
DMKN WILD-TYPE	26	8	18

Figure S32. Get High-res Image Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'DMKN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S644. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
DMKN MUTATED	0	1	0	2	0
DMKN WILD-TYPE	13	17	8	12	2

'DMKN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 1

Table S645. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
DMKN MUTATED	1	2	0
DMKN WILD-TYPE	20	12	19

'DMKN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S646. Gene #67: 'DMKN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
DMKN MUTATED	2	1	0
DMKN WILD-TYPE	28	15	8

'NPTX1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.641 (Fisher's exact test), Q value = 1

Table S647. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NPTX1 MUTATED	1	1	0	1
NPTX1 WILD-TYPE	20	19	10	8

'NPTX1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S648. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NPTX1 MUTATED	1	0	1	1	0
NPTX1 WILD-TYPE	12	8	13	12	7

'NPTX1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S649. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NPTX1 MUTATED	1	0
NPTX1 WILD-TYPE	12	15

'NPTX1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S650. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NPTX1 MUTATED	1	0	1	1
NPTX1 WILD-TYPE	15	8	13	15

'NPTX1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.813 (Fisher's exact test), Q value = 1

Table S651. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NPTX1 MUTATED	1	0	0	2
NPTX1 WILD-TYPE	15	16	4	16

'NPTX1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S652. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NPTX1 MUTATED	1	0	2
NPTX1 WILD-TYPE	25	11	16

'NPTX1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S653. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NPTX1 MUTATED	0	1	1	1	0
NPTX1 WILD-TYPE	13	17	7	13	2

'NPTX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 1

Table S654. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NPTX1 MUTATED	0	1	2
NPTX1 WILD-TYPE	21	13	17

'NPTX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S655. Gene #68: 'NPTX1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NPTX1 MUTATED	1	1	1
NPTX1 WILD-TYPE	29	15	7

'NOTCH2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.279 (Fisher's exact test), Q value = 1

Table S656. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NOTCH2 MUTATED	4	1	0	0
NOTCH2 WILD-TYPE	17	19	10	9

'NOTCH2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.896 (Fisher's exact test), Q value = 1

Table S657. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NOTCH2 MUTATED	1	0	2	1	0
NOTCH2 WILD-TYPE	12	8	12	12	7

'NOTCH2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S658. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NOTCH2 MUTATED	1	1
NOTCH2 WILD-TYPE	12	14

'NOTCH2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S659. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NOTCH2 MUTATED	2	1	1	0
NOTCH2 WILD-TYPE	14	7	13	16

'NOTCH2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.115 (Fisher's exact test), Q value = 1

Table S660. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NOTCH2 MUTATED	1	2	1	0
NOTCH2 WILD-TYPE	15	14	3	18

'NOTCH2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0307 (Fisher's exact test), Q value = 1

Table S661. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NOTCH2 MUTATED	1	3	0
NOTCH2 WILD-TYPE	25	8	18

Figure S33. Get High-res Image Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'NOTCH2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.319 (Fisher's exact test), Q value = 1

Table S662. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NOTCH2 MUTATED	0	1	0	3	0
NOTCH2 WILD-TYPE	13	17	8	11	2

'NOTCH2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S663. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NOTCH2 MUTATED	1	2	1
NOTCH2 WILD-TYPE	20	12	18

'NOTCH2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S664. Gene #69: 'NOTCH2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NOTCH2 MUTATED	2	1	1
NOTCH2 WILD-TYPE	28	15	7

'RNF39 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.726 (Fisher's exact test), Q value = 1

Table S665. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RNF39 MUTATED	3	1	1	0
RNF39 WILD-TYPE	18	19	9	9

'RNF39 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.378 (Fisher's exact test), Q value = 1

Table S666. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RNF39 MUTATED	1	2	2	0	0
RNF39 WILD-TYPE	12	6	12	13	7

'RNF39 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S667. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RNF39 MUTATED	1	3
RNF39 WILD-TYPE	12	12

'RNF39 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S668. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
RNF39 MUTATED	1	2	0	1	0	0	0	0
RNF39 WILD-TYPE	4	4	5	2	3	1	3	2

'RNF39 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.175 (Fisher's exact test), Q value = 1

Table S669. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RNF39 MUTATED	1	1	3	0
RNF39 WILD-TYPE	15	7	11	16

'RNF39 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.265 (Fisher's exact test), Q value = 1

Table S670. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RNF39 MUTATED	2	3	0	0
RNF39 WILD-TYPE	14	13	4	18

'RNF39 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 1

Table S671. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RNF39 MUTATED	3	2	0
RNF39 WILD-TYPE	23	9	18

'RNF39 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S672. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RNF39 MUTATED	2	1	0	2	0
RNF39 WILD-TYPE	11	17	8	12	2

'RNF39 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.239 (Fisher's exact test), Q value = 1

Table S673. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RNF39 MUTATED	3	2	0
RNF39 WILD-TYPE	18	12	19

'RNF39 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S674. Gene #70: 'RNF39 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RNF39 MUTATED	4	1	0
RNF39 WILD-TYPE	26	15	8

'KBTBD13 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.458 (Fisher's exact test), Q value = 1

Table S675. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KBTBD13 MUTATED	5	3	0	1
KBTBD13 WILD-TYPE	16	17	10	8

'KBTBD13 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S676. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
KBTBD13 MUTATED	3	1	0	2	3
KBTBD13 WILD-TYPE	10	7	14	11	4

'KBTBD13 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S677. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
KBTBD13 MUTATED	3	1
KBTBD13 WILD-TYPE	10	14

'KBTBD13 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.791 (Fisher's exact test), Q value = 1

Table S678. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
KBTBD13 MUTATED	1	0	1	1	1	0	0	0
KBTBD13 WILD-TYPE	4	6	4	2	2	1	3	2

'KBTBD13 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S679. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
KBTBD13 MUTATED	4	1	1	3
KBTBD13 WILD-TYPE	12	7	13	13

'KBTBD13 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S680. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
KBTBD13 MUTATED	4	0	1	4
KBTBD13 WILD-TYPE	12	16	3	14

'KBTBD13 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S681. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
KBTBD13 MUTATED	4	2	3
KBTBD13 WILD-TYPE	22	9	15

'KBTBD13 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.328 (Fisher's exact test), Q value = 1

Table S682. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
KBTBD13 MUTATED	0	4	2	3	0
KBTBD13 WILD-TYPE	13	14	6	11	2

'KBTBD13 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S683. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
KBTBD13 MUTATED	4	2	3
KBTBD13 WILD-TYPE	17	12	16

'KBTBD13 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.603 (Fisher's exact test), Q value = 1

Table S684. Gene #71: 'KBTBD13 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
KBTBD13 MUTATED	4	4	1
KBTBD13 WILD-TYPE	26	12	7

'IER5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S685. Gene #72: 'IER5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
IER5 MUTATED	3	0	0	0
IER5 WILD-TYPE	18	20	10	9

'IER5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S686. Gene #72: 'IER5 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
IER5 MUTATED	1	0
IER5 WILD-TYPE	12	15

'SCRT1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S687. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SCRT1 MUTATED	2	1	0	0
SCRT1 WILD-TYPE	19	19	10	9

'SCRT1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.429 (Fisher's exact test), Q value = 1

Table S688. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SCRT1 MUTATED	2	0	0	1	0
SCRT1 WILD-TYPE	11	8	14	12	7

'SCRT1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S689. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SCRT1 MUTATED	1	0
SCRT1 WILD-TYPE	12	15

'SCRT1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 1

Table S690. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SCRT1 MUTATED	2	0	1	0
SCRT1 WILD-TYPE	14	8	13	16

'SCRT1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S691. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SCRT1 MUTATED	2	0	0	1
SCRT1 WILD-TYPE	14	16	4	17

'SCRT1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.432 (Fisher's exact test), Q value = 1

Table S692. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SCRT1 MUTATED	2	1	0
SCRT1 WILD-TYPE	24	10	18

'SCRT1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S693. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SCRT1 MUTATED	0	1	1	1	0
SCRT1 WILD-TYPE	13	17	7	13	2

'SCRT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 1

Table S694. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SCRT1 MUTATED	2	1	0
SCRT1 WILD-TYPE	19	13	19

'SCRT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S695. Gene #73: 'SCRT1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SCRT1 MUTATED	2	1	0
SCRT1 WILD-TYPE	28	15	8

'KNDC1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S696. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KNDC1 MUTATED	1	4	2	2
KNDC1 WILD-TYPE	20	16	8	7

'KNDC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0652 (Fisher's exact test), Q value = 1

Table S697. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
KNDC1 MUTATED	0	2	2	1	3
KNDC1 WILD-TYPE	13	6	12	12	4

'KNDC1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S698. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
KNDC1 MUTATED	1	2
KNDC1 WILD-TYPE	12	13

'KNDC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.552 (Fisher's exact test), Q value = 1

Table S699. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
KNDC1 MUTATED	2	0	1	0	0	0	0	0
KNDC1 WILD-TYPE	3	6	4	3	3	1	3	2

'KNDC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0271 (Fisher's exact test), Q value = 1

Table S700. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
KNDC1 MUTATED	0	3	1	4
KNDC1 WILD-TYPE	16	5	13	12

Figure S34. Get High-res Image Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'KNDC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.324 (Fisher's exact test), Q value = 1

Table S701. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
KNDC1 MUTATED	1	2	0	5
KNDC1 WILD-TYPE	15	14	4	13

'KNDC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 1

Table S702. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
KNDC1 MUTATED	2	2	4
KNDC1 WILD-TYPE	24	9	14

'KNDC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S703. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
KNDC1 MUTATED	1	3	3	1	0
KNDC1 WILD-TYPE	12	15	5	13	2

'KNDC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.191 (Fisher's exact test), Q value = 1

Table S704. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
KNDC1 MUTATED	4	0	4
KNDC1 WILD-TYPE	17	14	15

'KNDC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.382 (Fisher's exact test), Q value = 1

Table S705. Gene #74: 'KNDC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
KNDC1 MUTATED	3	3	2
KNDC1 WILD-TYPE	27	13	6

'MAP1S MUTATION STATUS' versus 'CN_CNMF'

P value = 0.155 (Fisher's exact test), Q value = 1

Table S706. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
MAP1S MUTATED	0	2	1	2
MAP1S WILD-TYPE	21	18	9	7

'MAP1S MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.276 (Fisher's exact test), Q value = 1

Table S707. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
MAP1S MUTATED	1	1	0	3	0
MAP1S WILD-TYPE	12	7	14	10	7

'MAP1S MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S708. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
MAP1S MUTATED	2	2
MAP1S WILD-TYPE	11	13

'MAP1S MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.418 (Fisher's exact test), Q value = 1

Table S709. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
MAP1S MUTATED	2	0	2	0	0	0	0	0
MAP1S WILD-TYPE	3	6	3	3	3	1	3	2

'MAP1S MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 1

Table S710. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
MAP1S MUTATED	1	1	0	3
MAP1S WILD-TYPE	15	7	14	13

'MAP1S MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S711. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
MAP1S MUTATED	2	1	0	2
MAP1S WILD-TYPE	14	15	4	16

'MAP1S MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S712. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
MAP1S MUTATED	2	1	2
MAP1S WILD-TYPE	24	10	16

'MAP1S MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.834 (Fisher's exact test), Q value = 1

Table S713. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
MAP1S MUTATED	2	2	0	1	0
MAP1S WILD-TYPE	11	16	8	13	2

'MAP1S MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S714. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
MAP1S MUTATED	3	0	2
MAP1S WILD-TYPE	18	14	17

'MAP1S MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.836 (Fisher's exact test), Q value = 1

Table S715. Gene #75: 'MAP1S MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
MAP1S MUTATED	3	2	0
MAP1S WILD-TYPE	27	14	8

'RGMB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.652 (Fisher's exact test), Q value = 1

Table S716. Gene #76: 'RGMB MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RGMB MUTATED	2	2	2	0
RGMB WILD-TYPE	19	18	8	9

'RGMB MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S717. Gene #76: 'RGMB MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RGMB MUTATED	1	1
RGMB WILD-TYPE	12	14

'LRP11 MUTATION STATUS' versus 'CN_CNMF'

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

Table S718. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
LRP11 MUTATED	2	2	1	0
LRP11 WILD-TYPE	19	18	9	9

'LRP11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.082 (Fisher's exact test), Q value = 1

Table S719. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
LRP11 MUTATED	1	0	4	0	0
LRP11 WILD-TYPE	12	8	10	13	7

'LRP11 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S720. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
LRP11 MUTATED	0	1
LRP11 WILD-TYPE	13	14

'LRP11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.798 (Fisher's exact test), Q value = 1

Table S721. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
LRP11 MUTATED	1	1	2	1
LRP11 WILD-TYPE	15	7	12	15

'LRP11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S722. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
LRP11 MUTATED	1	3	0	1
LRP11 WILD-TYPE	15	13	4	17

'LRP11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.581 (Fisher's exact test), Q value = 1

Table S723. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
LRP11 MUTATED	2	2	1
LRP11 WILD-TYPE	24	9	17

'LRP11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S724. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
LRP11 MUTATED	1	2	0	2	0
LRP11 WILD-TYPE	12	16	8	12	2

'LRP11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.84 (Fisher's exact test), Q value = 1

Table S725. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
LRP11 MUTATED	2	2	1
LRP11 WILD-TYPE	19	12	18

'LRP11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S726. Gene #77: 'LRP11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
LRP11 MUTATED	3	2	0
LRP11 WILD-TYPE	27	14	8

'AR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.419 (Fisher's exact test), Q value = 1

Table S727. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
AR MUTATED	2	0	1	1
AR WILD-TYPE	19	20	9	8

'AR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S728. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
AR MUTATED	2	0	1	0	0
AR WILD-TYPE	11	8	13	13	7

'AR MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S729. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
AR MUTATED	1	2
AR WILD-TYPE	12	13

'AR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.955 (Fisher's exact test), Q value = 1

Table S730. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
AR MUTATED	1	1	0	0	1	0	0	0
AR WILD-TYPE	4	5	5	3	2	1	3	2

'AR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.476 (Fisher's exact test), Q value = 1

Table S731. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
AR MUTATED	2	0	1	0
AR WILD-TYPE	14	8	13	16

'AR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 1

Table S732. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
AR MUTATED	2	1	0	0
AR WILD-TYPE	14	15	4	18

'AR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.429 (Fisher's exact test), Q value = 1

Table S733. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
AR MUTATED	2	1	0
AR WILD-TYPE	24	10	18

'AR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S734. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
AR MUTATED	1	1	0	1	0
AR WILD-TYPE	12	17	8	13	2

'AR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.253 (Fisher's exact test), Q value = 1

Table S735. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
AR MUTATED	1	2	0
AR WILD-TYPE	20	12	19

'AR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S736. Gene #78: 'AR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
AR MUTATED	2	1	0
AR WILD-TYPE	28	15	8

'VARS MUTATION STATUS' versus 'CN_CNMF'

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

Table S737. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
VARS MUTATED	2	2	1	1
VARS WILD-TYPE	19	18	9	8

'VARS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.424 (Fisher's exact test), Q value = 1

Table S738. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
VARS MUTATED	0	1	3	2	0
VARS WILD-TYPE	13	7	11	11	7

'VARS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S739. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
VARS MUTATED	0	3
VARS WILD-TYPE	13	12

'VARS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.383 (Fisher's exact test), Q value = 1

Table S740. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
VARS MUTATED	0	1	0	0	1	0	0	1
VARS WILD-TYPE	5	5	5	3	2	1	3	1

'VARS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.218 (Fisher's exact test), Q value = 1

Table S741. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
VARS MUTATED	1	0	4	1
VARS WILD-TYPE	15	8	10	15

'VARS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0665 (Fisher's exact test), Q value = 1

Table S742. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
VARS MUTATED	0	4	1	1
VARS WILD-TYPE	16	12	3	17

'VARS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S743. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
VARS MUTATED	2	2	2
VARS WILD-TYPE	24	9	16

'VARS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S744. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
VARS MUTATED	2	2	0	2	0
VARS WILD-TYPE	11	16	8	12	2

'VARS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.751 (Fisher's exact test), Q value = 1

Table S745. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
VARS MUTATED	2	1	3
VARS WILD-TYPE	19	13	16

'VARS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S746. Gene #79: 'VARS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
VARS MUTATED	3	2	1
VARS WILD-TYPE	27	14	7

'SEZ6L2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.38 (Fisher's exact test), Q value = 1

Table S747. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SEZ6L2 MUTATED	2	4	0	2
SEZ6L2 WILD-TYPE	19	16	10	7

'SEZ6L2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S748. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SEZ6L2 MUTATED	2	2	1	1	0
SEZ6L2 WILD-TYPE	11	6	13	12	7

'SEZ6L2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S749. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SEZ6L2 MUTATED	1	2
SEZ6L2 WILD-TYPE	12	13

'SEZ6L2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S750. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
SEZ6L2 MUTATED	0	2	1	0	0	0	0	0
SEZ6L2 WILD-TYPE	5	4	4	3	3	1	3	2

'SEZ6L2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.827 (Fisher's exact test), Q value = 1

Table S751. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SEZ6L2 MUTATED	2	0	2	2
SEZ6L2 WILD-TYPE	14	8	12	14

'SEZ6L2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S752. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SEZ6L2 MUTATED	2	2	0	2
SEZ6L2 WILD-TYPE	14	14	4	16

'SEZ6L2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.46 (Fisher's exact test), Q value = 1

Table S753. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SEZ6L2 MUTATED	4	0	2
SEZ6L2 WILD-TYPE	22	11	16

'SEZ6L2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.631 (Fisher's exact test), Q value = 1

Table S754. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SEZ6L2 MUTATED	1	1	2	2	0
SEZ6L2 WILD-TYPE	12	17	6	12	2

'SEZ6L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S755. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SEZ6L2 MUTATED	2	2	2
SEZ6L2 WILD-TYPE	19	12	17

'SEZ6L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S756. Gene #80: 'SEZ6L2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SEZ6L2 MUTATED	4	1	1
SEZ6L2 WILD-TYPE	26	15	7

'PABPC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 1

Table S757. Gene #81: 'PABPC1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PABPC1 MUTATED	1	1	2	0
PABPC1 WILD-TYPE	20	19	8	9

'PABPC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S758. Gene #81: 'PABPC1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PABPC1 MUTATED	1	0
PABPC1 WILD-TYPE	12	15

'FANK1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S759. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
FANK1 MUTATED	1	1	1	0
FANK1 WILD-TYPE	20	19	9	9

'FANK1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.325 (Fisher's exact test), Q value = 1

Table S760. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
FANK1 MUTATED	0	1	0	1	1
FANK1 WILD-TYPE	13	7	14	12	6

'FANK1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S761. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
FANK1 MUTATED	0	1
FANK1 WILD-TYPE	13	14

'FANK1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.857 (Fisher's exact test), Q value = 1

Table S762. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
FANK1 MUTATED	1	1	0	1
FANK1 WILD-TYPE	15	7	14	15

'FANK1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.285 (Fisher's exact test), Q value = 1

Table S763. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
FANK1 MUTATED	1	0	1	1
FANK1 WILD-TYPE	15	16	3	17

'FANK1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S764. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
FANK1 MUTATED	1	1	1
FANK1 WILD-TYPE	25	10	17

'FANK1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.235 (Fisher's exact test), Q value = 1

Table S765. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
FANK1 MUTATED	0	0	1	2	0
FANK1 WILD-TYPE	13	18	7	12	2

'FANK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S766. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
FANK1 MUTATED	2	0	1
FANK1 WILD-TYPE	19	14	18

'FANK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.258 (Fisher's exact test), Q value = 1

Table S767. Gene #82: 'FANK1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
FANK1 MUTATED	2	0	1
FANK1 WILD-TYPE	28	16	7

'NMU MUTATION STATUS' versus 'CN_CNMF'

P value = 0.914 (Fisher's exact test), Q value = 1

Table S768. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NMU MUTATED	1	2	1	0
NMU WILD-TYPE	20	18	9	9

'NMU MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S769. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NMU MUTATED	1	1	1	1	0
NMU WILD-TYPE	12	7	13	12	7

'NMU MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S770. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NMU MUTATED	1	0
NMU WILD-TYPE	12	15

'NMU MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0703 (Fisher's exact test), Q value = 1

Table S771. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NMU MUTATED	0	2	0	1
NMU WILD-TYPE	16	6	14	15

'NMU MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.614 (Fisher's exact test), Q value = 1

Table S772. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NMU MUTATED	0	2	0	1
NMU WILD-TYPE	16	14	4	17

'NMU MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S773. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NMU MUTATED	2	1	1
NMU WILD-TYPE	24	10	17

'NMU MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.545 (Fisher's exact test), Q value = 1

Table S774. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NMU MUTATED	2	2	0	0	0
NMU WILD-TYPE	11	16	8	14	2

'NMU MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.826 (Fisher's exact test), Q value = 1

Table S775. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NMU MUTATED	1	1	2
NMU WILD-TYPE	20	13	17

'NMU MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S776. Gene #83: 'NMU MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NMU MUTATED	2	2	0
NMU WILD-TYPE	28	14	8

'ADAD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.418 (Fisher's exact test), Q value = 1

Table S777. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ADAD2 MUTATED	2	0	1	1
ADAD2 WILD-TYPE	19	20	9	8

'ADAD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S778. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ADAD2 MUTATED	0	0	2	1	1
ADAD2 WILD-TYPE	13	8	12	12	6

'ADAD2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S779. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ADAD2 MUTATED	0	1
ADAD2 WILD-TYPE	13	14

'ADAD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S780. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ADAD2 MUTATED	1	0	2	1
ADAD2 WILD-TYPE	15	8	12	15

'ADAD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.171 (Fisher's exact test), Q value = 1

Table S781. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ADAD2 MUTATED	0	2	1	1
ADAD2 WILD-TYPE	16	14	3	17

'ADAD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00931 (Fisher's exact test), Q value = 1

Table S782. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ADAD2 MUTATED	0	3	1
ADAD2 WILD-TYPE	26	8	17

Figure S35. Get High-res Image Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'ADAD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.511 (Fisher's exact test), Q value = 1

Table S783. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ADAD2 MUTATED	0	3	0	1	0
ADAD2 WILD-TYPE	13	15	8	13	2

'ADAD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0572 (Fisher's exact test), Q value = 1

Table S784. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ADAD2 MUTATED	0	3	1
ADAD2 WILD-TYPE	21	11	18

'ADAD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S785. Gene #84: 'ADAD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ADAD2 MUTATED	1	2	1
ADAD2 WILD-TYPE	29	14	7

'CLIC6 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S786. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CLIC6 MUTATED	2	3	0	0
CLIC6 WILD-TYPE	19	17	10	9

'CLIC6 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S787. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CLIC6 MUTATED	1	1	1	1	0
CLIC6 WILD-TYPE	12	7	13	12	7

'CLIC6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.206 (Fisher's exact test), Q value = 1

Table S788. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CLIC6 MUTATED	2	0
CLIC6 WILD-TYPE	11	15

'CLIC6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S789. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CLIC6 MUTATED	2	1	0	1
CLIC6 WILD-TYPE	14	7	14	15

'CLIC6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S790. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CLIC6 MUTATED	2	1	1	0
CLIC6 WILD-TYPE	14	15	3	18

'CLIC6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S791. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CLIC6 MUTATED	2	2	0
CLIC6 WILD-TYPE	24	9	18

'CLIC6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S792. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CLIC6 MUTATED	0	1	1	2	0
CLIC6 WILD-TYPE	13	17	7	12	2

'CLIC6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.293 (Fisher's exact test), Q value = 1

Table S793. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CLIC6 MUTATED	2	2	0
CLIC6 WILD-TYPE	19	12	19

'CLIC6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S794. Gene #85: 'CLIC6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CLIC6 MUTATED	3	1	0
CLIC6 WILD-TYPE	27	15	8

'PCDHB13 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S795. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PCDHB13 MUTATED	1	1	2	1
PCDHB13 WILD-TYPE	20	19	8	8

'PCDHB13 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S796. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PCDHB13 MUTATED	0	1	3	0	0
PCDHB13 WILD-TYPE	13	7	11	13	7

'PCDHB13 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S797. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PCDHB13 MUTATED	0	2
PCDHB13 WILD-TYPE	13	13

'PCDHB13 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 1

Table S798. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PCDHB13 MUTATED	0	0	3	1
PCDHB13 WILD-TYPE	16	8	11	15

'PCDHB13 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.355 (Fisher's exact test), Q value = 1

Table S799. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PCDHB13 MUTATED	0	3	0	1
PCDHB13 WILD-TYPE	16	13	4	17

'PCDHB13 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S800. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PCDHB13 MUTATED	3	0	1
PCDHB13 WILD-TYPE	23	11	17

'PCDHB13 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0608 (Fisher's exact test), Q value = 1

Table S801. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PCDHB13 MUTATED	3	0	1	0	0
PCDHB13 WILD-TYPE	10	18	7	14	2

'PCDHB13 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 1

Table S802. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PCDHB13 MUTATED	3	0	1
PCDHB13 WILD-TYPE	18	14	18

'PCDHB13 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S803. Gene #86: 'PCDHB13 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PCDHB13 MUTATED	3	0	1
PCDHB13 WILD-TYPE	27	16	7

'PLEC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S804. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PLEC MUTATED	4	7	1	1
PLEC WILD-TYPE	17	13	9	8

'PLEC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.673 (Fisher's exact test), Q value = 1

Table S805. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PLEC MUTATED	2	2	1	3	2
PLEC WILD-TYPE	11	6	13	10	5

'PLEC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.333 (Fisher's exact test), Q value = 1

Table S806. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PLEC MUTATED	1	4
PLEC WILD-TYPE	12	11

'PLEC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0461 (Fisher's exact test), Q value = 1

Table S807. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
PLEC MUTATED	0	4	0	0	0	0	1	0
PLEC WILD-TYPE	5	2	5	3	3	1	2	2

Figure S36. Get High-res Image Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'PLEC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 1

Table S808. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PLEC MUTATED	2	0	5	3
PLEC WILD-TYPE	14	8	9	13

'PLEC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.717 (Fisher's exact test), Q value = 1

Table S809. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PLEC MUTATED	2	4	0	4
PLEC WILD-TYPE	14	12	4	14

'PLEC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.598 (Fisher's exact test), Q value = 1

Table S810. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PLEC MUTATED	6	2	2
PLEC WILD-TYPE	20	9	16

'PLEC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S811. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PLEC MUTATED	4	2	2	2	0
PLEC WILD-TYPE	9	16	6	12	2

'PLEC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 1

Table S812. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PLEC MUTATED	6	3	1
PLEC WILD-TYPE	15	11	18

'PLEC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S813. Gene #87: 'PLEC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PLEC MUTATED	7	2	1
PLEC WILD-TYPE	23	14	7

'AMDHD1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S814. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
AMDHD1 MUTATED	5	2	1	2
AMDHD1 WILD-TYPE	16	18	9	7

'AMDHD1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S815. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
AMDHD1 MUTATED	1	1	4	2	1
AMDHD1 WILD-TYPE	12	7	10	11	6

'AMDHD1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S816. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
AMDHD1 MUTATED	0	3
AMDHD1 WILD-TYPE	13	12

'AMDHD1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.352 (Fisher's exact test), Q value = 1

Table S817. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
AMDHD1 MUTATED	1	0	0	0	1	0	0	1
AMDHD1 WILD-TYPE	4	6	5	3	2	1	3	1

'AMDHD1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.59 (Fisher's exact test), Q value = 1

Table S818. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
AMDHD1 MUTATED	3	2	3	1
AMDHD1 WILD-TYPE	13	6	11	15

'AMDHD1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 1

Table S819. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
AMDHD1 MUTATED	1	4	2	2
AMDHD1 WILD-TYPE	15	12	2	16

'AMDHD1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.176 (Fisher's exact test), Q value = 1

Table S820. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
AMDHD1 MUTATED	3	4	2
AMDHD1 WILD-TYPE	23	7	16

'AMDHD1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S821. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
AMDHD1 MUTATED	1	4	1	3	0
AMDHD1 WILD-TYPE	12	14	7	11	2

'AMDHD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S822. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
AMDHD1 MUTATED	3	2	4
AMDHD1 WILD-TYPE	18	12	15

'AMDHD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.683 (Fisher's exact test), Q value = 1

Table S823. Gene #88: 'AMDHD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
AMDHD1 MUTATED	4	3	2
AMDHD1 WILD-TYPE	26	13	6

'DSPP MUTATION STATUS' versus 'CN_CNMF'

P value = 0.609 (Fisher's exact test), Q value = 1

Table S824. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
DSPP MUTATED	4	4	1	0
DSPP WILD-TYPE	17	16	9	9

'DSPP MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0606 (Fisher's exact test), Q value = 1

Table S825. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
DSPP MUTATED	1	4	1	3	0
DSPP WILD-TYPE	12	4	13	10	7

'DSPP MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S826. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
DSPP MUTATED	2	2
DSPP WILD-TYPE	11	13

'DSPP MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.692 (Fisher's exact test), Q value = 1

Table S827. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
DSPP MUTATED	1	1	0	1	0	0	0	1
DSPP WILD-TYPE	4	5	5	2	3	1	3	1

'DSPP MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S828. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
DSPP MUTATED	3	1	2	3
DSPP WILD-TYPE	13	7	12	13

'DSPP MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.482 (Fisher's exact test), Q value = 1

Table S829. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
DSPP MUTATED	4	1	1	3
DSPP WILD-TYPE	12	15	3	15

'DSPP MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 1

Table S830. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
DSPP MUTATED	3	3	3
DSPP WILD-TYPE	23	8	15

'DSPP MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.538 (Fisher's exact test), Q value = 1

Table S831. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
DSPP MUTATED	1	4	1	2	1
DSPP WILD-TYPE	12	14	7	12	1

'DSPP MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.9 (Fisher's exact test), Q value = 1

Table S832. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
DSPP MUTATED	3	3	3
DSPP WILD-TYPE	18	11	16

'DSPP MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S833. Gene #89: 'DSPP MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
DSPP MUTATED	5	3	1
DSPP WILD-TYPE	25	13	7

'TMEM189 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.195 (Fisher's exact test), Q value = 1

Table S834. Gene #90: 'TMEM189 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
TMEM189 MUTATED	3	0	0	0
TMEM189 WILD-TYPE	18	20	10	9

'TMEM189 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S835. Gene #90: 'TMEM189 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
TMEM189 MUTATED	1	0
TMEM189 WILD-TYPE	12	15

'CRIPAK MUTATION STATUS' versus 'CN_CNMF'

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

Table S836. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CRIPAK MUTATED	2	4	1	3
CRIPAK WILD-TYPE	19	16	9	6

'CRIPAK MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.927 (Fisher's exact test), Q value = 1

Table S837. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CRIPAK MUTATED	2	1	2	2	2
CRIPAK WILD-TYPE	11	7	12	11	5

'CRIPAK MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S838. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CRIPAK MUTATED	1	3
CRIPAK WILD-TYPE	12	12

'CRIPAK MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S839. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
CRIPAK MUTATED	1	2	1	0	0	0	0	0
CRIPAK WILD-TYPE	4	4	4	3	3	1	3	2

'CRIPAK MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.487 (Fisher's exact test), Q value = 1

Table S840. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CRIPAK MUTATED	2	0	3	4
CRIPAK WILD-TYPE	14	8	11	12

'CRIPAK MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.689 (Fisher's exact test), Q value = 1

Table S841. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CRIPAK MUTATED	2	2	1	4
CRIPAK WILD-TYPE	14	14	3	14

'CRIPAK MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S842. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CRIPAK MUTATED	5	1	3
CRIPAK WILD-TYPE	21	10	15

'CRIPAK MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.329 (Fisher's exact test), Q value = 1

Table S843. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CRIPAK MUTATED	1	4	3	1	0
CRIPAK WILD-TYPE	12	14	5	13	2

'CRIPAK MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S844. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CRIPAK MUTATED	5	1	3
CRIPAK WILD-TYPE	16	13	16

'CRIPAK MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.365 (Fisher's exact test), Q value = 1

Table S845. Gene #91: 'CRIPAK MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CRIPAK MUTATED	5	4	0
CRIPAK WILD-TYPE	25	12	8

'PDCD6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S846. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PDCD6 MUTATED	0	1	1	1
PDCD6 WILD-TYPE	21	19	9	8

'PDCD6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.649 (Fisher's exact test), Q value = 1

Table S847. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PDCD6 MUTATED	1	0	0	1	1
PDCD6 WILD-TYPE	12	8	14	12	6

'PDCD6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S848. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PDCD6 MUTATED	1	0
PDCD6 WILD-TYPE	12	15

'PDCD6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S849. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PDCD6 MUTATED	2	0	1
PDCD6 WILD-TYPE	24	11	17

'PDCD6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S850. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PDCD6 MUTATED	1	1	1	0	0
PDCD6 WILD-TYPE	12	17	7	14	2

'PDCD6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S851. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PDCD6 MUTATED	1	1	1
PDCD6 WILD-TYPE	20	13	18

'PDCD6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S852. Gene #92: 'PDCD6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PDCD6 MUTATED	2	1	0
PDCD6 WILD-TYPE	28	15	8

'MAP7 MUTATION STATUS' versus 'CN_CNMF'

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

Table S853. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
MAP7 MUTATED	2	1	0	0
MAP7 WILD-TYPE	19	19	10	9

'MAP7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.65 (Fisher's exact test), Q value = 1

Table S854. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
MAP7 MUTATED	1	0	0	1	1
MAP7 WILD-TYPE	12	8	14	12	6

'MAP7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S855. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
MAP7 MUTATED	1	0
MAP7 WILD-TYPE	12	15

'MAP7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S856. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
MAP7 MUTATED	1	0	1	1
MAP7 WILD-TYPE	15	8	13	15

'MAP7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.814 (Fisher's exact test), Q value = 1

Table S857. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
MAP7 MUTATED	1	0	0	2
MAP7 WILD-TYPE	15	16	4	16

'MAP7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.582 (Fisher's exact test), Q value = 1

Table S858. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
MAP7 MUTATED	1	0	2
MAP7 WILD-TYPE	25	11	16

'MAP7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S859. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
MAP7 MUTATED	0	1	1	1	0
MAP7 WILD-TYPE	13	17	7	13	2

'MAP7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S860. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
MAP7 MUTATED	1	1	1
MAP7 WILD-TYPE	20	13	18

'MAP7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S861. Gene #93: 'MAP7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
MAP7 MUTATED	1	1	1
MAP7 WILD-TYPE	29	15	7

'NOM1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S862. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NOM1 MUTATED	2	2	1	1
NOM1 WILD-TYPE	19	18	9	8

'NOM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 1

Table S863. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NOM1 MUTATED	1	1	1	0	2
NOM1 WILD-TYPE	12	7	13	13	5

'NOM1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S864. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NOM1 MUTATED	1	1
NOM1 WILD-TYPE	12	14

'NOM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S865. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NOM1 MUTATED	2	0	1	2
NOM1 WILD-TYPE	14	8	13	14

'NOM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S866. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NOM1 MUTATED	2	1	0	2
NOM1 WILD-TYPE	14	15	4	16

'NOM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S867. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NOM1 MUTATED	2	1	2
NOM1 WILD-TYPE	24	10	16

'NOM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S868. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NOM1 MUTATED	2	1	1	1	0
NOM1 WILD-TYPE	11	17	7	13	2

'NOM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 1

Table S869. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NOM1 MUTATED	3	0	2
NOM1 WILD-TYPE	18	14	17

'NOM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S870. Gene #94: 'NOM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NOM1 MUTATED	3	1	1
NOM1 WILD-TYPE	27	15	7

'SHOX2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.408 (Fisher's exact test), Q value = 1

Table S871. Gene #95: 'SHOX2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SHOX2 MUTATED	2	0	0	1
SHOX2 WILD-TYPE	19	20	10	8

'SHOX2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S872. Gene #95: 'SHOX2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SHOX2 MUTATED	1	0
SHOX2 WILD-TYPE	12	15

'HSD17B1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.914 (Fisher's exact test), Q value = 1

Table S873. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
HSD17B1 MUTATED	2	2	0	0
HSD17B1 WILD-TYPE	19	18	10	9

'HSD17B1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0499 (Fisher's exact test), Q value = 1

Table S874. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
HSD17B1 MUTATED	0	0	0	3	1
HSD17B1 WILD-TYPE	13	8	14	10	6

Figure S37. Get High-res Image Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'HSD17B1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S875. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
HSD17B1 MUTATED	2	1
HSD17B1 WILD-TYPE	11	14

'HSD17B1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S876. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
HSD17B1 MUTATED	0	0	1	0	1	0	1	0
HSD17B1 WILD-TYPE	5	6	4	3	2	1	2	2

'HSD17B1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.909 (Fisher's exact test), Q value = 1

Table S877. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
HSD17B1 MUTATED	2	0	1	1
HSD17B1 WILD-TYPE	14	8	13	15

'HSD17B1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00801 (Fisher's exact test), Q value = 1

Table S878. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
HSD17B1 MUTATED	0	0	2	2
HSD17B1 WILD-TYPE	16	16	2	16

Figure S38. Get High-res Image Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'HSD17B1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S879. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
HSD17B1 MUTATED	2	1	1
HSD17B1 WILD-TYPE	24	10	17

'HSD17B1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.842 (Fisher's exact test), Q value = 1

Table S880. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
HSD17B1 MUTATED	1	1	0	2	0
HSD17B1 WILD-TYPE	12	17	8	12	2

'HSD17B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.547 (Fisher's exact test), Q value = 1

Table S881. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
HSD17B1 MUTATED	2	0	2
HSD17B1 WILD-TYPE	19	14	17

'HSD17B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S882. Gene #96: 'HSD17B1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
HSD17B1 MUTATED	2	1	1
HSD17B1 WILD-TYPE	28	15	7

'PRKAR1A MUTATION STATUS' versus 'CN_CNMF'

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

Table S883. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
PRKAR1A MUTATED	2	1	2	1
PRKAR1A WILD-TYPE	19	19	8	8

'PRKAR1A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S884. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
PRKAR1A MUTATED	1	1	2	1	1
PRKAR1A WILD-TYPE	12	7	12	12	6

'PRKAR1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S885. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
PRKAR1A MUTATED	1	3
PRKAR1A WILD-TYPE	12	12

'PRKAR1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.793 (Fisher's exact test), Q value = 1

Table S886. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
PRKAR1A MUTATED	1	2	0	0	1	0	0	0
PRKAR1A WILD-TYPE	4	4	5	3	2	1	3	2

'PRKAR1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.277 (Fisher's exact test), Q value = 1

Table S887. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
PRKAR1A MUTATED	2	1	3	0
PRKAR1A WILD-TYPE	14	7	11	16

'PRKAR1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.402 (Fisher's exact test), Q value = 1

Table S888. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
PRKAR1A MUTATED	1	3	1	1
PRKAR1A WILD-TYPE	15	13	3	17

'PRKAR1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.103 (Fisher's exact test), Q value = 1

Table S889. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
PRKAR1A MUTATED	5	1	0
PRKAR1A WILD-TYPE	21	10	18

'PRKAR1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.591 (Fisher's exact test), Q value = 1

Table S890. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
PRKAR1A MUTATED	3	1	1	1	0
PRKAR1A WILD-TYPE	10	17	7	13	2

'PRKAR1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0477 (Fisher's exact test), Q value = 1

Table S891. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
PRKAR1A MUTATED	5	1	0
PRKAR1A WILD-TYPE	16	13	19

Figure S39. Get High-res Image Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'PRKAR1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.587 (Fisher's exact test), Q value = 1

Table S892. Gene #97: 'PRKAR1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
PRKAR1A MUTATED	5	1	0
PRKAR1A WILD-TYPE	25	15	8

'KRTAP5-5 MUTATION STATUS' versus 'CN_CNMF'

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

Table S893. Gene #98: 'KRTAP5-5 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
KRTAP5-5 MUTATED	1	1	1	0
KRTAP5-5 WILD-TYPE	20	19	9	9

'DLEU7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.528 (Fisher's exact test), Q value = 1

Table S894. Gene #99: 'DLEU7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
DLEU7 MUTATED	2	0	1	0
DLEU7 WILD-TYPE	19	20	9	9

'DLEU7 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S895. Gene #99: 'DLEU7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
DLEU7 MUTATED	0	1
DLEU7 WILD-TYPE	13	14

'FEZ2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.463 (Fisher's exact test), Q value = 1

Table S896. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
FEZ2 MUTATED	0	2	1	0
FEZ2 WILD-TYPE	21	18	9	9

'FEZ2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.355 (Fisher's exact test), Q value = 1

Table S897. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
FEZ2 MUTATED	0	1	1	0	1
FEZ2 WILD-TYPE	13	7	13	13	6

'FEZ2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S898. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
FEZ2 MUTATED	0	1
FEZ2 WILD-TYPE	13	14

'FEZ2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S899. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
FEZ2 MUTATED	0	1	0	2
FEZ2 WILD-TYPE	16	7	14	14

'FEZ2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.815 (Fisher's exact test), Q value = 1

Table S900. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
FEZ2 MUTATED	1	0	0	2
FEZ2 WILD-TYPE	15	16	4	16

'FEZ2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S901. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
FEZ2 MUTATED	0	1	2
FEZ2 WILD-TYPE	26	10	16

'FEZ2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S902. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
FEZ2 MUTATED	0	1	1	1	0
FEZ2 WILD-TYPE	13	17	7	13	2

'FEZ2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S903. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
FEZ2 MUTATED	2	0	1
FEZ2 WILD-TYPE	19	14	18

'FEZ2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S904. Gene #100: 'FEZ2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
FEZ2 MUTATED	1	1	1
FEZ2 WILD-TYPE	29	15	7

'RASIP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 1

Table S905. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RASIP1 MUTATED	1	3	2	0
RASIP1 WILD-TYPE	20	17	8	9

'RASIP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.349 (Fisher's exact test), Q value = 1

Table S906. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
RASIP1 MUTATED	2	2	2	0	0
RASIP1 WILD-TYPE	11	6	12	13	7

'RASIP1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S907. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RASIP1 MUTATED	1	1
RASIP1 WILD-TYPE	12	14

'RASIP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0412 (Fisher's exact test), Q value = 1

Table S908. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
RASIP1 MUTATED	2	3	1	0
RASIP1 WILD-TYPE	14	5	13	16

Figure S40. Get High-res Image Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'RASIP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.188 (Fisher's exact test), Q value = 1

Table S909. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
RASIP1 MUTATED	3	3	0	0
RASIP1 WILD-TYPE	13	13	4	18

'RASIP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0551 (Fisher's exact test), Q value = 1

Table S910. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
RASIP1 MUTATED	3	3	0
RASIP1 WILD-TYPE	23	8	18

'RASIP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S911. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
RASIP1 MUTATED	1	2	0	3	0
RASIP1 WILD-TYPE	12	16	8	11	2

'RASIP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.418 (Fisher's exact test), Q value = 1

Table S912. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
RASIP1 MUTATED	2	3	1
RASIP1 WILD-TYPE	19	11	18

'RASIP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S913. Gene #101: 'RASIP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
RASIP1 MUTATED	4	2	0
RASIP1 WILD-TYPE	26	14	8

'JMJD4 MUTATION STATUS' versus 'CN_CNMF'

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

Table S914. Gene #102: 'JMJD4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
JMJD4 MUTATED	1	1	1	0
JMJD4 WILD-TYPE	20	19	9	9

'JMJD4 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S915. Gene #102: 'JMJD4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
JMJD4 MUTATED	0	2
JMJD4 WILD-TYPE	13	13

'COQ2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 1

Table S916. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
COQ2 MUTATED	1	1	1	2
COQ2 WILD-TYPE	20	19	9	7

'COQ2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.766 (Fisher's exact test), Q value = 1

Table S917. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
COQ2 MUTATED	0	1	1	1	1
COQ2 WILD-TYPE	13	7	13	12	6

'COQ2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S918. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
COQ2 MUTATED	1	1
COQ2 WILD-TYPE	12	14

'COQ2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 1

Table S919. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
COQ2 MUTATED	0	1	2	1
COQ2 WILD-TYPE	16	7	12	15

'COQ2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S920. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
COQ2 MUTATED	0	2	0	2
COQ2 WILD-TYPE	16	14	4	16

'COQ2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S921. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
COQ2 MUTATED	2	1	1
COQ2 WILD-TYPE	24	10	17

'COQ2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S922. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
COQ2 MUTATED	1	2	1	0	0
COQ2 WILD-TYPE	12	16	7	14	2

'COQ2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S923. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
COQ2 MUTATED	2	0	2
COQ2 WILD-TYPE	19	14	17

'COQ2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.619 (Fisher's exact test), Q value = 1

Table S924. Gene #103: 'COQ2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
COQ2 MUTATED	2	2	0
COQ2 WILD-TYPE	28	14	8

'UQCRFS1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.753 (Fisher's exact test), Q value = 1

Table S925. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
UQCRFS1 MUTATED	1	1	1	1
UQCRFS1 WILD-TYPE	20	19	9	8

'UQCRFS1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.587 (Fisher's exact test), Q value = 1

Table S926. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
UQCRFS1 MUTATED	2	1	2	0	0
UQCRFS1 WILD-TYPE	11	7	12	13	7

'UQCRFS1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S927. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
UQCRFS1 MUTATED	0	2
UQCRFS1 WILD-TYPE	13	13

'UQCRFS1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S928. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
UQCRFS1 MUTATED	1	1	1	1
UQCRFS1 WILD-TYPE	15	7	13	15

'UQCRFS1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S929. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
UQCRFS1 MUTATED	1	2	0	1
UQCRFS1 WILD-TYPE	15	14	4	17

'UQCRFS1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.488 (Fisher's exact test), Q value = 1

Table S930. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
UQCRFS1 MUTATED	4	0	1
UQCRFS1 WILD-TYPE	22	11	17

'UQCRFS1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S931. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
UQCRFS1 MUTATED	3	0	1	1	0
UQCRFS1 WILD-TYPE	10	18	7	13	2

'UQCRFS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.842 (Fisher's exact test), Q value = 1

Table S932. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
UQCRFS1 MUTATED	2	2	1
UQCRFS1 WILD-TYPE	19	12	18

'UQCRFS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.333 (Fisher's exact test), Q value = 1

Table S933. Gene #104: 'UQCRFS1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
UQCRFS1 MUTATED	4	0	1
UQCRFS1 WILD-TYPE	26	16	7

'C9ORF66 MUTATION STATUS' versus 'CN_CNMF'

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

Table S934. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
C9ORF66 MUTATED	2	2	1	0
C9ORF66 WILD-TYPE	19	18	9	9

'C9ORF66 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.928 (Fisher's exact test), Q value = 1

Table S935. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
C9ORF66 MUTATED	1	1	1	2	0
C9ORF66 WILD-TYPE	12	7	13	11	7

'C9ORF66 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S936. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
C9ORF66 MUTATED	1	1
C9ORF66 WILD-TYPE	12	14

'C9ORF66 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S937. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
C9ORF66 MUTATED	2	1	1	1
C9ORF66 WILD-TYPE	14	7	13	15

'C9ORF66 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S938. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
C9ORF66 MUTATED	1	2	1	1
C9ORF66 WILD-TYPE	15	14	3	17

'C9ORF66 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S939. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
C9ORF66 MUTATED	2	2	1
C9ORF66 WILD-TYPE	24	9	17

'C9ORF66 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S940. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
C9ORF66 MUTATED	1	2	0	2	0
C9ORF66 WILD-TYPE	12	16	8	12	2

'C9ORF66 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.348 (Fisher's exact test), Q value = 1

Table S941. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
C9ORF66 MUTATED	2	0	3
C9ORF66 WILD-TYPE	19	14	16

'C9ORF66 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.542 (Fisher's exact test), Q value = 1

Table S942. Gene #105: 'C9ORF66 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
C9ORF66 MUTATED	2	2	1
C9ORF66 WILD-TYPE	28	14	7

'POLRMT MUTATION STATUS' versus 'CN_CNMF'

P value = 0.305 (Fisher's exact test), Q value = 1

Table S943. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
POLRMT MUTATED	1	1	0	2
POLRMT WILD-TYPE	20	19	10	7

'POLRMT MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S944. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
POLRMT MUTATED	0	0	0	2	2
POLRMT WILD-TYPE	13	8	14	11	5

Figure S41. Get High-res Image Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'POLRMT MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0873 (Fisher's exact test), Q value = 1

Table S945. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
POLRMT MUTATED	3	0
POLRMT WILD-TYPE	10	15

'POLRMT MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.348 (Fisher's exact test), Q value = 1

Table S946. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
POLRMT MUTATED	0	0	2	0	0	0	1	0
POLRMT WILD-TYPE	5	6	3	3	3	1	2	2

'POLRMT MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.363 (Fisher's exact test), Q value = 1

Table S947. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
POLRMT MUTATED	0	0	2	2
POLRMT WILD-TYPE	16	8	12	14

'POLRMT MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0596 (Fisher's exact test), Q value = 1

Table S948. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
POLRMT MUTATED	0	0	0	4
POLRMT WILD-TYPE	16	16	4	14

'POLRMT MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.242 (Fisher's exact test), Q value = 1

Table S949. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
POLRMT MUTATED	1	0	3
POLRMT WILD-TYPE	25	11	15

'POLRMT MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.258 (Fisher's exact test), Q value = 1

Table S950. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
POLRMT MUTATED	0	3	1	0	0
POLRMT WILD-TYPE	13	15	7	14	2

'POLRMT MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S951. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
POLRMT MUTATED	1	0	3
POLRMT WILD-TYPE	20	14	16

'POLRMT MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.175 (Fisher's exact test), Q value = 1

Table S952. Gene #106: 'POLRMT MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
POLRMT MUTATED	1	3	0
POLRMT WILD-TYPE	29	13	8

'ADAMTS7 MUTATION STATUS' versus 'CN_CNMF'

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

Table S953. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ADAMTS7 MUTATED	0	3	0	1
ADAMTS7 WILD-TYPE	21	17	10	8

'ADAMTS7 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S954. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
ADAMTS7 MUTATED	0	0	1	2	1
ADAMTS7 WILD-TYPE	13	8	13	11	6

'ADAMTS7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0873 (Fisher's exact test), Q value = 1

Table S955. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ADAMTS7 MUTATED	3	0
ADAMTS7 WILD-TYPE	10	15

'ADAMTS7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.348 (Fisher's exact test), Q value = 1

Table S956. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
ADAMTS7 MUTATED	0	0	2	0	1	0	0	0
ADAMTS7 WILD-TYPE	5	6	3	3	2	1	3	2

'ADAMTS7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0894 (Fisher's exact test), Q value = 1

Table S957. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
ADAMTS7 MUTATED	0	1	0	3
ADAMTS7 WILD-TYPE	16	7	14	13

'ADAMTS7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.435 (Fisher's exact test), Q value = 1

Table S958. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
ADAMTS7 MUTATED	0	1	0	3
ADAMTS7 WILD-TYPE	16	15	4	15

'ADAMTS7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.082 (Fisher's exact test), Q value = 1

Table S959. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
ADAMTS7 MUTATED	0	1	3
ADAMTS7 WILD-TYPE	26	10	15

'ADAMTS7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.257 (Fisher's exact test), Q value = 1

Table S960. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
ADAMTS7 MUTATED	0	3	1	0	0
ADAMTS7 WILD-TYPE	13	15	7	14	2

'ADAMTS7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S961. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
ADAMTS7 MUTATED	0	1	3
ADAMTS7 WILD-TYPE	21	13	16

'ADAMTS7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0376 (Fisher's exact test), Q value = 1

Table S962. Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
ADAMTS7 MUTATED	0	3	1
ADAMTS7 WILD-TYPE	30	13	7

Figure S42. Get High-res Image Gene #107: 'ADAMTS7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'BTNL9 MUTATION STATUS' versus 'CN_CNMF'

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

Table S963. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
BTNL9 MUTATED	2	1	1	0
BTNL9 WILD-TYPE	19	19	9	9

'BTNL9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 1

Table S964. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
BTNL9 MUTATED	0	0	3	0	0
BTNL9 WILD-TYPE	13	8	11	13	7

'BTNL9 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S965. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
BTNL9 MUTATED	1	1
BTNL9 WILD-TYPE	12	14

'BTNL9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 1

Table S966. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
BTNL9 MUTATED	0	1	2	0
BTNL9 WILD-TYPE	16	7	12	16

'BTNL9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0975 (Fisher's exact test), Q value = 1

Table S967. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
BTNL9 MUTATED	0	3	0	0
BTNL9 WILD-TYPE	16	13	4	18

'BTNL9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.13 (Fisher's exact test), Q value = 1

Table S968. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
BTNL9 MUTATED	1	2	0
BTNL9 WILD-TYPE	25	9	18

'BTNL9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S969. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
BTNL9 MUTATED	1	1	0	1	0
BTNL9 WILD-TYPE	12	17	8	13	2

'BTNL9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.255 (Fisher's exact test), Q value = 1

Table S970. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
BTNL9 MUTATED	1	2	0
BTNL9 WILD-TYPE	20	12	19

'BTNL9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S971. Gene #108: 'BTNL9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
BTNL9 MUTATED	2	1	0
BTNL9 WILD-TYPE	28	15	8

'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.251 (Fisher's exact test), Q value = 1

Table S972. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
NF1 MUTATED	4	1	0	2
NF1 WILD-TYPE	17	19	10	7

'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S973. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
NF1 MUTATED	2	0	2	2	1
NF1 WILD-TYPE	11	8	12	11	6

'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.102 (Fisher's exact test), Q value = 1

Table S974. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
NF1 MUTATED	0	4
NF1 WILD-TYPE	13	11

'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S975. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	5	6	5	3	3	1	3	2
NF1 MUTATED	1	0	0	1	1	0	0	1
NF1 WILD-TYPE	4	6	5	2	2	1	3	1

'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.361 (Fisher's exact test), Q value = 1

Table S976. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
NF1 MUTATED	4	0	2	1
NF1 WILD-TYPE	12	8	12	15

'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.192 (Fisher's exact test), Q value = 1

Table S977. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
NF1 MUTATED	2	2	2	1
NF1 WILD-TYPE	14	14	2	17

'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 1

Table S978. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
NF1 MUTATED	2	3	2
NF1 WILD-TYPE	24	8	16

'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.886 (Fisher's exact test), Q value = 1

Table S979. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
NF1 MUTATED	1	2	1	3	0
NF1 WILD-TYPE	12	16	7	11	2

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S980. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
NF1 MUTATED	3	2	2
NF1 WILD-TYPE	18	12	17

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0996 (Fisher's exact test), Q value = 1

Table S981. Gene #109: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
NF1 MUTATED	3	1	3
NF1 WILD-TYPE	27	15	5

'ZNF814 MUTATION STATUS' versus 'CN_CNMF'

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

Table S982. Gene #110: 'ZNF814 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
ZNF814 MUTATED	1	1	1	0
ZNF814 WILD-TYPE	20	19	9	9

'ZNF814 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S983. Gene #110: 'ZNF814 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
ZNF814 MUTATED	1	1
ZNF814 WILD-TYPE	12	14

'RNF135 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.752 (Fisher's exact test), Q value = 1

Table S984. Gene #111: 'RNF135 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
RNF135 MUTATED	1	2	0	0
RNF135 WILD-TYPE	20	18	10	9

'RNF135 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S985. Gene #111: 'RNF135 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
RNF135 MUTATED	1	0
RNF135 WILD-TYPE	12	15

'CSGALNACT2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 1

Table S986. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CSGALNACT2 MUTATED	0	3	0	0
CSGALNACT2 WILD-TYPE	21	17	10	9

'CSGALNACT2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0363 (Fisher's exact test), Q value = 1

Table S987. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CSGALNACT2 MUTATED	1	0	0	0	2
CSGALNACT2 WILD-TYPE	12	8	14	13	5

Figure S43. Get High-res Image Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'CSGALNACT2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S988. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CSGALNACT2 MUTATED	1	0
CSGALNACT2 WILD-TYPE	12	15

'CSGALNACT2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S989. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CSGALNACT2 MUTATED	1	0	0	2
CSGALNACT2 WILD-TYPE	15	8	14	14

'CSGALNACT2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.813 (Fisher's exact test), Q value = 1

Table S990. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CSGALNACT2 MUTATED	1	0	0	2
CSGALNACT2 WILD-TYPE	15	16	4	16

'CSGALNACT2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.581 (Fisher's exact test), Q value = 1

Table S991. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CSGALNACT2 MUTATED	1	0	2
CSGALNACT2 WILD-TYPE	25	11	16

'CSGALNACT2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S992. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CSGALNACT2 MUTATED	0	2	0	1	0
CSGALNACT2 WILD-TYPE	13	16	8	13	2

'CSGALNACT2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S993. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CSGALNACT2 MUTATED	0	1	2
CSGALNACT2 WILD-TYPE	21	13	17

'CSGALNACT2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.404 (Fisher's exact test), Q value = 1

Table S994. Gene #112: 'CSGALNACT2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CSGALNACT2 MUTATED	1	2	0
CSGALNACT2 WILD-TYPE	29	14	8

'SPIRE2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 1

Table S995. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
SPIRE2 MUTATED	0	1	1	1
SPIRE2 WILD-TYPE	21	19	9	8

'SPIRE2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0382 (Fisher's exact test), Q value = 1

Table S996. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
SPIRE2 MUTATED	1	0	0	0	2
SPIRE2 WILD-TYPE	12	8	14	13	5

Figure S44. Get High-res Image Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'SPIRE2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S997. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
SPIRE2 MUTATED	1	1
SPIRE2 WILD-TYPE	12	14

'SPIRE2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S998. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
SPIRE2 MUTATED	1	0	1	1
SPIRE2 WILD-TYPE	15	8	13	15

'SPIRE2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.815 (Fisher's exact test), Q value = 1

Table S999. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
SPIRE2 MUTATED	1	0	0	2
SPIRE2 WILD-TYPE	15	16	4	16

'SPIRE2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1000. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
SPIRE2 MUTATED	2	0	1
SPIRE2 WILD-TYPE	24	11	17

'SPIRE2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S1001. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
SPIRE2 MUTATED	0	1	1	1	0
SPIRE2 WILD-TYPE	13	17	7	13	2

'SPIRE2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1002. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
SPIRE2 MUTATED	1	1	1
SPIRE2 WILD-TYPE	20	13	18

'SPIRE2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1003. Gene #113: 'SPIRE2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
SPIRE2 MUTATED	2	1	0
SPIRE2 WILD-TYPE	28	15	8

'CYP4A22 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1004. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
CYP4A22 MUTATED	2	0	2	0
CYP4A22 WILD-TYPE	19	20	8	9

'CYP4A22 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.706 (Fisher's exact test), Q value = 1

Table S1005. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
CYP4A22 MUTATED	1	1	2	0	0
CYP4A22 WILD-TYPE	12	7	12	13	7

'CYP4A22 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S1006. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
CYP4A22 MUTATED	1	1
CYP4A22 WILD-TYPE	12	14

'CYP4A22 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1007. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
CYP4A22 MUTATED	1	2	1	0
CYP4A22 WILD-TYPE	15	6	13	16

'CYP4A22 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.483 (Fisher's exact test), Q value = 1

Table S1008. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
CYP4A22 MUTATED	2	2	0	0
CYP4A22 WILD-TYPE	14	14	4	18

'CYP4A22 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.179 (Fisher's exact test), Q value = 1

Table S1009. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
CYP4A22 MUTATED	2	2	0
CYP4A22 WILD-TYPE	24	9	18

'CYP4A22 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.197 (Fisher's exact test), Q value = 1

Table S1010. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
CYP4A22 MUTATED	0	2	0	1	1
CYP4A22 WILD-TYPE	13	16	8	13	1

'CYP4A22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1011. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
CYP4A22 MUTATED	1	3	0
CYP4A22 WILD-TYPE	20	11	19

'CYP4A22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S1012. Gene #114: 'CYP4A22 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
CYP4A22 MUTATED	2	2	0
CYP4A22 WILD-TYPE	28	14	8

'HLA-A MUTATION STATUS' versus 'CN_CNMF'

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

Table S1013. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
HLA-A MUTATED	2	1	0	0
HLA-A WILD-TYPE	19	19	10	9

'HLA-A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1014. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
HLA-A MUTATED	1	0	1	1	0
HLA-A WILD-TYPE	12	8	13	12	7

'HLA-A MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S1015. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2
ALL	13	15
HLA-A MUTATED	1	1
HLA-A WILD-TYPE	12	14

'HLA-A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S1016. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
HLA-A MUTATED	1	1	0	1
HLA-A WILD-TYPE	15	7	14	15

'HLA-A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S1017. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
HLA-A MUTATED	1	1	1	0
HLA-A WILD-TYPE	15	15	3	18

'HLA-A MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1018. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
HLA-A MUTATED	2	0	1
HLA-A WILD-TYPE	24	11	17

'HLA-A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S1019. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
HLA-A MUTATED	1	0	1	1	0
HLA-A WILD-TYPE	12	18	7	13	2

'HLA-A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S1020. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
HLA-A MUTATED	2	0	1
HLA-A WILD-TYPE	19	14	18

'HLA-A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.254 (Fisher's exact test), Q value = 1

Table S1021. Gene #115: 'HLA-A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
HLA-A MUTATED	2	0	1
HLA-A WILD-TYPE	28	16	7

'GLI3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.859 (Fisher's exact test), Q value = 1

Table S1022. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	21	20	10	9
GLI3 MUTATED	2	2	0	1
GLI3 WILD-TYPE	19	18	10	8

'GLI3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.433 (Fisher's exact test), Q value = 1

Table S1023. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	8	14	13	7
GLI3 MUTATED	2	0	0	1	1
GLI3 WILD-TYPE	11	8	14	12	6

'GLI3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.911 (Fisher's exact test), Q value = 1

Table S1024. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	8	14	16
GLI3 MUTATED	2	0	1	1
GLI3 WILD-TYPE	14	8	13	15

'GLI3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S1025. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	16	16	4	18
GLI3 MUTATED	2	1	0	1
GLI3 WILD-TYPE	14	15	4	17

'GLI3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1026. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	26	11	18
GLI3 MUTATED	4	0	0
GLI3 WILD-TYPE	22	11	18

'GLI3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.415 (Fisher's exact test), Q value = 1

Table S1027. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	13	18	8	14	2
GLI3 MUTATED	1	0	1	2	0
GLI3 WILD-TYPE	12	18	7	12	2

'GLI3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1028. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	21	14	19
GLI3 MUTATED	2	2	0
GLI3 WILD-TYPE	19	12	19

'GLI3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.258 (Fisher's exact test), Q value = 1

Table S1029. Gene #116: 'GLI3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	30	16	8
GLI3 MUTATED	4	0	0
GLI3 WILD-TYPE	26	16	8

Methods & Data

Input

Mutation data file = sample_sig_gene_table.txt from Mutsig_2CV pipeline
Processed Mutation data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/19862912/transformed.cor.cli.txt
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/ACC-TP/20124001/ACC-TP.transferedmergedcluster.txt
Number of patients = 62
Number of significantly mutated genes = 116
Number of Molecular subtypes = 10
Exclude genes that fewer than K tumors have mutations, K = 3

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References

[1] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)

[2] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)

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