Correlation between gene mutation status and molecular subtypes

Breast Invasive Carcinoma (Primary solid tumor)

02 April 2015 | analyses__2015_04_02

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/C1DZ078X

Overview

Introduction

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

Summary

Testing the association between mutation status of 151 genes and 12 molecular subtypes across 977 patients, 92 significant findings detected with P value < 0.05 and Q value < 0.25.

PIK3CA mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
TP53 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
CDH1 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
GATA3 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
MAP3K1 mutation correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
RUNX1 mutation correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
CBFB mutation correlated to 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
MAP2K4 mutation correlated to 'MRNA_CHIERARCHICAL', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
SPEN mutation correlated to 'MIRSEQ_CHIERARCHICAL'.
ZFP36L1 mutation correlated to 'CN_CNMF'.
DLG1 mutation correlated to 'MIRSEQ_CHIERARCHICAL'.
MYB mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.
HLA-C mutation correlated to 'MIRSEQ_CHIERARCHICAL'.
RAB42 mutation correlated to 'MIRSEQ_CHIERARCHICAL'.
ERBB2 mutation correlated to 'METHLYATION_CNMF'.
CTCF mutation correlated to 'METHLYATION_CNMF' and 'MIRSEQ_CHIERARCHICAL'.
RHBG mutation correlated to 'MRNASEQ_CNMF'.
CABYR mutation correlated to 'MRNASEQ_CHIERARCHICAL'.
CCDC82 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.
C15ORF39 mutation correlated to 'CN_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
SDC1 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.
EXOC4 mutation correlated to 'MRNA_CNMF'.
C11ORF49 mutation correlated to 'MRNASEQ_CNMF'.
OR8D1 mutation correlated to 'MRNA_CHIERARCHICAL'.
LIFR mutation correlated to 'RPPA_CNMF'.
SEC14L5 mutation correlated to 'MRNA_CHIERARCHICAL'.
FBXW7 mutation correlated to 'METHLYATION_CNMF'.
HPS3 mutation correlated to 'MRNASEQ_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

Results

Overview of the results

Table 1. Get Full Table Overview of the association between mutation status of 151 genes and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 92 significant findings detected.


		Clinical Features	MRNA CNMF	MRNA CHIERARCHICAL	CN CNMF	METHLYATION CNMF	RPPA CNMF	RPPA CHIERARCHICAL	MRNASEQ CNMF	MRNASEQ CHIERARCHICAL	MIRSEQ CNMF	MIRSEQ CHIERARCHICAL	MIRSEQ MATURE CNMF	MIRSEQ MATURE CHIERARCHICAL
	nMutated (%)	nWild-Type	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test
PIK3CA	316 (32%)	661	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	0.00022 (0.00886)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)
TP53	295 (30%)	682	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)
CDH1	106 (11%)	871	0.00034 (0.0134)	0.00646 (0.16)	1e-05 (0.000465)	1e-05 (0.000465)	0.00732 (0.172)	0.0129 (0.251)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)	1e-05 (0.000465)
GATA3	97 (10%)	880	1e-05 (0.000465)	1e-05 (0.000465)	0.0009 (0.0308)	3e-05 (0.00136)	0.0205 (0.338)	0.00077 (0.0272)	1e-05 (0.000465)	1e-05 (0.000465)	0.00177 (0.0563)	1e-05 (0.000465)	1e-05 (0.000465)	0.112 (0.747)
MAP3K1	70 (7%)	907	9e-05 (0.00398)	0.00016 (0.00674)	0.00247 (0.0722)	0.153 (0.78)	0.00078 (0.0272)	1e-05 (0.000465)	0.00045 (0.0166)	0.00022 (0.00886)	0.00046 (0.0167)	0.00105 (0.0352)	0.111 (0.747)	0.132 (0.753)
MAP2K4	32 (3%)	945	0.0587 (0.601)	0.00452 (0.116)	0.0629 (0.604)	0.00957 (0.204)	0.00206 (0.0644)	0.21 (0.863)	0.00307 (0.0856)	0.00377 (0.104)	0.0117 (0.232)	0.0004 (0.0151)	0.0115 (0.232)	0.0114 (0.232)
CBFB	23 (2%)	954	0.0964 (0.712)	0.216 (0.868)	0.068 (0.619)	0.00011 (0.00475)	0.124 (0.753)	0.113 (0.747)	0.0736 (0.641)	0.522 (1.00)	0.0218 (0.35)	1e-05 (0.000465)	0.0198 (0.332)	0.00037 (0.0143)
C15ORF39	9 (1%)	968	0.605 (1.00)	0.51 (1.00)	0.00456 (0.116)	0.0143 (0.262)	0.519 (1.00)	0.391 (0.98)	0.00705 (0.17)	0.00119 (0.0385)	0.0231 (0.366)	0.0291 (0.404)	0.403 (0.98)	0.127 (0.753)
RUNX1	29 (3%)	948	0.016 (0.285)	0.0849 (0.679)	0.00928 (0.203)	0.231 (0.884)	1 (1.00)	0.331 (0.943)	0.0647 (0.607)	0.0118 (0.233)	0.021 (0.339)	0.405 (0.98)	0.31 (0.932)	0.453 (1.00)
CTCF	17 (2%)	960	0.0591 (0.601)	0.0439 (0.527)	0.0174 (0.3)	0.00946 (0.204)	0.069 (0.619)	0.118 (0.747)	0.0802 (0.665)	0.369 (0.978)	0.0708 (0.623)	0.00235 (0.0707)	0.841 (1.00)	0.613 (1.00)
HPS3	9 (1%)	968	0.121 (0.753)	0.512 (1.00)	0.237 (0.896)	0.328 (0.94)	0.112 (0.747)	0.152 (0.78)	0.00514 (0.129)	0.0042 (0.11)	0.131 (0.753)	0.165 (0.794)	0.0601 (0.604)	0.575 (1.00)
SPEN	32 (3%)	945	0.664 (1.00)	0.789 (1.00)	0.485 (1.00)	0.503 (1.00)	0.943 (1.00)	0.0268 (0.391)	0.207 (0.863)	0.118 (0.747)	0.214 (0.868)	0.00876 (0.195)	0.094 (0.704)	0.658 (1.00)
ZFP36L1	9 (1%)	968	0.404 (0.98)	0.898 (1.00)	0.00754 (0.173)	0.294 (0.931)	0.0267 (0.391)	0.0499 (0.558)	0.254 (0.92)	0.535 (1.00)	0.884 (1.00)	0.775 (1.00)	0.93 (1.00)	0.711 (1.00)
DLG1	13 (1%)	964	0.341 (0.956)	0.318 (0.937)	0.426 (0.983)	0.759 (1.00)	0.895 (1.00)	0.114 (0.747)	0.126 (0.753)	0.185 (0.842)	0.672 (1.00)	0.00389 (0.105)	0.669 (1.00)	0.805 (1.00)
MYB	12 (1%)	965	0.737 (1.00)	0.0284 (0.404)	0.226 (0.884)	0.353 (0.96)	1 (1.00)	0.695 (1.00)	1 (1.00)	0.9 (1.00)	0.0986 (0.716)	0.124 (0.753)	0.285 (0.931)	0.00119 (0.0385)
HLA-C	9 (1%)	968	0.136 (0.756)	0.849 (1.00)	0.724 (1.00)	0.0991 (0.716)	0.297 (0.931)	0.571 (1.00)	0.13 (0.753)	0.579 (1.00)	0.0307 (0.416)	0.0111 (0.231)	0.0281 (0.404)	0.589 (1.00)
RAB42	4 (0%)	973	0.408 (0.98)	0.0705 (0.623)	0.0406 (0.504)		0.299 (0.931)	0.389 (0.98)	0.118 (0.747)	0.155 (0.78)	0.232 (0.884)	0.01 (0.211)
ERBB2	21 (2%)	956	0.775 (1.00)	0.572 (1.00)	0.0637 (0.604)	0.00271 (0.0767)	0.499 (1.00)	0.957 (1.00)	0.257 (0.921)	0.126 (0.753)	0.215 (0.868)	0.106 (0.747)	0.32 (0.937)	0.603 (1.00)
RHBG	4 (0%)	973			0.894 (1.00)				0.00765 (0.173)	0.108 (0.747)	0.523 (1.00)	0.266 (0.928)
CABYR	6 (1%)	971			0.814 (1.00)	0.5 (1.00)			0.136 (0.756)	0.00666 (0.163)	0.271 (0.928)	0.443 (1.00)	0.873 (1.00)	0.282 (0.931)
CCDC82	6 (1%)	971	0.459 (1.00)	0.059 (0.601)	0.302 (0.931)		0.0372 (0.485)	0.72 (1.00)	0.348 (0.959)	0.00251 (0.0722)	0.307 (0.932)	0.899 (1.00)	1 (1.00)	1 (1.00)
SDC1	3 (0%)	974			1 (1.00)				0.299 (0.931)	0.00717 (0.171)	0.495 (1.00)	1 (1.00)
EXOC4	8 (1%)	969	0.0113 (0.232)	0.658 (1.00)	0.671 (1.00)	0.145 (0.774)			0.0351 (0.468)	0.029 (0.404)	0.808 (1.00)	0.745 (1.00)	0.625 (1.00)	0.418 (0.982)
C11ORF49	5 (1%)	972			0.13 (0.753)	0.466 (1.00)			0.00226 (0.0694)	0.0254 (0.386)	0.113 (0.747)	0.0693 (0.619)
OR8D1	5 (1%)	972	0.634 (1.00)	0.00883 (0.195)	0.645 (1.00)	0.865 (1.00)	0.837 (1.00)	0.795 (1.00)	0.337 (0.951)	0.182 (0.838)	0.774 (1.00)	0.593 (1.00)
LIFR	9 (1%)	968	0.321 (0.938)	0.48 (1.00)	0.165 (0.794)	0.888 (1.00)	0.00754 (0.173)	0.0165 (0.288)	1 (1.00)	0.068 (0.619)	0.458 (1.00)	0.871 (1.00)	0.629 (1.00)	1 (1.00)
SEC14L5	7 (1%)	970	0.214 (0.868)	0.00238 (0.0707)	0.269 (0.928)	0.514 (1.00)	0.395 (0.98)	0.208 (0.863)	0.0525 (0.581)	0.0883 (0.684)	0.115 (0.747)	0.243 (0.91)	0.29 (0.931)	1 (1.00)
FBXW7	15 (2%)	962	0.817 (1.00)	0.532 (1.00)	0.156 (0.78)	0.00408 (0.109)	0.778 (1.00)	0.94 (1.00)	0.23 (0.884)	0.147 (0.774)	0.353 (0.96)	0.0988 (0.716)	0.0632 (0.604)	0.898 (1.00)
PTEN	35 (4%)	942	0.309 (0.932)	0.906 (1.00)	0.17 (0.804)	0.423 (0.983)	0.923 (1.00)	0.477 (1.00)	1 (1.00)	0.573 (1.00)	0.134 (0.756)	0.663 (1.00)	0.65 (1.00)	0.828 (1.00)
ARID1A	27 (3%)	950	0.302 (0.931)	0.941 (1.00)	0.0388 (0.497)	0.0982 (0.716)	1 (1.00)	0.195 (0.854)	0.347 (0.957)	0.639 (1.00)	0.667 (1.00)	0.403 (0.98)	0.161 (0.782)	0.564 (1.00)
MLL3	69 (7%)	908	0.666 (1.00)	0.155 (0.78)	0.733 (1.00)	0.129 (0.753)	0.595 (1.00)	0.477 (1.00)	0.241 (0.905)	0.448 (1.00)	0.214 (0.868)	0.149 (0.775)	0.41 (0.98)	0.312 (0.933)
FOXA1	23 (2%)	954	0.369 (0.978)	0.537 (1.00)	0.334 (0.945)	0.0562 (0.589)	0.895 (1.00)	0.749 (1.00)	0.0549 (0.589)	0.158 (0.782)	0.0235 (0.368)	0.0264 (0.391)	0.185 (0.842)	0.523 (1.00)
RBMX	14 (1%)	963	0.387 (0.98)	0.108 (0.747)	0.0679 (0.619)	0.108 (0.747)	0.556 (1.00)	0.85 (1.00)	0.149 (0.774)	0.126 (0.753)	0.166 (0.798)	0.659 (1.00)	0.0465 (0.537)	1 (1.00)
TBX3	27 (3%)	950	0.579 (1.00)	0.628 (1.00)	0.325 (0.94)	0.127 (0.753)	0.084 (0.679)	0.967 (1.00)	0.0444 (0.529)	0.133 (0.756)	0.0589 (0.601)	0.124 (0.753)	0.603 (1.00)	0.721 (1.00)
RB1	19 (2%)	958	0.878 (1.00)	0.305 (0.932)	0.157 (0.78)	0.0306 (0.416)	0.484 (1.00)	0.606 (1.00)	0.0273 (0.396)	0.26 (0.921)	0.0566 (0.589)	0.0264 (0.391)	0.0929 (0.699)	0.211 (0.863)
THEM5	11 (1%)	966	0.264 (0.928)	0.872 (1.00)	0.0613 (0.604)	0.599 (1.00)	0.208 (0.863)	0.388 (0.98)	0.608 (1.00)	0.787 (1.00)	0.66 (1.00)	0.465 (1.00)	0.0401 (0.501)	0.285 (0.931)
NF1	28 (3%)	949	0.573 (1.00)	0.804 (1.00)	0.563 (1.00)	0.477 (1.00)	0.742 (1.00)	0.232 (0.884)	0.381 (0.98)	0.417 (0.982)	0.329 (0.94)	0.676 (1.00)	0.942 (1.00)	0.54 (1.00)
ACTL6B	10 (1%)	967	0.354 (0.96)	0.29 (0.931)	0.0285 (0.404)	0.571 (1.00)	0.864 (1.00)	0.196 (0.854)	0.838 (1.00)	0.194 (0.854)	0.739 (1.00)	0.717 (1.00)	0.424 (0.983)	0.713 (1.00)
CDKN1B	10 (1%)	967	0.638 (1.00)	0.739 (1.00)	0.0689 (0.619)	0.142 (0.774)	0.744 (1.00)	0.198 (0.854)	0.1 (0.721)	0.459 (1.00)	0.446 (1.00)	0.169 (0.804)	0.39 (0.98)	0.0149 (0.27)
NCOR1	41 (4%)	936	0.741 (1.00)	0.968 (1.00)	0.91 (1.00)	0.916 (1.00)	0.403 (0.98)	0.425 (0.983)	0.755 (1.00)	0.389 (0.98)	0.724 (1.00)	0.108 (0.747)	0.718 (1.00)	0.783 (1.00)
SF3B1	16 (2%)	961	0.843 (1.00)	0.844 (1.00)	0.535 (1.00)	0.0906 (0.695)	0.45 (1.00)	0.0788 (0.665)	0.289 (0.931)	0.356 (0.96)	0.261 (0.921)	0.39 (0.98)	0.351 (0.96)	0.248 (0.912)
KRAS	6 (1%)	971	0.54 (1.00)	0.628 (1.00)	0.324 (0.94)	0.306 (0.932)	0.202 (0.856)	0.513 (1.00)	0.743 (1.00)	0.0847 (0.679)	0.853 (1.00)	0.958 (1.00)	0.922 (1.00)	0.126 (0.753)
AQP12A	6 (1%)	971	0.624 (1.00)	0.729 (1.00)	0.345 (0.956)	0.0232 (0.366)	0.201 (0.856)	0.435 (0.993)	1 (1.00)	1 (1.00)	0.945 (1.00)	0.502 (1.00)	0.382 (0.98)	1 (1.00)
TCP11	6 (1%)	971	0.784 (1.00)	0.511 (1.00)	0.458 (1.00)		0.862 (1.00)	0.607 (1.00)	0.741 (1.00)	0.373 (0.978)	0.945 (1.00)	0.761 (1.00)
RPGR	19 (2%)	958	0.969 (1.00)	0.702 (1.00)	0.96 (1.00)	0.39 (0.98)	0.743 (1.00)	0.294 (0.931)	0.373 (0.978)	0.983 (1.00)	0.227 (0.884)	0.194 (0.854)	0.682 (1.00)	0.477 (1.00)
TBL1XR1	10 (1%)	967	0.157 (0.78)	0.0807 (0.665)	0.0134 (0.257)	0.596 (1.00)	0.45 (1.00)	0.153 (0.78)	0.432 (0.988)	0.434 (0.992)	0.389 (0.98)	0.707 (1.00)	0.946 (1.00)	0.178 (0.827)
KDM6A	16 (2%)	961	0.737 (1.00)	0.344 (0.956)	0.352 (0.96)	0.092 (0.695)	0.637 (1.00)	0.964 (1.00)	0.496 (1.00)	0.329 (0.94)	0.703 (1.00)	0.602 (1.00)	0.736 (1.00)	0.28 (0.931)
MYH9	18 (2%)	959	0.396 (0.98)	0.421 (0.982)	0.365 (0.973)	0.378 (0.98)	0.821 (1.00)	0.0541 (0.587)	0.661 (1.00)	0.145 (0.774)	0.735 (1.00)	0.402 (0.98)	0.507 (1.00)	0.261 (0.921)
FGFR2	11 (1%)	966	0.916 (1.00)	0.876 (1.00)	0.327 (0.94)	0.0918 (0.695)	1 (1.00)	0.797 (1.00)	0.79 (1.00)	0.431 (0.987)	0.225 (0.884)	0.495 (1.00)	0.605 (1.00)	0.672 (1.00)
TFE3	7 (1%)	970	0.676 (1.00)	0.903 (1.00)	0.74 (1.00)	0.422 (0.983)	1 (1.00)	0.94 (1.00)	0.787 (1.00)	0.65 (1.00)	0.756 (1.00)	0.427 (0.983)	0.857 (1.00)	0.301 (0.931)
ZMYM3	14 (1%)	963	0.495 (1.00)	0.44 (0.998)	0.838 (1.00)	0.314 (0.933)	0.126 (0.753)	0.656 (1.00)	0.161 (0.782)	0.568 (1.00)	0.516 (1.00)	0.906 (1.00)	0.229 (0.884)	0.856 (1.00)
FRMPD2	12 (1%)	965	0.819 (1.00)	1 (1.00)	0.372 (0.978)	0.767 (1.00)	0.467 (1.00)	0.935 (1.00)	0.795 (1.00)	0.0615 (0.604)	0.424 (0.983)	0.673 (1.00)	0.188 (0.847)	0.753 (1.00)
GPS2	11 (1%)	966	0.014 (0.261)	0.0493 (0.558)	0.061 (0.604)	0.311 (0.932)	0.329 (0.94)	0.66 (1.00)	0.392 (0.98)	0.0417 (0.504)	0.137 (0.756)	0.31 (0.932)	0.478 (1.00)	0.418 (0.982)
DOCK11	20 (2%)	957	0.666 (1.00)	0.448 (1.00)	0.314 (0.933)	0.803 (1.00)	0.402 (0.98)	0.269 (0.928)	0.062 (0.604)	0.0251 (0.386)	0.0914 (0.695)	0.0457 (0.535)	0.0382 (0.495)	0.116 (0.747)
HRNR	31 (3%)	946	0.988 (1.00)	0.783 (1.00)	0.353 (0.96)	0.946 (1.00)	0.624 (1.00)	0.57 (1.00)	0.491 (1.00)	0.679 (1.00)	0.597 (1.00)	0.194 (0.854)	0.148 (0.774)	0.784 (1.00)
CASZ1	14 (1%)	963	0.936 (1.00)	0.854 (1.00)	0.903 (1.00)	0.867 (1.00)	0.111 (0.747)	0.934 (1.00)	0.823 (1.00)	0.733 (1.00)	0.521 (1.00)	0.733 (1.00)	0.429 (0.984)	0.326 (0.94)
CDC42EP1	5 (1%)	972	0.521 (1.00)	0.463 (1.00)	0.384 (0.98)	0.424 (0.983)	0.835 (1.00)	0.472 (1.00)	0.844 (1.00)	0.557 (1.00)	0.729 (1.00)	0.305 (0.932)
C1QTNF5	7 (1%)	970	0.648 (1.00)	0.2 (0.856)	0.283 (0.931)		1 (1.00)	0.511 (1.00)	0.877 (1.00)	0.338 (0.951)	0.695 (1.00)	0.084 (0.679)	0.0137 (0.259)	0.0796 (0.665)
TGS1	13 (1%)	964	0.634 (1.00)	0.667 (1.00)	0.42 (0.982)	0.292 (0.931)	0.112 (0.747)	0.555 (1.00)	1 (1.00)	0.246 (0.912)	0.271 (0.928)	0.457 (1.00)	0.248 (0.912)	0.356 (0.96)
USP36	8 (1%)	969	0.837 (1.00)	0.182 (0.838)	0.968 (1.00)	0.823 (1.00)	0.712 (1.00)	0.744 (1.00)	0.457 (1.00)	0.0769 (0.661)	0.675 (1.00)	0.347 (0.957)
ASB10	8 (1%)	969	0.944 (1.00)	0.0643 (0.607)	0.967 (1.00)	0.708 (1.00)			0.457 (1.00)	0.58 (1.00)	0.485 (1.00)	0.267 (0.928)	0.902 (1.00)	1 (1.00)
EIF4A2	9 (1%)	968	0.23 (0.884)	1 (1.00)	0.881 (1.00)	0.565 (1.00)	1 (1.00)	0.369 (0.978)	0.227 (0.884)	0.084 (0.679)	0.26 (0.921)	0.891 (1.00)	0.372 (0.978)	0.282 (0.931)
DNAH12	18 (2%)	959	1 (1.00)	0.732 (1.00)	0.865 (1.00)	0.748 (1.00)	0.451 (1.00)	0.898 (1.00)	1 (1.00)	0.605 (1.00)	0.246 (0.912)	0.727 (1.00)	0.16 (0.782)	0.228 (0.884)
ZNF362	5 (1%)	972	0.88 (1.00)	0.872 (1.00)	0.0916 (0.695)		0.155 (0.78)	0.659 (1.00)	0.408 (0.98)	0.91 (1.00)	0.083 (0.679)	0.414 (0.982)
FXYD5	5 (1%)	972	0.568 (1.00)	0.786 (1.00)	0.451 (1.00)		0.522 (1.00)	0.883 (1.00)	0.0874 (0.681)	0.122 (0.753)	0.685 (1.00)	0.512 (1.00)
BCORL1	15 (2%)	962	0.151 (0.78)	0.834 (1.00)	0.66 (1.00)	0.736 (1.00)	0.29 (0.931)	0.0292 (0.404)	0.116 (0.747)	0.819 (1.00)	0.559 (1.00)	0.879 (1.00)	0.876 (1.00)	0.665 (1.00)
PTHLH	7 (1%)	970	0.229 (0.884)	0.897 (1.00)	0.039 (0.497)	0.0205 (0.338)	0.688 (1.00)	0.576 (1.00)	0.136 (0.756)	0.654 (1.00)	1 (1.00)	0.194 (0.854)
PIK3R1	15 (2%)	962	0.148 (0.774)	0.185 (0.842)	0.414 (0.982)	0.0673 (0.619)	0.63 (1.00)	0.0495 (0.558)	0.101 (0.722)	0.159 (0.782)	0.132 (0.753)	0.395 (0.98)	0.119 (0.747)	0.667 (1.00)
ZNF687	11 (1%)	966	0.344 (0.956)	0.129 (0.753)	0.224 (0.884)	0.119 (0.747)	0.115 (0.747)	0.305 (0.932)	0.198 (0.854)	0.25 (0.913)	0.198 (0.854)	0.0181 (0.31)	0.874 (1.00)	0.597 (1.00)
GPRIN2	11 (1%)	966	0.604 (1.00)	0.624 (1.00)	0.981 (1.00)	0.706 (1.00)	0.876 (1.00)	0.145 (0.774)	0.468 (1.00)	0.421 (0.982)	0.372 (0.978)	0.0633 (0.604)	0.402 (0.98)	0.665 (1.00)
ANKRD12	18 (2%)	959	0.277 (0.931)	0.134 (0.756)	0.626 (1.00)	0.858 (1.00)	0.386 (0.98)	0.0674 (0.619)	0.409 (0.98)	0.0631 (0.604)	0.207 (0.863)	0.948 (1.00)	0.202 (0.856)	0.714 (1.00)
PAX2	4 (0%)	973	0.945 (1.00)	0.334 (0.945)	0.3 (0.931)		0.401 (0.98)	0.0564 (0.589)	0.317 (0.934)	0.286 (0.931)	0.776 (1.00)	0.483 (1.00)
KCNN3	9 (1%)	968	0.143 (0.774)	0.51 (1.00)	0.25 (0.913)	0.137 (0.756)	0.27 (0.928)	0.767 (1.00)	0.288 (0.931)	0.401 (0.98)	0.302 (0.931)	0.71 (1.00)	0.584 (1.00)	0.414 (0.982)
ICOSLG	5 (1%)	972	0.767 (1.00)	0.129 (0.753)	0.0409 (0.504)	0.289 (0.931)			0.599 (1.00)	0.969 (1.00)	0.77 (1.00)	0.472 (1.00)
MR1	7 (1%)	970	0.211 (0.863)	0.704 (1.00)	0.924 (1.00)	0.056 (0.589)	1 (1.00)	0.966 (1.00)	0.27 (0.928)	0.362 (0.968)	0.574 (1.00)	0.219 (0.876)
ZBTB7C	5 (1%)	972			0.494 (1.00)	0.788 (1.00)			0.495 (1.00)	0.678 (1.00)	0.687 (1.00)	0.922 (1.00)
AKT2	5 (1%)	972	0.144 (0.774)	1 (1.00)	0.68 (1.00)	0.456 (1.00)			0.598 (1.00)	0.112 (0.747)	0.769 (1.00)	0.309 (0.932)	0.677 (1.00)	0.443 (1.00)
TARBP2	6 (1%)	971	0.662 (1.00)	0.958 (1.00)	0.102 (0.728)	0.683 (1.00)	0.167 (0.798)	0.597 (1.00)	0.138 (0.756)	0.466 (1.00)	0.615 (1.00)	0.0654 (0.611)	0.498 (1.00)	0.768 (1.00)
RIBC1	4 (0%)	973	0.591 (1.00)	0.383 (0.98)	0.758 (1.00)	0.489 (1.00)			0.53 (1.00)	0.608 (1.00)	0.447 (1.00)	0.329 (0.94)
PSIP1	8 (1%)	969	0.687 (1.00)	0.719 (1.00)	0.569 (1.00)	0.767 (1.00)	0.689 (1.00)	0.967 (1.00)	0.36 (0.966)	0.936 (1.00)	0.21 (0.863)	0.454 (1.00)	0.858 (1.00)	0.13 (0.753)
CEP57	6 (1%)	971	0.373 (0.978)	0.279 (0.931)	0.301 (0.931)	0.188 (0.847)			0.651 (1.00)	0.849 (1.00)	0.0703 (0.623)	0.984 (1.00)	0.0808 (0.665)	0.0397 (0.499)
ANKRD20A4	7 (1%)	970	0.191 (0.853)	0.0963 (0.712)	0.713 (1.00)	0.516 (1.00)	0.78 (1.00)	1 (1.00)	0.234 (0.884)	0.332 (0.943)	0.882 (1.00)	0.967 (1.00)	0.477 (1.00)	0.036 (0.473)
HIST1H3B	11 (1%)	966	0.555 (1.00)	0.96 (1.00)	0.641 (1.00)	0.785 (1.00)	0.628 (1.00)	0.707 (1.00)	1 (1.00)	0.169 (0.804)	0.71 (1.00)	0.178 (0.827)	0.84 (1.00)	0.663 (1.00)
MED23	14 (1%)	963	0.0973 (0.714)	0.282 (0.931)	0.355 (0.96)	0.447 (1.00)	0.157 (0.78)	0.221 (0.881)	0.0488 (0.558)	0.0743 (0.645)	0.356 (0.96)	0.389 (0.98)	0.28 (0.931)	0.416 (0.982)
MUC6	14 (1%)	963	0.0208 (0.339)	0.613 (1.00)	0.506 (1.00)	0.77 (1.00)	0.365 (0.973)	0.941 (1.00)	0.0618 (0.604)	0.204 (0.859)	0.621 (1.00)	0.115 (0.747)	0.286 (0.931)	0.0503 (0.56)
ANGPT4	10 (1%)	967	0.203 (0.859)	1 (1.00)	0.402 (0.98)	0.257 (0.921)	0.642 (1.00)	0.941 (1.00)	0.045 (0.531)	0.0451 (0.531)	0.163 (0.792)	0.606 (1.00)	0.96 (1.00)	0.416 (0.982)
PCNXL2	21 (2%)	956	0.953 (1.00)	0.938 (1.00)	0.729 (1.00)	0.848 (1.00)	0.482 (1.00)	0.58 (1.00)	0.404 (0.98)	0.725 (1.00)	0.77 (1.00)	0.586 (1.00)	0.972 (1.00)	0.824 (1.00)
SLC35B2	7 (1%)	970	1 (1.00)	0.248 (0.912)	0.801 (1.00)		0.559 (1.00)	0.849 (1.00)	0.784 (1.00)	0.885 (1.00)	0.622 (1.00)	0.908 (1.00)	0.929 (1.00)	0.855 (1.00)
MKL1	5 (1%)	972	0.9 (1.00)	0.692 (1.00)	0.428 (0.983)		0.78 (1.00)	0.346 (0.957)	0.713 (1.00)	0.119 (0.749)	0.818 (1.00)	0.39 (0.98)
NBPF9	5 (1%)	972	0.615 (1.00)	0.625 (1.00)	0.805 (1.00)		0.864 (1.00)	0.641 (1.00)	0.6 (1.00)	0.155 (0.78)	0.145 (0.774)	0.3 (0.931)
PRICKLE3	11 (1%)	966	0.259 (0.921)	0.0267 (0.391)	0.684 (1.00)	0.743 (1.00)	0.511 (1.00)	0.549 (1.00)	0.197 (0.854)	0.206 (0.863)	0.668 (1.00)	0.402 (0.98)	0.606 (1.00)	0.671 (1.00)
CXCR3	6 (1%)	971	0.604 (1.00)	0.79 (1.00)	0.156 (0.78)	0.539 (1.00)	1 (1.00)	0.887 (1.00)	0.653 (1.00)	0.439 (0.998)	0.709 (1.00)	0.899 (1.00)	0.503 (1.00)	0.522 (1.00)
TPP2	8 (1%)	969	0.0857 (0.679)	0.945 (1.00)	0.638 (1.00)	0.26 (0.921)			0.362 (0.968)	0.915 (1.00)	0.531 (1.00)	0.879 (1.00)	0.875 (1.00)	0.595 (1.00)
CASP8	12 (1%)	965	0.463 (1.00)	0.392 (0.98)	0.26 (0.921)	0.288 (0.931)	0.529 (1.00)	0.661 (1.00)	1 (1.00)	0.755 (1.00)	0.449 (1.00)	0.475 (1.00)	0.176 (0.822)	1 (1.00)
TNRC6B	18 (2%)	959	0.519 (1.00)	0.157 (0.78)	0.576 (1.00)	0.142 (0.774)	0.508 (1.00)	0.481 (1.00)	0.734 (1.00)	0.327 (0.94)	0.951 (1.00)	0.202 (0.856)	0.654 (1.00)	0.369 (0.978)
OXCT2	4 (0%)	973	0.451 (1.00)	0.54 (1.00)	0.896 (1.00)				1 (1.00)	0.502 (1.00)	1 (1.00)	0.469 (1.00)
IRS4	11 (1%)	966	0.144 (0.774)	0.784 (1.00)	0.223 (0.882)	0.757 (1.00)	0.381 (0.98)	0.845 (1.00)	0.216 (0.868)	0.473 (1.00)	1 (1.00)	0.173 (0.816)	0.948 (1.00)	0.823 (1.00)
MLL4	13 (1%)	964	0.397 (0.98)	0.509 (1.00)	0.791 (1.00)	0.222 (0.881)	0.115 (0.747)	0.547 (1.00)	0.533 (1.00)	0.303 (0.931)	0.324 (0.94)	0.0911 (0.695)	0.351 (0.96)	0.3 (0.931)
RHOA	6 (1%)	971	0.904 (1.00)	0.587 (1.00)	0.778 (1.00)	0.968 (1.00)	0.112 (0.747)	0.606 (1.00)	0.412 (0.982)	0.259 (0.921)	1 (1.00)	0.794 (1.00)
ATHL1	10 (1%)	967	0.87 (1.00)	0.319 (0.937)	0.0851 (0.679)	0.147 (0.774)	1 (1.00)	0.8 (1.00)	0.333 (0.945)	0.145 (0.774)	0.186 (0.842)	0.053 (0.581)	0.343 (0.956)	0.686 (1.00)
LILRA6	6 (1%)	971	0.658 (1.00)	0.219 (0.876)	0.817 (1.00)		0.211 (0.863)	1 (1.00)	0.863 (1.00)	0.677 (1.00)	0.371 (0.978)	0.96 (1.00)
MLH1	6 (1%)	971	0.799 (1.00)	0.732 (1.00)	0.902 (1.00)	0.785 (1.00)			0.345 (0.956)	0.879 (1.00)	0.816 (1.00)	0.544 (1.00)	0.949 (1.00)	0.822 (1.00)
NUP93	4 (0%)	973			0.0157 (0.281)	0.467 (1.00)			0.421 (0.982)	0.475 (1.00)	0.493 (1.00)	0.502 (1.00)
ALDH1L1	9 (1%)	968	0.646 (1.00)	0.92 (1.00)	0.251 (0.915)	0.177 (0.827)	0.692 (1.00)	0.258 (0.921)	0.125 (0.753)	0.288 (0.931)	0.283 (0.931)	0.279 (0.931)	0.899 (1.00)	0.821 (1.00)
TMEM120B	5 (1%)	972	0.257 (0.921)	0.247 (0.912)	0.868 (1.00)	0.977 (1.00)			0.222 (0.881)	0.863 (1.00)	0.516 (1.00)	0.59 (1.00)	1 (1.00)	1 (1.00)
LRIG2	7 (1%)	970	0.564 (1.00)	0.0308 (0.416)	0.246 (0.912)	0.207 (0.863)	0.211 (0.863)	0.721 (1.00)	0.461 (1.00)	0.886 (1.00)	0.623 (1.00)	0.608 (1.00)	0.856 (1.00)	1 (1.00)
CCDC78	5 (1%)	972			0.613 (1.00)	0.708 (1.00)			0.715 (1.00)	0.497 (1.00)	0.389 (0.98)	0.875 (1.00)	0.848 (1.00)	0.591 (1.00)
GAL3ST1	5 (1%)	972			0.758 (1.00)	0.715 (1.00)			1 (1.00)	0.864 (1.00)	0.306 (0.932)	0.449 (1.00)	0.262 (0.923)	0.589 (1.00)
FAM20C	4 (0%)	973			0.594 (1.00)				0.419 (0.982)	0.55 (1.00)	0.127 (0.753)	0.63 (1.00)	0.498 (1.00)	0.769 (1.00)
RCC1	3 (0%)	974	0.715 (1.00)	0.112 (0.747)	0.17 (0.804)				0.299 (0.931)	0.453 (1.00)	1 (1.00)	0.946 (1.00)
CHD4	19 (2%)	958	0.233 (0.884)	0.355 (0.96)	0.848 (1.00)	0.684 (1.00)	0.197 (0.854)	0.396 (0.98)	0.554 (1.00)	0.268 (0.928)	0.3 (0.931)	0.439 (0.998)	0.749 (1.00)	0.31 (0.932)
STAG2	13 (1%)	964	0.284 (0.931)	0.213 (0.868)	0.191 (0.853)	0.481 (1.00)	0.877 (1.00)	0.226 (0.884)	0.334 (0.945)	0.864 (1.00)	0.253 (0.919)	0.79 (1.00)	0.902 (1.00)	0.685 (1.00)
HIST1H2BC	6 (1%)	971	0.374 (0.978)	0.0465 (0.537)	0.709 (1.00)	0.295 (0.931)	0.392 (0.98)	0.642 (1.00)	0.0875 (0.681)	0.847 (1.00)	0.742 (1.00)	0.857 (1.00)	0.948 (1.00)	0.823 (1.00)
BPHL	5 (1%)	972	0.474 (1.00)	0.467 (1.00)	0.585 (1.00)		0.688 (1.00)	0.402 (0.98)	0.713 (1.00)	0.318 (0.937)	0.182 (0.838)	0.569 (1.00)
ATP2A1	11 (1%)	966	1 (1.00)	0.678 (1.00)	0.538 (1.00)	0.655 (1.00)			1 (1.00)	0.769 (1.00)	1 (1.00)	0.996 (1.00)	0.979 (1.00)	0.684 (1.00)
LRRC37A3	10 (1%)	967	0.036 (0.473)	0.551 (1.00)	0.79 (1.00)	0.853 (1.00)	0.3 (0.931)	0.668 (1.00)	1 (1.00)	0.615 (1.00)	0.646 (1.00)	0.303 (0.931)	0.356 (0.96)	0.667 (1.00)
EPDR1	5 (1%)	972	0.314 (0.933)	0.82 (1.00)	0.755 (1.00)		0.555 (1.00)	0.449 (1.00)	0.715 (1.00)	0.494 (1.00)	0.775 (1.00)	0.58 (1.00)
SARM1	6 (1%)	971	0.56 (1.00)	0.116 (0.747)	0.747 (1.00)		0.517 (1.00)	0.13 (0.753)	0.0252 (0.386)	0.0198 (0.332)	0.78 (1.00)	0.33 (0.94)	0.54 (1.00)	0.303 (0.931)
SP3	7 (1%)	970	0.88 (1.00)	0.552 (1.00)	0.557 (1.00)	0.865 (1.00)			0.878 (1.00)	0.442 (1.00)	0.395 (0.98)	0.411 (0.98)	0.316 (0.934)	1 (1.00)
ACTG1	8 (1%)	969	0.288 (0.931)	0.395 (0.98)	0.891 (1.00)	0.159 (0.782)			0.709 (1.00)	0.425 (0.983)	0.294 (0.931)	0.64 (1.00)	0.146 (0.774)	1 (1.00)
ANXA11	3 (0%)	974	0.668 (1.00)	0.493 (1.00)	0.403 (0.98)		0.0628 (0.604)	0.632 (1.00)	0.592 (1.00)	0.858 (1.00)	0.183 (0.839)	0.271 (0.928)
GYLTL1B	4 (0%)	973	0.419 (0.982)	0.72 (1.00)	1 (1.00)		0.69 (1.00)	0.358 (0.962)	0.659 (1.00)	0.447 (1.00)	0.315 (0.934)	0.409 (0.98)
ANGPTL6	3 (0%)	974			0.751 (1.00)				0.769 (1.00)	0.617 (1.00)
PFKP	7 (1%)	970	0.407 (0.98)	0.0135 (0.257)	0.233 (0.884)	0.056 (0.589)	0.28 (0.931)	0.569 (1.00)	0.461 (1.00)	0.277 (0.931)	0.117 (0.747)	0.21 (0.863)
SPTAN1	11 (1%)	966	0.788 (1.00)	0.64 (1.00)	0.32 (0.937)	0.787 (1.00)	0.111 (0.747)	0.153 (0.78)	0.056 (0.589)	0.498 (1.00)	0.706 (1.00)	0.231 (0.884)	0.344 (0.956)	0.137 (0.756)
TTPAL	4 (0%)	973	0.24 (0.903)	0.302 (0.931)	0.159 (0.782)		0.522 (1.00)	0.781 (1.00)	0.0497 (0.558)	0.396 (0.98)	0.522 (1.00)	0.0869 (0.681)
HCFC2	10 (1%)	967	0.031 (0.416)	0.554 (1.00)	0.136 (0.756)	0.923 (1.00)			0.0143 (0.262)	0.246 (0.912)	0.739 (1.00)	0.985 (1.00)	0.61 (1.00)	0.477 (1.00)
OR6C76	7 (1%)	970	0.292 (0.931)	0.342 (0.956)	0.399 (0.98)	0.939 (1.00)	0.642 (1.00)	0.485 (1.00)	0.877 (1.00)	0.622 (1.00)	0.88 (1.00)	0.808 (1.00)	0.156 (0.78)	0.254 (0.92)
ACOT2	5 (1%)	972	0.184 (0.842)	0.342 (0.956)	0.428 (0.983)	0.479 (1.00)			0.496 (1.00)	0.74 (1.00)	0.0162 (0.285)	0.636 (1.00)
KIAA0430	15 (2%)	962	0.671 (1.00)	0.75 (1.00)	0.13 (0.753)	0.109 (0.747)	0.269 (0.928)	0.72 (1.00)	0.835 (1.00)	0.862 (1.00)	1 (1.00)	0.65 (1.00)	0.161 (0.782)	0.569 (1.00)
GTF2IRD2	8 (1%)	969	0.57 (1.00)	0.959 (1.00)	0.0967 (0.712)	0.407 (0.98)	0.383 (0.98)	0.977 (1.00)	0.41 (0.98)	0.78 (1.00)	0.471 (1.00)	0.0417 (0.504)	0.128 (0.753)	0.439 (0.998)
JAK1	11 (1%)	966	0.499 (1.00)	0.479 (1.00)	0.673 (1.00)	0.414 (0.982)	1 (1.00)	0.732 (1.00)	0.0412 (0.504)	0.193 (0.854)	0.23 (0.884)	0.123 (0.753)	0.215 (0.868)	0.17 (0.804)
FGFR3	4 (0%)	973	0.0759 (0.655)	0.924 (1.00)	0.823 (1.00)				0.415 (0.982)	0.396 (0.98)	0.566 (1.00)	0.25 (0.913)
SHANK2	15 (2%)	962	0.105 (0.746)	0.197 (0.854)	0.609 (1.00)	0.559 (1.00)	0.0532 (0.581)	0.343 (0.956)	0.474 (1.00)	0.288 (0.931)	0.411 (0.98)	0.314 (0.933)	0.0788 (0.665)	0.185 (0.842)
TRMT2A	7 (1%)	970	0.953 (1.00)	0.92 (1.00)	0.769 (1.00)	0.782 (1.00)	0.393 (0.98)	1 (1.00)	0.523 (1.00)	0.572 (1.00)	0.844 (1.00)	0.763 (1.00)	0.552 (1.00)	0.189 (0.851)
CCNL2	7 (1%)	970	0.864 (1.00)	0.855 (1.00)	1 (1.00)	0.939 (1.00)			0.525 (1.00)	0.284 (0.931)	0.539 (1.00)	0.174 (0.819)	0.948 (1.00)	0.824 (1.00)
CLEC18B	6 (1%)	971	0.565 (1.00)	1 (1.00)	0.647 (1.00)	0.509 (1.00)	0.298 (0.931)	0.94 (1.00)	0.567 (1.00)	0.752 (1.00)	0.899 (1.00)	0.392 (0.98)	0.857 (1.00)	0.301 (0.931)
RUFY1	6 (1%)	971	0.382 (0.98)	0.731 (1.00)	0.316 (0.934)	0.526 (1.00)			0.651 (1.00)	0.241 (0.905)	0.85 (1.00)	0.133 (0.756)	0.899 (1.00)	0.409 (0.98)
GIPC3	4 (0%)	973	0.831 (1.00)	0.5 (1.00)	0.405 (0.98)		0.401 (0.98)	0.0803 (0.665)	0.316 (0.934)	0.648 (1.00)	0.0779 (0.662)	0.495 (1.00)
OR2T35	4 (0%)	973	1 (1.00)	0.0951 (0.709)	0.894 (1.00)				0.821 (1.00)	0.717 (1.00)	0.259 (0.921)	0.533 (1.00)
PPIL2	6 (1%)	971			0.427 (0.983)	0.825 (1.00)			1 (1.00)	0.409 (0.98)	0.392 (0.98)	1 (1.00)	0.191 (0.853)	0.0395 (0.499)
NPAS4	9 (1%)	968	0.672 (1.00)	0.148 (0.774)	0.216 (0.868)	0.36 (0.966)	0.837 (1.00)	0.875 (1.00)	0.327 (0.94)	0.232 (0.884)	0.385 (0.98)	0.149 (0.774)	0.243 (0.91)	0.823 (1.00)
SHISA4	5 (1%)	972	0.0873 (0.681)	0.729 (1.00)	0.0777 (0.662)	0.125 (0.753)			0.497 (1.00)	0.269 (0.928)	0.874 (1.00)	1 (1.00)
MLL	17 (2%)	960	0.65 (1.00)	0.645 (1.00)	0.0596 (0.603)	0.0858 (0.679)	0.688 (1.00)	0.272 (0.93)	0.25 (0.913)	0.356 (0.96)	0.83 (1.00)	0.196 (0.854)	0.279 (0.931)	0.0691 (0.619)
ACVR1B	7 (1%)	970	0.89 (1.00)	1 (1.00)	0.949 (1.00)	0.781 (1.00)	0.558 (1.00)	0.201 (0.856)	0.198 (0.854)	0.478 (1.00)	0.373 (0.978)	0.511 (1.00)	0.537 (1.00)	0.303 (0.931)
GPR158	3 (0%)	974			1 (1.00)				0.3 (0.931)	0.456 (1.00)	0.325 (0.94)	0.306 (0.932)
ARHGEF15	9 (1%)	968	0.464 (1.00)	0.199 (0.855)	0.34 (0.956)	1 (1.00)	0.893 (1.00)	0.738 (1.00)	0.328 (0.94)	0.626 (1.00)	0.861 (1.00)	0.564 (1.00)	0.856 (1.00)	0.3 (0.931)
ZNF397	7 (1%)	970	0.0714 (0.625)	0.85 (1.00)	0.167 (0.798)	0.672 (1.00)			1 (1.00)	0.642 (1.00)	0.723 (1.00)	0.652 (1.00)	0.608 (1.00)	0.67 (1.00)
COL9A2	3 (0%)	974			0.309 (0.932)	0.136 (0.756)			0.296 (0.931)	0.476 (1.00)
TXNDC2	4 (0%)	973			0.456 (1.00)	0.69 (1.00)			0.118 (0.747)	0.265 (0.928)	0.234 (0.884)	0.644 (1.00)
CD244	3 (0%)	974			0.355 (0.96)				0.11 (0.747)	0.28 (0.931)	1 (1.00)	1 (1.00)

'PIK3CA MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'PIK3CA MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'PIK3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PIK3CA MUTATED	61	147	48	49	9
PIK3CA WILD-TYPE	186	216	38	182	27

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

'PIK3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PIK3CA MUTATED	33	39	78	33	6	19
PIK3CA WILD-TYPE	95	57	78	74	103	33

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

'PIK3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.0089

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PIK3CA MUTATED	27	49	46
PIK3CA WILD-TYPE	118	82	72

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

'PIK3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PIK3CA MUTATED	30	24	12	23	27	6
PIK3CA WILD-TYPE	29	24	78	30	86	25

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

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PIK3CA MUTATED	187	44	85
PIK3CA WILD-TYPE	318	235	105

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

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PIK3CA MUTATED	79	55	34	125	7	16
PIK3CA WILD-TYPE	184	96	45	136	161	36

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

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PIK3CA MUTATED	43	70	97	104
PIK3CA WILD-TYPE	229	107	136	172

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

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PIK3CA MUTATED	99	32	89	73	15	6
PIK3CA WILD-TYPE	176	104	117	61	72	114

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

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PIK3CA MUTATED	57	14	27	34	50
PIK3CA WILD-TYPE	121	106	39	58	62

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

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PIK3CA MUTATED	52	75	55
PIK3CA WILD-TYPE	227	106	53

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

'TP53 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'TP53 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'TP53 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TP53 MUTATED	59	52	8	165	8
TP53 WILD-TYPE	188	311	78	66	28

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

'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TP53 MUTATED	30	28	9	32	82	9
TP53 WILD-TYPE	98	68	147	75	27	43

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

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TP53 MUTATED	93	11	33
TP53 WILD-TYPE	52	120	85

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

'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TP53 MUTATED	4	7	67	10	31	18
TP53 WILD-TYPE	55	41	23	43	82	13

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

'TP53 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TP53 MUTATED	77	200	17
TP53 WILD-TYPE	428	79	173

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

'TP53 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TP53 MUTATED	25	64	3	37	125	40
TP53 WILD-TYPE	238	87	76	224	43	12

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

'TP53 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TP53 MUTATED	171	27	26	64
TP53 WILD-TYPE	101	150	207	212

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

'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TP53 MUTATED	71	85	23	15	4	90
TP53 WILD-TYPE	204	51	183	119	83	30

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

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TP53 MUTATED	30	90	9	18	24
TP53 WILD-TYPE	148	30	57	74	88

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

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TP53 MUTATED	120	35	16
TP53 WILD-TYPE	159	146	92

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

'CDH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.00034 (Fisher's exact test), Q value = 0.013

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

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

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

'CDH1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00646 (Fisher's exact test), Q value = 0.16

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

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

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

'CDH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CDH1 MUTATED	13	59	23	4	5
CDH1 WILD-TYPE	234	304	63	227	31

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

'CDH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CDH1 MUTATED	3	19	32	21	0	7
CDH1 WILD-TYPE	125	77	124	86	109	45

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

'CDH1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00732 (Fisher's exact test), Q value = 0.17

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CDH1 MUTATED	5	4	14
CDH1 WILD-TYPE	140	127	104

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

'CDH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0129 (Fisher's exact test), Q value = 0.25

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CDH1 MUTATED	1	7	1	5	7	2
CDH1 WILD-TYPE	58	41	89	48	106	29

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

'CDH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CDH1 MUTATED	49	7	50
CDH1 WILD-TYPE	456	272	140

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

'CDH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CDH1 MUTATED	12	11	29	50	1	3
CDH1 WILD-TYPE	251	140	50	211	167	49

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

'CDH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CDH1 MUTATED	5	48	39	12
CDH1 WILD-TYPE	267	129	194	264

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

'CDH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CDH1 MUTATED	14	3	66	19	2	0
CDH1 WILD-TYPE	261	133	140	115	85	120

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

'CDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CDH1 MUTATED	9	1	20	12	32
CDH1 WILD-TYPE	169	119	46	80	80

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

'CDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CDH1 MUTATED	9	55	10
CDH1 WILD-TYPE	270	126	98

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

'GATA3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'GATA3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

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

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

'GATA3 MUTATION STATUS' versus 'CN_CNMF'

P value = 9e-04 (Fisher's exact test), Q value = 0.031

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GATA3 MUTATED	33	44	9	9	1
GATA3 WILD-TYPE	214	319	77	222	35

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

'GATA3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.0014

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
GATA3 MUTATED	15	11	19	5	0	7
GATA3 WILD-TYPE	113	85	137	102	109	45

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

'GATA3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0205 (Fisher's exact test), Q value = 0.34

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GATA3 MUTATED	12	24	10
GATA3 WILD-TYPE	133	107	108

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

'GATA3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00077 (Fisher's exact test), Q value = 0.027

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GATA3 MUTATED	12	4	2	4	21	3
GATA3 WILD-TYPE	47	44	88	49	92	28

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

'GATA3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GATA3 MUTATED	77	3	16
GATA3 WILD-TYPE	428	276	174

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

'GATA3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GATA3 MUTATED	46	14	3	33	0	0
GATA3 WILD-TYPE	217	137	76	228	168	52

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

'GATA3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00177 (Fisher's exact test), Q value = 0.056

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GATA3 MUTATED	14	14	28	39
GATA3 WILD-TYPE	258	163	205	237

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

'GATA3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GATA3 MUTATED	34	7	11	24	19	0
GATA3 WILD-TYPE	241	129	195	110	68	120

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

'GATA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
GATA3 MUTATED	33	0	5	10	9
GATA3 WILD-TYPE	145	120	61	82	103

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

'GATA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.112 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
GATA3 MUTATED	30	12	15
GATA3 WILD-TYPE	249	169	93

'MAP3K1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 9e-05 (Fisher's exact test), Q value = 0.004

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

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

Figure S48. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00016 (Fisher's exact test), Q value = 0.0067

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

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

Figure S49. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00247 (Fisher's exact test), Q value = 0.072

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MAP3K1 MUTATED	15	39	7	6	3
MAP3K1 WILD-TYPE	232	324	79	225	33

Figure S50. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MAP3K1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.153 (Fisher's exact test), Q value = 0.78

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MAP3K1 MUTATED	9	3	14	7	2	3
MAP3K1 WILD-TYPE	119	93	142	100	107	49

'MAP3K1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00078 (Fisher's exact test), Q value = 0.027

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MAP3K1 MUTATED	4	20	12
MAP3K1 WILD-TYPE	141	111	106

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

'MAP3K1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MAP3K1 MUTATED	16	7	1	7	5	0
MAP3K1 WILD-TYPE	43	41	89	46	108	31

Figure S52. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00045 (Fisher's exact test), Q value = 0.017

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MAP3K1 MUTATED	47	7	16
MAP3K1 WILD-TYPE	458	272	174

Figure S53. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00022 (Fisher's exact test), Q value = 0.0089

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MAP3K1 MUTATED	31	8	7	21	3	0
MAP3K1 WILD-TYPE	232	143	72	240	165	52

Figure S54. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00046 (Fisher's exact test), Q value = 0.017

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MAP3K1 MUTATED	6	16	23	25
MAP3K1 WILD-TYPE	266	161	210	251

Figure S55. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00105 (Fisher's exact test), Q value = 0.035

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MAP3K1 MUTATED	19	4	24	10	11	2
MAP3K1 WILD-TYPE	256	132	182	124	76	118

Figure S56. Get High-res Image Gene #5: 'MAP3K1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MAP3K1 MUTATED	15	3	3	10	7
MAP3K1 WILD-TYPE	163	117	63	82	105

'MAP3K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.132 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MAP3K1 MUTATED	15	11	12
MAP3K1 WILD-TYPE	264	170	96

'RUNX1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.016 (Fisher's exact test), Q value = 0.28

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

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

Figure S57. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'RUNX1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0849 (Fisher's exact test), Q value = 0.68

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

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

'RUNX1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00928 (Fisher's exact test), Q value = 0.2

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RUNX1 MUTATED	4	16	6	2	0
RUNX1 WILD-TYPE	243	347	80	229	36

Figure S58. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RUNX1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 0.88

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RUNX1 MUTATED	1	4	6	5	1	2
RUNX1 WILD-TYPE	127	92	150	102	108	50

'RUNX1 MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RUNX1 MUTATED	4	3	3
RUNX1 WILD-TYPE	141	128	115

'RUNX1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.331 (Fisher's exact test), Q value = 0.94

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RUNX1 MUTATED	1	2	0	2	4	1
RUNX1 WILD-TYPE	58	46	90	51	109	30

'RUNX1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0647 (Fisher's exact test), Q value = 0.61

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RUNX1 MUTATED	15	4	10
RUNX1 WILD-TYPE	490	275	180

'RUNX1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0118 (Fisher's exact test), Q value = 0.23

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RUNX1 MUTATED	4	9	4	11	1	0
RUNX1 WILD-TYPE	259	142	75	250	167	52

Figure S59. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.021 (Fisher's exact test), Q value = 0.34

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RUNX1 MUTATED	2	9	7	11
RUNX1 WILD-TYPE	270	168	226	265

Figure S60. Get High-res Image Gene #6: 'RUNX1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.405 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RUNX1 MUTATED	11	2	7	6	2	1
RUNX1 WILD-TYPE	264	134	199	128	85	119

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.31 (Fisher's exact test), Q value = 0.93

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
RUNX1 MUTATED	5	2	1	6	5
RUNX1 WILD-TYPE	173	118	65	86	107

'RUNX1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
RUNX1 MUTATED	7	8	4
RUNX1 WILD-TYPE	272	173	104

'PTEN MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.309 (Fisher's exact test), Q value = 0.93

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

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

'PTEN MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.906 (Fisher's exact test), Q value = 1

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

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

'PTEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.17 (Fisher's exact test), Q value = 0.8

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PTEN MUTATED	6	14	7	8	0
PTEN WILD-TYPE	241	349	79	223	36

'PTEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.423 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PTEN MUTATED	4	6	7	7	5	0
PTEN WILD-TYPE	124	90	149	100	104	52

'PTEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.923 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PTEN MUTATED	3	4	3
PTEN WILD-TYPE	142	127	115

'PTEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PTEN MUTATED	2	3	2	0	3	0
PTEN WILD-TYPE	57	45	88	53	110	31

'PTEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PTEN MUTATED	18	10	7
PTEN WILD-TYPE	487	269	183

'PTEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.573 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PTEN MUTATED	7	6	5	9	5	3
PTEN WILD-TYPE	256	145	74	252	163	49

'PTEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.134 (Fisher's exact test), Q value = 0.76

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PTEN MUTATED	7	12	7	9
PTEN WILD-TYPE	265	165	226	267

'PTEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.663 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PTEN MUTATED	12	5	10	3	1	4
PTEN WILD-TYPE	263	131	196	131	86	116

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.65 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PTEN MUTATED	7	3	3	5	7
PTEN WILD-TYPE	171	117	63	87	105

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.828 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PTEN MUTATED	11	9	5
PTEN WILD-TYPE	268	172	103

'ARID1A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.93

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

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

'ARID1A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.941 (Fisher's exact test), Q value = 1

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

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

'ARID1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0388 (Fisher's exact test), Q value = 0.5

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ARID1A MUTATED	12	9	0	3	2
ARID1A WILD-TYPE	235	354	86	228	34

Figure S61. Get High-res Image Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ARID1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0982 (Fisher's exact test), Q value = 0.72

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ARID1A MUTATED	8	1	5	1	1	2
ARID1A WILD-TYPE	120	95	151	106	108	50

'ARID1A MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ARID1A MUTATED	4	3	3
ARID1A WILD-TYPE	141	128	115

'ARID1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.195 (Fisher's exact test), Q value = 0.85

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ARID1A MUTATED	2	0	1	0	5	2
ARID1A WILD-TYPE	57	48	89	53	108	29

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.347 (Fisher's exact test), Q value = 0.96

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ARID1A MUTATED	18	5	4
ARID1A WILD-TYPE	487	274	186

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ARID1A MUTATED	8	5	1	10	2	1
ARID1A WILD-TYPE	255	146	78	251	166	51

'ARID1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ARID1A MUTATED	5	5	8	9
ARID1A WILD-TYPE	267	172	225	267

'ARID1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.403 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ARID1A MUTATED	8	5	3	4	5	2
ARID1A WILD-TYPE	267	131	203	130	82	118

'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 0.78

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ARID1A MUTATED	5	0	3	1	2
ARID1A WILD-TYPE	173	120	63	91	110

'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ARID1A MUTATED	4	5	2
ARID1A WILD-TYPE	275	176	106

'CBFB MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0964 (Fisher's exact test), Q value = 0.71

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

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

'CBFB MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.216 (Fisher's exact test), Q value = 0.87

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

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

'CBFB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.068 (Fisher's exact test), Q value = 0.62

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CBFB MUTATED	6	12	4	1	0
CBFB WILD-TYPE	241	351	82	230	36

'CBFB MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.0047

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CBFB MUTATED	0	2	12	1	0	0
CBFB WILD-TYPE	128	94	144	106	109	52

Figure S62. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CBFB MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.124 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CBFB MUTATED	1	6	3
CBFB WILD-TYPE	144	125	115

'CBFB MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.113 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CBFB MUTATED	5	1	2	1	1	0
CBFB WILD-TYPE	54	47	88	52	112	31

'CBFB MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0736 (Fisher's exact test), Q value = 0.64

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CBFB MUTATED	16	2	5
CBFB WILD-TYPE	489	277	185

'CBFB MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.522 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CBFB MUTATED	7	3	2	9	1	1
CBFB WILD-TYPE	256	148	77	252	167	51

'CBFB MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0218 (Fisher's exact test), Q value = 0.35

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CBFB MUTATED	1	6	9	6
CBFB WILD-TYPE	271	171	224	270

Figure S63. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CBFB MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00046

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CBFB MUTATED	6	0	3	12	1	0
CBFB WILD-TYPE	269	136	203	122	86	120

Figure S64. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CBFB MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0198 (Fisher's exact test), Q value = 0.33

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CBFB MUTATED	6	0	1	6	1
CBFB WILD-TYPE	172	120	65	86	111

Figure S65. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'CBFB MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00037 (Fisher's exact test), Q value = 0.014

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CBFB MUTATED	4	1	9
CBFB WILD-TYPE	275	180	99

Figure S66. Get High-res Image Gene #9: 'CBFB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'MLL3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

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

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

'MLL3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.155 (Fisher's exact test), Q value = 0.78

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

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

'MLL3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.733 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MLL3 MUTATED	17	29	7	12	2
MLL3 WILD-TYPE	230	334	79	219	34

'MLL3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.129 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MLL3 MUTATED	11	11	15	4	4	5
MLL3 WILD-TYPE	117	85	141	103	105	47

'MLL3 MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MLL3 MUTATED	10	6	9
MLL3 WILD-TYPE	135	125	109

'MLL3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MLL3 MUTATED	6	4	7	2	4	2
MLL3 WILD-TYPE	53	44	83	51	109	29

'MLL3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.241 (Fisher's exact test), Q value = 0.91

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MLL3 MUTATED	42	14	13
MLL3 WILD-TYPE	463	265	177

'MLL3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.448 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MLL3 MUTATED	21	15	3	19	8	3
MLL3 WILD-TYPE	242	136	76	242	160	49

'MLL3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.214 (Fisher's exact test), Q value = 0.87

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MLL3 MUTATED	12	12	18	24
MLL3 WILD-TYPE	260	165	215	252

'MLL3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.149 (Fisher's exact test), Q value = 0.78

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MLL3 MUTATED	18	7	14	16	7	4
MLL3 WILD-TYPE	257	129	192	118	80	116

'MLL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MLL3 MUTATED	16	4	4	5	8
MLL3 WILD-TYPE	162	116	62	87	104

'MLL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.312 (Fisher's exact test), Q value = 0.93

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MLL3 MUTATED	14	14	9
MLL3 WILD-TYPE	265	167	99

'FOXA1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.369 (Fisher's exact test), Q value = 0.98

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

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

'FOXA1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.537 (Fisher's exact test), Q value = 1

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

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

'FOXA1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.334 (Fisher's exact test), Q value = 0.95

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FOXA1 MUTATED	6	11	3	2	1
FOXA1 WILD-TYPE	241	352	83	229	35

'FOXA1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0562 (Fisher's exact test), Q value = 0.59

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
FOXA1 MUTATED	3	7	4	2	0	1
FOXA1 WILD-TYPE	125	89	152	105	109	51

'FOXA1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.895 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
FOXA1 MUTATED	2	3	2
FOXA1 WILD-TYPE	143	128	116

'FOXA1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
FOXA1 MUTATED	1	1	1	0	4	0
FOXA1 WILD-TYPE	58	47	89	53	109	31

'FOXA1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0549 (Fisher's exact test), Q value = 0.59

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FOXA1 MUTATED	14	2	7
FOXA1 WILD-TYPE	491	277	183

'FOXA1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.158 (Fisher's exact test), Q value = 0.78

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FOXA1 MUTATED	5	5	1	11	1	0
FOXA1 WILD-TYPE	258	146	78	250	167	52

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0235 (Fisher's exact test), Q value = 0.37

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FOXA1 MUTATED	3	7	10	3
FOXA1 WILD-TYPE	269	170	223	273

Figure S67. Get High-res Image Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0264 (Fisher's exact test), Q value = 0.39

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FOXA1 MUTATED	3	2	6	9	2	1
FOXA1 WILD-TYPE	272	134	200	125	85	119

Figure S68. Get High-res Image Gene #11: 'FOXA1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.185 (Fisher's exact test), Q value = 0.84

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
FOXA1 MUTATED	6	0	3	2	3
FOXA1 WILD-TYPE	172	120	63	90	109

'FOXA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.523 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
FOXA1 MUTATED	5	6	3
FOXA1 WILD-TYPE	274	175	105

'MAP2K4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0587 (Fisher's exact test), Q value = 0.6

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

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

'MAP2K4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00452 (Fisher's exact test), Q value = 0.12

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

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

Figure S69. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0629 (Fisher's exact test), Q value = 0.6

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MAP2K4 MUTATED	7	14	5	3	3
MAP2K4 WILD-TYPE	240	349	81	228	33

'MAP2K4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00957 (Fisher's exact test), Q value = 0.2

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MAP2K4 MUTATED	9	3	10	1	0	2
MAP2K4 WILD-TYPE	119	93	146	106	109	50

Figure S70. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'MAP2K4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00206 (Fisher's exact test), Q value = 0.064

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MAP2K4 MUTATED	0	5	8
MAP2K4 WILD-TYPE	145	126	110

Figure S71. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'MAP2K4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.21 (Fisher's exact test), Q value = 0.86

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MAP2K4 MUTATED	2	4	1	3	3	0
MAP2K4 WILD-TYPE	57	44	89	50	110	31

'MAP2K4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00307 (Fisher's exact test), Q value = 0.086

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MAP2K4 MUTATED	25	2	5
MAP2K4 WILD-TYPE	480	277	185

Figure S72. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00377 (Fisher's exact test), Q value = 0.1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MAP2K4 MUTATED	17	4	2	9	0	0
MAP2K4 WILD-TYPE	246	147	77	252	168	52

Figure S73. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0117 (Fisher's exact test), Q value = 0.23

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MAP2K4 MUTATED	3	5	7	17
MAP2K4 WILD-TYPE	269	172	226	259

Figure S74. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4e-04 (Fisher's exact test), Q value = 0.015

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MAP2K4 MUTATED	12	1	3	10	6	0
MAP2K4 WILD-TYPE	263	135	203	124	81	120

Figure S75. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0115 (Fisher's exact test), Q value = 0.23

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MAP2K4 MUTATED	11	0	0	3	3
MAP2K4 WILD-TYPE	167	120	66	89	109

Figure S76. Get High-res Image Gene #12: 'MAP2K4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'MAP2K4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0114 (Fisher's exact test), Q value = 0.23

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MAP2K4 MUTATED	7	2	8
MAP2K4 WILD-TYPE	272	179	100

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

'RBMX MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.387 (Fisher's exact test), Q value = 0.98

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

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

'RBMX MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.108 (Fisher's exact test), Q value = 0.75

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

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

'RBMX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0679 (Fisher's exact test), Q value = 0.62

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RBMX MUTATED	0	6	1	6	1
RBMX WILD-TYPE	247	357	85	225	35

'RBMX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RBMX MUTATED	0	4	1	2	3	1
RBMX WILD-TYPE	128	92	155	105	106	51

'RBMX MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RBMX MUTATED	2	2	0
RBMX WILD-TYPE	143	129	118

'RBMX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.85 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RBMX MUTATED	1	0	2	0	1	0
RBMX WILD-TYPE	58	48	88	53	112	31

'RBMX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.149 (Fisher's exact test), Q value = 0.77

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RBMX MUTATED	4	7	3
RBMX WILD-TYPE	501	272	187

'RBMX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RBMX MUTATED	1	1	0	6	5	1
RBMX WILD-TYPE	262	150	79	255	163	51

'RBMX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.166 (Fisher's exact test), Q value = 0.8

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RBMX MUTATED	7	3	3	1
RBMX WILD-TYPE	265	174	230	275

'RBMX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.659 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RBMX MUTATED	4	4	2	2	0	2
RBMX WILD-TYPE	271	132	204	132	87	118

'RBMX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0465 (Fisher's exact test), Q value = 0.54

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
RBMX MUTATED	0	4	0	1	3
RBMX WILD-TYPE	178	116	66	91	109

Figure S78. Get High-res Image Gene #13: 'RBMX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'RBMX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
RBMX MUTATED	4	3	1
RBMX WILD-TYPE	275	178	107

'TBX3 MUTATION STATUS' versus 'MRNA_CNMF'

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

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

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

'TBX3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

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

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

'TBX3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.325 (Fisher's exact test), Q value = 0.94

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TBX3 MUTATED	6	13	4	3	1
TBX3 WILD-TYPE	241	350	82	228	35

'TBX3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TBX3 MUTATED	1	2	9	2	1	1
TBX3 WILD-TYPE	127	94	147	105	108	51

'TBX3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.084 (Fisher's exact test), Q value = 0.68

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TBX3 MUTATED	1	3	6
TBX3 WILD-TYPE	144	128	112

'TBX3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.967 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TBX3 MUTATED	2	1	2	1	4	0
TBX3 WILD-TYPE	57	47	88	52	109	31

'TBX3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0444 (Fisher's exact test), Q value = 0.53

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TBX3 MUTATED	15	3	9
TBX3 WILD-TYPE	490	276	181

Figure S79. Get High-res Image Gene #14: 'TBX3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'TBX3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.133 (Fisher's exact test), Q value = 0.76

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TBX3 MUTATED	6	2	5	11	2	1
TBX3 WILD-TYPE	257	149	74	250	166	51

'TBX3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0589 (Fisher's exact test), Q value = 0.6

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TBX3 MUTATED	5	4	13	5
TBX3 WILD-TYPE	267	173	220	271

'TBX3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.124 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TBX3 MUTATED	5	2	8	6	5	1
TBX3 WILD-TYPE	270	134	198	128	82	119

'TBX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TBX3 MUTATED	3	2	3	2	4
TBX3 WILD-TYPE	175	118	63	90	108

'TBX3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TBX3 MUTATED	6	6	2
TBX3 WILD-TYPE	273	175	106

'RB1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S169. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

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

'RB1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.93

Table S170. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

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

'RB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.157 (Fisher's exact test), Q value = 0.78

Table S171. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RB1 MUTATED	4	4	4	7	0
RB1 WILD-TYPE	243	359	82	224	36

'RB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0306 (Fisher's exact test), Q value = 0.42

Table S172. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RB1 MUTATED	0	3	2	0	5	1
RB1 WILD-TYPE	128	93	154	107	104	51

Figure S80. Get High-res Image Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'RB1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S173. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RB1 MUTATED	4	4	1
RB1 WILD-TYPE	141	127	117

'RB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S174. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RB1 MUTATED	1	0	4	2	2	0
RB1 WILD-TYPE	58	48	86	51	111	31

'RB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0273 (Fisher's exact test), Q value = 0.4

Table S175. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RB1 MUTATED	10	9	0
RB1 WILD-TYPE	495	270	190

Figure S81. Get High-res Image Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.26 (Fisher's exact test), Q value = 0.92

Table S176. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RB1 MUTATED	4	5	0	3	6	1
RB1 WILD-TYPE	259	146	79	258	162	51

'RB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0566 (Fisher's exact test), Q value = 0.59

Table S177. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RB1 MUTATED	8	0	2	6
RB1 WILD-TYPE	264	177	231	270

'RB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0264 (Fisher's exact test), Q value = 0.39

Table S178. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RB1 MUTATED	5	6	0	3	0	2
RB1 WILD-TYPE	270	130	206	131	87	118

Figure S82. Get High-res Image Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0929 (Fisher's exact test), Q value = 0.7

Table S179. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
RB1 MUTATED	2	6	0	3	1
RB1 WILD-TYPE	176	114	66	89	111

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.211 (Fisher's exact test), Q value = 0.86

Table S180. Gene #15: 'RB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
RB1 MUTATED	8	1	3
RB1 WILD-TYPE	271	180	105

'THEM5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.264 (Fisher's exact test), Q value = 0.93

Table S181. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

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

'THEM5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.872 (Fisher's exact test), Q value = 1

Table S182. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

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

'THEM5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0613 (Fisher's exact test), Q value = 0.6

Table S183. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
THEM5 MUTATED	4	2	3	1	1
THEM5 WILD-TYPE	243	361	83	230	35

'THEM5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S184. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
THEM5 MUTATED	2	1	2	3	0	0
THEM5 WILD-TYPE	126	95	154	104	109	52

'THEM5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 0.86

Table S185. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
THEM5 MUTATED	1	3	0
THEM5 WILD-TYPE	144	128	118

'THEM5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.388 (Fisher's exact test), Q value = 0.98

Table S186. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
THEM5 MUTATED	2	0	0	0	2	0
THEM5 WILD-TYPE	57	48	90	53	111	31

'THEM5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.608 (Fisher's exact test), Q value = 1

Table S187. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
THEM5 MUTATED	6	2	3
THEM5 WILD-TYPE	499	277	187

'THEM5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.787 (Fisher's exact test), Q value = 1

Table S188. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
THEM5 MUTATED	5	2	1	2	1	0
THEM5 WILD-TYPE	258	149	78	259	167	52

'THEM5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.66 (Fisher's exact test), Q value = 1

Table S189. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
THEM5 MUTATED	2	2	4	2
THEM5 WILD-TYPE	270	175	229	274

'THEM5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.465 (Fisher's exact test), Q value = 1

Table S190. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
THEM5 MUTATED	5	0	3	0	1	1
THEM5 WILD-TYPE	270	136	203	134	86	119

'THEM5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0401 (Fisher's exact test), Q value = 0.5

Table S191. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
THEM5 MUTATED	0	1	2	0	3
THEM5 WILD-TYPE	178	119	64	92	109

Figure S83. Get High-res Image Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'THEM5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.285 (Fisher's exact test), Q value = 0.93

Table S192. Gene #16: 'THEM5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
THEM5 MUTATED	2	4	0
THEM5 WILD-TYPE	277	177	108

'NF1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.573 (Fisher's exact test), Q value = 1

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

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

'NF1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

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

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

'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.563 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
NF1 MUTATED	4	13	3	7	0
NF1 WILD-TYPE	243	350	83	224	36

'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.477 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
NF1 MUTATED	2	4	3	6	3	1
NF1 WILD-TYPE	126	92	153	101	106	51

'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.742 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
NF1 MUTATED	4	6	4
NF1 WILD-TYPE	141	125	114

'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.232 (Fisher's exact test), Q value = 0.88

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
NF1 MUTATED	0	3	2	3	6	0
NF1 WILD-TYPE	59	45	88	50	107	31

'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.381 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
NF1 MUTATED	12	11	4
NF1 WILD-TYPE	493	268	186

'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.417 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
NF1 MUTATED	4	7	3	6	6	1
NF1 WILD-TYPE	259	144	76	255	162	51

'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.94

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
NF1 MUTATED	6	8	4	9
NF1 WILD-TYPE	266	169	229	267

'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
NF1 MUTATED	9	5	4	2	4	3
NF1 WILD-TYPE	266	131	202	132	83	117

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.942 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
NF1 MUTATED	4	4	1	3	3
NF1 WILD-TYPE	174	116	65	89	109

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.54 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
NF1 MUTATED	9	5	1
NF1 WILD-TYPE	270	176	107

'ACTL6B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.354 (Fisher's exact test), Q value = 0.96

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

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

'ACTL6B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.29 (Fisher's exact test), Q value = 0.93

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

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

'ACTL6B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0285 (Fisher's exact test), Q value = 0.4

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ACTL6B MUTATED	1	2	0	5	2
ACTL6B WILD-TYPE	246	361	86	226	34

Figure S84. Get High-res Image Gene #18: 'ACTL6B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ACTL6B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.571 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ACTL6B MUTATED	1	1	2	0	3	0
ACTL6B WILD-TYPE	127	95	154	107	106	52

'ACTL6B MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ACTL6B MUTATED	2	1	2
ACTL6B WILD-TYPE	143	130	116

'ACTL6B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.196 (Fisher's exact test), Q value = 0.85

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ACTL6B MUTATED	0	1	2	2	0	0
ACTL6B WILD-TYPE	59	47	88	51	113	31

'ACTL6B MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ACTL6B MUTATED	6	3	1
ACTL6B WILD-TYPE	499	276	189

'ACTL6B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.194 (Fisher's exact test), Q value = 0.85

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ACTL6B MUTATED	3	3	1	0	3	0
ACTL6B WILD-TYPE	260	148	78	261	165	52

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.739 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ACTL6B MUTATED	3	2	1	4
ACTL6B WILD-TYPE	269	175	232	272

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.717 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ACTL6B MUTATED	3	1	1	1	2	2
ACTL6B WILD-TYPE	272	135	205	133	85	118

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.424 (Fisher's exact test), Q value = 0.98

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ACTL6B MUTATED	3	0	0	0	2
ACTL6B WILD-TYPE	175	120	66	92	110

'ACTL6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.713 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ACTL6B MUTATED	3	2	0
ACTL6B WILD-TYPE	276	179	108

'SPEN MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.664 (Fisher's exact test), Q value = 1

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

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

'SPEN MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

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

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

'SPEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.485 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SPEN MUTATED	6	15	2	5	2
SPEN WILD-TYPE	241	348	84	226	34

'SPEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SPEN MUTATED	5	5	7	5	1	1
SPEN WILD-TYPE	123	91	149	102	108	51

'SPEN MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SPEN MUTATED	6	4	4
SPEN WILD-TYPE	139	127	114

'SPEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0268 (Fisher's exact test), Q value = 0.39

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SPEN MUTATED	1	5	2	0	3	3
SPEN WILD-TYPE	58	43	88	53	110	28

Figure S85. Get High-res Image Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'SPEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.86

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SPEN MUTATED	21	5	6
SPEN WILD-TYPE	484	274	184

'SPEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.75

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SPEN MUTATED	6	7	1	14	2	2
SPEN WILD-TYPE	257	144	78	247	166	50

'SPEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.214 (Fisher's exact test), Q value = 0.87

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SPEN MUTATED	5	5	8	14
SPEN WILD-TYPE	267	172	225	262

'SPEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00876 (Fisher's exact test), Q value = 0.2

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SPEN MUTATED	15	0	4	8	3	2
SPEN WILD-TYPE	260	136	202	126	84	118

Figure S86. Get High-res Image Gene #19: 'SPEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'SPEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.094 (Fisher's exact test), Q value = 0.7

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SPEN MUTATED	5	1	4	0	3
SPEN WILD-TYPE	173	119	62	92	109

'SPEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.658 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SPEN MUTATED	7	5	1
SPEN WILD-TYPE	272	176	107

'CDKN1B MUTATION STATUS' versus 'MRNA_CNMF'

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

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

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

'CDKN1B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.739 (Fisher's exact test), Q value = 1

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

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

'CDKN1B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0689 (Fisher's exact test), Q value = 0.62

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CDKN1B MUTATED	0	5	3	2	0
CDKN1B WILD-TYPE	247	358	83	229	36

'CDKN1B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 0.77

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CDKN1B MUTATED	0	0	4	1	0	0
CDKN1B WILD-TYPE	128	96	152	106	109	52

'CDKN1B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.744 (Fisher's exact test), Q value = 1

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

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CDKN1B MUTATED	1	2	2
CDKN1B WILD-TYPE	144	129	116

'CDKN1B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.198 (Fisher's exact test), Q value = 0.85

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

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CDKN1B MUTATED	2	0	0	2	1	0
CDKN1B WILD-TYPE	57	48	90	51	112	31

'CDKN1B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.1 (Fisher's exact test), Q value = 0.72

Table S235. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CDKN1B MUTATED	7	0	3
CDKN1B WILD-TYPE	498	279	187

'CDKN1B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.459 (Fisher's exact test), Q value = 1

Table S236. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CDKN1B MUTATED	2	2	1	5	0	0
CDKN1B WILD-TYPE	261	149	78	256	168	52

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.446 (Fisher's exact test), Q value = 1

Table S237. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CDKN1B MUTATED	1	3	2	4
CDKN1B WILD-TYPE	271	174	231	272

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.169 (Fisher's exact test), Q value = 0.8

Table S238. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CDKN1B MUTATED	3	0	3	4	0	0
CDKN1B WILD-TYPE	272	136	203	130	87	120

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 0.98

Table S239. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CDKN1B MUTATED	1	0	1	2	1
CDKN1B WILD-TYPE	177	120	65	90	111

'CDKN1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0149 (Fisher's exact test), Q value = 0.27

Table S240. Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CDKN1B MUTATED	0	2	3
CDKN1B WILD-TYPE	279	179	105

Figure S87. Get High-res Image Gene #20: 'CDKN1B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NCOR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.741 (Fisher's exact test), Q value = 1

Table S241. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
NCOR1 MUTATED	0	2	4	3	7	3	0	0
NCOR1 WILD-TYPE	21	36	110	94	101	70	19	39

'NCOR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S242. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
NCOR1 MUTATED	3	6	4	3	3
NCOR1 WILD-TYPE	93	146	112	86	53

'NCOR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.91 (Fisher's exact test), Q value = 1

Table S243. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
NCOR1 MUTATED	11	17	2	8	1
NCOR1 WILD-TYPE	236	346	84	223	35

'NCOR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.916 (Fisher's exact test), Q value = 1

Table S244. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
NCOR1 MUTATED	5	6	8	4	4	3
NCOR1 WILD-TYPE	123	90	148	103	105	49

'NCOR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.403 (Fisher's exact test), Q value = 0.98

Table S245. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
NCOR1 MUTATED	5	2	5
NCOR1 WILD-TYPE	140	129	113

'NCOR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.425 (Fisher's exact test), Q value = 0.98

Table S246. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
NCOR1 MUTATED	1	3	2	2	2	2
NCOR1 WILD-TYPE	58	45	88	51	111	29

'NCOR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S247. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
NCOR1 MUTATED	24	10	7
NCOR1 WILD-TYPE	481	269	183

'NCOR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.389 (Fisher's exact test), Q value = 0.98

Table S248. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
NCOR1 MUTATED	7	11	3	12	6	2
NCOR1 WILD-TYPE	256	140	76	249	162	50

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S249. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
NCOR1 MUTATED	10	9	12	10
NCOR1 WILD-TYPE	262	168	221	266

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.108 (Fisher's exact test), Q value = 0.75

Table S250. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
NCOR1 MUTATED	18	5	7	7	0	4
NCOR1 WILD-TYPE	257	131	199	127	87	116

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S251. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
NCOR1 MUTATED	7	4	3	1	4
NCOR1 WILD-TYPE	171	116	63	91	108

'NCOR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S252. Gene #21: 'NCOR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
NCOR1 MUTATED	8	7	4
NCOR1 WILD-TYPE	271	174	104

'SF3B1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S253. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SF3B1 MUTATED	0	0	1	1	3	2	0	1
SF3B1 WILD-TYPE	21	38	113	96	105	71	19	38

'SF3B1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S254. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SF3B1 MUTATED	1	4	2	1	0
SF3B1 WILD-TYPE	95	148	114	88	56

'SF3B1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.535 (Fisher's exact test), Q value = 1

Table S255. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SF3B1 MUTATED	7	6	1	2	0
SF3B1 WILD-TYPE	240	357	85	229	36

'SF3B1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0906 (Fisher's exact test), Q value = 0.69

Table S256. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SF3B1 MUTATED	5	3	5	0	0	1
SF3B1 WILD-TYPE	123	93	151	107	109	51

'SF3B1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 1

Table S257. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SF3B1 MUTATED	1	1	3
SF3B1 WILD-TYPE	144	130	115

'SF3B1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0788 (Fisher's exact test), Q value = 0.66

Table S258. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SF3B1 MUTATED	0	2	1	2	0	0
SF3B1 WILD-TYPE	59	46	89	51	113	31

'SF3B1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.289 (Fisher's exact test), Q value = 0.93

Table S259. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SF3B1 MUTATED	11	2	3
SF3B1 WILD-TYPE	494	277	187

'SF3B1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.356 (Fisher's exact test), Q value = 0.96

Table S260. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SF3B1 MUTATED	5	4	3	3	1	0
SF3B1 WILD-TYPE	258	147	76	258	167	52

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.261 (Fisher's exact test), Q value = 0.92

Table S261. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SF3B1 MUTATED	2	3	7	4
SF3B1 WILD-TYPE	270	174	226	272

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.39 (Fisher's exact test), Q value = 0.98

Table S262. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SF3B1 MUTATED	2	2	5	3	3	1
SF3B1 WILD-TYPE	273	134	201	131	84	119

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 0.96

Table S263. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SF3B1 MUTATED	1	0	1	2	2
SF3B1 WILD-TYPE	177	120	65	90	110

'SF3B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.248 (Fisher's exact test), Q value = 0.91

Table S264. Gene #22: 'SF3B1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SF3B1 MUTATED	1	3	2
SF3B1 WILD-TYPE	278	178	106

'ZFP36L1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.404 (Fisher's exact test), Q value = 0.98

Table S265. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZFP36L1 MUTATED	1	0	1	0	1	1	0	1
ZFP36L1 WILD-TYPE	20	38	113	97	107	72	19	38

'ZFP36L1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S266. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZFP36L1 MUTATED	1	2	2	0	0
ZFP36L1 WILD-TYPE	95	150	114	89	56

'ZFP36L1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00754 (Fisher's exact test), Q value = 0.17

Table S267. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZFP36L1 MUTATED	4	1	3	0	1
ZFP36L1 WILD-TYPE	243	362	83	231	35

Figure S88. Get High-res Image Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZFP36L1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 0.93

Table S268. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ZFP36L1 MUTATED	2	2	0	0	1	0
ZFP36L1 WILD-TYPE	126	94	156	107	108	52

'ZFP36L1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0267 (Fisher's exact test), Q value = 0.39

Table S269. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ZFP36L1 MUTATED	0	0	3
ZFP36L1 WILD-TYPE	145	131	115

Figure S89. Get High-res Image Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'ZFP36L1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0499 (Fisher's exact test), Q value = 0.56

Table S270. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ZFP36L1 MUTATED	0	1	0	2	0	0
ZFP36L1 WILD-TYPE	59	47	90	51	113	31

Figure S90. Get High-res Image Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'ZFP36L1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 0.92

Table S271. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZFP36L1 MUTATED	7	2	0
ZFP36L1 WILD-TYPE	498	277	190

'ZFP36L1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.535 (Fisher's exact test), Q value = 1

Table S272. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZFP36L1 MUTATED	4	2	0	1	1	1
ZFP36L1 WILD-TYPE	259	149	79	260	167	51

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.884 (Fisher's exact test), Q value = 1

Table S273. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZFP36L1 MUTATED	3	1	3	2
ZFP36L1 WILD-TYPE	269	176	230	274

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S274. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZFP36L1 MUTATED	4	1	3	0	0	1
ZFP36L1 WILD-TYPE	271	135	203	134	87	119

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.93 (Fisher's exact test), Q value = 1

Table S275. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ZFP36L1 MUTATED	2	1	1	0	1
ZFP36L1 WILD-TYPE	176	119	65	92	111

'ZFP36L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.711 (Fisher's exact test), Q value = 1

Table S276. Gene #23: 'ZFP36L1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ZFP36L1 MUTATED	3	2	0
ZFP36L1 WILD-TYPE	276	179	108

'KRAS MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.54 (Fisher's exact test), Q value = 1

Table S277. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KRAS MUTATED	0	0	0	1	2	0	0	1
KRAS WILD-TYPE	21	38	114	96	106	73	19	38

'KRAS MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S278. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

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

'KRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.324 (Fisher's exact test), Q value = 0.94

Table S279. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
KRAS MUTATED	0	5	0	1	0
KRAS WILD-TYPE	247	358	86	230	36

'KRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 0.93

Table S280. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
KRAS MUTATED	0	0	3	1	0	0
KRAS WILD-TYPE	128	96	153	106	109	52

'KRAS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.86

Table S281. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
KRAS MUTATED	0	1	2
KRAS WILD-TYPE	145	130	116

'KRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.513 (Fisher's exact test), Q value = 1

Table S282. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
KRAS MUTATED	1	0	1	1	0	0
KRAS WILD-TYPE	58	48	89	52	113	31

'KRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S283. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
KRAS MUTATED	3	1	2
KRAS WILD-TYPE	502	278	188

'KRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0847 (Fisher's exact test), Q value = 0.68

Table S284. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
KRAS MUTATED	2	0	2	1	0	1
KRAS WILD-TYPE	261	151	77	260	168	51

'KRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S285. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
KRAS MUTATED	1	1	1	3
KRAS WILD-TYPE	271	176	232	273

'KRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.958 (Fisher's exact test), Q value = 1

Table S286. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
KRAS MUTATED	3	1	1	1	0	0
KRAS WILD-TYPE	272	135	205	133	87	120

'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S287. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
KRAS MUTATED	1	1	0	1	0
KRAS WILD-TYPE	177	119	66	91	112

'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 0.75

Table S288. Gene #24: 'KRAS MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
KRAS MUTATED	1	0	2
KRAS WILD-TYPE	278	181	106

'AQP12A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S289. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
AQP12A MUTATED	0	1	1	0	1	0	0	0
AQP12A WILD-TYPE	21	37	113	97	107	73	19	39

'AQP12A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S290. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
AQP12A MUTATED	1	2	0	0	0
AQP12A WILD-TYPE	95	150	116	89	56

'AQP12A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.345 (Fisher's exact test), Q value = 0.96

Table S291. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
AQP12A MUTATED	4	1	0	1	0
AQP12A WILD-TYPE	243	362	86	230	36

'AQP12A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0232 (Fisher's exact test), Q value = 0.37

Table S292. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
AQP12A MUTATED	0	3	0	0	1	0
AQP12A WILD-TYPE	128	93	156	107	108	52

Figure S91. Get High-res Image Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'AQP12A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.201 (Fisher's exact test), Q value = 0.86

Table S293. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
AQP12A MUTATED	0	1	2
AQP12A WILD-TYPE	145	130	116

'AQP12A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.435 (Fisher's exact test), Q value = 0.99

Table S294. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
AQP12A MUTATED	0	0	0	0	3	0
AQP12A WILD-TYPE	59	48	90	53	110	31

'AQP12A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S295. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
AQP12A MUTATED	3	2	1
AQP12A WILD-TYPE	502	277	189

'AQP12A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S296. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
AQP12A MUTATED	2	1	0	2	1	0
AQP12A WILD-TYPE	261	150	79	259	167	52

'AQP12A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S297. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
AQP12A MUTATED	1	1	2	2
AQP12A WILD-TYPE	271	176	231	274

'AQP12A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S298. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
AQP12A MUTATED	1	0	1	2	1	1
AQP12A WILD-TYPE	274	136	205	132	86	119

'AQP12A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.382 (Fisher's exact test), Q value = 0.98

Table S299. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
AQP12A MUTATED	2	0	1	0	0
AQP12A WILD-TYPE	176	120	65	92	112

'AQP12A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S300. Gene #25: 'AQP12A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
AQP12A MUTATED	2	1	0
AQP12A WILD-TYPE	277	180	108

'DLG1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.341 (Fisher's exact test), Q value = 0.96

Table S301. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
DLG1 MUTATED	0	2	1	0	2	2	0	0
DLG1 WILD-TYPE	21	36	113	97	106	71	19	39

'DLG1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.318 (Fisher's exact test), Q value = 0.94

Table S302. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
DLG1 MUTATED	0	4	2	0	1
DLG1 WILD-TYPE	96	148	114	89	55

'DLG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 0.98

Table S303. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
DLG1 MUTATED	1	6	2	4	0
DLG1 WILD-TYPE	246	357	84	227	36

'DLG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S304. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
DLG1 MUTATED	2	1	1	3	2	0
DLG1 WILD-TYPE	126	95	155	104	107	52

'DLG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.895 (Fisher's exact test), Q value = 1

Table S305. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
DLG1 MUTATED	2	3	2
DLG1 WILD-TYPE	143	128	116

'DLG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.114 (Fisher's exact test), Q value = 0.75

Table S306. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
DLG1 MUTATED	2	1	0	1	1	2
DLG1 WILD-TYPE	57	47	90	52	112	29

'DLG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.126 (Fisher's exact test), Q value = 0.75

Table S307. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
DLG1 MUTATED	4	7	2
DLG1 WILD-TYPE	501	272	188

'DLG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 0.84

Table S308. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
DLG1 MUTATED	1	3	1	5	1	2
DLG1 WILD-TYPE	262	148	78	256	167	50

'DLG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S309. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
DLG1 MUTATED	4	1	2	5
DLG1 WILD-TYPE	268	176	231	271

'DLG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00389 (Fisher's exact test), Q value = 0.11

Table S310. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
DLG1 MUTATED	5	6	0	0	1	0
DLG1 WILD-TYPE	270	130	206	134	86	120

Figure S92. Get High-res Image Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DLG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S311. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
DLG1 MUTATED	1	3	1	1	2
DLG1 WILD-TYPE	177	117	65	91	110

'DLG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.805 (Fisher's exact test), Q value = 1

Table S312. Gene #26: 'DLG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
DLG1 MUTATED	4	2	2
DLG1 WILD-TYPE	275	179	106

'TCP11 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S313. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TCP11 MUTATED	0	1	2	1	1	0	0	1
TCP11 WILD-TYPE	21	37	112	96	107	73	19	38

'TCP11 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S314. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TCP11 MUTATED	2	3	0	1	0
TCP11 WILD-TYPE	94	149	116	88	56

'TCP11 MUTATION STATUS' versus 'CN_CNMF'

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

Table S315. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TCP11 MUTATED	1	3	0	1	1
TCP11 WILD-TYPE	246	360	86	230	35

'TCP11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S316. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TCP11 MUTATED	2	1	2
TCP11 WILD-TYPE	143	130	116

'TCP11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.607 (Fisher's exact test), Q value = 1

Table S317. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TCP11 MUTATED	0	0	1	2	2	0
TCP11 WILD-TYPE	59	48	89	51	111	31

'TCP11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.741 (Fisher's exact test), Q value = 1

Table S318. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TCP11 MUTATED	3	1	2
TCP11 WILD-TYPE	502	278	188

'TCP11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.373 (Fisher's exact test), Q value = 0.98

Table S319. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TCP11 MUTATED	1	1	2	1	1	0
TCP11 WILD-TYPE	262	150	77	260	167	52

'TCP11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S320. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TCP11 MUTATED	1	1	2	2
TCP11 WILD-TYPE	271	176	231	274

'TCP11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S321. Gene #27: 'TCP11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TCP11 MUTATED	2	0	2	0	1	1
TCP11 WILD-TYPE	273	136	204	134	86	119

'MYB MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.737 (Fisher's exact test), Q value = 1

Table S322. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MYB MUTATED	0	0	2	2	4	0	0	1
MYB WILD-TYPE	21	38	112	95	104	73	19	38

'MYB MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0284 (Fisher's exact test), Q value = 0.4

Table S323. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MYB MUTATED	0	2	1	2	4
MYB WILD-TYPE	96	150	115	87	52

Figure S93. Get High-res Image Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'MYB MUTATION STATUS' versus 'CN_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 0.88

Table S324. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MYB MUTATED	1	6	3	2	0
MYB WILD-TYPE	246	357	83	229	36

'MYB MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.353 (Fisher's exact test), Q value = 0.96

Table S325. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MYB MUTATED	0	1	1	0	2	1
MYB WILD-TYPE	128	95	155	107	107	51

'MYB MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S326. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MYB MUTATED	2	2	1
MYB WILD-TYPE	143	129	117

'MYB MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S327. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MYB MUTATED	2	0	1	1	1	0
MYB WILD-TYPE	57	48	89	52	112	31

'MYB MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S328. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MYB MUTATED	7	3	2
MYB WILD-TYPE	498	276	188

'MYB MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.9 (Fisher's exact test), Q value = 1

Table S329. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MYB MUTATED	4	1	0	4	3	0
MYB WILD-TYPE	259	150	79	257	165	52

'MYB MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0986 (Fisher's exact test), Q value = 0.72

Table S330. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MYB MUTATED	2	1	7	2
MYB WILD-TYPE	270	176	226	274

'MYB MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.124 (Fisher's exact test), Q value = 0.75

Table S331. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MYB MUTATED	3	2	0	4	2	1
MYB WILD-TYPE	272	134	206	130	85	119

'MYB MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.285 (Fisher's exact test), Q value = 0.93

Table S332. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MYB MUTATED	2	0	0	2	0
MYB WILD-TYPE	176	120	66	90	112

'MYB MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00119 (Fisher's exact test), Q value = 0.039

Table S333. Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MYB MUTATED	0	0	4
MYB WILD-TYPE	279	181	104

Figure S94. Get High-res Image Gene #28: 'MYB MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RPGR MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.969 (Fisher's exact test), Q value = 1

Table S334. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RPGR MUTATED	0	1	3	3	2	2	1	1
RPGR WILD-TYPE	21	37	111	94	106	71	18	38

'RPGR MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.702 (Fisher's exact test), Q value = 1

Table S335. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RPGR MUTATED	3	5	2	3	0
RPGR WILD-TYPE	93	147	114	86	56

'RPGR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.96 (Fisher's exact test), Q value = 1

Table S336. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RPGR MUTATED	5	6	2	4	0
RPGR WILD-TYPE	242	357	84	227	36

'RPGR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 0.98

Table S337. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RPGR MUTATED	6	1	2	3	2	0
RPGR WILD-TYPE	122	95	154	104	107	52

'RPGR MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S338. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RPGR MUTATED	5	4	2
RPGR WILD-TYPE	140	127	116

'RPGR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.93

Table S339. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RPGR MUTATED	0	0	3	2	6	0
RPGR WILD-TYPE	59	48	87	51	107	31

'RPGR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.373 (Fisher's exact test), Q value = 0.98

Table S340. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RPGR MUTATED	9	8	2
RPGR WILD-TYPE	496	271	188

'RPGR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.983 (Fisher's exact test), Q value = 1

Table S341. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RPGR MUTATED	4	3	1	6	4	1
RPGR WILD-TYPE	259	148	78	255	164	51

'RPGR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.227 (Fisher's exact test), Q value = 0.88

Table S342. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RPGR MUTATED	4	1	4	9
RPGR WILD-TYPE	268	176	229	267

'RPGR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.194 (Fisher's exact test), Q value = 0.85

Table S343. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RPGR MUTATED	8	5	3	1	1	0
RPGR WILD-TYPE	267	131	203	133	86	120

'RPGR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.682 (Fisher's exact test), Q value = 1

Table S344. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
RPGR MUTATED	4	1	1	0	1
RPGR WILD-TYPE	174	119	65	92	111

'RPGR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S345. Gene #29: 'RPGR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
RPGR MUTATED	5	2	0
RPGR WILD-TYPE	274	179	108

'TBL1XR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.157 (Fisher's exact test), Q value = 0.78

Table S346. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TBL1XR1 MUTATED	1	0	1	0	5	1	0	0
TBL1XR1 WILD-TYPE	20	38	113	97	103	72	19	39

'TBL1XR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0807 (Fisher's exact test), Q value = 0.67

Table S347. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TBL1XR1 MUTATED	0	3	2	0	3
TBL1XR1 WILD-TYPE	96	149	114	89	53

'TBL1XR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0134 (Fisher's exact test), Q value = 0.26

Table S348. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TBL1XR1 MUTATED	1	5	4	0	0
TBL1XR1 WILD-TYPE	246	358	82	231	36

Figure S95. Get High-res Image Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'TBL1XR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.596 (Fisher's exact test), Q value = 1

Table S349. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TBL1XR1 MUTATED	0	0	2	1	0	0
TBL1XR1 WILD-TYPE	128	96	154	106	109	52

'TBL1XR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 1

Table S350. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TBL1XR1 MUTATED	2	4	1
TBL1XR1 WILD-TYPE	143	127	117

'TBL1XR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.153 (Fisher's exact test), Q value = 0.78

Table S351. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TBL1XR1 MUTATED	3	1	0	1	1	1
TBL1XR1 WILD-TYPE	56	47	90	52	112	30

'TBL1XR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.432 (Fisher's exact test), Q value = 0.99

Table S352. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TBL1XR1 MUTATED	6	1	3
TBL1XR1 WILD-TYPE	499	278	187

'TBL1XR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.434 (Fisher's exact test), Q value = 0.99

Table S353. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TBL1XR1 MUTATED	4	1	0	5	0	0
TBL1XR1 WILD-TYPE	259	150	79	256	168	52

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.389 (Fisher's exact test), Q value = 0.98

Table S354. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TBL1XR1 MUTATED	1	1	4	4
TBL1XR1 WILD-TYPE	271	176	229	272

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.707 (Fisher's exact test), Q value = 1

Table S355. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TBL1XR1 MUTATED	3	1	2	3	1	0
TBL1XR1 WILD-TYPE	272	135	204	131	86	120

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S356. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TBL1XR1 MUTATED	3	1	0	1	1
TBL1XR1 WILD-TYPE	175	119	66	91	111

'TBL1XR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.178 (Fisher's exact test), Q value = 0.83

Table S357. Gene #30: 'TBL1XR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TBL1XR1 MUTATED	2	1	3
TBL1XR1 WILD-TYPE	277	180	105

'KDM6A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.737 (Fisher's exact test), Q value = 1

Table S358. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KDM6A MUTATED	0	1	1	2	3	0	0	1
KDM6A WILD-TYPE	21	37	113	95	105	73	19	38

'KDM6A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.344 (Fisher's exact test), Q value = 0.96

Table S359. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
KDM6A MUTATED	2	4	0	2	0
KDM6A WILD-TYPE	94	148	116	87	56

'KDM6A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.352 (Fisher's exact test), Q value = 0.96

Table S360. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
KDM6A MUTATED	5	5	3	2	1
KDM6A WILD-TYPE	242	358	83	229	35

'KDM6A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.092 (Fisher's exact test), Q value = 0.69

Table S361. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
KDM6A MUTATED	3	1	1	0	2	3
KDM6A WILD-TYPE	125	95	155	107	107	49

'KDM6A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.637 (Fisher's exact test), Q value = 1

Table S362. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
KDM6A MUTATED	4	2	1
KDM6A WILD-TYPE	141	129	117

'KDM6A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.964 (Fisher's exact test), Q value = 1

Table S363. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
KDM6A MUTATED	1	1	2	0	3	0
KDM6A WILD-TYPE	58	47	88	53	110	31

'KDM6A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S364. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
KDM6A MUTATED	6	6	4
KDM6A WILD-TYPE	499	273	186

'KDM6A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.329 (Fisher's exact test), Q value = 0.94

Table S365. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
KDM6A MUTATED	2	4	0	5	5	0
KDM6A WILD-TYPE	261	147	79	256	163	52

'KDM6A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.703 (Fisher's exact test), Q value = 1

Table S366. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
KDM6A MUTATED	5	4	2	5
KDM6A WILD-TYPE	267	173	231	271

'KDM6A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S367. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
KDM6A MUTATED	4	2	3	3	0	4
KDM6A WILD-TYPE	271	134	203	131	87	116

'KDM6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.736 (Fisher's exact test), Q value = 1

Table S368. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
KDM6A MUTATED	4	3	0	2	1
KDM6A WILD-TYPE	174	117	66	90	111

'KDM6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.28 (Fisher's exact test), Q value = 0.93

Table S369. Gene #31: 'KDM6A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
KDM6A MUTATED	6	1	3
KDM6A WILD-TYPE	273	180	105

'MYH9 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.396 (Fisher's exact test), Q value = 0.98

Table S370. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MYH9 MUTATED	0	1	0	2	2	1	1	1
MYH9 WILD-TYPE	21	37	114	95	106	72	18	38

'MYH9 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.421 (Fisher's exact test), Q value = 0.98

Table S371. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MYH9 MUTATED	0	4	3	1	0
MYH9 WILD-TYPE	96	148	113	88	56

'MYH9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.365 (Fisher's exact test), Q value = 0.97

Table S372. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MYH9 MUTATED	4	10	0	2	0
MYH9 WILD-TYPE	243	353	86	229	36

'MYH9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.378 (Fisher's exact test), Q value = 0.98

Table S373. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MYH9 MUTATED	1	4	5	1	2	0
MYH9 WILD-TYPE	127	92	151	106	107	52

'MYH9 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S374. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MYH9 MUTATED	4	2	2
MYH9 WILD-TYPE	141	129	116

'MYH9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0541 (Fisher's exact test), Q value = 0.59

Table S375. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MYH9 MUTATED	1	0	1	2	1	3
MYH9 WILD-TYPE	58	48	89	51	112	28

'MYH9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.661 (Fisher's exact test), Q value = 1

Table S376. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MYH9 MUTATED	8	7	3
MYH9 WILD-TYPE	497	272	187

'MYH9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.145 (Fisher's exact test), Q value = 0.77

Table S377. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MYH9 MUTATED	1	3	1	8	3	2
MYH9 WILD-TYPE	262	148	78	253	165	50

'MYH9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.735 (Fisher's exact test), Q value = 1

Table S378. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MYH9 MUTATED	4	4	6	4
MYH9 WILD-TYPE	268	173	227	272

'MYH9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S379. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MYH9 MUTATED	3	3	7	3	0	2
MYH9 WILD-TYPE	272	133	199	131	87	118

'MYH9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.507 (Fisher's exact test), Q value = 1

Table S380. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MYH9 MUTATED	3	3	2	0	3
MYH9 WILD-TYPE	175	117	64	92	109

'MYH9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.261 (Fisher's exact test), Q value = 0.92

Table S381. Gene #32: 'MYH9 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MYH9 MUTATED	6	5	0
MYH9 WILD-TYPE	273	176	108

'HLA-C MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.76

Table S382. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HLA-C MUTATED	0	1	0	0	0	1	0	1
HLA-C WILD-TYPE	21	37	114	97	108	72	19	38

'HLA-C MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S383. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

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

'HLA-C MUTATION STATUS' versus 'CN_CNMF'

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

Table S384. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HLA-C MUTATED	2	3	0	4	0
HLA-C WILD-TYPE	245	360	86	227	36

'HLA-C MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0991 (Fisher's exact test), Q value = 0.72

Table S385. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HLA-C MUTATED	0	1	3	0	4	0
HLA-C WILD-TYPE	128	95	153	107	105	52

'HLA-C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.297 (Fisher's exact test), Q value = 0.93

Table S386. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
HLA-C MUTATED	1	0	2
HLA-C WILD-TYPE	144	131	116

'HLA-C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.571 (Fisher's exact test), Q value = 1

Table S387. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
HLA-C MUTATED	0	1	0	0	2	0
HLA-C WILD-TYPE	59	47	90	53	111	31

'HLA-C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.13 (Fisher's exact test), Q value = 0.75

Table S388. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HLA-C MUTATED	2	5	2
HLA-C WILD-TYPE	503	274	188

'HLA-C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S389. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HLA-C MUTATED	2	1	0	2	4	0
HLA-C WILD-TYPE	261	150	79	259	164	52

'HLA-C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0307 (Fisher's exact test), Q value = 0.42

Table S390. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HLA-C MUTATED	6	2	1	0
HLA-C WILD-TYPE	266	175	232	276

Figure S96. Get High-res Image Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'HLA-C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0111 (Fisher's exact test), Q value = 0.23

Table S391. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HLA-C MUTATED	0	1	1	3	0	4
HLA-C WILD-TYPE	275	135	205	131	87	116

Figure S97. Get High-res Image Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'HLA-C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0281 (Fisher's exact test), Q value = 0.4

Table S392. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HLA-C MUTATED	0	4	0	0	1
HLA-C WILD-TYPE	178	116	66	92	111

Figure S98. Get High-res Image Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'HLA-C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.589 (Fisher's exact test), Q value = 1

Table S393. Gene #33: 'HLA-C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HLA-C MUTATED	4	1	0
HLA-C WILD-TYPE	275	180	108

'FGFR2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.916 (Fisher's exact test), Q value = 1

Table S394. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FGFR2 MUTATED	0	0	1	1	2	2	0	0
FGFR2 WILD-TYPE	21	38	113	96	106	71	19	39

'FGFR2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S395. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FGFR2 MUTATED	1	1	2	1	1
FGFR2 WILD-TYPE	95	151	114	88	55

'FGFR2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.327 (Fisher's exact test), Q value = 0.94

Table S396. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FGFR2 MUTATED	2	3	3	3	0
FGFR2 WILD-TYPE	245	360	83	228	36

'FGFR2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0918 (Fisher's exact test), Q value = 0.69

Table S397. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
FGFR2 MUTATED	2	2	0	0	0	1
FGFR2 WILD-TYPE	126	94	156	107	109	51

'FGFR2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S398. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
FGFR2 MUTATED	2	2	1
FGFR2 WILD-TYPE	143	129	117

'FGFR2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.797 (Fisher's exact test), Q value = 1

Table S399. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
FGFR2 MUTATED	0	0	1	1	3	0
FGFR2 WILD-TYPE	59	48	89	52	110	31

'FGFR2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S400. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FGFR2 MUTATED	7	3	1
FGFR2 WILD-TYPE	498	276	189

'FGFR2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 0.99

Table S401. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FGFR2 MUTATED	2	4	0	3	1	1
FGFR2 WILD-TYPE	261	147	79	258	167	51

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.225 (Fisher's exact test), Q value = 0.88

Table S402. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FGFR2 MUTATED	5	0	4	2
FGFR2 WILD-TYPE	267	177	229	274

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S403. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FGFR2 MUTATED	6	1	3	0	0	1
FGFR2 WILD-TYPE	269	135	203	134	87	119

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.605 (Fisher's exact test), Q value = 1

Table S404. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
FGFR2 MUTATED	2	0	1	0	1
FGFR2 WILD-TYPE	176	120	65	92	111

'FGFR2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S405. Gene #34: 'FGFR2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
FGFR2 MUTATED	2	2	0
FGFR2 WILD-TYPE	277	179	108

'RAB42 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.408 (Fisher's exact test), Q value = 0.98

Table S406. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RAB42 MUTATED	0	0	0	3	1	0	0	0
RAB42 WILD-TYPE	21	38	114	94	107	73	19	39

'RAB42 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0705 (Fisher's exact test), Q value = 0.62

Table S407. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RAB42 MUTATED	0	1	0	3	0
RAB42 WILD-TYPE	96	151	116	86	56

'RAB42 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0406 (Fisher's exact test), Q value = 0.5

Table S408. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RAB42 MUTATED	0	0	1	3	0
RAB42 WILD-TYPE	247	363	85	228	36

Figure S99. Get High-res Image Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RAB42 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.299 (Fisher's exact test), Q value = 0.93

Table S409. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RAB42 MUTATED	1	0	2
RAB42 WILD-TYPE	144	131	116

'RAB42 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.389 (Fisher's exact test), Q value = 0.98

Table S410. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RAB42 MUTATED	0	0	2	1	0	0
RAB42 WILD-TYPE	59	48	88	52	113	31

'RAB42 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.118 (Fisher's exact test), Q value = 0.75

Table S411. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RAB42 MUTATED	1	3	0
RAB42 WILD-TYPE	504	276	190

'RAB42 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.155 (Fisher's exact test), Q value = 0.78

Table S412. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RAB42 MUTATED	0	0	0	1	3	0
RAB42 WILD-TYPE	263	151	79	260	165	52

'RAB42 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 0.88

Table S413. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RAB42 MUTATED	3	0	0	1
RAB42 WILD-TYPE	269	177	233	275

'RAB42 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.01 (Fisher's exact test), Q value = 0.21

Table S414. Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RAB42 MUTATED	0	0	0	1	0	3
RAB42 WILD-TYPE	275	136	206	133	87	117

Figure S100. Get High-res Image Gene #35: 'RAB42 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TFE3 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S415. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TFE3 MUTATED	1	1	1	2	1	1	0	0
TFE3 WILD-TYPE	20	37	113	95	107	72	19	39

'TFE3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S416. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TFE3 MUTATED	1	2	2	2	0
TFE3 WILD-TYPE	95	150	114	87	56

'TFE3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S417. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TFE3 MUTATED	2	2	0	3	0
TFE3 WILD-TYPE	245	361	86	228	36

'TFE3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.422 (Fisher's exact test), Q value = 0.98

Table S418. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TFE3 MUTATED	1	0	0	1	1	1
TFE3 WILD-TYPE	127	96	156	106	108	51

'TFE3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S419. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TFE3 MUTATED	1	1	1
TFE3 WILD-TYPE	144	130	117

'TFE3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S420. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TFE3 MUTATED	0	0	1	0	2	0
TFE3 WILD-TYPE	59	48	89	53	111	31

'TFE3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.787 (Fisher's exact test), Q value = 1

Table S421. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TFE3 MUTATED	3	3	1
TFE3 WILD-TYPE	502	276	189

'TFE3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.65 (Fisher's exact test), Q value = 1

Table S422. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TFE3 MUTATED	2	1	0	1	2	1
TFE3 WILD-TYPE	261	150	79	260	166	51

'TFE3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.756 (Fisher's exact test), Q value = 1

Table S423. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TFE3 MUTATED	2	2	2	1
TFE3 WILD-TYPE	270	175	231	275

'TFE3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.427 (Fisher's exact test), Q value = 0.98

Table S424. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TFE3 MUTATED	1	3	1	1	0	1
TFE3 WILD-TYPE	274	133	205	133	87	119

'TFE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.857 (Fisher's exact test), Q value = 1

Table S425. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TFE3 MUTATED	2	1	0	0	0
TFE3 WILD-TYPE	176	119	66	92	112

'TFE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.301 (Fisher's exact test), Q value = 0.93

Table S426. Gene #36: 'TFE3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TFE3 MUTATED	3	0	0
TFE3 WILD-TYPE	276	181	108

'ZMYM3 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S427. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZMYM3 MUTATED	1	0	1	4	4	1	0	0
ZMYM3 WILD-TYPE	20	38	113	93	104	72	19	39

'ZMYM3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S428. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZMYM3 MUTATED	1	4	1	4	1
ZMYM3 WILD-TYPE	95	148	115	85	55

'ZMYM3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S429. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZMYM3 MUTATED	2	7	1	4	0
ZMYM3 WILD-TYPE	245	356	85	227	36

'ZMYM3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.314 (Fisher's exact test), Q value = 0.93

Table S430. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ZMYM3 MUTATED	1	1	0	1	3	0
ZMYM3 WILD-TYPE	127	95	156	106	106	52

'ZMYM3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.126 (Fisher's exact test), Q value = 0.75

Table S431. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ZMYM3 MUTATED	5	2	0
ZMYM3 WILD-TYPE	140	129	118

'ZMYM3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S432. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ZMYM3 MUTATED	1	0	3	0	2	1
ZMYM3 WILD-TYPE	58	48	87	53	111	30

'ZMYM3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 0.78

Table S433. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZMYM3 MUTATED	9	5	0
ZMYM3 WILD-TYPE	496	274	190

'ZMYM3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.568 (Fisher's exact test), Q value = 1

Table S434. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZMYM3 MUTATED	2	3	0	5	4	0
ZMYM3 WILD-TYPE	261	148	79	256	164	52

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S435. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZMYM3 MUTATED	6	1	4	3
ZMYM3 WILD-TYPE	266	176	229	273

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.906 (Fisher's exact test), Q value = 1

Table S436. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZMYM3 MUTATED	6	2	2	1	1	2
ZMYM3 WILD-TYPE	269	134	204	133	86	118

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.229 (Fisher's exact test), Q value = 0.88

Table S437. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ZMYM3 MUTATED	2	0	2	0	1
ZMYM3 WILD-TYPE	176	120	64	92	111

'ZMYM3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S438. Gene #37: 'ZMYM3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ZMYM3 MUTATED	2	2	1
ZMYM3 WILD-TYPE	277	179	107

'ERBB2 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S439. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ERBB2 MUTATED	1	1	2	1	3	3	0	1
ERBB2 WILD-TYPE	20	37	112	96	105	70	19	38

'ERBB2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S440. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ERBB2 MUTATED	2	6	3	1	0
ERBB2 WILD-TYPE	94	146	113	88	56

'ERBB2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0637 (Fisher's exact test), Q value = 0.6

Table S441. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ERBB2 MUTATED	3	10	5	2	0
ERBB2 WILD-TYPE	244	353	81	229	36

'ERBB2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00271 (Fisher's exact test), Q value = 0.077

Table S442. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ERBB2 MUTATED	0	4	1	4	0	3
ERBB2 WILD-TYPE	128	92	155	103	109	49

Figure S101. Get High-res Image Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ERBB2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S443. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ERBB2 MUTATED	2	2	4
ERBB2 WILD-TYPE	143	129	114

'ERBB2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.957 (Fisher's exact test), Q value = 1

Table S444. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ERBB2 MUTATED	1	1	1	1	3	1
ERBB2 WILD-TYPE	58	47	89	52	110	30

'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.92

Table S445. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ERBB2 MUTATED	10	4	7
ERBB2 WILD-TYPE	495	275	183

'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 0.75

Table S446. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ERBB2 MUTATED	3	4	2	8	1	3
ERBB2 WILD-TYPE	260	147	77	253	167	49

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.215 (Fisher's exact test), Q value = 0.87

Table S447. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ERBB2 MUTATED	2	5	7	6
ERBB2 WILD-TYPE	270	172	226	270

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.106 (Fisher's exact test), Q value = 0.75

Table S448. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ERBB2 MUTATED	4	2	7	6	1	0
ERBB2 WILD-TYPE	271	134	199	128	86	120

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.32 (Fisher's exact test), Q value = 0.94

Table S449. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ERBB2 MUTATED	1	1	1	3	3
ERBB2 WILD-TYPE	177	119	65	89	109

'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S450. Gene #38: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ERBB2 MUTATED	3	4	2
ERBB2 WILD-TYPE	276	177	106

'CTCF MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0591 (Fisher's exact test), Q value = 0.6

Table S451. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CTCF MUTATED	1	0	2	1	8	0	0	1
CTCF WILD-TYPE	20	38	112	96	100	73	19	38

'CTCF MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0439 (Fisher's exact test), Q value = 0.53

Table S452. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CTCF MUTATED	3	3	1	1	5
CTCF WILD-TYPE	93	149	115	88	51

Figure S102. Get High-res Image Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'CTCF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0174 (Fisher's exact test), Q value = 0.3

Table S453. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CTCF MUTATED	2	13	0	1	1
CTCF WILD-TYPE	245	350	86	230	35

Figure S103. Get High-res Image Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CTCF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00946 (Fisher's exact test), Q value = 0.2

Table S454. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CTCF MUTATED	0	1	8	2	0	0
CTCF WILD-TYPE	128	95	148	105	109	52

Figure S104. Get High-res Image Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CTCF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.069 (Fisher's exact test), Q value = 0.62

Table S455. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CTCF MUTATED	1	7	3
CTCF WILD-TYPE	144	124	115

'CTCF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.75

Table S456. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CTCF MUTATED	5	0	1	1	4	0
CTCF WILD-TYPE	54	48	89	52	109	31

'CTCF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0802 (Fisher's exact test), Q value = 0.67

Table S457. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CTCF MUTATED	12	1	4
CTCF WILD-TYPE	493	278	186

'CTCF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.369 (Fisher's exact test), Q value = 0.98

Table S458. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CTCF MUTATED	8	1	1	6	1	0
CTCF WILD-TYPE	255	150	78	255	167	52

'CTCF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0708 (Fisher's exact test), Q value = 0.62

Table S459. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CTCF MUTATED	1	2	7	7
CTCF WILD-TYPE	271	175	226	269

'CTCF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00235 (Fisher's exact test), Q value = 0.071

Table S460. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CTCF MUTATED	2	2	4	2	7	0
CTCF WILD-TYPE	273	134	202	132	80	120

Figure S105. Get High-res Image Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CTCF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S461. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CTCF MUTATED	4	1	0	1	1
CTCF WILD-TYPE	174	119	66	91	111

'CTCF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S462. Gene #39: 'CTCF MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CTCF MUTATED	4	1	2
CTCF WILD-TYPE	275	180	106

'FRMPD2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.819 (Fisher's exact test), Q value = 1

Table S463. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FRMPD2 MUTATED	0	1	1	1	1	2	0	0
FRMPD2 WILD-TYPE	21	37	113	96	107	71	19	39

'FRMPD2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S464. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FRMPD2 MUTATED	1	2	2	1	0
FRMPD2 WILD-TYPE	95	150	114	88	56

'FRMPD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.372 (Fisher's exact test), Q value = 0.98

Table S465. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FRMPD2 MUTATED	2	4	0	5	1
FRMPD2 WILD-TYPE	245	359	86	226	35

'FRMPD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.767 (Fisher's exact test), Q value = 1

Table S466. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
FRMPD2 MUTATED	2	1	1	2	3	0
FRMPD2 WILD-TYPE	126	95	155	105	106	52

'FRMPD2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 1

Table S467. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
FRMPD2 MUTATED	2	0	2
FRMPD2 WILD-TYPE	143	131	116

'FRMPD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.935 (Fisher's exact test), Q value = 1

Table S468. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
FRMPD2 MUTATED	0	0	1	1	2	0
FRMPD2 WILD-TYPE	59	48	89	52	111	31

'FRMPD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S469. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FRMPD2 MUTATED	7	4	1
FRMPD2 WILD-TYPE	498	275	189

'FRMPD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0615 (Fisher's exact test), Q value = 0.6

Table S470. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FRMPD2 MUTATED	0	4	0	4	4	0
FRMPD2 WILD-TYPE	263	147	79	257	164	52

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.424 (Fisher's exact test), Q value = 0.98

Table S471. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FRMPD2 MUTATED	4	4	1	3
FRMPD2 WILD-TYPE	268	173	232	273

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.673 (Fisher's exact test), Q value = 1

Table S472. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FRMPD2 MUTATED	5	1	2	1	0	3
FRMPD2 WILD-TYPE	270	135	204	133	87	117

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.188 (Fisher's exact test), Q value = 0.85

Table S473. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
FRMPD2 MUTATED	0	2	0	2	2
FRMPD2 WILD-TYPE	178	118	66	90	110

'FRMPD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.753 (Fisher's exact test), Q value = 1

Table S474. Gene #40: 'FRMPD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
FRMPD2 MUTATED	2	3	1
FRMPD2 WILD-TYPE	277	178	107

'GPS2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.014 (Fisher's exact test), Q value = 0.26

Table S475. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GPS2 MUTATED	0	4	2	0	1	0	0	1
GPS2 WILD-TYPE	21	34	112	97	107	73	19	38

Figure S106. Get High-res Image Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'GPS2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0493 (Fisher's exact test), Q value = 0.56

Table S476. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GPS2 MUTATED	2	6	0	0	0
GPS2 WILD-TYPE	94	146	116	89	56

Figure S107. Get High-res Image Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'GPS2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.061 (Fisher's exact test), Q value = 0.6

Table S477. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GPS2 MUTATED	2	9	0	0	0
GPS2 WILD-TYPE	245	354	86	231	36

'GPS2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 0.93

Table S478. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
GPS2 MUTATED	1	3	1	0	2	1
GPS2 WILD-TYPE	127	93	155	107	107	51

'GPS2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.94

Table S479. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GPS2 MUTATED	0	2	2
GPS2 WILD-TYPE	145	129	116

'GPS2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.66 (Fisher's exact test), Q value = 1

Table S480. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GPS2 MUTATED	1	1	0	0	2	0
GPS2 WILD-TYPE	58	47	90	53	111	31

'GPS2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.98

Table S481. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GPS2 MUTATED	5	2	4
GPS2 WILD-TYPE	500	277	186

'GPS2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0417 (Fisher's exact test), Q value = 0.5

Table S482. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GPS2 MUTATED	2	0	1	6	0	2
GPS2 WILD-TYPE	261	151	78	255	168	50

Figure S108. Get High-res Image Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'GPS2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.137 (Fisher's exact test), Q value = 0.76

Table S483. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GPS2 MUTATED	2	2	6	1
GPS2 WILD-TYPE	270	175	227	275

'GPS2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.31 (Fisher's exact test), Q value = 0.93

Table S484. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GPS2 MUTATED	4	3	1	3	0	0
GPS2 WILD-TYPE	271	133	205	131	87	120

'GPS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.478 (Fisher's exact test), Q value = 1

Table S485. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
GPS2 MUTATED	1	0	1	1	2
GPS2 WILD-TYPE	177	120	65	91	110

'GPS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.418 (Fisher's exact test), Q value = 0.98

Table S486. Gene #41: 'GPS2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
GPS2 MUTATED	2	3	0
GPS2 WILD-TYPE	277	178	108

'DOCK11 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S487. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
DOCK11 MUTATED	0	0	3	4	1	3	0	0
DOCK11 WILD-TYPE	21	38	111	93	107	70	19	39

'DOCK11 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.448 (Fisher's exact test), Q value = 1

Table S488. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
DOCK11 MUTATED	2	2	5	2	0
DOCK11 WILD-TYPE	94	150	111	87	56

'DOCK11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.314 (Fisher's exact test), Q value = 0.93

Table S489. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
DOCK11 MUTATED	3	7	1	9	0
DOCK11 WILD-TYPE	244	356	85	222	36

'DOCK11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.803 (Fisher's exact test), Q value = 1

Table S490. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
DOCK11 MUTATED	2	3	2	3	2	0
DOCK11 WILD-TYPE	126	93	154	104	107	52

'DOCK11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S491. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
DOCK11 MUTATED	5	2	1
DOCK11 WILD-TYPE	140	129	117

'DOCK11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.269 (Fisher's exact test), Q value = 0.93

Table S492. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
DOCK11 MUTATED	0	0	4	0	4	0
DOCK11 WILD-TYPE	59	48	86	53	109	31

'DOCK11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.062 (Fisher's exact test), Q value = 0.6

Table S493. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
DOCK11 MUTATED	9	10	1
DOCK11 WILD-TYPE	496	269	189

'DOCK11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0251 (Fisher's exact test), Q value = 0.39

Table S494. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
DOCK11 MUTATED	2	7	0	4	4	3
DOCK11 WILD-TYPE	261	144	79	257	164	49

Figure S109. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0914 (Fisher's exact test), Q value = 0.69

Table S495. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
DOCK11 MUTATED	9	2	7	2
DOCK11 WILD-TYPE	263	175	226	274

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0457 (Fisher's exact test), Q value = 0.53

Table S496. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
DOCK11 MUTATED	7	8	2	1	1	1
DOCK11 WILD-TYPE	268	128	204	133	86	119

Figure S110. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0382 (Fisher's exact test), Q value = 0.49

Table S497. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
DOCK11 MUTATED	2	6	0	0	4
DOCK11 WILD-TYPE	176	114	66	92	108

Figure S111. Get High-res Image Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'DOCK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.116 (Fisher's exact test), Q value = 0.75

Table S498. Gene #42: 'DOCK11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
DOCK11 MUTATED	9	3	0
DOCK11 WILD-TYPE	270	178	108

'HRNR MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.988 (Fisher's exact test), Q value = 1

Table S499. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HRNR MUTATED	0	1	5	5	4	4	0	1
HRNR WILD-TYPE	21	37	109	92	104	69	19	38

'HRNR MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S500. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HRNR MUTATED	2	7	4	5	2
HRNR WILD-TYPE	94	145	112	84	54

'HRNR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.353 (Fisher's exact test), Q value = 0.96

Table S501. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HRNR MUTATED	5	12	5	7	2
HRNR WILD-TYPE	242	351	81	224	34

'HRNR MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S502. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HRNR MUTATED	3	2	6	3	4	2
HRNR WILD-TYPE	125	94	150	104	105	50

'HRNR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S503. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
HRNR MUTATED	4	6	6
HRNR WILD-TYPE	141	125	112

'HRNR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.57 (Fisher's exact test), Q value = 1

Table S504. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
HRNR MUTATED	2	0	3	3	6	2
HRNR WILD-TYPE	57	48	87	50	107	29

'HRNR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.491 (Fisher's exact test), Q value = 1

Table S505. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HRNR MUTATED	13	11	7
HRNR WILD-TYPE	492	268	183

'HRNR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.679 (Fisher's exact test), Q value = 1

Table S506. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HRNR MUTATED	8	3	3	7	7	3
HRNR WILD-TYPE	255	148	76	254	161	49

'HRNR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.597 (Fisher's exact test), Q value = 1

Table S507. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HRNR MUTATED	11	3	7	9
HRNR WILD-TYPE	261	174	226	267

'HRNR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.194 (Fisher's exact test), Q value = 0.85

Table S508. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HRNR MUTATED	6	7	4	6	5	2
HRNR WILD-TYPE	269	129	202	128	82	118

'HRNR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.148 (Fisher's exact test), Q value = 0.77

Table S509. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HRNR MUTATED	6	4	0	0	5
HRNR WILD-TYPE	172	116	66	92	107

'HRNR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S510. Gene #43: 'HRNR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HRNR MUTATED	9	4	2
HRNR WILD-TYPE	270	177	106

'CASZ1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S511. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CASZ1 MUTATED	0	1	1	2	2	1	0	0
CASZ1 WILD-TYPE	21	37	113	95	106	72	19	39

'CASZ1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.854 (Fisher's exact test), Q value = 1

Table S512. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CASZ1 MUTATED	1	3	1	2	0
CASZ1 WILD-TYPE	95	149	115	87	56

'CASZ1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S513. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CASZ1 MUTATED	5	4	1	3	0
CASZ1 WILD-TYPE	242	359	85	228	36

'CASZ1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S514. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CASZ1 MUTATED	2	2	2	1	3	0
CASZ1 WILD-TYPE	126	94	154	106	106	52

'CASZ1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.75

Table S515. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CASZ1 MUTATED	1	0	3
CASZ1 WILD-TYPE	144	131	115

'CASZ1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S516. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CASZ1 MUTATED	0	0	1	1	2	0
CASZ1 WILD-TYPE	59	48	89	52	111	31

'CASZ1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S517. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CASZ1 MUTATED	7	5	2
CASZ1 WILD-TYPE	498	274	188

'CASZ1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.733 (Fisher's exact test), Q value = 1

Table S518. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CASZ1 MUTATED	2	2	1	5	4	0
CASZ1 WILD-TYPE	261	149	78	256	164	52

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.521 (Fisher's exact test), Q value = 1

Table S519. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CASZ1 MUTATED	2	3	5	3
CASZ1 WILD-TYPE	270	174	228	273

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.733 (Fisher's exact test), Q value = 1

Table S520. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CASZ1 MUTATED	5	1	3	1	0	3
CASZ1 WILD-TYPE	270	135	203	133	87	117

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.429 (Fisher's exact test), Q value = 0.98

Table S521. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CASZ1 MUTATED	4	1	0	0	3
CASZ1 WILD-TYPE	174	119	66	92	109

'CASZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.326 (Fisher's exact test), Q value = 0.94

Table S522. Gene #44: 'CASZ1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CASZ1 MUTATED	6	2	0
CASZ1 WILD-TYPE	273	179	108

'CDC42EP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.521 (Fisher's exact test), Q value = 1

Table S523. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CDC42EP1 MUTATED	0	0	1	2	0	0	0	1
CDC42EP1 WILD-TYPE	21	38	113	95	108	73	19	38

'CDC42EP1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S524. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CDC42EP1 MUTATED	1	1	0	2	0
CDC42EP1 WILD-TYPE	95	151	116	87	56

'CDC42EP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.384 (Fisher's exact test), Q value = 0.98

Table S525. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CDC42EP1 MUTATED	0	2	1	2	0
CDC42EP1 WILD-TYPE	247	361	85	229	36

'CDC42EP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.424 (Fisher's exact test), Q value = 0.98

Table S526. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CDC42EP1 MUTATED	0	0	1	2	0	0
CDC42EP1 WILD-TYPE	128	96	155	105	109	52

'CDC42EP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S527. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CDC42EP1 MUTATED	1	2	1
CDC42EP1 WILD-TYPE	144	129	117

'CDC42EP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.472 (Fisher's exact test), Q value = 1

Table S528. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CDC42EP1 MUTATED	1	0	2	1	0	0
CDC42EP1 WILD-TYPE	58	48	88	52	113	31

'CDC42EP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S529. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CDC42EP1 MUTATED	2	2	1
CDC42EP1 WILD-TYPE	503	277	189

'CDC42EP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S530. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CDC42EP1 MUTATED	1	0	1	1	2	0
CDC42EP1 WILD-TYPE	262	151	78	260	166	52

'CDC42EP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S531. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CDC42EP1 MUTATED	2	0	2	1
CDC42EP1 WILD-TYPE	270	177	231	275

'CDC42EP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.93

Table S532. Gene #45: 'CDC42EP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CDC42EP1 MUTATED	0	2	1	1	0	1
CDC42EP1 WILD-TYPE	275	134	205	133	87	119

'C1QTNF5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.648 (Fisher's exact test), Q value = 1

Table S533. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
C1QTNF5 MUTATED	0	0	2	0	0	1	0	0
C1QTNF5 WILD-TYPE	21	38	112	97	108	72	19	39

'C1QTNF5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.2 (Fisher's exact test), Q value = 0.86

Table S534. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
C1QTNF5 MUTATED	2	0	1	0	0
C1QTNF5 WILD-TYPE	94	152	115	89	56

'C1QTNF5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.283 (Fisher's exact test), Q value = 0.93

Table S535. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
C1QTNF5 MUTATED	2	1	2	2	0
C1QTNF5 WILD-TYPE	245	362	84	229	36

'C1QTNF5 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S536. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
C1QTNF5 MUTATED	1	1	1
C1QTNF5 WILD-TYPE	144	130	117

'C1QTNF5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S537. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
C1QTNF5 MUTATED	1	0	1	1	0	0
C1QTNF5 WILD-TYPE	58	48	89	52	113	31

'C1QTNF5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S538. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
C1QTNF5 MUTATED	3	2	2
C1QTNF5 WILD-TYPE	502	277	188

'C1QTNF5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.338 (Fisher's exact test), Q value = 0.95

Table S539. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
C1QTNF5 MUTATED	2	2	1	1	0	1
C1QTNF5 WILD-TYPE	261	149	78	260	168	51

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S540. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
C1QTNF5 MUTATED	2	1	3	1
C1QTNF5 WILD-TYPE	270	176	230	275

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.084 (Fisher's exact test), Q value = 0.68

Table S541. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
C1QTNF5 MUTATED	0	2	4	1	0	0
C1QTNF5 WILD-TYPE	275	134	202	133	87	120

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0137 (Fisher's exact test), Q value = 0.26

Table S542. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
C1QTNF5 MUTATED	0	0	2	2	0
C1QTNF5 WILD-TYPE	178	120	64	90	112

Figure S112. Get High-res Image Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'C1QTNF5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0796 (Fisher's exact test), Q value = 0.67

Table S543. Gene #46: 'C1QTNF5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
C1QTNF5 MUTATED	0	3	1
C1QTNF5 WILD-TYPE	279	178	107

'TGS1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S544. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TGS1 MUTATED	1	0	1	1	1	2	0	0
TGS1 WILD-TYPE	20	38	113	96	107	71	19	39

'TGS1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S545. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TGS1 MUTATED	1	1	3	1	0
TGS1 WILD-TYPE	95	151	113	88	56

'TGS1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 0.98

Table S546. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TGS1 MUTATED	2	7	0	2	1
TGS1 WILD-TYPE	245	356	86	229	35

'TGS1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.292 (Fisher's exact test), Q value = 0.93

Table S547. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TGS1 MUTATED	1	3	4	3	0	0
TGS1 WILD-TYPE	127	93	152	104	109	52

'TGS1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.75

Table S548. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TGS1 MUTATED	1	0	3
TGS1 WILD-TYPE	144	131	115

'TGS1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S549. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TGS1 MUTATED	0	1	1	0	1	1
TGS1 WILD-TYPE	59	47	89	53	112	30

'TGS1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S550. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TGS1 MUTATED	7	4	2
TGS1 WILD-TYPE	498	275	188

'TGS1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.246 (Fisher's exact test), Q value = 0.91

Table S551. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TGS1 MUTATED	2	5	0	4	1	1
TGS1 WILD-TYPE	261	146	79	257	167	51

'TGS1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.271 (Fisher's exact test), Q value = 0.93

Table S552. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TGS1 MUTATED	1	2	4	6
TGS1 WILD-TYPE	271	175	229	270

'TGS1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.457 (Fisher's exact test), Q value = 1

Table S553. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TGS1 MUTATED	5	1	5	2	0	0
TGS1 WILD-TYPE	270	135	201	132	87	120

'TGS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.248 (Fisher's exact test), Q value = 0.91

Table S554. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TGS1 MUTATED	3	0	2	0	2
TGS1 WILD-TYPE	175	120	64	92	110

'TGS1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.356 (Fisher's exact test), Q value = 0.96

Table S555. Gene #47: 'TGS1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TGS1 MUTATED	2	4	1
TGS1 WILD-TYPE	277	177	107

'USP36 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S556. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
USP36 MUTATED	0	0	2	3	2	0	0	0
USP36 WILD-TYPE	21	38	112	94	106	73	19	39

'USP36 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.182 (Fisher's exact test), Q value = 0.84

Table S557. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
USP36 MUTATED	2	1	0	3	1
USP36 WILD-TYPE	94	151	116	86	55

'USP36 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S558. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
USP36 MUTATED	2	3	1	2	0
USP36 WILD-TYPE	245	360	85	229	36

'USP36 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S559. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
USP36 MUTATED	0	1	1	0	1	0
USP36 WILD-TYPE	128	95	155	107	108	52

'USP36 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.712 (Fisher's exact test), Q value = 1

Table S560. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
USP36 MUTATED	3	3	1
USP36 WILD-TYPE	142	128	117

'USP36 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.744 (Fisher's exact test), Q value = 1

Table S561. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
USP36 MUTATED	1	0	3	0	3	0
USP36 WILD-TYPE	58	48	87	53	110	31

'USP36 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.457 (Fisher's exact test), Q value = 1

Table S562. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
USP36 MUTATED	5	3	0
USP36 WILD-TYPE	500	276	190

'USP36 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0769 (Fisher's exact test), Q value = 0.66

Table S563. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
USP36 MUTATED	5	0	0	0	3	0
USP36 WILD-TYPE	258	151	79	261	165	52

'USP36 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.675 (Fisher's exact test), Q value = 1

Table S564. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
USP36 MUTATED	3	1	3	1
USP36 WILD-TYPE	269	176	230	275

'USP36 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.347 (Fisher's exact test), Q value = 0.96

Table S565. Gene #48: 'USP36 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
USP36 MUTATED	2	0	1	1	1	3
USP36 WILD-TYPE	273	136	205	133	86	117

'ASB10 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.944 (Fisher's exact test), Q value = 1

Table S566. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ASB10 MUTATED	0	0	1	1	2	0	0	0
ASB10 WILD-TYPE	21	38	113	96	106	73	19	39

'ASB10 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0643 (Fisher's exact test), Q value = 0.61

Table S567. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ASB10 MUTATED	1	0	1	0	2
ASB10 WILD-TYPE	95	152	115	89	54

'ASB10 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S568. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ASB10 MUTATED	2	3	1	2	0
ASB10 WILD-TYPE	245	360	85	229	36

'ASB10 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.708 (Fisher's exact test), Q value = 1

Table S569. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ASB10 MUTATED	1	1	3	0	2	1
ASB10 WILD-TYPE	127	95	153	107	107	51

'ASB10 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.457 (Fisher's exact test), Q value = 1

Table S570. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ASB10 MUTATED	5	3	0
ASB10 WILD-TYPE	500	276	190

'ASB10 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.58 (Fisher's exact test), Q value = 1

Table S571. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ASB10 MUTATED	3	3	0	1	1	0
ASB10 WILD-TYPE	260	148	79	260	167	52

'ASB10 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.485 (Fisher's exact test), Q value = 1

Table S572. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ASB10 MUTATED	2	0	2	4
ASB10 WILD-TYPE	270	177	231	272

'ASB10 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.267 (Fisher's exact test), Q value = 0.93

Table S573. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ASB10 MUTATED	5	1	0	1	1	0
ASB10 WILD-TYPE	270	135	206	133	86	120

'ASB10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S574. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ASB10 MUTATED	1	2	0	1	1
ASB10 WILD-TYPE	177	118	66	91	111

'ASB10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S575. Gene #49: 'ASB10 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ASB10 MUTATED	3	1	1
ASB10 WILD-TYPE	276	180	107

'EIF4A2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 0.88

Table S576. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
EIF4A2 MUTATED	1	0	1	0	0	1	0	0
EIF4A2 WILD-TYPE	20	38	113	97	108	72	19	39

'EIF4A2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S577. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
EIF4A2 MUTATED	1	1	1	0	0
EIF4A2 WILD-TYPE	95	151	115	89	56

'EIF4A2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.881 (Fisher's exact test), Q value = 1

Table S578. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
EIF4A2 MUTATED	2	5	0	2	0
EIF4A2 WILD-TYPE	245	358	86	229	36

'EIF4A2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S579. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
EIF4A2 MUTATED	2	1	0	2	1	0
EIF4A2 WILD-TYPE	126	95	156	105	108	52

'EIF4A2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S580. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
EIF4A2 MUTATED	1	1	1
EIF4A2 WILD-TYPE	144	130	117

'EIF4A2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.369 (Fisher's exact test), Q value = 0.98

Table S581. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
EIF4A2 MUTATED	1	0	0	0	1	1
EIF4A2 WILD-TYPE	58	48	90	53	112	30

'EIF4A2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.227 (Fisher's exact test), Q value = 0.88

Table S582. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
EIF4A2 MUTATED	3	5	1
EIF4A2 WILD-TYPE	502	274	189

'EIF4A2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.084 (Fisher's exact test), Q value = 0.68

Table S583. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
EIF4A2 MUTATED	2	1	0	2	1	3
EIF4A2 WILD-TYPE	261	150	79	259	167	49

'EIF4A2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 0.92

Table S584. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
EIF4A2 MUTATED	3	3	0	3
EIF4A2 WILD-TYPE	269	174	233	273

'EIF4A2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.891 (Fisher's exact test), Q value = 1

Table S585. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
EIF4A2 MUTATED	4	2	1	1	0	1
EIF4A2 WILD-TYPE	271	134	205	133	87	119

'EIF4A2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.372 (Fisher's exact test), Q value = 0.98

Table S586. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
EIF4A2 MUTATED	1	1	1	0	3
EIF4A2 WILD-TYPE	177	119	65	92	109

'EIF4A2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 0.93

Table S587. Gene #50: 'EIF4A2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
EIF4A2 MUTATED	2	4	0
EIF4A2 WILD-TYPE	277	177	108

'DNAH12 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S588. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
DNAH12 MUTATED	0	0	2	2	2	1	0	1
DNAH12 WILD-TYPE	21	38	112	95	106	72	19	38

'DNAH12 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.732 (Fisher's exact test), Q value = 1

Table S589. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
DNAH12 MUTATED	1	4	1	2	0
DNAH12 WILD-TYPE	95	148	115	87	56

'DNAH12 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.865 (Fisher's exact test), Q value = 1

Table S590. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
DNAH12 MUTATED	4	9	1	3	0
DNAH12 WILD-TYPE	243	354	85	228	36

'DNAH12 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.748 (Fisher's exact test), Q value = 1

Table S591. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
DNAH12 MUTATED	2	2	5	3	1	0
DNAH12 WILD-TYPE	126	94	151	104	108	52

'DNAH12 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S592. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
DNAH12 MUTATED	1	1	3
DNAH12 WILD-TYPE	144	130	115

'DNAH12 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S593. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
DNAH12 MUTATED	1	0	2	1	1	0
DNAH12 WILD-TYPE	58	48	88	52	112	31

'DNAH12 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S594. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
DNAH12 MUTATED	10	5	3
DNAH12 WILD-TYPE	495	274	187

'DNAH12 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.605 (Fisher's exact test), Q value = 1

Table S595. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
DNAH12 MUTATED	3	2	1	8	4	0
DNAH12 WILD-TYPE	260	149	78	253	164	52

'DNAH12 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.246 (Fisher's exact test), Q value = 0.91

Table S596. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
DNAH12 MUTATED	5	4	7	2
DNAH12 WILD-TYPE	267	173	226	274

'DNAH12 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.727 (Fisher's exact test), Q value = 1

Table S597. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
DNAH12 MUTATED	5	3	6	1	2	1
DNAH12 WILD-TYPE	270	133	200	133	85	119

'DNAH12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.16 (Fisher's exact test), Q value = 0.78

Table S598. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
DNAH12 MUTATED	3	2	0	0	5
DNAH12 WILD-TYPE	175	118	66	92	107

'DNAH12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.228 (Fisher's exact test), Q value = 0.88

Table S599. Gene #51: 'DNAH12 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
DNAH12 MUTATED	5	5	0
DNAH12 WILD-TYPE	274	176	108

'RHBG MUTATION STATUS' versus 'CN_CNMF'

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

Table S600. Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RHBG MUTATED	2	1	0	1	0
RHBG WILD-TYPE	245	362	86	230	36

'RHBG MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00765 (Fisher's exact test), Q value = 0.17

Table S601. Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RHBG MUTATED	0	4	0
RHBG WILD-TYPE	505	275	190

Figure S113. Get High-res Image Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RHBG MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.108 (Fisher's exact test), Q value = 0.75

Table S602. Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RHBG MUTATED	0	2	0	0	2	0
RHBG WILD-TYPE	263	149	79	261	166	52

'RHBG MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.523 (Fisher's exact test), Q value = 1

Table S603. Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RHBG MUTATED	2	0	0	2
RHBG WILD-TYPE	270	177	233	274

'RHBG MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.266 (Fisher's exact test), Q value = 0.93

Table S604. Gene #52: 'RHBG MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RHBG MUTATED	2	0	0	0	0	2
RHBG WILD-TYPE	273	136	206	134	87	118

'ZNF362 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S605. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZNF362 MUTATED	0	0	2	0	2	1	0	0
ZNF362 WILD-TYPE	21	38	112	97	106	72	19	39

'ZNF362 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.872 (Fisher's exact test), Q value = 1

Table S606. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZNF362 MUTATED	1	2	1	0	1
ZNF362 WILD-TYPE	95	150	115	89	55

'ZNF362 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0916 (Fisher's exact test), Q value = 0.69

Table S607. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZNF362 MUTATED	0	1	1	1	1
ZNF362 WILD-TYPE	247	362	85	230	35

'ZNF362 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.155 (Fisher's exact test), Q value = 0.78

Table S608. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ZNF362 MUTATED	0	3	1
ZNF362 WILD-TYPE	145	128	117

'ZNF362 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.659 (Fisher's exact test), Q value = 1

Table S609. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ZNF362 MUTATED	1	1	0	0	2	0
ZNF362 WILD-TYPE	58	47	90	53	111	31

'ZNF362 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.408 (Fisher's exact test), Q value = 0.98

Table S610. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZNF362 MUTATED	4	0	1
ZNF362 WILD-TYPE	501	279	189

'ZNF362 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.91 (Fisher's exact test), Q value = 1

Table S611. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZNF362 MUTATED	2	1	0	2	0	0
ZNF362 WILD-TYPE	261	150	79	259	168	52

'ZNF362 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.083 (Fisher's exact test), Q value = 0.68

Table S612. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZNF362 MUTATED	0	0	1	4
ZNF362 WILD-TYPE	272	177	232	272

'ZNF362 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.414 (Fisher's exact test), Q value = 0.98

Table S613. Gene #53: 'ZNF362 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZNF362 MUTATED	1	0	1	2	1	0
ZNF362 WILD-TYPE	274	136	205	132	86	120

'FXYD5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.568 (Fisher's exact test), Q value = 1

Table S614. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FXYD5 MUTATED	0	1	1	1	0	0	0	0
FXYD5 WILD-TYPE	21	37	113	96	108	73	19	39

'FXYD5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.786 (Fisher's exact test), Q value = 1

Table S615. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FXYD5 MUTATED	1	1	0	1	0
FXYD5 WILD-TYPE	95	151	116	88	56

'FXYD5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S616. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FXYD5 MUTATED	0	4	0	1	0
FXYD5 WILD-TYPE	247	359	86	230	36

'FXYD5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S617. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
FXYD5 MUTATED	2	0	1
FXYD5 WILD-TYPE	143	131	117

'FXYD5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.883 (Fisher's exact test), Q value = 1

Table S618. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
FXYD5 MUTATED	0	0	1	1	1	0
FXYD5 WILD-TYPE	59	48	89	52	112	31

'FXYD5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0874 (Fisher's exact test), Q value = 0.68

Table S619. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FXYD5 MUTATED	1	1	3
FXYD5 WILD-TYPE	504	278	187

'FXYD5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.122 (Fisher's exact test), Q value = 0.75

Table S620. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FXYD5 MUTATED	0	1	2	1	1	0
FXYD5 WILD-TYPE	263	150	77	260	167	52

'FXYD5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S621. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FXYD5 MUTATED	1	2	1	1
FXYD5 WILD-TYPE	271	175	232	275

'FXYD5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S622. Gene #54: 'FXYD5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FXYD5 MUTATED	1	1	3	0	0	0
FXYD5 WILD-TYPE	274	135	203	134	87	120

'BCORL1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.151 (Fisher's exact test), Q value = 0.78

Table S623. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
BCORL1 MUTATED	0	3	2	2	0	1	0	0
BCORL1 WILD-TYPE	21	35	112	95	108	72	19	39

'BCORL1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.834 (Fisher's exact test), Q value = 1

Table S624. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
BCORL1 MUTATED	2	3	1	2	0
BCORL1 WILD-TYPE	94	149	115	87	56

'BCORL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.66 (Fisher's exact test), Q value = 1

Table S625. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
BCORL1 MUTATED	6	5	0	4	0
BCORL1 WILD-TYPE	241	358	86	227	36

'BCORL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.736 (Fisher's exact test), Q value = 1

Table S626. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
BCORL1 MUTATED	2	2	3	0	2	0
BCORL1 WILD-TYPE	126	94	153	107	107	52

'BCORL1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.29 (Fisher's exact test), Q value = 0.93

Table S627. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
BCORL1 MUTATED	3	3	0
BCORL1 WILD-TYPE	142	128	118

'BCORL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0292 (Fisher's exact test), Q value = 0.4

Table S628. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
BCORL1 MUTATED	0	0	1	0	2	3
BCORL1 WILD-TYPE	59	48	89	53	111	28

Figure S114. Get High-res Image Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'BCORL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.116 (Fisher's exact test), Q value = 0.75

Table S629. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
BCORL1 MUTATED	6	8	1
BCORL1 WILD-TYPE	499	271	189

'BCORL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.819 (Fisher's exact test), Q value = 1

Table S630. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
BCORL1 MUTATED	3	3	1	3	4	1
BCORL1 WILD-TYPE	260	148	78	258	164	51

'BCORL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.559 (Fisher's exact test), Q value = 1

Table S631. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
BCORL1 MUTATED	7	2	3	3
BCORL1 WILD-TYPE	265	175	230	273

'BCORL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.879 (Fisher's exact test), Q value = 1

Table S632. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
BCORL1 MUTATED	3	3	3	2	1	3
BCORL1 WILD-TYPE	272	133	203	132	86	117

'BCORL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S633. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
BCORL1 MUTATED	4	3	0	2	2
BCORL1 WILD-TYPE	174	117	66	90	110

'BCORL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S634. Gene #55: 'BCORL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
BCORL1 MUTATED	7	2	2
BCORL1 WILD-TYPE	272	179	106

'PTHLH MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.229 (Fisher's exact test), Q value = 0.88

Table S635. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

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

'PTHLH MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.897 (Fisher's exact test), Q value = 1

Table S636. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PTHLH MUTATED	1	2	2	0	0
PTHLH WILD-TYPE	95	150	114	89	56

'PTHLH MUTATION STATUS' versus 'CN_CNMF'

P value = 0.039 (Fisher's exact test), Q value = 0.5

Table S637. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PTHLH MUTATED	2	1	1	1	2
PTHLH WILD-TYPE	245	362	85	230	34

Figure S115. Get High-res Image Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PTHLH MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0205 (Fisher's exact test), Q value = 0.34

Table S638. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PTHLH MUTATED	0	3	0	0	1	1
PTHLH WILD-TYPE	128	93	156	107	108	51

Figure S116. Get High-res Image Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PTHLH MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.688 (Fisher's exact test), Q value = 1

Table S639. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PTHLH MUTATED	1	1	2
PTHLH WILD-TYPE	144	130	116

'PTHLH MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S640. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PTHLH MUTATED	0	1	0	1	2	0
PTHLH WILD-TYPE	59	47	90	52	111	31

'PTHLH MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.76

Table S641. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PTHLH MUTATED	6	0	1
PTHLH WILD-TYPE	499	279	189

'PTHLH MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S642. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PTHLH MUTATED	4	1	0	2	0	0
PTHLH WILD-TYPE	259	150	79	259	168	52

'PTHLH MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S643. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PTHLH MUTATED	2	1	1	2
PTHLH WILD-TYPE	270	176	232	274

'PTHLH MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.194 (Fisher's exact test), Q value = 0.85

Table S644. Gene #56: 'PTHLH MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PTHLH MUTATED	4	0	0	2	0	0
PTHLH WILD-TYPE	271	136	206	132	87	120

'PIK3R1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.148 (Fisher's exact test), Q value = 0.77

Table S645. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PIK3R1 MUTATED	0	0	1	1	1	5	0	0
PIK3R1 WILD-TYPE	21	38	113	96	107	68	19	39

'PIK3R1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 0.84

Table S646. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PIK3R1 MUTATED	1	1	5	1	0
PIK3R1 WILD-TYPE	95	151	111	88	56

'PIK3R1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.414 (Fisher's exact test), Q value = 0.98

Table S647. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PIK3R1 MUTATED	5	3	2	4	1
PIK3R1 WILD-TYPE	242	360	84	227	35

'PIK3R1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0673 (Fisher's exact test), Q value = 0.62

Table S648. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PIK3R1 MUTATED	0	3	1	0	3	0
PIK3R1 WILD-TYPE	128	93	155	107	106	52

'PIK3R1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.63 (Fisher's exact test), Q value = 1

Table S649. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PIK3R1 MUTATED	3	1	1
PIK3R1 WILD-TYPE	142	130	117

'PIK3R1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0495 (Fisher's exact test), Q value = 0.56

Table S650. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PIK3R1 MUTATED	0	0	0	0	3	2
PIK3R1 WILD-TYPE	59	48	90	53	110	29

Figure S117. Get High-res Image Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.101 (Fisher's exact test), Q value = 0.72

Table S651. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PIK3R1 MUTATED	9	6	0
PIK3R1 WILD-TYPE	496	273	190

'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.159 (Fisher's exact test), Q value = 0.78

Table S652. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PIK3R1 MUTATED	2	6	0	3	3	1
PIK3R1 WILD-TYPE	261	145	79	258	165	51

'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.132 (Fisher's exact test), Q value = 0.75

Table S653. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PIK3R1 MUTATED	3	0	4	7
PIK3R1 WILD-TYPE	269	177	229	269

'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.395 (Fisher's exact test), Q value = 0.98

Table S654. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PIK3R1 MUTATED	4	1	1	4	1	3
PIK3R1 WILD-TYPE	271	135	205	130	86	117

'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.75

Table S655. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PIK3R1 MUTATED	3	4	2	0	0
PIK3R1 WILD-TYPE	175	116	64	92	112

'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S656. Gene #57: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PIK3R1 MUTATED	6	2	1
PIK3R1 WILD-TYPE	273	179	107

'ZNF687 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.344 (Fisher's exact test), Q value = 0.96

Table S657. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZNF687 MUTATED	0	2	2	4	1	0	0	0
ZNF687 WILD-TYPE	21	36	112	93	107	73	19	39

'ZNF687 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.129 (Fisher's exact test), Q value = 0.75

Table S658. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZNF687 MUTATED	2	3	0	4	0
ZNF687 WILD-TYPE	94	149	116	85	56

'ZNF687 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.224 (Fisher's exact test), Q value = 0.88

Table S659. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZNF687 MUTATED	3	2	0	6	0
ZNF687 WILD-TYPE	244	361	86	225	36

'ZNF687 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.75

Table S660. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ZNF687 MUTATED	2	0	1	0	4	0
ZNF687 WILD-TYPE	126	96	155	107	105	52

'ZNF687 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.75

Table S661. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ZNF687 MUTATED	6	1	1
ZNF687 WILD-TYPE	139	130	117

'ZNF687 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.93

Table S662. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ZNF687 MUTATED	0	0	4	0	3	1
ZNF687 WILD-TYPE	59	48	86	53	110	30

'ZNF687 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.198 (Fisher's exact test), Q value = 0.85

Table S663. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZNF687 MUTATED	4	6	1
ZNF687 WILD-TYPE	501	273	189

'ZNF687 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.25 (Fisher's exact test), Q value = 0.91

Table S664. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZNF687 MUTATED	3	1	1	1	5	0
ZNF687 WILD-TYPE	260	150	78	260	163	52

'ZNF687 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.198 (Fisher's exact test), Q value = 0.85

Table S665. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZNF687 MUTATED	6	0	2	3
ZNF687 WILD-TYPE	266	177	231	273

'ZNF687 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0181 (Fisher's exact test), Q value = 0.31

Table S666. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZNF687 MUTATED	5	0	1	0	0	5
ZNF687 WILD-TYPE	270	136	205	134	87	115

Figure S118. Get High-res Image Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ZNF687 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.874 (Fisher's exact test), Q value = 1

Table S667. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ZNF687 MUTATED	2	2	0	0	1
ZNF687 WILD-TYPE	176	118	66	92	111

'ZNF687 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.597 (Fisher's exact test), Q value = 1

Table S668. Gene #58: 'ZNF687 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ZNF687 MUTATED	4	1	0
ZNF687 WILD-TYPE	275	180	108

'GPRIN2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.604 (Fisher's exact test), Q value = 1

Table S669. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GPRIN2 MUTATED	0	1	0	2	3	1	0	0
GPRIN2 WILD-TYPE	21	37	114	95	105	72	19	39

'GPRIN2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S670. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GPRIN2 MUTATED	0	3	1	2	1
GPRIN2 WILD-TYPE	96	149	115	87	55

'GPRIN2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S671. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GPRIN2 MUTATED	3	5	1	2	0
GPRIN2 WILD-TYPE	244	358	85	229	36

'GPRIN2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.706 (Fisher's exact test), Q value = 1

Table S672. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
GPRIN2 MUTATED	1	2	2	0	2	0
GPRIN2 WILD-TYPE	127	94	154	107	107	52

'GPRIN2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S673. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GPRIN2 MUTATED	3	2	1
GPRIN2 WILD-TYPE	142	129	117

'GPRIN2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.145 (Fisher's exact test), Q value = 0.77

Table S674. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GPRIN2 MUTATED	2	0	1	0	1	2
GPRIN2 WILD-TYPE	57	48	89	53	112	29

'GPRIN2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.468 (Fisher's exact test), Q value = 1

Table S675. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GPRIN2 MUTATED	5	5	1
GPRIN2 WILD-TYPE	500	274	189

'GPRIN2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.421 (Fisher's exact test), Q value = 0.98

Table S676. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GPRIN2 MUTATED	1	2	0	4	4	0
GPRIN2 WILD-TYPE	262	149	79	257	164	52

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.372 (Fisher's exact test), Q value = 0.98

Table S677. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GPRIN2 MUTATED	4	1	4	1
GPRIN2 WILD-TYPE	268	176	229	275

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0633 (Fisher's exact test), Q value = 0.6

Table S678. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GPRIN2 MUTATED	2	0	1	3	0	4
GPRIN2 WILD-TYPE	273	136	205	131	87	116

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S679. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
GPRIN2 MUTATED	1	3	1	0	1
GPRIN2 WILD-TYPE	177	117	65	92	111

'GPRIN2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S680. Gene #59: 'GPRIN2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
GPRIN2 MUTATED	4	2	0
GPRIN2 WILD-TYPE	275	179	108

'ANKRD12 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.277 (Fisher's exact test), Q value = 0.93

Table S681. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ANKRD12 MUTATED	0	1	6	0	2	1	0	0
ANKRD12 WILD-TYPE	21	37	108	97	106	72	19	39

'ANKRD12 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.134 (Fisher's exact test), Q value = 0.76

Table S682. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ANKRD12 MUTATED	4	5	1	0	0
ANKRD12 WILD-TYPE	92	147	115	89	56

'ANKRD12 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S683. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ANKRD12 MUTATED	3	6	3	5	0
ANKRD12 WILD-TYPE	244	357	83	226	36

'ANKRD12 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S684. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ANKRD12 MUTATED	2	3	2	2	1	1
ANKRD12 WILD-TYPE	126	93	154	105	108	51

'ANKRD12 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.386 (Fisher's exact test), Q value = 0.98

Table S685. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ANKRD12 MUTATED	4	1	1
ANKRD12 WILD-TYPE	141	130	117

'ANKRD12 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0674 (Fisher's exact test), Q value = 0.62

Table S686. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ANKRD12 MUTATED	0	0	0	0	5	1
ANKRD12 WILD-TYPE	59	48	90	53	108	30

'ANKRD12 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.409 (Fisher's exact test), Q value = 0.98

Table S687. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ANKRD12 MUTATED	10	3	5
ANKRD12 WILD-TYPE	495	276	185

'ANKRD12 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0631 (Fisher's exact test), Q value = 0.6

Table S688. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ANKRD12 MUTATED	3	2	0	11	1	1
ANKRD12 WILD-TYPE	260	149	79	250	167	51

'ANKRD12 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.86

Table S689. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ANKRD12 MUTATED	3	1	6	8
ANKRD12 WILD-TYPE	269	176	227	268

'ANKRD12 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S690. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ANKRD12 MUTATED	6	3	5	2	1	1
ANKRD12 WILD-TYPE	269	133	201	132	86	119

'ANKRD12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.86

Table S691. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ANKRD12 MUTATED	3	1	3	0	1
ANKRD12 WILD-TYPE	175	119	63	92	111

'ANKRD12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S692. Gene #60: 'ANKRD12 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ANKRD12 MUTATED	3	3	2
ANKRD12 WILD-TYPE	276	178	106

'PAX2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S693. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PAX2 MUTATED	0	0	1	0	1	1	0	0
PAX2 WILD-TYPE	21	38	113	97	107	72	19	39

'PAX2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.334 (Fisher's exact test), Q value = 0.95

Table S694. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PAX2 MUTATED	1	0	1	0	1
PAX2 WILD-TYPE	95	152	115	89	55

'PAX2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S695. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PAX2 MUTATED	0	1	0	3	0
PAX2 WILD-TYPE	247	362	86	228	36

'PAX2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.401 (Fisher's exact test), Q value = 0.98

Table S696. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PAX2 MUTATED	0	2	1
PAX2 WILD-TYPE	145	129	117

'PAX2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0564 (Fisher's exact test), Q value = 0.59

Table S697. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PAX2 MUTATED	1	2	0	0	0	0
PAX2 WILD-TYPE	58	46	90	53	113	31

'PAX2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.317 (Fisher's exact test), Q value = 0.93

Table S698. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PAX2 MUTATED	4	0	0
PAX2 WILD-TYPE	501	279	190

'PAX2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.286 (Fisher's exact test), Q value = 0.93

Table S699. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PAX2 MUTATED	2	2	0	0	0	0
PAX2 WILD-TYPE	261	149	79	261	168	52

'PAX2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.776 (Fisher's exact test), Q value = 1

Table S700. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PAX2 MUTATED	1	0	2	1
PAX2 WILD-TYPE	271	177	231	275

'PAX2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.483 (Fisher's exact test), Q value = 1

Table S701. Gene #61: 'PAX2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PAX2 MUTATED	2	0	0	1	1	0
PAX2 WILD-TYPE	273	136	206	133	86	120

'KCNN3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.143 (Fisher's exact test), Q value = 0.77

Table S702. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KCNN3 MUTATED	1	0	0	2	0	1	0	1
KCNN3 WILD-TYPE	20	38	114	95	108	72	19	38

'KCNN3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S703. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
KCNN3 MUTATED	0	1	2	2	0
KCNN3 WILD-TYPE	96	151	114	87	56

'KCNN3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 0.91

Table S704. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
KCNN3 MUTATED	4	1	0	4	0
KCNN3 WILD-TYPE	243	362	86	227	36

'KCNN3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.137 (Fisher's exact test), Q value = 0.76

Table S705. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
KCNN3 MUTATED	2	0	0	0	2	1
KCNN3 WILD-TYPE	126	96	156	107	107	51

'KCNN3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.27 (Fisher's exact test), Q value = 0.93

Table S706. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
KCNN3 MUTATED	3	0	1
KCNN3 WILD-TYPE	142	131	117

'KCNN3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.767 (Fisher's exact test), Q value = 1

Table S707. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
KCNN3 MUTATED	0	0	2	1	1	0
KCNN3 WILD-TYPE	59	48	88	52	112	31

'KCNN3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.288 (Fisher's exact test), Q value = 0.93

Table S708. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
KCNN3 MUTATED	5	4	0
KCNN3 WILD-TYPE	500	275	190

'KCNN3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.401 (Fisher's exact test), Q value = 0.98

Table S709. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
KCNN3 MUTATED	1	3	0	2	2	1
KCNN3 WILD-TYPE	262	148	79	259	166	51

'KCNN3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.93

Table S710. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
KCNN3 MUTATED	4	0	1	4
KCNN3 WILD-TYPE	268	177	232	272

'KCNN3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.71 (Fisher's exact test), Q value = 1

Table S711. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
KCNN3 MUTATED	3	3	1	1	0	1
KCNN3 WILD-TYPE	272	133	205	133	87	119

'KCNN3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S712. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
KCNN3 MUTATED	2	2	0	0	0
KCNN3 WILD-TYPE	176	118	66	92	112

'KCNN3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.414 (Fisher's exact test), Q value = 0.98

Table S713. Gene #62: 'KCNN3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
KCNN3 MUTATED	3	0	1
KCNN3 WILD-TYPE	276	181	107

'ICOSLG MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.767 (Fisher's exact test), Q value = 1

Table S714. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ICOSLG MUTATED	0	0	2	1	0	0	0	0
ICOSLG WILD-TYPE	21	38	112	96	108	73	19	39

'ICOSLG MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.129 (Fisher's exact test), Q value = 0.75

Table S715. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ICOSLG MUTATED	2	0	0	1	0
ICOSLG WILD-TYPE	94	152	116	88	56

'ICOSLG MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0409 (Fisher's exact test), Q value = 0.5

Table S716. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ICOSLG MUTATED	1	0	1	2	1
ICOSLG WILD-TYPE	246	363	85	229	35

Figure S119. Get High-res Image Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ICOSLG MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.289 (Fisher's exact test), Q value = 0.93

Table S717. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ICOSLG MUTATED	1	2	0	0	1	0
ICOSLG WILD-TYPE	127	94	156	107	108	52

'ICOSLG MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S718. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ICOSLG MUTATED	4	1	0
ICOSLG WILD-TYPE	501	278	190

'ICOSLG MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.969 (Fisher's exact test), Q value = 1

Table S719. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ICOSLG MUTATED	1	1	0	2	1	0
ICOSLG WILD-TYPE	262	150	79	259	167	52

'ICOSLG MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S720. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ICOSLG MUTATED	1	0	2	2
ICOSLG WILD-TYPE	271	177	231	274

'ICOSLG MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.472 (Fisher's exact test), Q value = 1

Table S721. Gene #63: 'ICOSLG MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ICOSLG MUTATED	1	1	0	1	1	1
ICOSLG WILD-TYPE	274	135	206	133	86	119

'MR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 0.86

Table S722. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MR1 MUTATED	0	2	0	1	2	0	0	0
MR1 WILD-TYPE	21	36	114	96	106	73	19	39

'MR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.704 (Fisher's exact test), Q value = 1

Table S723. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MR1 MUTATED	0	3	1	1	0
MR1 WILD-TYPE	96	149	115	88	56

'MR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.924 (Fisher's exact test), Q value = 1

Table S724. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MR1 MUTATED	2	3	1	1	0
MR1 WILD-TYPE	245	360	85	230	36

'MR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.056 (Fisher's exact test), Q value = 0.59

Table S725. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MR1 MUTATED	3	0	0	0	0	0
MR1 WILD-TYPE	125	96	156	107	109	52

'MR1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S726. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MR1 MUTATED	2	1	1
MR1 WILD-TYPE	143	130	117

'MR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.966 (Fisher's exact test), Q value = 1

Table S727. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MR1 MUTATED	1	0	1	1	1	0
MR1 WILD-TYPE	58	48	89	52	112	31

'MR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.27 (Fisher's exact test), Q value = 0.93

Table S728. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MR1 MUTATED	2	4	1
MR1 WILD-TYPE	503	275	189

'MR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.362 (Fisher's exact test), Q value = 0.97

Table S729. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MR1 MUTATED	0	2	1	3	1	0
MR1 WILD-TYPE	263	149	78	258	167	52

'MR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S730. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MR1 MUTATED	2	0	3	2
MR1 WILD-TYPE	270	177	230	274

'MR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.219 (Fisher's exact test), Q value = 0.88

Table S731. Gene #64: 'MR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MR1 MUTATED	5	1	0	0	0	1
MR1 WILD-TYPE	270	135	206	134	87	119

'ZBTB7C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.494 (Fisher's exact test), Q value = 1

Table S732. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZBTB7C MUTATED	1	2	1	0	0
ZBTB7C WILD-TYPE	246	361	85	231	36

'ZBTB7C MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S733. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ZBTB7C MUTATED	0	1	1	1	0	0
ZBTB7C WILD-TYPE	128	95	155	106	109	52

'ZBTB7C MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S734. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZBTB7C MUTATED	2	1	2
ZBTB7C WILD-TYPE	503	278	188

'ZBTB7C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S735. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZBTB7C MUTATED	1	1	1	2	0	0
ZBTB7C WILD-TYPE	262	150	78	259	168	52

'ZBTB7C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.687 (Fisher's exact test), Q value = 1

Table S736. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZBTB7C MUTATED	1	2	1	1
ZBTB7C WILD-TYPE	271	175	232	275

'ZBTB7C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S737. Gene #65: 'ZBTB7C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZBTB7C MUTATED	2	1	2	0	0	0
ZBTB7C WILD-TYPE	273	135	204	134	87	120

'CABYR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.814 (Fisher's exact test), Q value = 1

Table S738. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CABYR MUTATED	2	2	1	1	0
CABYR WILD-TYPE	245	361	85	230	36

'CABYR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.5 (Fisher's exact test), Q value = 1

Table S739. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CABYR MUTATED	1	2	0	1	1	0
CABYR WILD-TYPE	127	94	156	106	108	52

'CABYR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.76

Table S740. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CABYR MUTATED	2	4	0
CABYR WILD-TYPE	503	275	190

'CABYR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00666 (Fisher's exact test), Q value = 0.16

Table S741. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CABYR MUTATED	0	3	0	1	0	2
CABYR WILD-TYPE	263	148	79	260	168	50

Figure S120. Get High-res Image Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CABYR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.271 (Fisher's exact test), Q value = 0.93

Table S742. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CABYR MUTATED	3	0	0	2
CABYR WILD-TYPE	269	177	233	274

'CABYR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 1

Table S743. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CABYR MUTATED	2	2	0	1	0	0
CABYR WILD-TYPE	273	134	206	133	87	120

'CABYR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.873 (Fisher's exact test), Q value = 1

Table S744. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CABYR MUTATED	2	2	0	0	1
CABYR WILD-TYPE	176	118	66	92	111

'CABYR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 0.93

Table S745. Gene #66: 'CABYR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CABYR MUTATED	4	0	1
CABYR WILD-TYPE	275	181	107

'AKT2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 0.77

Table S746. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
AKT2 MUTATED	0	0	0	0	2	0	1	0
AKT2 WILD-TYPE	21	38	114	97	106	73	18	39

'AKT2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S747. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
AKT2 MUTATED	1	1	1	0	0
AKT2 WILD-TYPE	95	151	115	89	56

'AKT2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.68 (Fisher's exact test), Q value = 1

Table S748. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
AKT2 MUTATED	2	1	1	1	0
AKT2 WILD-TYPE	245	362	85	230	36

'AKT2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 1

Table S749. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
AKT2 MUTATED	1	0	2	0	0	1
AKT2 WILD-TYPE	127	96	154	107	109	51

'AKT2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S750. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
AKT2 MUTATED	4	1	0
AKT2 WILD-TYPE	501	278	190

'AKT2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.112 (Fisher's exact test), Q value = 0.75

Table S751. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
AKT2 MUTATED	0	3	0	2	0	0
AKT2 WILD-TYPE	263	148	79	259	168	52

'AKT2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S752. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
AKT2 MUTATED	1	0	2	2
AKT2 WILD-TYPE	271	177	231	274

'AKT2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.309 (Fisher's exact test), Q value = 0.93

Table S753. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
AKT2 MUTATED	3	0	0	2	0	0
AKT2 WILD-TYPE	272	136	206	132	87	120

'AKT2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.677 (Fisher's exact test), Q value = 1

Table S754. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
AKT2 MUTATED	2	0	0	1	0
AKT2 WILD-TYPE	176	120	66	91	112

'AKT2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 1

Table S755. Gene #67: 'AKT2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
AKT2 MUTATED	2	0	1
AKT2 WILD-TYPE	277	181	107

'TARBP2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.662 (Fisher's exact test), Q value = 1

Table S756. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TARBP2 MUTATED	0	1	1	2	0	1	0	0
TARBP2 WILD-TYPE	21	37	113	95	108	72	19	39

'TARBP2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.958 (Fisher's exact test), Q value = 1

Table S757. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TARBP2 MUTATED	1	1	2	1	0
TARBP2 WILD-TYPE	95	151	114	88	56

'TARBP2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.102 (Fisher's exact test), Q value = 0.73

Table S758. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TARBP2 MUTATED	2	0	0	4	0
TARBP2 WILD-TYPE	245	363	86	227	36

'TARBP2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.683 (Fisher's exact test), Q value = 1

Table S759. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TARBP2 MUTATED	1	1	0	0	1	0
TARBP2 WILD-TYPE	127	95	156	107	108	52

'TARBP2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.167 (Fisher's exact test), Q value = 0.8

Table S760. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TARBP2 MUTATED	4	1	0
TARBP2 WILD-TYPE	141	130	118

'TARBP2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.597 (Fisher's exact test), Q value = 1

Table S761. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TARBP2 MUTATED	1	0	3	0	1	0
TARBP2 WILD-TYPE	58	48	87	53	112	31

'TARBP2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.138 (Fisher's exact test), Q value = 0.76

Table S762. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TARBP2 MUTATED	2	4	0
TARBP2 WILD-TYPE	503	275	190

'TARBP2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.466 (Fisher's exact test), Q value = 1

Table S763. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TARBP2 MUTATED	1	0	0	2	2	1
TARBP2 WILD-TYPE	262	151	79	259	166	51

'TARBP2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S764. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TARBP2 MUTATED	3	0	1	2
TARBP2 WILD-TYPE	269	177	232	274

'TARBP2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0654 (Fisher's exact test), Q value = 0.61

Table S765. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TARBP2 MUTATED	0	3	1	0	1	1
TARBP2 WILD-TYPE	275	133	205	134	86	119

'TARBP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S766. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TARBP2 MUTATED	0	1	0	1	1
TARBP2 WILD-TYPE	178	119	66	91	111

'TARBP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.768 (Fisher's exact test), Q value = 1

Table S767. Gene #68: 'TARBP2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TARBP2 MUTATED	1	1	1
TARBP2 WILD-TYPE	278	180	107

'RIBC1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.591 (Fisher's exact test), Q value = 1

Table S768. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RIBC1 MUTATED	0	1	1	0	2	0	0	0
RIBC1 WILD-TYPE	21	37	113	97	106	73	19	39

'RIBC1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.383 (Fisher's exact test), Q value = 0.98

Table S769. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RIBC1 MUTATED	1	3	0	0	0
RIBC1 WILD-TYPE	95	149	116	89	56

'RIBC1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S770. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RIBC1 MUTATED	2	2	0	0	0
RIBC1 WILD-TYPE	245	361	86	231	36

'RIBC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.489 (Fisher's exact test), Q value = 1

Table S771. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RIBC1 MUTATED	1	0	1	0	0	1
RIBC1 WILD-TYPE	127	96	155	107	109	51

'RIBC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.53 (Fisher's exact test), Q value = 1

Table S772. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RIBC1 MUTATED	3	0	1
RIBC1 WILD-TYPE	502	279	189

'RIBC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.608 (Fisher's exact test), Q value = 1

Table S773. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RIBC1 MUTATED	1	0	0	3	0	0
RIBC1 WILD-TYPE	262	151	79	258	168	52

'RIBC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S774. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RIBC1 MUTATED	1	1	2	0
RIBC1 WILD-TYPE	271	176	231	276

'RIBC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.329 (Fisher's exact test), Q value = 0.94

Table S775. Gene #69: 'RIBC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RIBC1 MUTATED	1	1	0	2	0	0
RIBC1 WILD-TYPE	274	135	206	132	87	120

'PSIP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.687 (Fisher's exact test), Q value = 1

Table S776. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PSIP1 MUTATED	0	0	0	1	1	1	0	1
PSIP1 WILD-TYPE	21	38	114	96	107	72	19	38

'PSIP1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.719 (Fisher's exact test), Q value = 1

Table S777. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PSIP1 MUTATED	0	1	1	1	1
PSIP1 WILD-TYPE	96	151	115	88	55

'PSIP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.569 (Fisher's exact test), Q value = 1

Table S778. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PSIP1 MUTATED	2	3	2	1	0
PSIP1 WILD-TYPE	245	360	84	230	36

'PSIP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.767 (Fisher's exact test), Q value = 1

Table S779. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PSIP1 MUTATED	2	0	2	1	0	0
PSIP1 WILD-TYPE	126	96	154	106	109	52

'PSIP1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S780. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PSIP1 MUTATED	1	1	2
PSIP1 WILD-TYPE	144	130	116

'PSIP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S781. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PSIP1 MUTATED	1	0	1	1	1	0
PSIP1 WILD-TYPE	58	48	89	52	112	31

'PSIP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 0.97

Table S782. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PSIP1 MUTATED	6	2	0
PSIP1 WILD-TYPE	499	277	190

'PSIP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S783. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PSIP1 MUTATED	3	2	0	2	1	0
PSIP1 WILD-TYPE	260	149	79	259	167	52

'PSIP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.21 (Fisher's exact test), Q value = 0.86

Table S784. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PSIP1 MUTATED	0	1	2	4
PSIP1 WILD-TYPE	272	176	231	272

'PSIP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.454 (Fisher's exact test), Q value = 1

Table S785. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PSIP1 MUTATED	2	1	1	3	0	0
PSIP1 WILD-TYPE	273	135	205	131	87	120

'PSIP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S786. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PSIP1 MUTATED	2	0	0	1	1
PSIP1 WILD-TYPE	176	120	66	91	111

'PSIP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.13 (Fisher's exact test), Q value = 0.75

Table S787. Gene #70: 'PSIP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PSIP1 MUTATED	2	0	2
PSIP1 WILD-TYPE	277	181	106

'CEP57 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.373 (Fisher's exact test), Q value = 0.98

Table S788. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CEP57 MUTATED	0	0	0	1	0	2	0	0
CEP57 WILD-TYPE	21	38	114	96	108	71	19	39

'CEP57 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.279 (Fisher's exact test), Q value = 0.93

Table S789. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CEP57 MUTATED	0	0	2	1	0
CEP57 WILD-TYPE	96	152	114	88	56

'CEP57 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.301 (Fisher's exact test), Q value = 0.93

Table S790. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CEP57 MUTATED	0	2	1	3	0
CEP57 WILD-TYPE	247	361	85	228	36

'CEP57 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.188 (Fisher's exact test), Q value = 0.85

Table S791. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CEP57 MUTATED	0	1	1	3	0	0
CEP57 WILD-TYPE	128	95	155	104	109	52

'CEP57 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.651 (Fisher's exact test), Q value = 1

Table S792. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CEP57 MUTATED	4	2	0
CEP57 WILD-TYPE	501	277	190

'CEP57 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S793. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CEP57 MUTATED	1	2	0	2	1	0
CEP57 WILD-TYPE	262	149	79	259	167	52

'CEP57 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0703 (Fisher's exact test), Q value = 0.62

Table S794. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CEP57 MUTATED	0	1	4	1
CEP57 WILD-TYPE	272	176	229	275

'CEP57 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.984 (Fisher's exact test), Q value = 1

Table S795. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CEP57 MUTATED	2	1	2	1	0	0
CEP57 WILD-TYPE	273	135	204	133	87	120

'CEP57 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0808 (Fisher's exact test), Q value = 0.67

Table S796. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CEP57 MUTATED	0	0	1	0	2
CEP57 WILD-TYPE	178	120	65	92	110

'CEP57 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0397 (Fisher's exact test), Q value = 0.5

Table S797. Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CEP57 MUTATED	0	3	0
CEP57 WILD-TYPE	279	178	108

Figure S121. Get High-res Image Gene #71: 'CEP57 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ANKRD20A4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.191 (Fisher's exact test), Q value = 0.85

Table S798. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ANKRD20A4 MUTATED	0	0	0	0	1	1	1	0
ANKRD20A4 WILD-TYPE	21	38	114	97	107	72	18	39

'ANKRD20A4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0963 (Fisher's exact test), Q value = 0.71

Table S799. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ANKRD20A4 MUTATED	0	0	2	0	1
ANKRD20A4 WILD-TYPE	96	152	114	89	55

'ANKRD20A4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S800. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ANKRD20A4 MUTATED	1	3	0	3	0
ANKRD20A4 WILD-TYPE	246	360	86	228	36

'ANKRD20A4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S801. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ANKRD20A4 MUTATED	2	0	1	1	0	1
ANKRD20A4 WILD-TYPE	126	96	155	106	109	51

'ANKRD20A4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S802. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ANKRD20A4 MUTATED	2	1	0
ANKRD20A4 WILD-TYPE	143	130	118

'ANKRD20A4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S803. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ANKRD20A4 MUTATED	1	0	1	0	1	0
ANKRD20A4 WILD-TYPE	58	48	89	53	112	31

'ANKRD20A4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.234 (Fisher's exact test), Q value = 0.88

Table S804. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ANKRD20A4 MUTATED	2	2	3
ANKRD20A4 WILD-TYPE	503	277	187

'ANKRD20A4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.332 (Fisher's exact test), Q value = 0.94

Table S805. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ANKRD20A4 MUTATED	2	0	1	3	0	1
ANKRD20A4 WILD-TYPE	261	151	78	258	168	51

'ANKRD20A4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.882 (Fisher's exact test), Q value = 1

Table S806. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ANKRD20A4 MUTATED	2	2	1	2
ANKRD20A4 WILD-TYPE	270	175	232	274

'ANKRD20A4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S807. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ANKRD20A4 MUTATED	3	1	2	1	0	0
ANKRD20A4 WILD-TYPE	272	135	204	133	87	120

'ANKRD20A4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S808. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ANKRD20A4 MUTATED	1	0	1	1	2
ANKRD20A4 WILD-TYPE	177	120	65	91	110

'ANKRD20A4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.036 (Fisher's exact test), Q value = 0.47

Table S809. Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ANKRD20A4 MUTATED	0	3	2
ANKRD20A4 WILD-TYPE	279	178	106

Figure S122. Get High-res Image Gene #72: 'ANKRD20A4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'HIST1H3B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S810. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HIST1H3B MUTATED	0	0	1	1	0	2	0	1
HIST1H3B WILD-TYPE	21	38	113	96	108	71	19	38

'HIST1H3B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.96 (Fisher's exact test), Q value = 1

Table S811. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HIST1H3B MUTATED	1	1	2	1	0
HIST1H3B WILD-TYPE	95	151	114	88	56

'HIST1H3B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.641 (Fisher's exact test), Q value = 1

Table S812. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HIST1H3B MUTATED	3	3	1	3	1
HIST1H3B WILD-TYPE	244	360	85	228	35

'HIST1H3B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.785 (Fisher's exact test), Q value = 1

Table S813. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HIST1H3B MUTATED	3	2	1	1	2	0
HIST1H3B WILD-TYPE	125	94	155	106	107	52

'HIST1H3B MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S814. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
HIST1H3B MUTATED	3	1	1
HIST1H3B WILD-TYPE	142	130	117

'HIST1H3B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.707 (Fisher's exact test), Q value = 1

Table S815. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
HIST1H3B MUTATED	0	0	1	1	2	1
HIST1H3B WILD-TYPE	59	48	89	52	111	30

'HIST1H3B MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S816. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HIST1H3B MUTATED	6	3	2
HIST1H3B WILD-TYPE	499	276	188

'HIST1H3B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.169 (Fisher's exact test), Q value = 0.8

Table S817. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HIST1H3B MUTATED	1	5	1	2	2	0
HIST1H3B WILD-TYPE	262	146	78	259	166	52

'HIST1H3B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.71 (Fisher's exact test), Q value = 1

Table S818. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HIST1H3B MUTATED	3	1	2	5
HIST1H3B WILD-TYPE	269	176	231	271

'HIST1H3B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.178 (Fisher's exact test), Q value = 0.83

Table S819. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HIST1H3B MUTATED	7	0	1	1	0	2
HIST1H3B WILD-TYPE	268	136	205	133	87	118

'HIST1H3B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.84 (Fisher's exact test), Q value = 1

Table S820. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HIST1H3B MUTATED	3	1	1	0	1
HIST1H3B WILD-TYPE	175	119	65	92	111

'HIST1H3B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.663 (Fisher's exact test), Q value = 1

Table S821. Gene #73: 'HIST1H3B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HIST1H3B MUTATED	4	2	0
HIST1H3B WILD-TYPE	275	179	108

'MED23 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0973 (Fisher's exact test), Q value = 0.71

Table S822. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MED23 MUTATED	0	1	1	0	1	1	0	3
MED23 WILD-TYPE	21	37	113	97	107	72	19	36

'MED23 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 0.93

Table S823. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MED23 MUTATED	1	5	1	0	0
MED23 WILD-TYPE	95	147	115	89	56

'MED23 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.355 (Fisher's exact test), Q value = 0.96

Table S824. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MED23 MUTATED	3	9	1	1	0
MED23 WILD-TYPE	244	354	85	230	36

'MED23 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S825. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MED23 MUTATED	2	2	3	1	0	2
MED23 WILD-TYPE	126	94	153	106	109	50

'MED23 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.157 (Fisher's exact test), Q value = 0.78

Table S826. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MED23 MUTATED	0	3	1
MED23 WILD-TYPE	145	128	117

'MED23 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.221 (Fisher's exact test), Q value = 0.88

Table S827. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MED23 MUTATED	0	2	0	0	2	0
MED23 WILD-TYPE	59	46	90	53	111	31

'MED23 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0488 (Fisher's exact test), Q value = 0.56

Table S828. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MED23 MUTATED	7	1	6
MED23 WILD-TYPE	498	278	184

Figure S123. Get High-res Image Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'MED23 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0743 (Fisher's exact test), Q value = 0.64

Table S829. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MED23 MUTATED	3	1	1	9	0	0
MED23 WILD-TYPE	260	150	78	252	168	52

'MED23 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.356 (Fisher's exact test), Q value = 0.96

Table S830. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MED23 MUTATED	2	5	3	4
MED23 WILD-TYPE	270	172	230	272

'MED23 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.389 (Fisher's exact test), Q value = 0.98

Table S831. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MED23 MUTATED	3	1	5	3	2	0
MED23 WILD-TYPE	272	135	201	131	85	120

'MED23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 0.93

Table S832. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MED23 MUTATED	2	0	1	3	1
MED23 WILD-TYPE	176	120	65	89	111

'MED23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.416 (Fisher's exact test), Q value = 0.98

Table S833. Gene #74: 'MED23 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MED23 MUTATED	2	3	2
MED23 WILD-TYPE	277	178	106

'MUC6 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0208 (Fisher's exact test), Q value = 0.34

Table S834. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MUC6 MUTATED	2	2	0	3	1	0	0	1
MUC6 WILD-TYPE	19	36	114	94	107	73	19	38

Figure S124. Get High-res Image Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'MUC6 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S835. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MUC6 MUTATED	0	3	3	2	1
MUC6 WILD-TYPE	96	149	113	87	55

'MUC6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S836. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MUC6 MUTATED	4	4	0	6	0
MUC6 WILD-TYPE	243	359	86	225	36

'MUC6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S837. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MUC6 MUTATED	2	1	1	2	3	1
MUC6 WILD-TYPE	126	95	155	105	106	51

'MUC6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.365 (Fisher's exact test), Q value = 0.97

Table S838. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MUC6 MUTATED	4	1	4
MUC6 WILD-TYPE	141	130	114

'MUC6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.941 (Fisher's exact test), Q value = 1

Table S839. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MUC6 MUTATED	1	1	2	2	2	1
MUC6 WILD-TYPE	58	47	88	51	111	30

'MUC6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0618 (Fisher's exact test), Q value = 0.6

Table S840. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MUC6 MUTATED	4	8	2
MUC6 WILD-TYPE	501	271	188

'MUC6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.204 (Fisher's exact test), Q value = 0.86

Table S841. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MUC6 MUTATED	1	3	0	4	5	1
MUC6 WILD-TYPE	262	148	79	257	163	51

'MUC6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S842. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MUC6 MUTATED	6	1	3	4
MUC6 WILD-TYPE	266	176	230	272

'MUC6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.115 (Fisher's exact test), Q value = 0.75

Table S843. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MUC6 MUTATED	6	1	0	2	1	4
MUC6 WILD-TYPE	269	135	206	132	86	116

'MUC6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 0.93

Table S844. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MUC6 MUTATED	3	3	0	0	0
MUC6 WILD-TYPE	175	117	66	92	112

'MUC6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0503 (Fisher's exact test), Q value = 0.56

Table S845. Gene #75: 'MUC6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MUC6 MUTATED	6	0	0
MUC6 WILD-TYPE	273	181	108

'ANGPT4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 0.86

Table S846. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ANGPT4 MUTATED	0	1	1	1	0	0	1	0
ANGPT4 WILD-TYPE	21	37	113	96	108	73	18	39

'ANGPT4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S847. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ANGPT4 MUTATED	1	1	1	1	0
ANGPT4 WILD-TYPE	95	151	115	88	56

'ANGPT4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S848. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ANGPT4 MUTATED	4	2	2	2	0
ANGPT4 WILD-TYPE	243	361	84	229	36

'ANGPT4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.92

Table S849. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ANGPT4 MUTATED	2	1	0	2	0	1
ANGPT4 WILD-TYPE	126	95	156	105	109	51

'ANGPT4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S850. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ANGPT4 MUTATED	1	2	0
ANGPT4 WILD-TYPE	144	129	118

'ANGPT4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.941 (Fisher's exact test), Q value = 1

Table S851. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ANGPT4 MUTATED	0	0	1	0	2	0
ANGPT4 WILD-TYPE	59	48	89	53	111	31

'ANGPT4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.045 (Fisher's exact test), Q value = 0.53

Table S852. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ANGPT4 MUTATED	2	6	2
ANGPT4 WILD-TYPE	503	273	188

Figure S125. Get High-res Image Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ANGPT4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0451 (Fisher's exact test), Q value = 0.53

Table S853. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ANGPT4 MUTATED	1	4	1	1	1	2
ANGPT4 WILD-TYPE	262	147	78	260	167	50

Figure S126. Get High-res Image Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ANGPT4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.79

Table S854. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ANGPT4 MUTATED	6	2	1	1
ANGPT4 WILD-TYPE	266	175	232	275

'ANGPT4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S855. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ANGPT4 MUTATED	4	3	2	1	0	0
ANGPT4 WILD-TYPE	271	133	204	133	87	120

'ANGPT4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.96 (Fisher's exact test), Q value = 1

Table S856. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ANGPT4 MUTATED	1	1	1	1	1
ANGPT4 WILD-TYPE	177	119	65	91	111

'ANGPT4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.416 (Fisher's exact test), Q value = 0.98

Table S857. Gene #76: 'ANGPT4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ANGPT4 MUTATED	2	3	0
ANGPT4 WILD-TYPE	277	178	108

'PCNXL2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S858. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PCNXL2 MUTATED	0	1	5	2	3	2	0	0
PCNXL2 WILD-TYPE	21	37	109	95	105	71	19	39

'PCNXL2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.938 (Fisher's exact test), Q value = 1

Table S859. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PCNXL2 MUTATED	3	3	3	2	2
PCNXL2 WILD-TYPE	93	149	113	87	54

'PCNXL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S860. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PCNXL2 MUTATED	5	6	2	7	1
PCNXL2 WILD-TYPE	242	357	84	224	35

'PCNXL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.848 (Fisher's exact test), Q value = 1

Table S861. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PCNXL2 MUTATED	4	1	4	1	3	1
PCNXL2 WILD-TYPE	124	95	152	106	106	51

'PCNXL2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S862. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PCNXL2 MUTATED	4	4	1
PCNXL2 WILD-TYPE	141	127	117

'PCNXL2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.58 (Fisher's exact test), Q value = 1

Table S863. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PCNXL2 MUTATED	1	0	1	1	5	1
PCNXL2 WILD-TYPE	58	48	89	52	108	30

'PCNXL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.404 (Fisher's exact test), Q value = 0.98

Table S864. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PCNXL2 MUTATED	14	5	2
PCNXL2 WILD-TYPE	491	274	188

'PCNXL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.725 (Fisher's exact test), Q value = 1

Table S865. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PCNXL2 MUTATED	8	4	1	3	4	1
PCNXL2 WILD-TYPE	255	147	78	258	164	51

'PCNXL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S866. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PCNXL2 MUTATED	7	2	5	7
PCNXL2 WILD-TYPE	265	175	228	269

'PCNXL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.586 (Fisher's exact test), Q value = 1

Table S867. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PCNXL2 MUTATED	9	2	2	4	2	2
PCNXL2 WILD-TYPE	266	134	204	130	85	118

'PCNXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.972 (Fisher's exact test), Q value = 1

Table S868. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PCNXL2 MUTATED	4	2	1	1	1
PCNXL2 WILD-TYPE	174	118	65	91	111

'PCNXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S869. Gene #77: 'PCNXL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PCNXL2 MUTATED	5	2	2
PCNXL2 WILD-TYPE	274	179	106

'SLC35B2 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S870. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SLC35B2 MUTATED	0	0	1	1	1	1	0	0
SLC35B2 WILD-TYPE	21	38	113	96	107	72	19	39

'SLC35B2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.248 (Fisher's exact test), Q value = 0.91

Table S871. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SLC35B2 MUTATED	1	0	2	0	1
SLC35B2 WILD-TYPE	95	152	114	89	55

'SLC35B2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.801 (Fisher's exact test), Q value = 1

Table S872. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SLC35B2 MUTATED	1	3	1	2	0
SLC35B2 WILD-TYPE	246	360	85	229	36

'SLC35B2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.559 (Fisher's exact test), Q value = 1

Table S873. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SLC35B2 MUTATED	2	2	0
SLC35B2 WILD-TYPE	143	129	118

'SLC35B2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S874. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SLC35B2 MUTATED	1	0	2	0	1	0
SLC35B2 WILD-TYPE	58	48	88	53	112	31

'SLC35B2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S875. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SLC35B2 MUTATED	3	3	1
SLC35B2 WILD-TYPE	502	276	189

'SLC35B2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.885 (Fisher's exact test), Q value = 1

Table S876. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SLC35B2 MUTATED	2	1	0	2	1	1
SLC35B2 WILD-TYPE	261	150	79	259	167	51

'SLC35B2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S877. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SLC35B2 MUTATED	3	0	2	2
SLC35B2 WILD-TYPE	269	177	231	274

'SLC35B2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.908 (Fisher's exact test), Q value = 1

Table S878. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SLC35B2 MUTATED	3	1	1	1	1	0
SLC35B2 WILD-TYPE	272	135	205	133	86	120

'SLC35B2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.929 (Fisher's exact test), Q value = 1

Table S879. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SLC35B2 MUTATED	2	1	1	0	1
SLC35B2 WILD-TYPE	176	119	65	92	111

'SLC35B2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S880. Gene #78: 'SLC35B2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SLC35B2 MUTATED	2	2	1
SLC35B2 WILD-TYPE	277	179	107

'MKL1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.9 (Fisher's exact test), Q value = 1

Table S881. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MKL1 MUTATED	0	0	2	0	1	1	0	0
MKL1 WILD-TYPE	21	38	112	97	107	72	19	39

'MKL1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.692 (Fisher's exact test), Q value = 1

Table S882. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MKL1 MUTATED	2	1	1	0	0
MKL1 WILD-TYPE	94	151	115	89	56

'MKL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.428 (Fisher's exact test), Q value = 0.98

Table S883. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MKL1 MUTATED	3	2	0	0	0
MKL1 WILD-TYPE	244	361	86	231	36

'MKL1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S884. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MKL1 MUTATED	2	1	0
MKL1 WILD-TYPE	143	130	118

'MKL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.346 (Fisher's exact test), Q value = 0.96

Table S885. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MKL1 MUTATED	0	0	0	0	2	1
MKL1 WILD-TYPE	59	48	90	53	111	30

'MKL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S886. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MKL1 MUTATED	3	2	0
MKL1 WILD-TYPE	502	277	190

'MKL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.119 (Fisher's exact test), Q value = 0.75

Table S887. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MKL1 MUTATED	2	2	0	0	0	1
MKL1 WILD-TYPE	261	149	79	261	168	51

'MKL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S888. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MKL1 MUTATED	2	0	1	2
MKL1 WILD-TYPE	270	177	232	274

'MKL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.39 (Fisher's exact test), Q value = 0.98

Table S889. Gene #79: 'MKL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MKL1 MUTATED	3	1	0	0	1	0
MKL1 WILD-TYPE	272	135	206	134	86	120

'NBPF9 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S890. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
NBPF9 MUTATED	1	0	1	1	2	0	0	0
NBPF9 WILD-TYPE	20	38	113	96	106	73	19	39

'NBPF9 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S891. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
NBPF9 MUTATED	0	1	2	1	1
NBPF9 WILD-TYPE	96	151	114	88	55

'NBPF9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.805 (Fisher's exact test), Q value = 1

Table S892. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
NBPF9 MUTATED	1	2	1	1	0
NBPF9 WILD-TYPE	246	361	85	230	36

'NBPF9 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S893. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
NBPF9 MUTATED	2	1	2
NBPF9 WILD-TYPE	143	130	116

'NBPF9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.641 (Fisher's exact test), Q value = 1

Table S894. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
NBPF9 MUTATED	1	0	1	2	1	0
NBPF9 WILD-TYPE	58	48	89	51	112	31

'NBPF9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.6 (Fisher's exact test), Q value = 1

Table S895. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
NBPF9 MUTATED	4	1	0
NBPF9 WILD-TYPE	501	278	190

'NBPF9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.155 (Fisher's exact test), Q value = 0.78

Table S896. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
NBPF9 MUTATED	1	3	0	0	1	0
NBPF9 WILD-TYPE	262	148	79	261	167	52

'NBPF9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.145 (Fisher's exact test), Q value = 0.77

Table S897. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
NBPF9 MUTATED	2	0	3	0
NBPF9 WILD-TYPE	270	177	230	276

'NBPF9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S898. Gene #80: 'NBPF9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
NBPF9 MUTATED	2	2	0	0	1	0
NBPF9 WILD-TYPE	273	134	206	134	86	120

'PRICKLE3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 0.92

Table S899. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PRICKLE3 MUTATED	1	0	0	3	1	2	0	0
PRICKLE3 WILD-TYPE	20	38	114	94	107	71	19	39

'PRICKLE3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0267 (Fisher's exact test), Q value = 0.39

Table S900. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PRICKLE3 MUTATED	0	0	2	3	2
PRICKLE3 WILD-TYPE	96	152	114	86	54

Figure S127. Get High-res Image Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'PRICKLE3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S901. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PRICKLE3 MUTATED	2	3	2	3	0
PRICKLE3 WILD-TYPE	245	360	84	228	36

'PRICKLE3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S902. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PRICKLE3 MUTATED	1	2	1	1	0	0
PRICKLE3 WILD-TYPE	127	94	155	106	109	52

'PRICKLE3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S903. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PRICKLE3 MUTATED	4	1	2
PRICKLE3 WILD-TYPE	141	130	116

'PRICKLE3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S904. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PRICKLE3 MUTATED	0	0	2	2	2	1
PRICKLE3 WILD-TYPE	59	48	88	51	111	30

'PRICKLE3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.197 (Fisher's exact test), Q value = 0.85

Table S905. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PRICKLE3 MUTATED	4	6	1
PRICKLE3 WILD-TYPE	501	273	189

'PRICKLE3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.206 (Fisher's exact test), Q value = 0.86

Table S906. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PRICKLE3 MUTATED	2	4	0	1	3	1
PRICKLE3 WILD-TYPE	261	147	79	260	165	51

'PRICKLE3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S907. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PRICKLE3 MUTATED	4	2	1	4
PRICKLE3 WILD-TYPE	268	175	232	272

'PRICKLE3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S908. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PRICKLE3 MUTATED	2	3	1	1	1	3
PRICKLE3 WILD-TYPE	273	133	205	133	86	117

'PRICKLE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S909. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PRICKLE3 MUTATED	2	0	1	0	1
PRICKLE3 WILD-TYPE	176	120	65	92	111

'PRICKLE3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S910. Gene #81: 'PRICKLE3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PRICKLE3 MUTATED	2	2	0
PRICKLE3 WILD-TYPE	277	179	108

'CCDC82 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.459 (Fisher's exact test), Q value = 1

Table S911. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CCDC82 MUTATED	0	0	3	0	0	1	0	0
CCDC82 WILD-TYPE	21	38	111	97	108	72	19	39

'CCDC82 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.059 (Fisher's exact test), Q value = 0.6

Table S912. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CCDC82 MUTATED	3	0	1	0	0
CCDC82 WILD-TYPE	93	152	115	89	56

'CCDC82 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.93

Table S913. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CCDC82 MUTATED	0	2	1	3	0
CCDC82 WILD-TYPE	247	361	85	228	36

'CCDC82 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0372 (Fisher's exact test), Q value = 0.48

Table S914. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CCDC82 MUTATED	4	0	0
CCDC82 WILD-TYPE	141	131	118

Figure S128. Get High-res Image Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'CCDC82 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S915. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CCDC82 MUTATED	0	0	1	0	3	0
CCDC82 WILD-TYPE	59	48	89	53	110	31

'CCDC82 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.348 (Fisher's exact test), Q value = 0.96

Table S916. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CCDC82 MUTATED	5	1	0
CCDC82 WILD-TYPE	500	278	190

'CCDC82 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00251 (Fisher's exact test), Q value = 0.072

Table S917. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CCDC82 MUTATED	0	5	0	0	1	0
CCDC82 WILD-TYPE	263	146	79	261	167	52

Figure S129. Get High-res Image Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CCDC82 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.307 (Fisher's exact test), Q value = 0.93

Table S918. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CCDC82 MUTATED	4	0	1	1
CCDC82 WILD-TYPE	268	177	232	275

'CCDC82 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S919. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CCDC82 MUTATED	3	0	1	1	0	1
CCDC82 WILD-TYPE	272	136	205	133	87	119

'CCDC82 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S920. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CCDC82 MUTATED	1	1	0	0	1
CCDC82 WILD-TYPE	177	119	66	92	111

'CCDC82 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S921. Gene #82: 'CCDC82 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CCDC82 MUTATED	2	1	0
CCDC82 WILD-TYPE	277	180	108

'CXCR3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.604 (Fisher's exact test), Q value = 1

Table S922. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CXCR3 MUTATED	0	0	1	1	0	0	0	1
CXCR3 WILD-TYPE	21	38	113	96	108	73	19	38

'CXCR3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S923. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CXCR3 MUTATED	1	1	0	1	0
CXCR3 WILD-TYPE	95	151	116	88	56

'CXCR3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.78

Table S924. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CXCR3 MUTATED	0	4	0	1	1
CXCR3 WILD-TYPE	247	359	86	230	35

'CXCR3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.539 (Fisher's exact test), Q value = 1

Table S925. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CXCR3 MUTATED	0	1	2	0	0	0
CXCR3 WILD-TYPE	128	95	154	107	109	52

'CXCR3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S926. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CXCR3 MUTATED	1	1	1
CXCR3 WILD-TYPE	144	130	117

'CXCR3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.887 (Fisher's exact test), Q value = 1

Table S927. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CXCR3 MUTATED	0	0	1	1	1	0
CXCR3 WILD-TYPE	59	48	89	52	112	31

'CXCR3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.653 (Fisher's exact test), Q value = 1

Table S928. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CXCR3 MUTATED	4	2	0
CXCR3 WILD-TYPE	501	277	190

'CXCR3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S929. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CXCR3 MUTATED	1	0	1	2	1	1
CXCR3 WILD-TYPE	262	151	78	259	167	51

'CXCR3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S930. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CXCR3 MUTATED	2	2	1	1
CXCR3 WILD-TYPE	270	175	232	275

'CXCR3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S931. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CXCR3 MUTATED	3	0	1	1	0	1
CXCR3 WILD-TYPE	272	136	205	133	87	119

'CXCR3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 1

Table S932. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CXCR3 MUTATED	1	0	0	1	2
CXCR3 WILD-TYPE	177	120	66	91	110

'CXCR3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S933. Gene #83: 'CXCR3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CXCR3 MUTATED	1	2	1
CXCR3 WILD-TYPE	278	179	107

'TPP2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0857 (Fisher's exact test), Q value = 0.68

Table S934. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TPP2 MUTATED	1	0	0	0	3	0	0	0
TPP2 WILD-TYPE	20	38	114	97	105	73	19	39

'TPP2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S935. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TPP2 MUTATED	1	2	1	0	0
TPP2 WILD-TYPE	95	150	115	89	56

'TPP2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S936. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TPP2 MUTATED	4	2	0	2	0
TPP2 WILD-TYPE	243	361	86	229	36

'TPP2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 0.92

Table S937. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TPP2 MUTATED	0	0	3	0	2	0
TPP2 WILD-TYPE	128	96	153	107	107	52

'TPP2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.362 (Fisher's exact test), Q value = 0.97

Table S938. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TPP2 MUTATED	6	2	0
TPP2 WILD-TYPE	499	277	190

'TPP2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.915 (Fisher's exact test), Q value = 1

Table S939. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TPP2 MUTATED	2	2	0	2	2	0
TPP2 WILD-TYPE	261	149	79	259	166	52

'TPP2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.531 (Fisher's exact test), Q value = 1

Table S940. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TPP2 MUTATED	3	0	3	2
TPP2 WILD-TYPE	269	177	230	274

'TPP2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.879 (Fisher's exact test), Q value = 1

Table S941. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TPP2 MUTATED	2	1	1	1	1	2
TPP2 WILD-TYPE	273	135	205	133	86	118

'TPP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S942. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TPP2 MUTATED	2	2	0	0	1
TPP2 WILD-TYPE	176	118	66	92	111

'TPP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S943. Gene #84: 'TPP2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TPP2 MUTATED	4	1	0
TPP2 WILD-TYPE	275	180	108

'C15ORF39 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.605 (Fisher's exact test), Q value = 1

Table S944. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
C15ORF39 MUTATED	0	0	0	2	1	2	0	0
C15ORF39 WILD-TYPE	21	38	114	95	107	71	19	39

'C15ORF39 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S945. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
C15ORF39 MUTATED	0	1	2	2	0
C15ORF39 WILD-TYPE	96	151	114	87	56

'C15ORF39 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00456 (Fisher's exact test), Q value = 0.12

Table S946. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
C15ORF39 MUTATED	1	0	0	6	1
C15ORF39 WILD-TYPE	246	363	86	225	35

Figure S130. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'C15ORF39 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0143 (Fisher's exact test), Q value = 0.26

Table S947. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
C15ORF39 MUTATED	1	0	0	0	4	0
C15ORF39 WILD-TYPE	127	96	156	107	105	52

Figure S131. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'C15ORF39 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.519 (Fisher's exact test), Q value = 1

Table S948. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
C15ORF39 MUTATED	2	0	1
C15ORF39 WILD-TYPE	143	131	117

'C15ORF39 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.391 (Fisher's exact test), Q value = 0.98

Table S949. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
C15ORF39 MUTATED	0	0	2	1	0	0
C15ORF39 WILD-TYPE	59	48	88	52	113	31

'C15ORF39 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00705 (Fisher's exact test), Q value = 0.17

Table S950. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
C15ORF39 MUTATED	2	7	0
C15ORF39 WILD-TYPE	503	272	190

Figure S132. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'C15ORF39 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00119 (Fisher's exact test), Q value = 0.039

Table S951. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
C15ORF39 MUTATED	0	2	0	0	6	1
C15ORF39 WILD-TYPE	263	149	79	261	162	51

Figure S133. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'C15ORF39 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0231 (Fisher's exact test), Q value = 0.37

Table S952. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
C15ORF39 MUTATED	6	1	1	0
C15ORF39 WILD-TYPE	266	176	232	276

Figure S134. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'C15ORF39 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0291 (Fisher's exact test), Q value = 0.4

Table S953. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
C15ORF39 MUTATED	2	2	0	0	0	4
C15ORF39 WILD-TYPE	273	134	206	134	87	116

Figure S135. Get High-res Image Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'C15ORF39 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.403 (Fisher's exact test), Q value = 0.98

Table S954. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
C15ORF39 MUTATED	1	3	0	0	1
C15ORF39 WILD-TYPE	177	117	66	92	111

'C15ORF39 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.127 (Fisher's exact test), Q value = 0.75

Table S955. Gene #85: 'C15ORF39 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
C15ORF39 MUTATED	5	0	0
C15ORF39 WILD-TYPE	274	181	108

'CASP8 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S956. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CASP8 MUTATED	0	0	1	0	3	0	0	1
CASP8 WILD-TYPE	21	38	113	97	105	73	19	38

'CASP8 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.392 (Fisher's exact test), Q value = 0.98

Table S957. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CASP8 MUTATED	1	3	0	0	1
CASP8 WILD-TYPE	95	149	116	89	55

'CASP8 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 0.92

Table S958. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CASP8 MUTATED	1	5	3	3	0
CASP8 WILD-TYPE	246	358	83	228	36

'CASP8 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.288 (Fisher's exact test), Q value = 0.93

Table S959. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CASP8 MUTATED	0	0	4	2	2	1
CASP8 WILD-TYPE	128	96	152	105	107	51

'CASP8 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S960. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CASP8 MUTATED	1	3	1
CASP8 WILD-TYPE	144	128	117

'CASP8 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.661 (Fisher's exact test), Q value = 1

Table S961. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CASP8 MUTATED	2	1	1	0	1	0
CASP8 WILD-TYPE	57	47	89	53	112	31

'CASP8 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S962. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CASP8 MUTATED	7	3	2
CASP8 WILD-TYPE	498	276	188

'CASP8 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S963. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CASP8 MUTATED	2	2	0	5	3	0
CASP8 WILD-TYPE	261	149	79	256	165	52

'CASP8 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.449 (Fisher's exact test), Q value = 1

Table S964. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CASP8 MUTATED	4	1	5	2
CASP8 WILD-TYPE	268	176	228	274

'CASP8 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.475 (Fisher's exact test), Q value = 1

Table S965. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CASP8 MUTATED	2	2	2	3	0	3
CASP8 WILD-TYPE	273	134	204	131	87	117

'CASP8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.176 (Fisher's exact test), Q value = 0.82

Table S966. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CASP8 MUTATED	1	3	2	1	0
CASP8 WILD-TYPE	177	117	64	91	112

'CASP8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S967. Gene #86: 'CASP8 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CASP8 MUTATED	4	2	1
CASP8 WILD-TYPE	275	179	107

'TNRC6B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.519 (Fisher's exact test), Q value = 1

Table S968. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TNRC6B MUTATED	0	1	1	4	3	0	0	0
TNRC6B WILD-TYPE	21	37	113	93	105	73	19	39

'TNRC6B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.157 (Fisher's exact test), Q value = 0.78

Table S969. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TNRC6B MUTATED	1	3	0	4	1
TNRC6B WILD-TYPE	95	149	116	85	55

'TNRC6B MUTATION STATUS' versus 'CN_CNMF'

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

Table S970. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TNRC6B MUTATED	2	8	1	6	0
TNRC6B WILD-TYPE	245	355	85	225	36

'TNRC6B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 0.77

Table S971. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TNRC6B MUTATED	0	5	5	2	2	1
TNRC6B WILD-TYPE	128	91	151	105	107	51

'TNRC6B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.508 (Fisher's exact test), Q value = 1

Table S972. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TNRC6B MUTATED	4	1	2
TNRC6B WILD-TYPE	141	130	116

'TNRC6B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S973. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TNRC6B MUTATED	1	0	4	1	1	0
TNRC6B WILD-TYPE	58	48	86	52	112	31

'TNRC6B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.734 (Fisher's exact test), Q value = 1

Table S974. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TNRC6B MUTATED	10	6	2
TNRC6B WILD-TYPE	495	273	188

'TNRC6B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.327 (Fisher's exact test), Q value = 0.94

Table S975. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TNRC6B MUTATED	2	4	0	6	5	1
TNRC6B WILD-TYPE	261	147	79	255	163	51

'TNRC6B MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S976. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TNRC6B MUTATED	4	3	5	6
TNRC6B WILD-TYPE	268	174	228	270

'TNRC6B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.202 (Fisher's exact test), Q value = 0.86

Table S977. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TNRC6B MUTATED	3	2	4	6	0	3
TNRC6B WILD-TYPE	272	134	202	128	87	117

'TNRC6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S978. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TNRC6B MUTATED	2	3	1	0	2
TNRC6B WILD-TYPE	176	117	65	92	110

'TNRC6B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.369 (Fisher's exact test), Q value = 0.98

Table S979. Gene #87: 'TNRC6B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TNRC6B MUTATED	4	4	0
TNRC6B WILD-TYPE	275	177	108

'OXCT2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S980. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
OXCT2 MUTATED	0	1	0	0	1	1	0	0
OXCT2 WILD-TYPE	21	37	114	97	107	72	19	39

'OXCT2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.54 (Fisher's exact test), Q value = 1

Table S981. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
OXCT2 MUTATED	0	1	1	0	1
OXCT2 WILD-TYPE	96	151	115	89	55

'OXCT2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.896 (Fisher's exact test), Q value = 1

Table S982. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
OXCT2 MUTATED	2	1	0	1	0
OXCT2 WILD-TYPE	245	362	86	230	36

'OXCT2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S983. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
OXCT2 MUTATED	2	1	1
OXCT2 WILD-TYPE	503	278	189

'OXCT2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S984. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
OXCT2 MUTATED	1	1	0	1	0	1
OXCT2 WILD-TYPE	262	150	79	260	168	51

'OXCT2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S985. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
OXCT2 MUTATED	1	1	1	1
OXCT2 WILD-TYPE	271	176	232	275

'OXCT2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S986. Gene #88: 'OXCT2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
OXCT2 MUTATED	1	1	0	1	1	0
OXCT2 WILD-TYPE	274	135	206	133	86	120

'IRS4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 0.77

Table S987. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
IRS4 MUTATED	1	2	1	1	0	1	0	1
IRS4 WILD-TYPE	20	36	113	96	108	72	19	38

'IRS4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S988. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
IRS4 MUTATED	1	4	1	1	0
IRS4 WILD-TYPE	95	148	115	88	56

'IRS4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.223 (Fisher's exact test), Q value = 0.88

Table S989. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
IRS4 MUTATED	3	2	0	6	0
IRS4 WILD-TYPE	244	361	86	225	36

'IRS4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S990. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
IRS4 MUTATED	2	1	1	1	3	1
IRS4 WILD-TYPE	126	95	155	106	106	51

'IRS4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.381 (Fisher's exact test), Q value = 0.98

Table S991. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
IRS4 MUTATED	3	2	0
IRS4 WILD-TYPE	142	129	118

'IRS4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.845 (Fisher's exact test), Q value = 1

Table S992. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
IRS4 MUTATED	1	0	1	0	3	0
IRS4 WILD-TYPE	58	48	89	53	110	31

'IRS4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.216 (Fisher's exact test), Q value = 0.87

Table S993. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
IRS4 MUTATED	3	5	3
IRS4 WILD-TYPE	502	274	187

'IRS4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.473 (Fisher's exact test), Q value = 1

Table S994. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
IRS4 MUTATED	2	0	1	4	3	1
IRS4 WILD-TYPE	261	151	78	257	165	51

'IRS4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S995. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
IRS4 MUTATED	3	2	2	3
IRS4 WILD-TYPE	269	175	231	273

'IRS4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 0.82

Table S996. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
IRS4 MUTATED	3	3	0	3	0	1
IRS4 WILD-TYPE	272	133	206	131	87	119

'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S997. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
IRS4 MUTATED	2	1	0	0	1
IRS4 WILD-TYPE	176	119	66	92	111

'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S998. Gene #89: 'IRS4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
IRS4 MUTATED	3	1	0
IRS4 WILD-TYPE	276	180	108

'MLL4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 0.98

Table S999. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MLL4 MUTATED	1	1	4	2	0	1	0	1
MLL4 WILD-TYPE	20	37	110	95	108	72	19	38

'MLL4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1000. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MLL4 MUTATED	4	2	2	2	0
MLL4 WILD-TYPE	92	150	114	87	56

'MLL4 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1001. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MLL4 MUTATED	3	4	2	4	0
MLL4 WILD-TYPE	244	359	84	227	36

'MLL4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.222 (Fisher's exact test), Q value = 0.88

Table S1002. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MLL4 MUTATED	3	0	1	0	0	0
MLL4 WILD-TYPE	125	96	155	107	109	52

'MLL4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.75

Table S1003. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MLL4 MUTATED	6	1	1
MLL4 WILD-TYPE	139	130	117

'MLL4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1004. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MLL4 MUTATED	0	1	3	0	4	0
MLL4 WILD-TYPE	59	47	87	53	109	31

'MLL4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.533 (Fisher's exact test), Q value = 1

Table S1005. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MLL4 MUTATED	5	5	3
MLL4 WILD-TYPE	500	274	187

'MLL4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 0.93

Table S1006. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MLL4 MUTATED	2	5	0	3	2	1
MLL4 WILD-TYPE	261	146	79	258	166	51

'MLL4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.324 (Fisher's exact test), Q value = 0.94

Table S1007. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MLL4 MUTATED	7	1	2	3
MLL4 WILD-TYPE	265	176	231	273

'MLL4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0911 (Fisher's exact test), Q value = 0.69

Table S1008. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MLL4 MUTATED	7	4	1	0	0	1
MLL4 WILD-TYPE	268	132	205	134	87	119

'MLL4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 0.96

Table S1009. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MLL4 MUTATED	3	0	0	0	0
MLL4 WILD-TYPE	175	120	66	92	112

'MLL4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S1010. Gene #90: 'MLL4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MLL4 MUTATED	3	0	0
MLL4 WILD-TYPE	276	181	108

'RHOA MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1011. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RHOA MUTATED	0	0	1	1	0	1	0	0
RHOA WILD-TYPE	21	38	113	96	108	72	19	39

'RHOA MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.587 (Fisher's exact test), Q value = 1

Table S1012. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RHOA MUTATED	1	0	1	1	0
RHOA WILD-TYPE	95	152	115	88	56

'RHOA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.778 (Fisher's exact test), Q value = 1

Table S1013. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RHOA MUTATED	1	3	1	1	0
RHOA WILD-TYPE	246	360	85	230	36

'RHOA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S1014. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RHOA MUTATED	1	1	1	0	1	0
RHOA WILD-TYPE	127	95	155	107	108	52

'RHOA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.75

Table S1015. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
RHOA MUTATED	3	0	0
RHOA WILD-TYPE	142	131	118

'RHOA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1016. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
RHOA MUTATED	0	0	1	0	1	1
RHOA WILD-TYPE	59	48	89	53	112	30

'RHOA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.412 (Fisher's exact test), Q value = 0.98

Table S1017. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RHOA MUTATED	3	3	0
RHOA WILD-TYPE	502	276	190

'RHOA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.259 (Fisher's exact test), Q value = 0.92

Table S1018. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RHOA MUTATED	0	2	0	2	1	1
RHOA WILD-TYPE	263	149	79	259	167	51

'RHOA MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1019. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RHOA MUTATED	2	1	1	2
RHOA WILD-TYPE	270	176	232	274

'RHOA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S1020. Gene #91: 'RHOA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RHOA MUTATED	3	0	2	0	0	1
RHOA WILD-TYPE	272	136	204	134	87	119

'ATHL1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1021. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ATHL1 MUTATED	0	0	3	1	2	0	0	0
ATHL1 WILD-TYPE	21	38	111	96	106	73	19	39

'ATHL1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.319 (Fisher's exact test), Q value = 0.94

Table S1022. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ATHL1 MUTATED	3	2	0	1	0
ATHL1 WILD-TYPE	93	150	116	88	56

'ATHL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0851 (Fisher's exact test), Q value = 0.68

Table S1023. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ATHL1 MUTATED	3	1	0	5	1
ATHL1 WILD-TYPE	244	362	86	226	35

'ATHL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.147 (Fisher's exact test), Q value = 0.77

Table S1024. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ATHL1 MUTATED	3	2	0	0	1	1
ATHL1 WILD-TYPE	125	94	156	107	108	51

'ATHL1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S1025. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ATHL1 MUTATED	2	2	1
ATHL1 WILD-TYPE	143	129	117

'ATHL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S1026. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ATHL1 MUTATED	0	0	1	1	3	0
ATHL1 WILD-TYPE	59	48	89	52	110	31

'ATHL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.333 (Fisher's exact test), Q value = 0.95

Table S1027. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ATHL1 MUTATED	7	3	0
ATHL1 WILD-TYPE	498	276	190

'ATHL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.145 (Fisher's exact test), Q value = 0.77

Table S1028. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ATHL1 MUTATED	1	5	0	2	2	0
ATHL1 WILD-TYPE	262	146	79	259	166	52

'ATHL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.186 (Fisher's exact test), Q value = 0.84

Table S1029. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ATHL1 MUTATED	5	0	1	4
ATHL1 WILD-TYPE	267	177	232	272

'ATHL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.053 (Fisher's exact test), Q value = 0.58

Table S1030. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ATHL1 MUTATED	7	1	0	0	0	2
ATHL1 WILD-TYPE	268	135	206	134	87	118

'ATHL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.343 (Fisher's exact test), Q value = 0.96

Table S1031. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ATHL1 MUTATED	5	1	0	0	1
ATHL1 WILD-TYPE	173	119	66	92	111

'ATHL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1032. Gene #92: 'ATHL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ATHL1 MUTATED	5	1	1
ATHL1 WILD-TYPE	274	180	107

'LILRA6 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S1033. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
LILRA6 MUTATED	0	0	0	1	1	2	0	0
LILRA6 WILD-TYPE	21	38	114	96	107	71	19	39

'LILRA6 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.219 (Fisher's exact test), Q value = 0.88

Table S1034. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
LILRA6 MUTATED	0	0	2	1	1
LILRA6 WILD-TYPE	96	152	114	88	55

'LILRA6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1035. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
LILRA6 MUTATED	2	2	1	1	0
LILRA6 WILD-TYPE	245	361	85	230	36

'LILRA6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 0.86

Table S1036. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
LILRA6 MUTATED	1	3	0
LILRA6 WILD-TYPE	144	128	118

'LILRA6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1037. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
LILRA6 MUTATED	1	0	1	0	2	0
LILRA6 WILD-TYPE	58	48	89	53	111	31

'LILRA6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S1038. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
LILRA6 MUTATED	4	1	1
LILRA6 WILD-TYPE	501	278	189

'LILRA6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.677 (Fisher's exact test), Q value = 1

Table S1039. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
LILRA6 MUTATED	1	2	1	1	1	0
LILRA6 WILD-TYPE	262	149	78	260	167	52

'LILRA6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.371 (Fisher's exact test), Q value = 0.98

Table S1040. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
LILRA6 MUTATED	0	1	1	3
LILRA6 WILD-TYPE	272	176	232	273

'LILRA6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.96 (Fisher's exact test), Q value = 1

Table S1041. Gene #93: 'LILRA6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
LILRA6 MUTATED	2	0	1	1	0	1
LILRA6 WILD-TYPE	273	136	205	133	87	119

'SDC1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1042. Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SDC1 MUTATED	1	1	0	1	0
SDC1 WILD-TYPE	246	362	86	230	36

'SDC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.299 (Fisher's exact test), Q value = 0.93

Table S1043. Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SDC1 MUTATED	1	2	0
SDC1 WILD-TYPE	504	277	190

'SDC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00717 (Fisher's exact test), Q value = 0.17

Table S1044. Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SDC1 MUTATED	0	0	0	1	0	2
SDC1 WILD-TYPE	263	151	79	260	168	50

Figure S136. Get High-res Image Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'SDC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1045. Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SDC1 MUTATED	0	0	1	2
SDC1 WILD-TYPE	272	177	232	274

'SDC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1046. Gene #94: 'SDC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SDC1 MUTATED	2	0	1	0	0	0
SDC1 WILD-TYPE	273	136	205	134	87	120

'MLH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S1047. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MLH1 MUTATED	0	0	1	0	2	0	0	0
MLH1 WILD-TYPE	21	38	113	97	106	73	19	39

'MLH1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.732 (Fisher's exact test), Q value = 1

Table S1048. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MLH1 MUTATED	1	2	0	0	0
MLH1 WILD-TYPE	95	150	116	89	56

'MLH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S1049. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MLH1 MUTATED	1	3	0	2	0
MLH1 WILD-TYPE	246	360	86	229	36

'MLH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.785 (Fisher's exact test), Q value = 1

Table S1050. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MLH1 MUTATED	2	0	1	0	1	0
MLH1 WILD-TYPE	126	96	155	107	108	52

'MLH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.345 (Fisher's exact test), Q value = 0.96

Table S1051. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MLH1 MUTATED	5	1	0
MLH1 WILD-TYPE	500	278	190

'MLH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.879 (Fisher's exact test), Q value = 1

Table S1052. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MLH1 MUTATED	2	2	0	1	1	0
MLH1 WILD-TYPE	261	149	79	260	167	52

'MLH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.816 (Fisher's exact test), Q value = 1

Table S1053. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MLH1 MUTATED	2	0	2	2
MLH1 WILD-TYPE	270	177	231	274

'MLH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1054. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MLH1 MUTATED	4	0	1	0	0	1
MLH1 WILD-TYPE	271	136	205	134	87	119

'MLH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1055. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MLH1 MUTATED	2	1	0	0	1
MLH1 WILD-TYPE	176	119	66	92	111

'MLH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.822 (Fisher's exact test), Q value = 1

Table S1056. Gene #95: 'MLH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MLH1 MUTATED	3	1	0
MLH1 WILD-TYPE	276	180	108

'NUP93 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0157 (Fisher's exact test), Q value = 0.28

Table S1057. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
NUP93 MUTATED	0	0	0	3	1
NUP93 WILD-TYPE	247	363	86	228	35

Figure S137. Get High-res Image Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NUP93 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 1

Table S1058. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
NUP93 MUTATED	1	0	0	1	2	0
NUP93 WILD-TYPE	127	96	156	106	107	52

'NUP93 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.421 (Fisher's exact test), Q value = 0.98

Table S1059. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
NUP93 MUTATED	1	2	1
NUP93 WILD-TYPE	504	277	189

'NUP93 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.475 (Fisher's exact test), Q value = 1

Table S1060. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
NUP93 MUTATED	0	1	1	1	1	0
NUP93 WILD-TYPE	263	150	78	260	167	52

'NUP93 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.493 (Fisher's exact test), Q value = 1

Table S1061. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
NUP93 MUTATED	0	0	1	2
NUP93 WILD-TYPE	272	177	232	274

'NUP93 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1062. Gene #96: 'NUP93 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
NUP93 MUTATED	3	0	0	0	0	0
NUP93 WILD-TYPE	272	136	206	134	87	120

'ALDH1L1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S1063. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ALDH1L1 MUTATED	0	1	2	1	0	1	0	1
ALDH1L1 WILD-TYPE	21	37	112	96	108	72	19	38

'ALDH1L1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.92 (Fisher's exact test), Q value = 1

Table S1064. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ALDH1L1 MUTATED	2	2	1	1	0
ALDH1L1 WILD-TYPE	94	150	115	88	56

'ALDH1L1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.251 (Fisher's exact test), Q value = 0.91

Table S1065. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ALDH1L1 MUTATED	4	1	0	4	0
ALDH1L1 WILD-TYPE	243	362	86	227	36

'ALDH1L1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.177 (Fisher's exact test), Q value = 0.83

Table S1066. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ALDH1L1 MUTATED	2	0	1	0	2	2
ALDH1L1 WILD-TYPE	126	96	155	107	107	50

'ALDH1L1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.692 (Fisher's exact test), Q value = 1

Table S1067. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ALDH1L1 MUTATED	1	1	2
ALDH1L1 WILD-TYPE	144	130	116

'ALDH1L1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.258 (Fisher's exact test), Q value = 0.92

Table S1068. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ALDH1L1 MUTATED	0	1	0	2	1	0
ALDH1L1 WILD-TYPE	59	47	90	51	112	31

'ALDH1L1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.75

Table S1069. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ALDH1L1 MUTATED	2	5	2
ALDH1L1 WILD-TYPE	503	274	188

'ALDH1L1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.288 (Fisher's exact test), Q value = 0.93

Table S1070. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ALDH1L1 MUTATED	1	3	1	1	2	1
ALDH1L1 WILD-TYPE	262	148	78	260	166	51

'ALDH1L1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.283 (Fisher's exact test), Q value = 0.93

Table S1071. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ALDH1L1 MUTATED	4	2	0	3
ALDH1L1 WILD-TYPE	268	175	233	273

'ALDH1L1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.279 (Fisher's exact test), Q value = 0.93

Table S1072. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ALDH1L1 MUTATED	3	2	0	3	0	1
ALDH1L1 WILD-TYPE	272	134	206	131	87	119

'ALDH1L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S1073. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ALDH1L1 MUTATED	2	1	0	1	0
ALDH1L1 WILD-TYPE	176	119	66	91	112

'ALDH1L1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1074. Gene #97: 'ALDH1L1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ALDH1L1 MUTATED	3	1	0
ALDH1L1 WILD-TYPE	276	180	108

'TMEM120B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.92

Table S1075. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TMEM120B MUTATED	0	0	0	1	1	0	1	0
TMEM120B WILD-TYPE	21	38	114	96	107	73	18	39

'TMEM120B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.247 (Fisher's exact test), Q value = 0.91

Table S1076. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TMEM120B MUTATED	0	0	1	1	1
TMEM120B WILD-TYPE	96	152	115	88	55

'TMEM120B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.868 (Fisher's exact test), Q value = 1

Table S1077. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TMEM120B MUTATED	1	2	0	2	0
TMEM120B WILD-TYPE	246	361	86	229	36

'TMEM120B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.977 (Fisher's exact test), Q value = 1

Table S1078. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TMEM120B MUTATED	1	0	2	1	1	0
TMEM120B WILD-TYPE	127	96	154	106	108	52

'TMEM120B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.222 (Fisher's exact test), Q value = 0.88

Table S1079. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TMEM120B MUTATED	1	2	2
TMEM120B WILD-TYPE	504	277	188

'TMEM120B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S1080. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TMEM120B MUTATED	1	1	1	1	1	0
TMEM120B WILD-TYPE	262	150	78	260	167	52

'TMEM120B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S1081. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TMEM120B MUTATED	2	1	2	0
TMEM120B WILD-TYPE	270	176	231	276

'TMEM120B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.59 (Fisher's exact test), Q value = 1

Table S1082. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TMEM120B MUTATED	1	0	2	0	1	1
TMEM120B WILD-TYPE	274	136	204	134	86	119

'TMEM120B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1083. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TMEM120B MUTATED	1	1	0	0	1
TMEM120B WILD-TYPE	177	119	66	92	111

'TMEM120B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1084. Gene #98: 'TMEM120B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TMEM120B MUTATED	2	1	0
TMEM120B WILD-TYPE	277	180	108

'LRIG2 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1085. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
LRIG2 MUTATED	0	0	3	1	0	0	0	0
LRIG2 WILD-TYPE	21	38	111	96	108	73	19	39

'LRIG2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0308 (Fisher's exact test), Q value = 0.42

Table S1086. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
LRIG2 MUTATED	3	0	0	1	0
LRIG2 WILD-TYPE	93	152	116	88	56

Figure S138. Get High-res Image Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'LRIG2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.246 (Fisher's exact test), Q value = 0.91

Table S1087. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
LRIG2 MUTATED	3	1	0	2	1
LRIG2 WILD-TYPE	244	362	86	229	35

'LRIG2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.86

Table S1088. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
LRIG2 MUTATED	2	0	0	0	2	0
LRIG2 WILD-TYPE	126	96	156	107	107	52

'LRIG2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 0.86

Table S1089. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
LRIG2 MUTATED	1	3	0
LRIG2 WILD-TYPE	144	128	118

'LRIG2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1090. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
LRIG2 MUTATED	0	0	1	0	3	0
LRIG2 WILD-TYPE	59	48	89	53	110	31

'LRIG2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.461 (Fisher's exact test), Q value = 1

Table S1091. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
LRIG2 MUTATED	4	3	0
LRIG2 WILD-TYPE	501	276	190

'LRIG2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.886 (Fisher's exact test), Q value = 1

Table S1092. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
LRIG2 MUTATED	2	1	0	2	1	1
LRIG2 WILD-TYPE	261	150	79	259	167	51

'LRIG2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S1093. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
LRIG2 MUTATED	3	0	2	2
LRIG2 WILD-TYPE	269	177	231	274

'LRIG2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.608 (Fisher's exact test), Q value = 1

Table S1094. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
LRIG2 MUTATED	4	0	2	0	0	1
LRIG2 WILD-TYPE	271	136	204	134	87	119

'LRIG2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S1095. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
LRIG2 MUTATED	2	1	0	0	0
LRIG2 WILD-TYPE	176	119	66	92	112

'LRIG2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1096. Gene #99: 'LRIG2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
LRIG2 MUTATED	2	1	0
LRIG2 WILD-TYPE	277	180	108

'CCDC78 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S1097. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CCDC78 MUTATED	3	1	0	1	0
CCDC78 WILD-TYPE	244	362	86	230	36

'CCDC78 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.708 (Fisher's exact test), Q value = 1

Table S1098. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CCDC78 MUTATED	2	1	1	0	0	0
CCDC78 WILD-TYPE	126	95	155	107	109	52

'CCDC78 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S1099. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CCDC78 MUTATED	3	2	0
CCDC78 WILD-TYPE	502	277	190

'CCDC78 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1100. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CCDC78 MUTATED	1	1	0	2	0	1
CCDC78 WILD-TYPE	262	150	79	259	168	51

'CCDC78 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.389 (Fisher's exact test), Q value = 0.98

Table S1101. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CCDC78 MUTATED	1	0	3	1
CCDC78 WILD-TYPE	271	177	230	275

'CCDC78 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S1102. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CCDC78 MUTATED	3	1	1	0	0	0
CCDC78 WILD-TYPE	272	135	205	134	87	120

'CCDC78 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.848 (Fisher's exact test), Q value = 1

Table S1103. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CCDC78 MUTATED	3	1	0	0	1
CCDC78 WILD-TYPE	175	119	66	92	111

'CCDC78 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.591 (Fisher's exact test), Q value = 1

Table S1104. Gene #100: 'CCDC78 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CCDC78 MUTATED	4	1	0
CCDC78 WILD-TYPE	275	180	108

'GAL3ST1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1105. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GAL3ST1 MUTATED	2	1	0	2	0
GAL3ST1 WILD-TYPE	245	362	86	229	36

'GAL3ST1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S1106. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
GAL3ST1 MUTATED	1	0	0	1	1	0
GAL3ST1 WILD-TYPE	127	96	156	106	108	52

'GAL3ST1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1107. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GAL3ST1 MUTATED	3	1	1
GAL3ST1 WILD-TYPE	502	278	189

'GAL3ST1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1108. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GAL3ST1 MUTATED	1	1	1	1	1	0
GAL3ST1 WILD-TYPE	262	150	78	260	167	52

'GAL3ST1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 0.93

Table S1109. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GAL3ST1 MUTATED	2	2	1	0
GAL3ST1 WILD-TYPE	270	175	232	276

'GAL3ST1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.449 (Fisher's exact test), Q value = 1

Table S1110. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GAL3ST1 MUTATED	1	0	3	0	0	1
GAL3ST1 WILD-TYPE	274	136	203	134	87	119

'GAL3ST1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.262 (Fisher's exact test), Q value = 0.92

Table S1111. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
GAL3ST1 MUTATED	0	1	0	0	2
GAL3ST1 WILD-TYPE	178	119	66	92	110

'GAL3ST1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.589 (Fisher's exact test), Q value = 1

Table S1112. Gene #101: 'GAL3ST1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
GAL3ST1 MUTATED	1	2	0
GAL3ST1 WILD-TYPE	278	179	108

'FAM20C MUTATION STATUS' versus 'CN_CNMF'

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

Table S1113. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FAM20C MUTATED	1	1	1	1	0
FAM20C WILD-TYPE	246	362	85	230	36

'FAM20C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.419 (Fisher's exact test), Q value = 0.98

Table S1114. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FAM20C MUTATED	1	2	1
FAM20C WILD-TYPE	504	277	189

'FAM20C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.55 (Fisher's exact test), Q value = 1

Table S1115. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FAM20C MUTATED	1	0	0	1	1	1
FAM20C WILD-TYPE	262	151	79	260	167	51

'FAM20C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 0.75

Table S1116. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FAM20C MUTATED	3	1	0	0
FAM20C WILD-TYPE	269	176	233	276

'FAM20C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.63 (Fisher's exact test), Q value = 1

Table S1117. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FAM20C MUTATED	2	0	0	1	0	1
FAM20C WILD-TYPE	273	136	206	133	87	119

'FAM20C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1118. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
FAM20C MUTATED	0	1	0	1	1
FAM20C WILD-TYPE	178	119	66	91	111

'FAM20C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S1119. Gene #102: 'FAM20C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
FAM20C MUTATED	1	1	1
FAM20C WILD-TYPE	278	180	107

'RCC1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S1120. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RCC1 MUTATED	0	0	1	2	0	0	0	0
RCC1 WILD-TYPE	21	38	113	95	108	73	19	39

'RCC1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.112 (Fisher's exact test), Q value = 0.75

Table S1121. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RCC1 MUTATED	1	0	0	2	0
RCC1 WILD-TYPE	95	152	116	87	56

'RCC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.17 (Fisher's exact test), Q value = 0.8

Table S1122. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RCC1 MUTATED	0	1	0	1	1
RCC1 WILD-TYPE	247	362	86	230	35

'RCC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.299 (Fisher's exact test), Q value = 0.93

Table S1123. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RCC1 MUTATED	1	2	0
RCC1 WILD-TYPE	504	277	190

'RCC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S1124. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RCC1 MUTATED	0	0	0	1	2	0
RCC1 WILD-TYPE	263	151	79	260	166	52

'RCC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1125. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RCC1 MUTATED	1	0	1	1
RCC1 WILD-TYPE	271	177	232	275

'RCC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1126. Gene #103: 'RCC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RCC1 MUTATED	1	1	1	0	0	0
RCC1 WILD-TYPE	274	135	205	134	87	120

'CHD4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.233 (Fisher's exact test), Q value = 0.88

Table S1127. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CHD4 MUTATED	0	2	0	2	2	1	1	1
CHD4 WILD-TYPE	21	36	114	95	106	72	18	38

'CHD4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.355 (Fisher's exact test), Q value = 0.96

Table S1128. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CHD4 MUTATED	0	5	2	2	0
CHD4 WILD-TYPE	96	147	114	87	56

'CHD4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.848 (Fisher's exact test), Q value = 1

Table S1129. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CHD4 MUTATED	4	10	1	4	0
CHD4 WILD-TYPE	243	353	85	227	36

'CHD4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S1130. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CHD4 MUTATED	2	2	4	4	1	2
CHD4 WILD-TYPE	126	94	152	103	108	50

'CHD4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.197 (Fisher's exact test), Q value = 0.85

Table S1131. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CHD4 MUTATED	3	0	3
CHD4 WILD-TYPE	142	131	115

'CHD4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.396 (Fisher's exact test), Q value = 0.98

Table S1132. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CHD4 MUTATED	0	0	2	2	1	1
CHD4 WILD-TYPE	59	48	88	51	112	30

'CHD4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S1133. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CHD4 MUTATED	8	6	5
CHD4 WILD-TYPE	497	273	185

'CHD4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.268 (Fisher's exact test), Q value = 0.93

Table S1134. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CHD4 MUTATED	2	5	3	6	3	0
CHD4 WILD-TYPE	261	146	76	255	165	52

'CHD4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S1135. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CHD4 MUTATED	4	6	6	3
CHD4 WILD-TYPE	268	171	227	273

'CHD4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S1136. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CHD4 MUTATED	6	0	6	3	1	3
CHD4 WILD-TYPE	269	136	200	131	86	117

'CHD4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1137. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CHD4 MUTATED	3	1	2	2	3
CHD4 WILD-TYPE	175	119	64	90	109

'CHD4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.31 (Fisher's exact test), Q value = 0.93

Table S1138. Gene #104: 'CHD4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CHD4 MUTATED	3	5	3
CHD4 WILD-TYPE	276	176	105

'STAG2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.284 (Fisher's exact test), Q value = 0.93

Table S1139. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
STAG2 MUTATED	0	0	0	1	3	2	1	0
STAG2 WILD-TYPE	21	38	114	96	105	71	18	39

'STAG2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.213 (Fisher's exact test), Q value = 0.87

Table S1140. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
STAG2 MUTATED	0	1	3	1	2
STAG2 WILD-TYPE	96	151	113	88	54

'STAG2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.191 (Fisher's exact test), Q value = 0.85

Table S1141. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
STAG2 MUTATED	2	5	0	4	2
STAG2 WILD-TYPE	245	358	86	227	34

'STAG2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1142. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
STAG2 MUTATED	4	1	2	0	2	0
STAG2 WILD-TYPE	124	95	154	107	107	52

'STAG2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S1143. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
STAG2 MUTATED	3	2	1
STAG2 WILD-TYPE	142	129	117

'STAG2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.226 (Fisher's exact test), Q value = 0.88

Table S1144. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
STAG2 MUTATED	2	0	2	1	0	1
STAG2 WILD-TYPE	57	48	88	52	113	30

'STAG2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.334 (Fisher's exact test), Q value = 0.95

Table S1145. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
STAG2 MUTATED	6	6	1
STAG2 WILD-TYPE	499	273	189

'STAG2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1146. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
STAG2 MUTATED	3	3	0	4	2	1
STAG2 WILD-TYPE	260	148	79	257	166	51

'STAG2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.253 (Fisher's exact test), Q value = 0.92

Table S1147. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
STAG2 MUTATED	7	1	3	2
STAG2 WILD-TYPE	265	176	230	274

'STAG2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S1148. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
STAG2 MUTATED	4	3	1	2	1	2
STAG2 WILD-TYPE	271	133	205	132	86	118

'STAG2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.902 (Fisher's exact test), Q value = 1

Table S1149. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
STAG2 MUTATED	3	1	0	1	2
STAG2 WILD-TYPE	175	119	66	91	110

'STAG2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S1150. Gene #105: 'STAG2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
STAG2 MUTATED	5	1	1
STAG2 WILD-TYPE	274	180	107

'HIST1H2BC MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.374 (Fisher's exact test), Q value = 0.98

Table S1151. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HIST1H2BC MUTATED	0	0	0	1	1	1	1	0
HIST1H2BC WILD-TYPE	21	38	114	96	107	72	18	39

'HIST1H2BC MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0465 (Fisher's exact test), Q value = 0.54

Table S1152. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HIST1H2BC MUTATED	0	0	3	0	1
HIST1H2BC WILD-TYPE	96	152	113	89	55

Figure S139. Get High-res Image Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'HIST1H2BC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S1153. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HIST1H2BC MUTATED	1	2	1	2	0
HIST1H2BC WILD-TYPE	246	361	85	229	36

'HIST1H2BC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.295 (Fisher's exact test), Q value = 0.93

Table S1154. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HIST1H2BC MUTATED	1	0	0	2	0	0
HIST1H2BC WILD-TYPE	127	96	156	105	109	52

'HIST1H2BC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.98

Table S1155. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
HIST1H2BC MUTATED	3	1	0
HIST1H2BC WILD-TYPE	142	130	118

'HIST1H2BC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S1156. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
HIST1H2BC MUTATED	0	0	1	0	2	1
HIST1H2BC WILD-TYPE	59	48	89	53	111	30

'HIST1H2BC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0875 (Fisher's exact test), Q value = 0.68

Table S1157. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HIST1H2BC MUTATED	1	4	1
HIST1H2BC WILD-TYPE	504	275	189

'HIST1H2BC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1158. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HIST1H2BC MUTATED	1	2	0	2	1	0
HIST1H2BC WILD-TYPE	262	149	79	259	167	52

'HIST1H2BC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.742 (Fisher's exact test), Q value = 1

Table S1159. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HIST1H2BC MUTATED	1	2	1	2
HIST1H2BC WILD-TYPE	271	175	232	274

'HIST1H2BC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.857 (Fisher's exact test), Q value = 1

Table S1160. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HIST1H2BC MUTATED	3	1	2	0	0	0
HIST1H2BC WILD-TYPE	272	135	204	134	87	120

'HIST1H2BC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S1161. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HIST1H2BC MUTATED	2	1	0	0	1
HIST1H2BC WILD-TYPE	176	119	66	92	111

'HIST1H2BC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1162. Gene #106: 'HIST1H2BC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HIST1H2BC MUTATED	3	1	0
HIST1H2BC WILD-TYPE	276	180	108

'BPHL MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1163. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
BPHL MUTATED	0	0	1	0	2	1	1	0
BPHL WILD-TYPE	21	38	113	97	106	72	18	39

'BPHL MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.467 (Fisher's exact test), Q value = 1

Table S1164. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

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

'BPHL MUTATION STATUS' versus 'CN_CNMF'

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

Table S1165. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
BPHL MUTATED	1	1	1	2	0
BPHL WILD-TYPE	246	362	85	229	36

'BPHL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.688 (Fisher's exact test), Q value = 1

Table S1166. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
BPHL MUTATED	1	1	2
BPHL WILD-TYPE	144	130	116

'BPHL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.402 (Fisher's exact test), Q value = 0.98

Table S1167. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
BPHL MUTATED	1	0	0	1	1	1
BPHL WILD-TYPE	58	48	90	52	112	30

'BPHL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S1168. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
BPHL MUTATED	3	2	0
BPHL WILD-TYPE	502	277	190

'BPHL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.318 (Fisher's exact test), Q value = 0.94

Table S1169. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
BPHL MUTATED	1	0	0	3	0	1
BPHL WILD-TYPE	262	151	79	258	168	51

'BPHL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.182 (Fisher's exact test), Q value = 0.84

Table S1170. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
BPHL MUTATED	0	0	2	3
BPHL WILD-TYPE	272	177	231	273

'BPHL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.569 (Fisher's exact test), Q value = 1

Table S1171. Gene #107: 'BPHL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
BPHL MUTATED	2	1	0	1	1	0
BPHL WILD-TYPE	273	135	206	133	86	120

'ATP2A1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1172. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ATP2A1 MUTATED	0	0	1	1	1	0	0	0
ATP2A1 WILD-TYPE	21	38	113	96	107	73	19	39

'ATP2A1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S1173. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ATP2A1 MUTATED	0	2	0	1	0
ATP2A1 WILD-TYPE	96	150	116	88	56

'ATP2A1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.538 (Fisher's exact test), Q value = 1

Table S1174. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ATP2A1 MUTATED	4	3	1	2	1
ATP2A1 WILD-TYPE	243	360	85	229	35

'ATP2A1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.655 (Fisher's exact test), Q value = 1

Table S1175. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ATP2A1 MUTATED	3	2	2	0	2	0
ATP2A1 WILD-TYPE	125	94	154	107	107	52

'ATP2A1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1176. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ATP2A1 MUTATED	6	3	2
ATP2A1 WILD-TYPE	499	276	188

'ATP2A1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S1177. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ATP2A1 MUTATED	2	2	2	3	2	0
ATP2A1 WILD-TYPE	261	149	77	258	166	52

'ATP2A1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1178. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ATP2A1 MUTATED	3	2	3	3
ATP2A1 WILD-TYPE	269	175	230	273

'ATP2A1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.996 (Fisher's exact test), Q value = 1

Table S1179. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ATP2A1 MUTATED	4	2	2	1	1	1
ATP2A1 WILD-TYPE	271	134	204	133	86	119

'ATP2A1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.979 (Fisher's exact test), Q value = 1

Table S1180. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ATP2A1 MUTATED	3	1	1	1	1
ATP2A1 WILD-TYPE	175	119	65	91	111

'ATP2A1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S1181. Gene #108: 'ATP2A1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ATP2A1 MUTATED	5	1	1
ATP2A1 WILD-TYPE	274	180	107

'LRRC37A3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.036 (Fisher's exact test), Q value = 0.47

Table S1182. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
LRRC37A3 MUTATED	0	2	0	0	0	1	0	1
LRRC37A3 WILD-TYPE	21	36	114	97	108	72	19	38

Figure S140. Get High-res Image Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'LRRC37A3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.551 (Fisher's exact test), Q value = 1

Table S1183. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
LRRC37A3 MUTATED	0	3	1	0	0
LRRC37A3 WILD-TYPE	96	149	115	89	56

'LRRC37A3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S1184. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
LRRC37A3 MUTATED	4	3	0	3	0
LRRC37A3 WILD-TYPE	243	360	86	228	36

'LRRC37A3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S1185. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
LRRC37A3 MUTATED	1	1	1	2	2	1
LRRC37A3 WILD-TYPE	127	95	155	105	107	51

'LRRC37A3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S1186. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
LRRC37A3 MUTATED	1	0	2
LRRC37A3 WILD-TYPE	144	131	116

'LRRC37A3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S1187. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
LRRC37A3 MUTATED	0	0	0	1	2	0
LRRC37A3 WILD-TYPE	59	48	90	52	111	31

'LRRC37A3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1188. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
LRRC37A3 MUTATED	5	3	2
LRRC37A3 WILD-TYPE	500	276	188

'LRRC37A3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1189. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
LRRC37A3 MUTATED	1	2	0	4	3	0
LRRC37A3 WILD-TYPE	262	149	79	257	165	52

'LRRC37A3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S1190. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
LRRC37A3 MUTATED	3	3	1	3
LRRC37A3 WILD-TYPE	269	174	232	273

'LRRC37A3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 0.93

Table S1191. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
LRRC37A3 MUTATED	2	1	1	3	0	3
LRRC37A3 WILD-TYPE	273	135	205	131	87	117

'LRRC37A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.356 (Fisher's exact test), Q value = 0.96

Table S1192. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
LRRC37A3 MUTATED	1	3	0	0	2
LRRC37A3 WILD-TYPE	177	117	66	92	110

'LRRC37A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1193. Gene #109: 'LRRC37A3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
LRRC37A3 MUTATED	4	2	0
LRRC37A3 WILD-TYPE	275	179	108

'EPDR1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.314 (Fisher's exact test), Q value = 0.93

Table S1194. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
EPDR1 MUTATED	0	1	1	0	0	2	0	0
EPDR1 WILD-TYPE	21	37	113	97	108	71	19	39

'EPDR1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.82 (Fisher's exact test), Q value = 1

Table S1195. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
EPDR1 MUTATED	1	1	2	0	0
EPDR1 WILD-TYPE	95	151	114	89	56

'EPDR1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1196. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
EPDR1 MUTATED	2	1	0	2	0
EPDR1 WILD-TYPE	245	362	86	229	36

'EPDR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S1197. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
EPDR1 MUTATED	2	2	0
EPDR1 WILD-TYPE	143	129	118

'EPDR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.449 (Fisher's exact test), Q value = 1

Table S1198. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
EPDR1 MUTATED	1	0	0	0	2	1
EPDR1 WILD-TYPE	58	48	90	53	111	30

'EPDR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S1199. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
EPDR1 MUTATED	3	2	0
EPDR1 WILD-TYPE	502	277	190

'EPDR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.494 (Fisher's exact test), Q value = 1

Table S1200. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
EPDR1 MUTATED	1	1	0	2	0	1
EPDR1 WILD-TYPE	262	150	79	259	168	51

'EPDR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1201. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
EPDR1 MUTATED	1	0	2	1
EPDR1 WILD-TYPE	271	177	231	275

'EPDR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.58 (Fisher's exact test), Q value = 1

Table S1202. Gene #110: 'EPDR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
EPDR1 MUTATED	1	2	1	0	0	0
EPDR1 WILD-TYPE	274	134	205	134	87	120

'EXOC4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0113 (Fisher's exact test), Q value = 0.23

Table S1203. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
EXOC4 MUTATED	0	2	0	0	0	1	1	0
EXOC4 WILD-TYPE	21	36	114	97	108	72	18	39

Figure S141. Get High-res Image Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'EXOC4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S1204. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
EXOC4 MUTATED	0	2	2	0	0
EXOC4 WILD-TYPE	96	150	114	89	56

'EXOC4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S1205. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
EXOC4 MUTATED	3	2	0	3	0
EXOC4 WILD-TYPE	244	361	86	228	36

'EXOC4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.145 (Fisher's exact test), Q value = 0.77

Table S1206. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
EXOC4 MUTATED	3	2	0	1	0	1
EXOC4 WILD-TYPE	125	94	156	106	109	51

'EXOC4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0351 (Fisher's exact test), Q value = 0.47

Table S1207. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
EXOC4 MUTATED	1	5	2
EXOC4 WILD-TYPE	504	274	188

Figure S142. Get High-res Image Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'EXOC4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.029 (Fisher's exact test), Q value = 0.4

Table S1208. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
EXOC4 MUTATED	0	2	1	3	0	2
EXOC4 WILD-TYPE	263	149	78	258	168	50

Figure S143. Get High-res Image Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'EXOC4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1209. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
EXOC4 MUTATED	3	2	1	2
EXOC4 WILD-TYPE	269	175	232	274

'EXOC4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.745 (Fisher's exact test), Q value = 1

Table S1210. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
EXOC4 MUTATED	2	2	3	1	0	0
EXOC4 WILD-TYPE	273	134	203	133	87	120

'EXOC4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S1211. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
EXOC4 MUTATED	2	0	0	1	2
EXOC4 WILD-TYPE	176	120	66	91	110

'EXOC4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.418 (Fisher's exact test), Q value = 0.98

Table S1212. Gene #111: 'EXOC4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
EXOC4 MUTATED	2	3	0
EXOC4 WILD-TYPE	277	178	108

'C11ORF49 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.13 (Fisher's exact test), Q value = 0.75

Table S1213. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
C11ORF49 MUTATED	0	2	1	1	1
C11ORF49 WILD-TYPE	247	361	85	230	35

'C11ORF49 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.466 (Fisher's exact test), Q value = 1

Table S1214. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
C11ORF49 MUTATED	1	0	0	1	2	0
C11ORF49 WILD-TYPE	127	96	156	106	107	52

'C11ORF49 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00226 (Fisher's exact test), Q value = 0.069

Table S1215. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
C11ORF49 MUTATED	0	5	0
C11ORF49 WILD-TYPE	505	274	190

Figure S144. Get High-res Image Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'C11ORF49 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0254 (Fisher's exact test), Q value = 0.39

Table S1216. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
C11ORF49 MUTATED	0	1	0	0	3	1
C11ORF49 WILD-TYPE	263	150	79	261	165	51

Figure S145. Get High-res Image Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'C11ORF49 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 0.75

Table S1217. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
C11ORF49 MUTATED	4	0	0	1
C11ORF49 WILD-TYPE	268	177	233	275

'C11ORF49 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0693 (Fisher's exact test), Q value = 0.62

Table S1218. Gene #112: 'C11ORF49 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
C11ORF49 MUTATED	2	0	0	0	0	3
C11ORF49 WILD-TYPE	273	136	206	134	87	117

'SARM1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.56 (Fisher's exact test), Q value = 1

Table S1219. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SARM1 MUTATED	0	0	0	3	1	1	0	0
SARM1 WILD-TYPE	21	38	114	94	107	72	19	39

'SARM1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.116 (Fisher's exact test), Q value = 0.75

Table S1220. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SARM1 MUTATED	1	0	1	3	0
SARM1 WILD-TYPE	95	152	115	86	56

'SARM1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.747 (Fisher's exact test), Q value = 1

Table S1221. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SARM1 MUTATED	3	2	0	1	0
SARM1 WILD-TYPE	244	361	86	230	36

'SARM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.517 (Fisher's exact test), Q value = 1

Table S1222. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SARM1 MUTATED	2	0	1
SARM1 WILD-TYPE	143	131	117

'SARM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.13 (Fisher's exact test), Q value = 0.75

Table S1223. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SARM1 MUTATED	0	0	3	0	0	0
SARM1 WILD-TYPE	59	48	87	53	113	31

'SARM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0252 (Fisher's exact test), Q value = 0.39

Table S1224. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SARM1 MUTATED	1	5	0
SARM1 WILD-TYPE	504	274	190

Figure S146. Get High-res Image Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'SARM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0198 (Fisher's exact test), Q value = 0.33

Table S1225. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SARM1 MUTATED	0	3	0	0	3	0
SARM1 WILD-TYPE	263	148	79	261	165	52

Figure S147. Get High-res Image Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'SARM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S1226. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SARM1 MUTATED	3	1	1	1
SARM1 WILD-TYPE	269	176	232	275

'SARM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.33 (Fisher's exact test), Q value = 0.94

Table S1227. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SARM1 MUTATED	3	1	0	0	0	2
SARM1 WILD-TYPE	272	135	206	134	87	118

'SARM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.54 (Fisher's exact test), Q value = 1

Table S1228. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SARM1 MUTATED	1	2	0	0	0
SARM1 WILD-TYPE	177	118	66	92	112

'SARM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 0.93

Table S1229. Gene #113: 'SARM1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SARM1 MUTATED	3	0	0
SARM1 WILD-TYPE	276	181	108

'SP3 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1230. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SP3 MUTATED	0	0	1	0	2	1	0	0
SP3 WILD-TYPE	21	38	113	97	106	72	19	39

'SP3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.552 (Fisher's exact test), Q value = 1

Table S1231. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SP3 MUTATED	0	3	1	0	0
SP3 WILD-TYPE	96	149	115	89	56

'SP3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S1232. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SP3 MUTATED	2	3	1	0	0
SP3 WILD-TYPE	245	360	85	231	36

'SP3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.865 (Fisher's exact test), Q value = 1

Table S1233. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SP3 MUTATED	1	0	2	1	0	0
SP3 WILD-TYPE	127	96	154	106	109	52

'SP3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S1234. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SP3 MUTATED	3	2	2
SP3 WILD-TYPE	502	277	188

'SP3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1235. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SP3 MUTATED	1	2	0	4	0	0
SP3 WILD-TYPE	262	149	79	257	168	52

'SP3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 0.98

Table S1236. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SP3 MUTATED	1	0	3	3
SP3 WILD-TYPE	271	177	230	273

'SP3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.411 (Fisher's exact test), Q value = 0.98

Table S1237. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SP3 MUTATED	3	2	0	1	1	0
SP3 WILD-TYPE	272	134	206	133	86	120

'SP3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 0.93

Table S1238. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SP3 MUTATED	1	0	1	0	2
SP3 WILD-TYPE	177	120	65	92	110

'SP3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1239. Gene #114: 'SP3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SP3 MUTATED	2	1	1
SP3 WILD-TYPE	277	180	107

'ACTG1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.288 (Fisher's exact test), Q value = 0.93

Table S1240. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ACTG1 MUTATED	0	1	0	0	2	0	0	0
ACTG1 WILD-TYPE	21	37	114	97	106	73	19	39

'ACTG1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.395 (Fisher's exact test), Q value = 0.98

Table S1241. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ACTG1 MUTATED	0	2	0	0	1
ACTG1 WILD-TYPE	96	150	116	89	55

'ACTG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.891 (Fisher's exact test), Q value = 1

Table S1242. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ACTG1 MUTATED	1	4	0	2	0
ACTG1 WILD-TYPE	246	359	86	229	36

'ACTG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.78

Table S1243. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ACTG1 MUTATED	0	1	1	0	3	1
ACTG1 WILD-TYPE	128	95	155	107	106	51

'ACTG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S1244. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ACTG1 MUTATED	3	3	2
ACTG1 WILD-TYPE	502	276	188

'ACTG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.425 (Fisher's exact test), Q value = 0.98

Table S1245. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ACTG1 MUTATED	3	0	1	1	3	0
ACTG1 WILD-TYPE	260	151	78	260	165	52

'ACTG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 0.93

Table S1246. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ACTG1 MUTATED	2	2	0	4
ACTG1 WILD-TYPE	270	175	233	272

'ACTG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1247. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ACTG1 MUTATED	1	1	3	1	0	2
ACTG1 WILD-TYPE	274	135	203	133	87	118

'ACTG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.146 (Fisher's exact test), Q value = 0.77

Table S1248. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ACTG1 MUTATED	0	3	0	1	2
ACTG1 WILD-TYPE	178	117	66	91	110

'ACTG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1249. Gene #115: 'ACTG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ACTG1 MUTATED	3	2	1
ACTG1 WILD-TYPE	276	179	107

'ANXA11 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S1250. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ANXA11 MUTATED	0	0	1	0	1	0	0	1
ANXA11 WILD-TYPE	21	38	113	97	107	73	19	38

'ANXA11 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.493 (Fisher's exact test), Q value = 1

Table S1251. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ANXA11 MUTATED	1	1	0	0	1
ANXA11 WILD-TYPE	95	151	116	89	55

'ANXA11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.403 (Fisher's exact test), Q value = 0.98

Table S1252. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ANXA11 MUTATED	0	1	1	1	0
ANXA11 WILD-TYPE	247	362	85	230	36

'ANXA11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0628 (Fisher's exact test), Q value = 0.6

Table S1253. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ANXA11 MUTATED	0	3	0
ANXA11 WILD-TYPE	145	128	118

'ANXA11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S1254. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ANXA11 MUTATED	1	1	0	0	1	0
ANXA11 WILD-TYPE	58	47	90	53	112	31

'ANXA11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.592 (Fisher's exact test), Q value = 1

Table S1255. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ANXA11 MUTATED	2	0	1
ANXA11 WILD-TYPE	503	279	189

'ANXA11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S1256. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ANXA11 MUTATED	2	0	0	1	0	0
ANXA11 WILD-TYPE	261	151	79	260	168	52

'ANXA11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.183 (Fisher's exact test), Q value = 0.84

Table S1257. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ANXA11 MUTATED	0	1	2	0
ANXA11 WILD-TYPE	272	176	231	276

'ANXA11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.271 (Fisher's exact test), Q value = 0.93

Table S1258. Gene #116: 'ANXA11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ANXA11 MUTATED	1	0	0	2	0	0
ANXA11 WILD-TYPE	274	136	206	132	87	120

'OR8D1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S1259. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
OR8D1 MUTATED	0	0	0	2	2	0	0	0
OR8D1 WILD-TYPE	21	38	114	95	106	73	19	39

'OR8D1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00883 (Fisher's exact test), Q value = 0.2

Table S1260. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
OR8D1 MUTATED	0	0	0	2	2
OR8D1 WILD-TYPE	96	152	116	87	54

Figure S148. Get High-res Image Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'OR8D1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1261. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
OR8D1 MUTATED	0	3	0	1	0
OR8D1 WILD-TYPE	247	360	86	230	36

'OR8D1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.865 (Fisher's exact test), Q value = 1

Table S1262. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
OR8D1 MUTATED	1	0	1	1	2	0
OR8D1 WILD-TYPE	127	96	155	106	107	52

'OR8D1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S1263. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
OR8D1 MUTATED	1	2	1
OR8D1 WILD-TYPE	144	129	117

'OR8D1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S1264. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
OR8D1 MUTATED	0	0	2	0	2	0
OR8D1 WILD-TYPE	59	48	88	53	111	31

'OR8D1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.337 (Fisher's exact test), Q value = 0.95

Table S1265. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
OR8D1 MUTATED	2	3	0
OR8D1 WILD-TYPE	503	276	190

'OR8D1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.182 (Fisher's exact test), Q value = 0.84

Table S1266. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
OR8D1 MUTATED	2	0	0	0	3	0
OR8D1 WILD-TYPE	261	151	79	261	165	52

'OR8D1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S1267. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
OR8D1 MUTATED	1	0	2	1
OR8D1 WILD-TYPE	271	177	231	275

'OR8D1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.593 (Fisher's exact test), Q value = 1

Table S1268. Gene #117: 'OR8D1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
OR8D1 MUTATED	1	0	1	0	1	1
OR8D1 WILD-TYPE	274	136	205	134	86	119

'GYLTL1B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.419 (Fisher's exact test), Q value = 0.98

Table S1269. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GYLTL1B MUTATED	1	0	0	1	1	1	0	0
GYLTL1B WILD-TYPE	20	38	114	96	107	72	19	39

'GYLTL1B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S1270. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GYLTL1B MUTATED	0	1	1	1	1
GYLTL1B WILD-TYPE	96	151	115	88	55

'GYLTL1B MUTATION STATUS' versus 'CN_CNMF'

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

Table S1271. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GYLTL1B MUTATED	1	2	0	1	0
GYLTL1B WILD-TYPE	246	361	86	230	36

'GYLTL1B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.69 (Fisher's exact test), Q value = 1

Table S1272. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GYLTL1B MUTATED	1	1	2
GYLTL1B WILD-TYPE	144	130	116

'GYLTL1B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.358 (Fisher's exact test), Q value = 0.96

Table S1273. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GYLTL1B MUTATED	0	1	2	1	0	0
GYLTL1B WILD-TYPE	59	47	88	52	113	31

'GYLTL1B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.659 (Fisher's exact test), Q value = 1

Table S1274. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GYLTL1B MUTATED	2	2	0
GYLTL1B WILD-TYPE	503	277	190

'GYLTL1B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S1275. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GYLTL1B MUTATED	1	2	0	0	1	0
GYLTL1B WILD-TYPE	262	149	79	261	167	52

'GYLTL1B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.315 (Fisher's exact test), Q value = 0.93

Table S1276. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GYLTL1B MUTATED	2	0	2	0
GYLTL1B WILD-TYPE	270	177	231	276

'GYLTL1B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.409 (Fisher's exact test), Q value = 0.98

Table S1277. Gene #118: 'GYLTL1B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GYLTL1B MUTATED	1	1	0	0	1	1
GYLTL1B WILD-TYPE	274	135	206	134	86	119

'ANGPTL6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1278. Gene #119: 'ANGPTL6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ANGPTL6 MUTATED	0	2	0	1	0
ANGPTL6 WILD-TYPE	247	361	86	230	36

'ANGPTL6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S1279. Gene #119: 'ANGPTL6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ANGPTL6 MUTATED	1	1	1
ANGPTL6 WILD-TYPE	504	278	189

'ANGPTL6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S1280. Gene #119: 'ANGPTL6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ANGPTL6 MUTATED	0	0	0	2	1	0
ANGPTL6 WILD-TYPE	263	151	79	259	167	52

'PFKP MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.407 (Fisher's exact test), Q value = 0.98

Table S1281. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
PFKP MUTATED	0	0	3	3	0	0	0	0
PFKP WILD-TYPE	21	38	111	94	108	73	19	39

'PFKP MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0135 (Fisher's exact test), Q value = 0.26

Table S1282. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
PFKP MUTATED	3	0	0	3	0
PFKP WILD-TYPE	93	152	116	86	56

Figure S149. Get High-res Image Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'PFKP MUTATION STATUS' versus 'CN_CNMF'

P value = 0.233 (Fisher's exact test), Q value = 0.88

Table S1283. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PFKP MUTATED	2	1	0	3	1
PFKP WILD-TYPE	245	362	86	228	35

'PFKP MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.056 (Fisher's exact test), Q value = 0.59

Table S1284. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PFKP MUTATED	3	0	0	0	0	0
PFKP WILD-TYPE	125	96	156	107	109	52

'PFKP MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 0.93

Table S1285. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
PFKP MUTATED	3	0	2
PFKP WILD-TYPE	142	131	116

'PFKP MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.569 (Fisher's exact test), Q value = 1

Table S1286. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
PFKP MUTATED	0	0	3	0	2	0
PFKP WILD-TYPE	59	48	87	53	111	31

'PFKP MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.461 (Fisher's exact test), Q value = 1

Table S1287. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PFKP MUTATED	4	3	0
PFKP WILD-TYPE	501	276	190

'PFKP MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.277 (Fisher's exact test), Q value = 0.93

Table S1288. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PFKP MUTATED	3	1	0	0	3	0
PFKP WILD-TYPE	260	150	79	261	165	52

'PFKP MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.117 (Fisher's exact test), Q value = 0.75

Table S1289. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PFKP MUTATED	5	0	1	1
PFKP WILD-TYPE	267	177	232	275

'PFKP MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.21 (Fisher's exact test), Q value = 0.86

Table S1290. Gene #120: 'PFKP MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PFKP MUTATED	3	0	1	0	0	3
PFKP WILD-TYPE	272	136	205	134	87	117

'SPTAN1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S1291. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SPTAN1 MUTATED	0	0	0	2	2	1	0	0
SPTAN1 WILD-TYPE	21	38	114	95	106	72	19	39

'SPTAN1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1292. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SPTAN1 MUTATED	0	2	1	2	0
SPTAN1 WILD-TYPE	96	150	115	87	56

'SPTAN1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.32 (Fisher's exact test), Q value = 0.94

Table S1293. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SPTAN1 MUTATED	2	2	1	4	1
SPTAN1 WILD-TYPE	245	361	85	227	35

'SPTAN1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.787 (Fisher's exact test), Q value = 1

Table S1294. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SPTAN1 MUTATED	1	2	1	2	2	1
SPTAN1 WILD-TYPE	127	94	155	105	107	51

'SPTAN1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.75

Table S1295. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SPTAN1 MUTATED	3	0	0
SPTAN1 WILD-TYPE	142	131	118

'SPTAN1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.153 (Fisher's exact test), Q value = 0.78

Table S1296. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SPTAN1 MUTATED	0	0	2	0	0	1
SPTAN1 WILD-TYPE	59	48	88	53	113	30

'SPTAN1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.056 (Fisher's exact test), Q value = 0.59

Table S1297. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SPTAN1 MUTATED	3	7	1
SPTAN1 WILD-TYPE	502	272	189

'SPTAN1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1298. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SPTAN1 MUTATED	2	2	0	2	4	1
SPTAN1 WILD-TYPE	261	149	79	259	164	51

'SPTAN1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.706 (Fisher's exact test), Q value = 1

Table S1299. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SPTAN1 MUTATED	3	1	2	5
SPTAN1 WILD-TYPE	269	176	231	271

'SPTAN1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.231 (Fisher's exact test), Q value = 0.88

Table S1300. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SPTAN1 MUTATED	5	1	0	1	1	3
SPTAN1 WILD-TYPE	270	135	206	133	86	117

'SPTAN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.344 (Fisher's exact test), Q value = 0.96

Table S1301. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SPTAN1 MUTATED	2	4	1	0	1
SPTAN1 WILD-TYPE	176	116	65	92	111

'SPTAN1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 0.76

Table S1302. Gene #121: 'SPTAN1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SPTAN1 MUTATED	7	1	0
SPTAN1 WILD-TYPE	272	180	108

'LIFR MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.321 (Fisher's exact test), Q value = 0.94

Table S1303. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
LIFR MUTATED	0	0	0	0	2	2	0	1
LIFR WILD-TYPE	21	38	114	97	106	71	19	38

'LIFR MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.48 (Fisher's exact test), Q value = 1

Table S1304. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
LIFR MUTATED	0	3	2	0	0
LIFR WILD-TYPE	96	149	114	89	56

'LIFR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.165 (Fisher's exact test), Q value = 0.79

Table S1305. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
LIFR MUTATED	0	5	1	2	1
LIFR WILD-TYPE	247	358	85	229	35

'LIFR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.888 (Fisher's exact test), Q value = 1

Table S1306. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
LIFR MUTATED	1	1	1	2	1	1
LIFR WILD-TYPE	127	95	155	105	108	51

'LIFR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00754 (Fisher's exact test), Q value = 0.17

Table S1307. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
LIFR MUTATED	0	0	4
LIFR WILD-TYPE	145	131	114

Figure S150. Get High-res Image Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'LIFR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0165 (Fisher's exact test), Q value = 0.29

Table S1308. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
LIFR MUTATED	0	2	0	2	0	0
LIFR WILD-TYPE	59	46	90	51	113	31

Figure S151. Get High-res Image Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'LIFR MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1309. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
LIFR MUTATED	5	2	2
LIFR WILD-TYPE	500	277	188

'LIFR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.068 (Fisher's exact test), Q value = 0.62

Table S1310. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
LIFR MUTATED	0	3	2	2	1	1
LIFR WILD-TYPE	263	148	77	259	167	51

'LIFR MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1311. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
LIFR MUTATED	1	3	3	2
LIFR WILD-TYPE	271	174	230	274

'LIFR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1312. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
LIFR MUTATED	4	1	1	2	0	1
LIFR WILD-TYPE	271	135	205	132	87	119

'LIFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S1313. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
LIFR MUTATED	1	1	1	0	0
LIFR WILD-TYPE	177	119	65	92	112

'LIFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1314. Gene #122: 'LIFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
LIFR MUTATED	2	1	0
LIFR WILD-TYPE	277	180	108

'TTPAL MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.24 (Fisher's exact test), Q value = 0.9

Table S1315. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TTPAL MUTATED	0	1	0	2	0	0	0	0
TTPAL WILD-TYPE	21	37	114	95	108	73	19	39

'TTPAL MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.302 (Fisher's exact test), Q value = 0.93

Table S1316. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TTPAL MUTATED	0	1	0	2	0
TTPAL WILD-TYPE	96	151	116	87	56

'TTPAL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.78

Table S1317. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TTPAL MUTATED	1	0	0	3	0
TTPAL WILD-TYPE	246	363	86	228	36

'TTPAL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S1318. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TTPAL MUTATED	2	0	1
TTPAL WILD-TYPE	143	131	117

'TTPAL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.781 (Fisher's exact test), Q value = 1

Table S1319. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TTPAL MUTATED	0	0	2	0	1	0
TTPAL WILD-TYPE	59	48	88	53	112	31

'TTPAL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0497 (Fisher's exact test), Q value = 0.56

Table S1320. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TTPAL MUTATED	0	3	1
TTPAL WILD-TYPE	505	276	189

Figure S152. Get High-res Image Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'TTPAL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.396 (Fisher's exact test), Q value = 0.98

Table S1321. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TTPAL MUTATED	0	0	0	2	2	0
TTPAL WILD-TYPE	263	151	79	259	166	52

'TTPAL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S1322. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TTPAL MUTATED	2	0	0	2
TTPAL WILD-TYPE	270	177	233	274

'TTPAL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0869 (Fisher's exact test), Q value = 0.68

Table S1323. Gene #123: 'TTPAL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TTPAL MUTATED	0	1	0	1	0	2
TTPAL WILD-TYPE	275	135	206	133	87	118

'HCFC2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.031 (Fisher's exact test), Q value = 0.42

Table S1324. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HCFC2 MUTATED	1	0	1	0	0	0	1	1
HCFC2 WILD-TYPE	20	38	113	97	108	73	18	38

Figure S153. Get High-res Image Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'HCFC2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S1325. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HCFC2 MUTATED	0	3	1	0	0
HCFC2 WILD-TYPE	96	149	115	89	56

'HCFC2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.76

Table S1326. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HCFC2 MUTATED	1	4	1	2	2
HCFC2 WILD-TYPE	246	359	85	229	34

'HCFC2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.923 (Fisher's exact test), Q value = 1

Table S1327. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HCFC2 MUTATED	3	1	2	1	1	0
HCFC2 WILD-TYPE	125	95	154	106	108	52

'HCFC2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0143 (Fisher's exact test), Q value = 0.26

Table S1328. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HCFC2 MUTATED	1	5	4
HCFC2 WILD-TYPE	504	274	186

Figure S154. Get High-res Image Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'HCFC2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.246 (Fisher's exact test), Q value = 0.91

Table S1329. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HCFC2 MUTATED	1	3	2	2	1	1
HCFC2 WILD-TYPE	262	148	77	259	167	51

'HCFC2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.739 (Fisher's exact test), Q value = 1

Table S1330. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HCFC2 MUTATED	3	2	1	4
HCFC2 WILD-TYPE	269	175	232	272

'HCFC2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.985 (Fisher's exact test), Q value = 1

Table S1331. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HCFC2 MUTATED	3	1	2	2	1	1
HCFC2 WILD-TYPE	272	135	204	132	86	119

'HCFC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.61 (Fisher's exact test), Q value = 1

Table S1332. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HCFC2 MUTATED	4	1	0	0	2
HCFC2 WILD-TYPE	174	119	66	92	110

'HCFC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S1333. Gene #124: 'HCFC2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HCFC2 MUTATED	5	2	0
HCFC2 WILD-TYPE	274	179	108

'OR6C76 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.292 (Fisher's exact test), Q value = 0.93

Table S1334. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
OR6C76 MUTATED	0	0	0	1	2	0	1	0
OR6C76 WILD-TYPE	21	38	114	96	106	73	18	39

'OR6C76 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.342 (Fisher's exact test), Q value = 0.96

Table S1335. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
OR6C76 MUTATED	0	3	0	1	0
OR6C76 WILD-TYPE	96	149	116	88	56

'OR6C76 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.399 (Fisher's exact test), Q value = 0.98

Table S1336. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
OR6C76 MUTATED	1	4	1	0	0
OR6C76 WILD-TYPE	246	359	85	231	36

'OR6C76 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.939 (Fisher's exact test), Q value = 1

Table S1337. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
OR6C76 MUTATED	1	1	2	1	0	0
OR6C76 WILD-TYPE	127	95	154	106	109	52

'OR6C76 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S1338. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
OR6C76 MUTATED	1	2	0
OR6C76 WILD-TYPE	144	129	118

'OR6C76 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.485 (Fisher's exact test), Q value = 1

Table S1339. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
OR6C76 MUTATED	1	1	1	0	0	0
OR6C76 WILD-TYPE	58	47	89	53	113	31

'OR6C76 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1340. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
OR6C76 MUTATED	3	2	2
OR6C76 WILD-TYPE	502	277	188

'OR6C76 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1341. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
OR6C76 MUTATED	1	1	1	2	1	1
OR6C76 WILD-TYPE	262	150	78	259	167	51

'OR6C76 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1342. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
OR6C76 MUTATED	2	2	1	2
OR6C76 WILD-TYPE	270	175	232	274

'OR6C76 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1343. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
OR6C76 MUTATED	1	2	2	1	0	1
OR6C76 WILD-TYPE	274	134	204	133	87	119

'OR6C76 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.78

Table S1344. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
OR6C76 MUTATED	1	0	0	0	3
OR6C76 WILD-TYPE	177	120	66	92	109

'OR6C76 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.254 (Fisher's exact test), Q value = 0.92

Table S1345. Gene #125: 'OR6C76 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
OR6C76 MUTATED	1	3	0
OR6C76 WILD-TYPE	278	178	108

'ACOT2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.84

Table S1346. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ACOT2 MUTATED	0	2	0	1	1	0	0	0
ACOT2 WILD-TYPE	21	36	114	96	107	73	19	39

'ACOT2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.342 (Fisher's exact test), Q value = 0.96

Table S1347. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ACOT2 MUTATED	0	3	0	1	0
ACOT2 WILD-TYPE	96	149	116	88	56

'ACOT2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.428 (Fisher's exact test), Q value = 0.98

Table S1348. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ACOT2 MUTATED	3	2	0	0	0
ACOT2 WILD-TYPE	244	361	86	231	36

'ACOT2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1349. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ACOT2 MUTATED	0	1	1	1	0	1
ACOT2 WILD-TYPE	128	95	155	106	109	51

'ACOT2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1350. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ACOT2 MUTATED	2	1	2
ACOT2 WILD-TYPE	503	278	188

'ACOT2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S1351. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ACOT2 MUTATED	1	0	1	2	1	0
ACOT2 WILD-TYPE	262	151	78	259	167	52

'ACOT2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0162 (Fisher's exact test), Q value = 0.28

Table S1352. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ACOT2 MUTATED	0	3	2	0
ACOT2 WILD-TYPE	272	174	231	276

Figure S155. Get High-res Image Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'ACOT2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.636 (Fisher's exact test), Q value = 1

Table S1353. Gene #126: 'ACOT2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ACOT2 MUTATED	1	1	1	2	0	0
ACOT2 WILD-TYPE	274	135	205	132	87	120

'KIAA0430 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S1354. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
KIAA0430 MUTATED	0	1	3	1	1	1	1	0
KIAA0430 WILD-TYPE	21	37	111	96	107	72	18	39

'KIAA0430 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1355. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
KIAA0430 MUTATED	3	2	2	1	0
KIAA0430 WILD-TYPE	93	150	114	88	56

'KIAA0430 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.13 (Fisher's exact test), Q value = 0.75

Table S1356. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
KIAA0430 MUTATED	7	3	3	2	0
KIAA0430 WILD-TYPE	240	360	83	229	36

'KIAA0430 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.109 (Fisher's exact test), Q value = 0.75

Table S1357. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
KIAA0430 MUTATED	3	0	1	1	2	3
KIAA0430 WILD-TYPE	125	96	155	106	107	49

'KIAA0430 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.269 (Fisher's exact test), Q value = 0.93

Table S1358. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
KIAA0430 MUTATED	3	0	1
KIAA0430 WILD-TYPE	142	131	117

'KIAA0430 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S1359. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
KIAA0430 MUTATED	0	0	1	0	3	0
KIAA0430 WILD-TYPE	59	48	89	53	110	31

'KIAA0430 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S1360. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
KIAA0430 MUTATED	8	5	2
KIAA0430 WILD-TYPE	497	274	188

'KIAA0430 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S1361. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
KIAA0430 MUTATED	3	4	1	4	3	0
KIAA0430 WILD-TYPE	260	147	78	257	165	52

'KIAA0430 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1362. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
KIAA0430 MUTATED	4	3	4	4
KIAA0430 WILD-TYPE	268	174	229	272

'KIAA0430 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.65 (Fisher's exact test), Q value = 1

Table S1363. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
KIAA0430 MUTATED	7	1	2	1	2	2
KIAA0430 WILD-TYPE	268	135	204	133	85	118

'KIAA0430 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 0.78

Table S1364. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
KIAA0430 MUTATED	1	3	2	2	0
KIAA0430 WILD-TYPE	177	117	64	90	112

'KIAA0430 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.569 (Fisher's exact test), Q value = 1

Table S1365. Gene #127: 'KIAA0430 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
KIAA0430 MUTATED	5	1	2
KIAA0430 WILD-TYPE	274	180	106

'SEC14L5 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.214 (Fisher's exact test), Q value = 0.87

Table S1366. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SEC14L5 MUTATED	0	0	1	4	0	0	0	0
SEC14L5 WILD-TYPE	21	38	113	93	108	73	19	39

'SEC14L5 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00238 (Fisher's exact test), Q value = 0.071

Table S1367. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SEC14L5 MUTATED	0	0	0	4	1
SEC14L5 WILD-TYPE	96	152	116	85	55

Figure S156. Get High-res Image Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'SEC14L5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.269 (Fisher's exact test), Q value = 0.93

Table S1368. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SEC14L5 MUTATED	0	3	0	4	0
SEC14L5 WILD-TYPE	247	360	86	227	36

'SEC14L5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1369. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SEC14L5 MUTATED	0	1	0	1	1	0
SEC14L5 WILD-TYPE	128	95	156	106	108	52

'SEC14L5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 0.98

Table S1370. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SEC14L5 MUTATED	3	1	0
SEC14L5 WILD-TYPE	142	130	118

'SEC14L5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.208 (Fisher's exact test), Q value = 0.86

Table S1371. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SEC14L5 MUTATED	1	0	3	0	0	0
SEC14L5 WILD-TYPE	58	48	87	53	113	31

'SEC14L5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0525 (Fisher's exact test), Q value = 0.58

Table S1372. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SEC14L5 MUTATED	2	5	0
SEC14L5 WILD-TYPE	503	274	190

'SEC14L5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0883 (Fisher's exact test), Q value = 0.68

Table S1373. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SEC14L5 MUTATED	1	0	0	1	4	1
SEC14L5 WILD-TYPE	262	151	79	260	164	51

'SEC14L5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.75

Table S1374. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SEC14L5 MUTATED	5	0	1	1
SEC14L5 WILD-TYPE	267	177	232	275

'SEC14L5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.243 (Fisher's exact test), Q value = 0.91

Table S1375. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SEC14L5 MUTATED	1	1	2	0	0	3
SEC14L5 WILD-TYPE	274	135	204	134	87	117

'SEC14L5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.29 (Fisher's exact test), Q value = 0.93

Table S1376. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SEC14L5 MUTATED	0	2	0	0	1
SEC14L5 WILD-TYPE	178	118	66	92	111

'SEC14L5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1377. Gene #128: 'SEC14L5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SEC14L5 MUTATED	2	1	0
SEC14L5 WILD-TYPE	277	180	108

'GTF2IRD2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.57 (Fisher's exact test), Q value = 1

Table S1378. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GTF2IRD2 MUTATED	0	1	1	1	1	1	0	2
GTF2IRD2 WILD-TYPE	21	37	113	96	107	72	19	37

'GTF2IRD2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.959 (Fisher's exact test), Q value = 1

Table S1379. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GTF2IRD2 MUTATED	1	3	1	1	1
GTF2IRD2 WILD-TYPE	95	149	115	88	55

'GTF2IRD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0967 (Fisher's exact test), Q value = 0.71

Table S1380. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GTF2IRD2 MUTATED	2	1	3	2	0
GTF2IRD2 WILD-TYPE	245	362	83	229	36

'GTF2IRD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.407 (Fisher's exact test), Q value = 0.98

Table S1381. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
GTF2IRD2 MUTATED	0	0	1	0	1	1
GTF2IRD2 WILD-TYPE	128	96	155	107	108	51

'GTF2IRD2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 0.98

Table S1382. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GTF2IRD2 MUTATED	3	2	0
GTF2IRD2 WILD-TYPE	142	129	118

'GTF2IRD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.977 (Fisher's exact test), Q value = 1

Table S1383. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GTF2IRD2 MUTATED	1	1	1	0	2	0
GTF2IRD2 WILD-TYPE	58	47	89	53	111	31

'GTF2IRD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.98

Table S1384. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GTF2IRD2 MUTATED	3	2	3
GTF2IRD2 WILD-TYPE	502	277	187

'GTF2IRD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S1385. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GTF2IRD2 MUTATED	1	2	1	2	2	0
GTF2IRD2 WILD-TYPE	262	149	78	259	166	52

'GTF2IRD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.471 (Fisher's exact test), Q value = 1

Table S1386. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GTF2IRD2 MUTATED	2	3	1	1
GTF2IRD2 WILD-TYPE	270	174	232	275

'GTF2IRD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0417 (Fisher's exact test), Q value = 0.5

Table S1387. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GTF2IRD2 MUTATED	0	0	1	3	1	2
GTF2IRD2 WILD-TYPE	275	136	205	131	86	118

Figure S157. Get High-res Image Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'GTF2IRD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.128 (Fisher's exact test), Q value = 0.75

Table S1388. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
GTF2IRD2 MUTATED	0	1	0	2	0
GTF2IRD2 WILD-TYPE	178	119	66	90	112

'GTF2IRD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S1389. Gene #129: 'GTF2IRD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
GTF2IRD2 MUTATED	2	0	1
GTF2IRD2 WILD-TYPE	277	181	107

'JAK1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1390. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
JAK1 MUTATED	0	1	2	0	3	0	0	1
JAK1 WILD-TYPE	21	37	112	97	105	73	19	38

'JAK1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1391. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
JAK1 MUTATED	2	4	1	0	0
JAK1 WILD-TYPE	94	148	115	89	56

'JAK1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.673 (Fisher's exact test), Q value = 1

Table S1392. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
JAK1 MUTATED	2	4	1	2	1
JAK1 WILD-TYPE	245	359	85	229	35

'JAK1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.414 (Fisher's exact test), Q value = 0.98

Table S1393. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
JAK1 MUTATED	1	2	2	0	0	1
JAK1 WILD-TYPE	127	94	154	107	109	51

'JAK1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S1394. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
JAK1 MUTATED	2	2	1
JAK1 WILD-TYPE	143	129	117

'JAK1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.732 (Fisher's exact test), Q value = 1

Table S1395. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
JAK1 MUTATED	1	1	0	1	2	0
JAK1 WILD-TYPE	58	47	90	52	111	31

'JAK1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0412 (Fisher's exact test), Q value = 0.5

Table S1396. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
JAK1 MUTATED	7	0	4
JAK1 WILD-TYPE	498	279	186

Figure S158. Get High-res Image Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'JAK1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.193 (Fisher's exact test), Q value = 0.85

Table S1397. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
JAK1 MUTATED	2	4	0	5	0	0
JAK1 WILD-TYPE	261	147	79	256	168	52

'JAK1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 0.88

Table S1398. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
JAK1 MUTATED	1	1	3	6
JAK1 WILD-TYPE	271	176	230	270

'JAK1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.123 (Fisher's exact test), Q value = 0.75

Table S1399. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
JAK1 MUTATED	5	0	1	4	1	0
JAK1 WILD-TYPE	270	136	205	130	86	120

'JAK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.215 (Fisher's exact test), Q value = 0.87

Table S1400. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
JAK1 MUTATED	4	0	0	1	0
JAK1 WILD-TYPE	174	120	66	91	112

'JAK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 0.8

Table S1401. Gene #130: 'JAK1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
JAK1 MUTATED	3	0	2
JAK1 WILD-TYPE	276	181	106

'FGFR3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0759 (Fisher's exact test), Q value = 0.65

Table S1402. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FGFR3 MUTATED	1	0	0	1	0	0	0	1
FGFR3 WILD-TYPE	20	38	114	96	108	73	19	38

'FGFR3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.924 (Fisher's exact test), Q value = 1

Table S1403. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FGFR3 MUTATED	0	1	1	1	0
FGFR3 WILD-TYPE	96	151	115	88	56

'FGFR3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1404. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FGFR3 MUTATED	1	1	0	2	0
FGFR3 WILD-TYPE	246	362	86	229	36

'FGFR3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.415 (Fisher's exact test), Q value = 0.98

Table S1405. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FGFR3 MUTATED	1	2	1
FGFR3 WILD-TYPE	504	277	189

'FGFR3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.396 (Fisher's exact test), Q value = 0.98

Table S1406. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FGFR3 MUTATED	0	0	0	2	2	0
FGFR3 WILD-TYPE	263	151	79	259	166	52

'FGFR3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.566 (Fisher's exact test), Q value = 1

Table S1407. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FGFR3 MUTATED	2	1	1	0
FGFR3 WILD-TYPE	270	176	232	276

'FGFR3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.25 (Fisher's exact test), Q value = 0.91

Table S1408. Gene #131: 'FGFR3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FGFR3 MUTATED	1	0	0	1	0	2
FGFR3 WILD-TYPE	274	136	206	133	87	118

'FBXW7 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1409. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
FBXW7 MUTATED	0	1	1	2	2	0	0	0
FBXW7 WILD-TYPE	21	37	113	95	106	73	19	39

'FBXW7 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1410. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
FBXW7 MUTATED	1	2	0	2	1
FBXW7 WILD-TYPE	95	150	116	87	55

'FBXW7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.78

Table S1411. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
FBXW7 MUTATED	2	5	0	8	0
FBXW7 WILD-TYPE	245	358	86	223	36

'FBXW7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00408 (Fisher's exact test), Q value = 0.11

Table S1412. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
FBXW7 MUTATED	0	0	2	1	7	1
FBXW7 WILD-TYPE	128	96	154	106	102	51

Figure S159. Get High-res Image Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'FBXW7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.778 (Fisher's exact test), Q value = 1

Table S1413. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
FBXW7 MUTATED	2	1	0
FBXW7 WILD-TYPE	143	130	118

'FBXW7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1414. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
FBXW7 MUTATED	0	0	1	0	2	0
FBXW7 WILD-TYPE	59	48	89	53	111	31

'FBXW7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 0.88

Table S1415. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
FBXW7 MUTATED	7	7	1
FBXW7 WILD-TYPE	498	272	189

'FBXW7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.147 (Fisher's exact test), Q value = 0.77

Table S1416. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
FBXW7 MUTATED	3	1	0	4	7	0
FBXW7 WILD-TYPE	260	150	79	257	161	52

'FBXW7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.353 (Fisher's exact test), Q value = 0.96

Table S1417. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
FBXW7 MUTATED	7	3	3	2
FBXW7 WILD-TYPE	265	174	230	274

'FBXW7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0988 (Fisher's exact test), Q value = 0.72

Table S1418. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
FBXW7 MUTATED	3	1	3	2	0	6
FBXW7 WILD-TYPE	272	135	203	132	87	114

'FBXW7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0632 (Fisher's exact test), Q value = 0.6

Table S1419. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
FBXW7 MUTATED	1	5	0	0	2
FBXW7 WILD-TYPE	177	115	66	92	110

'FBXW7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S1420. Gene #132: 'FBXW7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
FBXW7 MUTATED	5	2	1
FBXW7 WILD-TYPE	274	179	107

'SHANK2 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.105 (Fisher's exact test), Q value = 0.75

Table S1421. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SHANK2 MUTATED	0	0	0	2	3	5	0	0
SHANK2 WILD-TYPE	21	38	114	95	105	68	19	39

'SHANK2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.197 (Fisher's exact test), Q value = 0.85

Table S1422. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SHANK2 MUTATED	0	3	5	2	0
SHANK2 WILD-TYPE	96	149	111	87	56

'SHANK2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.609 (Fisher's exact test), Q value = 1

Table S1423. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SHANK2 MUTATED	6	4	2	3	0
SHANK2 WILD-TYPE	241	359	84	228	36

'SHANK2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.559 (Fisher's exact test), Q value = 1

Table S1424. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SHANK2 MUTATED	1	3	1	1	1	1
SHANK2 WILD-TYPE	127	93	155	106	108	51

'SHANK2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0532 (Fisher's exact test), Q value = 0.58

Table S1425. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
SHANK2 MUTATED	5	1	0
SHANK2 WILD-TYPE	140	130	118

'SHANK2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.343 (Fisher's exact test), Q value = 0.96

Table S1426. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
SHANK2 MUTATED	1	0	4	0	1	0
SHANK2 WILD-TYPE	58	48	86	53	112	31

'SHANK2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1427. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SHANK2 MUTATED	10	4	1
SHANK2 WILD-TYPE	495	275	189

'SHANK2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.288 (Fisher's exact test), Q value = 0.93

Table S1428. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SHANK2 MUTATED	2	5	0	6	2	0
SHANK2 WILD-TYPE	261	146	79	255	166	52

'SHANK2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.411 (Fisher's exact test), Q value = 0.98

Table S1429. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SHANK2 MUTATED	4	3	6	2
SHANK2 WILD-TYPE	268	174	227	274

'SHANK2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.314 (Fisher's exact test), Q value = 0.93

Table S1430. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SHANK2 MUTATED	5	0	6	2	0	2
SHANK2 WILD-TYPE	270	136	200	132	87	118

'SHANK2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0788 (Fisher's exact test), Q value = 0.66

Table S1431. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
SHANK2 MUTATED	2	1	0	0	5
SHANK2 WILD-TYPE	176	119	66	92	107

'SHANK2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 0.84

Table S1432. Gene #133: 'SHANK2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
SHANK2 MUTATED	2	5	1
SHANK2 WILD-TYPE	277	176	107

'TRMT2A MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S1433. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
TRMT2A MUTATED	0	0	3	1	1	1	0	0
TRMT2A WILD-TYPE	21	38	111	96	107	72	19	39

'TRMT2A MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.92 (Fisher's exact test), Q value = 1

Table S1434. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
TRMT2A MUTATED	2	2	1	1	0
TRMT2A WILD-TYPE	94	150	115	88	56

'TRMT2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S1435. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TRMT2A MUTATED	3	2	0	2	0
TRMT2A WILD-TYPE	244	361	86	229	36

'TRMT2A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.782 (Fisher's exact test), Q value = 1

Table S1436. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TRMT2A MUTATED	2	0	1	0	1	0
TRMT2A WILD-TYPE	126	96	155	107	108	52

'TRMT2A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.393 (Fisher's exact test), Q value = 0.98

Table S1437. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
TRMT2A MUTATED	3	1	0
TRMT2A WILD-TYPE	142	130	118

'TRMT2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1438. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
TRMT2A MUTATED	1	0	1	0	2	0
TRMT2A WILD-TYPE	58	48	89	53	111	31

'TRMT2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.523 (Fisher's exact test), Q value = 1

Table S1439. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TRMT2A MUTATED	5	2	0
TRMT2A WILD-TYPE	500	277	190

'TRMT2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S1440. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TRMT2A MUTATED	2	3	0	1	1	0
TRMT2A WILD-TYPE	261	148	79	260	167	52

'TRMT2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S1441. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TRMT2A MUTATED	1	1	2	3
TRMT2A WILD-TYPE	271	176	231	273

'TRMT2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1442. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TRMT2A MUTATED	4	1	1	0	0	1
TRMT2A WILD-TYPE	271	135	205	134	87	119

'TRMT2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.552 (Fisher's exact test), Q value = 1

Table S1443. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
TRMT2A MUTATED	3	1	0	0	0
TRMT2A WILD-TYPE	175	119	66	92	112

'TRMT2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.189 (Fisher's exact test), Q value = 0.85

Table S1444. Gene #134: 'TRMT2A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
TRMT2A MUTATED	4	0	0
TRMT2A WILD-TYPE	275	181	108

'CCNL2 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1445. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CCNL2 MUTATED	0	0	1	1	1	0	0	1
CCNL2 WILD-TYPE	21	38	113	96	107	73	19	38

'CCNL2 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1446. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CCNL2 MUTATED	1	2	0	1	0
CCNL2 WILD-TYPE	95	150	116	88	56

'CCNL2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1447. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CCNL2 MUTATED	2	3	0	2	0
CCNL2 WILD-TYPE	245	360	86	229	36

'CCNL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.939 (Fisher's exact test), Q value = 1

Table S1448. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CCNL2 MUTATED	1	1	1	1	0	0
CCNL2 WILD-TYPE	127	95	155	106	109	52

'CCNL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.525 (Fisher's exact test), Q value = 1

Table S1449. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CCNL2 MUTATED	5	2	0
CCNL2 WILD-TYPE	500	277	190

'CCNL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.284 (Fisher's exact test), Q value = 0.93

Table S1450. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CCNL2 MUTATED	0	2	0	4	1	0
CCNL2 WILD-TYPE	263	149	79	257	167	52

'CCNL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.539 (Fisher's exact test), Q value = 1

Table S1451. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CCNL2 MUTATED	1	1	1	4
CCNL2 WILD-TYPE	271	176	232	272

'CCNL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 0.82

Table S1452. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CCNL2 MUTATED	3	0	0	3	0	1
CCNL2 WILD-TYPE	272	136	206	131	87	119

'CCNL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S1453. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CCNL2 MUTATED	2	1	0	0	1
CCNL2 WILD-TYPE	176	119	66	92	111

'CCNL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1454. Gene #135: 'CCNL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CCNL2 MUTATED	3	1	0
CCNL2 WILD-TYPE	276	180	108

'CLEC18B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S1455. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
CLEC18B MUTATED	0	1	1	1	0	0	0	0
CLEC18B WILD-TYPE	21	37	113	96	108	73	19	39

'CLEC18B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1456. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
CLEC18B MUTATED	1	1	1	0	0
CLEC18B WILD-TYPE	95	151	115	89	56

'CLEC18B MUTATION STATUS' versus 'CN_CNMF'

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

Table S1457. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CLEC18B MUTATED	2	1	1	2	0
CLEC18B WILD-TYPE	245	362	85	229	36

'CLEC18B MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1458. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
CLEC18B MUTATED	0	1	2	0	2	0
CLEC18B WILD-TYPE	128	95	154	107	107	52

'CLEC18B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.298 (Fisher's exact test), Q value = 0.93

Table S1459. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
CLEC18B MUTATED	1	0	2
CLEC18B WILD-TYPE	144	131	116

'CLEC18B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1460. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
CLEC18B MUTATED	0	0	1	0	2	0
CLEC18B WILD-TYPE	59	48	89	53	111	31

'CLEC18B MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1461. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CLEC18B MUTATED	2	2	2
CLEC18B WILD-TYPE	503	277	188

'CLEC18B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.752 (Fisher's exact test), Q value = 1

Table S1462. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CLEC18B MUTATED	2	2	0	2	0	0
CLEC18B WILD-TYPE	261	149	79	259	168	52

'CLEC18B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S1463. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CLEC18B MUTATED	2	1	2	1
CLEC18B WILD-TYPE	270	176	231	275

'CLEC18B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.392 (Fisher's exact test), Q value = 0.98

Table S1464. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CLEC18B MUTATED	1	1	1	1	2	0
CLEC18B WILD-TYPE	274	135	205	133	85	120

'CLEC18B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.857 (Fisher's exact test), Q value = 1

Table S1465. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
CLEC18B MUTATED	2	1	0	0	0
CLEC18B WILD-TYPE	176	119	66	92	112

'CLEC18B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.301 (Fisher's exact test), Q value = 0.93

Table S1466. Gene #136: 'CLEC18B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
CLEC18B MUTATED	3	0	0
CLEC18B WILD-TYPE	276	181	108

'RUFY1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.382 (Fisher's exact test), Q value = 0.98

Table S1467. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
RUFY1 MUTATED	1	0	1	0	1	0	0	0
RUFY1 WILD-TYPE	20	38	113	97	107	73	19	39

'RUFY1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.731 (Fisher's exact test), Q value = 1

Table S1468. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
RUFY1 MUTATED	1	2	0	0	0
RUFY1 WILD-TYPE	95	150	116	89	56

'RUFY1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 0.93

Table S1469. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
RUFY1 MUTATED	1	2	1	1	1
RUFY1 WILD-TYPE	246	361	85	230	35

'RUFY1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.526 (Fisher's exact test), Q value = 1

Table S1470. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
RUFY1 MUTATED	2	1	0	0	1	0
RUFY1 WILD-TYPE	126	95	156	107	108	52

'RUFY1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.651 (Fisher's exact test), Q value = 1

Table S1471. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
RUFY1 MUTATED	4	2	0
RUFY1 WILD-TYPE	501	277	190

'RUFY1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.241 (Fisher's exact test), Q value = 0.91

Table S1472. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
RUFY1 MUTATED	0	3	0	2	1	0
RUFY1 WILD-TYPE	263	148	79	259	167	52

'RUFY1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S1473. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
RUFY1 MUTATED	1	1	1	3
RUFY1 WILD-TYPE	271	176	232	273

'RUFY1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.133 (Fisher's exact test), Q value = 0.76

Table S1474. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
RUFY1 MUTATED	5	0	0	0	0	1
RUFY1 WILD-TYPE	270	136	206	134	87	119

'RUFY1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S1475. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
RUFY1 MUTATED	2	1	0	1	0
RUFY1 WILD-TYPE	176	119	66	91	112

'RUFY1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.409 (Fisher's exact test), Q value = 0.98

Table S1476. Gene #137: 'RUFY1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
RUFY1 MUTATED	3	0	1
RUFY1 WILD-TYPE	276	181	107

'GIPC3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S1477. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
GIPC3 MUTATED	0	0	2	0	1	0	0	0
GIPC3 WILD-TYPE	21	38	112	97	107	73	19	39

'GIPC3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.5 (Fisher's exact test), Q value = 1

Table S1478. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
GIPC3 MUTATED	1	1	0	0	1
GIPC3 WILD-TYPE	95	151	116	89	55

'GIPC3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 0.98

Table S1479. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GIPC3 MUTATED	0	1	1	1	0
GIPC3 WILD-TYPE	247	362	85	230	36

'GIPC3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.401 (Fisher's exact test), Q value = 0.98

Table S1480. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
GIPC3 MUTATED	0	2	1
GIPC3 WILD-TYPE	145	129	117

'GIPC3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0803 (Fisher's exact test), Q value = 0.67

Table S1481. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
GIPC3 MUTATED	2	1	0	0	0	0
GIPC3 WILD-TYPE	57	47	90	53	113	31

'GIPC3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 0.93

Table S1482. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GIPC3 MUTATED	4	0	0
GIPC3 WILD-TYPE	501	279	190

'GIPC3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.648 (Fisher's exact test), Q value = 1

Table S1483. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GIPC3 MUTATED	3	0	0	1	0	0
GIPC3 WILD-TYPE	260	151	79	260	168	52

'GIPC3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0779 (Fisher's exact test), Q value = 0.66

Table S1484. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GIPC3 MUTATED	1	0	3	0
GIPC3 WILD-TYPE	271	177	230	276

'GIPC3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1485. Gene #138: 'GIPC3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GIPC3 MUTATED	2	1	0	0	1	0
GIPC3 WILD-TYPE	273	135	206	134	86	120

'HPS3 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.121 (Fisher's exact test), Q value = 0.75

Table S1486. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
HPS3 MUTATED	0	0	0	2	0	2	1	0
HPS3 WILD-TYPE	21	38	114	95	108	71	18	39

'HPS3 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S1487. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
HPS3 MUTATED	0	1	2	2	0
HPS3 WILD-TYPE	96	151	114	87	56

'HPS3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.237 (Fisher's exact test), Q value = 0.9

Table S1488. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
HPS3 MUTATED	0	5	0	4	0
HPS3 WILD-TYPE	247	358	86	227	36

'HPS3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.328 (Fisher's exact test), Q value = 0.94

Table S1489. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
HPS3 MUTATED	1	0	0	2	2	0
HPS3 WILD-TYPE	127	96	156	105	107	52

'HPS3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.75

Table S1490. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
HPS3 MUTATED	3	0	0
HPS3 WILD-TYPE	142	131	118

'HPS3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.152 (Fisher's exact test), Q value = 0.78

Table S1491. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
HPS3 MUTATED	0	0	2	0	0	1
HPS3 WILD-TYPE	59	48	88	53	113	30

'HPS3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00514 (Fisher's exact test), Q value = 0.13

Table S1492. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
HPS3 MUTATED	1	7	1
HPS3 WILD-TYPE	504	272	189

Figure S160. Get High-res Image Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'HPS3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0042 (Fisher's exact test), Q value = 0.11

Table S1493. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
HPS3 MUTATED	0	0	0	2	5	2
HPS3 WILD-TYPE	263	151	79	259	163	50

Figure S161. Get High-res Image Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'HPS3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.131 (Fisher's exact test), Q value = 0.75

Table S1494. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
HPS3 MUTATED	6	1	1	1
HPS3 WILD-TYPE	266	176	232	275

'HPS3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.165 (Fisher's exact test), Q value = 0.79

Table S1495. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
HPS3 MUTATED	1	3	1	1	0	3
HPS3 WILD-TYPE	274	133	205	133	87	117

'HPS3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0601 (Fisher's exact test), Q value = 0.6

Table S1496. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
HPS3 MUTATED	0	4	0	1	1
HPS3 WILD-TYPE	178	116	66	91	111

'HPS3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.575 (Fisher's exact test), Q value = 1

Table S1497. Gene #139: 'HPS3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
HPS3 MUTATED	3	1	2
HPS3 WILD-TYPE	276	180	106

'OR2T35 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S1498. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
OR2T35 MUTATED	0	0	1	1	1	0	0	0
OR2T35 WILD-TYPE	21	38	113	96	107	73	19	39

'OR2T35 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.0951 (Fisher's exact test), Q value = 0.71

Table S1499. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
OR2T35 MUTATED	0	0	2	0	1
OR2T35 WILD-TYPE	96	152	114	89	55

'OR2T35 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1500. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
OR2T35 MUTATED	2	1	0	1	0
OR2T35 WILD-TYPE	245	362	86	230	36

'OR2T35 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1501. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
OR2T35 MUTATED	3	1	0
OR2T35 WILD-TYPE	502	278	190

'OR2T35 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.717 (Fisher's exact test), Q value = 1

Table S1502. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
OR2T35 MUTATED	2	1	0	0	1	0
OR2T35 WILD-TYPE	261	150	79	261	167	52

'OR2T35 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 0.92

Table S1503. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
OR2T35 MUTATED	1	0	0	3
OR2T35 WILD-TYPE	271	177	233	273

'OR2T35 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.533 (Fisher's exact test), Q value = 1

Table S1504. Gene #140: 'OR2T35 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
OR2T35 MUTATED	3	1	0	0	0	0
OR2T35 WILD-TYPE	272	135	206	134	87	120

'PPIL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.427 (Fisher's exact test), Q value = 0.98

Table S1505. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
PPIL2 MUTATED	1	1	1	3	0
PPIL2 WILD-TYPE	246	362	85	228	36

'PPIL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1506. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
PPIL2 MUTATED	1	1	1	0	2	0
PPIL2 WILD-TYPE	127	95	155	107	107	52

'PPIL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1507. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
PPIL2 MUTATED	3	2	1
PPIL2 WILD-TYPE	502	277	189

'PPIL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.409 (Fisher's exact test), Q value = 0.98

Table S1508. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
PPIL2 MUTATED	2	1	1	0	2	0
PPIL2 WILD-TYPE	261	150	78	261	166	52

'PPIL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.98

Table S1509. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
PPIL2 MUTATED	1	0	3	1
PPIL2 WILD-TYPE	271	177	230	275

'PPIL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1510. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
PPIL2 MUTATED	2	1	1	1	0	0
PPIL2 WILD-TYPE	273	135	205	133	87	120

'PPIL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.191 (Fisher's exact test), Q value = 0.85

Table S1511. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
PPIL2 MUTATED	0	0	1	1	1
PPIL2 WILD-TYPE	178	120	65	91	111

'PPIL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0395 (Fisher's exact test), Q value = 0.5

Table S1512. Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
PPIL2 MUTATED	0	3	0
PPIL2 WILD-TYPE	279	178	108

Figure S162. Get High-res Image Gene #141: 'PPIL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NPAS4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S1513. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
NPAS4 MUTATED	0	0	4	1	1	0	0	0
NPAS4 WILD-TYPE	21	38	110	96	107	73	19	39

'NPAS4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.148 (Fisher's exact test), Q value = 0.77

Table S1514. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
NPAS4 MUTATED	3	0	1	1	1
NPAS4 WILD-TYPE	93	152	115	88	55

'NPAS4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.216 (Fisher's exact test), Q value = 0.87

Table S1515. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
NPAS4 MUTATED	5	1	0	3	0
NPAS4 WILD-TYPE	242	362	86	228	36

'NPAS4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 0.97

Table S1516. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
NPAS4 MUTATED	3	0	1	0	2	0
NPAS4 WILD-TYPE	125	96	155	107	107	52

'NPAS4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S1517. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
NPAS4 MUTATED	1	2	1
NPAS4 WILD-TYPE	144	129	117

'NPAS4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S1518. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
NPAS4 MUTATED	0	1	1	0	2	0
NPAS4 WILD-TYPE	59	47	89	53	111	31

'NPAS4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.327 (Fisher's exact test), Q value = 0.94

Table S1519. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
NPAS4 MUTATED	6	3	0
NPAS4 WILD-TYPE	499	276	190

'NPAS4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.232 (Fisher's exact test), Q value = 0.88

Table S1520. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
NPAS4 MUTATED	4	2	0	0	3	0
NPAS4 WILD-TYPE	259	149	79	261	165	52

'NPAS4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.385 (Fisher's exact test), Q value = 0.98

Table S1521. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
NPAS4 MUTATED	4	0	3	2
NPAS4 WILD-TYPE	268	177	230	274

'NPAS4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.149 (Fisher's exact test), Q value = 0.77

Table S1522. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
NPAS4 MUTATED	2	1	1	0	3	2
NPAS4 WILD-TYPE	273	135	205	134	84	118

'NPAS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.243 (Fisher's exact test), Q value = 0.91

Table S1523. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
NPAS4 MUTATED	0	2	1	0	1
NPAS4 WILD-TYPE	178	118	65	92	111

'NPAS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1524. Gene #142: 'NPAS4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
NPAS4 MUTATED	3	1	0
NPAS4 WILD-TYPE	276	180	108

'SHISA4 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0873 (Fisher's exact test), Q value = 0.68

Table S1525. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
SHISA4 MUTATED	0	2	1	0	0	0	0	0
SHISA4 WILD-TYPE	21	36	113	97	108	73	19	39

'SHISA4 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S1526. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
SHISA4 MUTATED	1	2	0	0	0
SHISA4 WILD-TYPE	95	150	116	89	56

'SHISA4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0777 (Fisher's exact test), Q value = 0.66

Table S1527. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
SHISA4 MUTATED	2	0	0	2	1
SHISA4 WILD-TYPE	245	363	86	229	35

'SHISA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.75

Table S1528. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
SHISA4 MUTATED	0	0	0	1	2	1
SHISA4 WILD-TYPE	128	96	156	106	107	51

'SHISA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1529. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
SHISA4 MUTATED	2	1	2
SHISA4 WILD-TYPE	503	278	188

'SHISA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.269 (Fisher's exact test), Q value = 0.93

Table S1530. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
SHISA4 MUTATED	1	0	1	2	0	1
SHISA4 WILD-TYPE	262	151	78	259	168	51

'SHISA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.874 (Fisher's exact test), Q value = 1

Table S1531. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
SHISA4 MUTATED	1	1	2	1
SHISA4 WILD-TYPE	271	176	231	275

'SHISA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1532. Gene #143: 'SHISA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
SHISA4 MUTATED	2	1	1	1	0	0
SHISA4 WILD-TYPE	273	135	205	133	87	120

'MLL MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.65 (Fisher's exact test), Q value = 1

Table S1533. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
MLL MUTATED	0	2	2	1	1	2	0	1
MLL WILD-TYPE	21	36	112	96	107	71	19	38

'MLL MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1534. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
MLL MUTATED	1	5	2	1	0
MLL WILD-TYPE	95	147	114	88	56

'MLL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0596 (Fisher's exact test), Q value = 0.6

Table S1535. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
MLL MUTATED	5	3	0	7	2
MLL WILD-TYPE	242	360	86	224	34

'MLL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0858 (Fisher's exact test), Q value = 0.68

Table S1536. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
MLL MUTATED	3	2	0	1	5	1
MLL WILD-TYPE	125	94	156	106	104	51

'MLL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.688 (Fisher's exact test), Q value = 1

Table S1537. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
MLL MUTATED	3	1	2
MLL WILD-TYPE	142	130	116

'MLL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.272 (Fisher's exact test), Q value = 0.93

Table S1538. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
MLL MUTATED	1	1	1	0	1	2
MLL WILD-TYPE	58	47	89	53	112	29

'MLL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 0.91

Table S1539. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
MLL MUTATED	7	8	2
MLL WILD-TYPE	498	271	188

'MLL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.356 (Fisher's exact test), Q value = 0.96

Table S1540. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
MLL MUTATED	4	1	0	5	5	2
MLL WILD-TYPE	259	150	79	256	163	50

'MLL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.83 (Fisher's exact test), Q value = 1

Table S1541. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
MLL MUTATED	5	2	3	6
MLL WILD-TYPE	267	175	230	270

'MLL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.196 (Fisher's exact test), Q value = 0.85

Table S1542. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
MLL MUTATED	6	3	0	2	2	3
MLL WILD-TYPE	269	133	206	132	85	117

'MLL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.279 (Fisher's exact test), Q value = 0.93

Table S1543. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
MLL MUTATED	2	4	1	1	0
MLL WILD-TYPE	176	116	65	91	112

'MLL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0691 (Fisher's exact test), Q value = 0.62

Table S1544. Gene #144: 'MLL MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
MLL MUTATED	7	0	1
MLL WILD-TYPE	272	181	107

'ACVR1B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.89 (Fisher's exact test), Q value = 1

Table S1545. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ACVR1B MUTATED	0	0	1	2	2	0	0	0
ACVR1B WILD-TYPE	21	38	113	95	106	73	19	39

'ACVR1B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S1546. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ACVR1B MUTATED	1	2	1	1	0
ACVR1B WILD-TYPE	95	150	115	88	56

'ACVR1B MUTATION STATUS' versus 'CN_CNMF'

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

Table S1547. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ACVR1B MUTATED	2	2	0	2	0
ACVR1B WILD-TYPE	245	361	86	229	36

'ACVR1B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.781 (Fisher's exact test), Q value = 1

Table S1548. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ACVR1B MUTATED	2	0	1	0	1	0
ACVR1B WILD-TYPE	126	96	155	107	108	52

'ACVR1B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.558 (Fisher's exact test), Q value = 1

Table S1549. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ACVR1B MUTATED	2	2	0
ACVR1B WILD-TYPE	143	129	118

'ACVR1B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.201 (Fisher's exact test), Q value = 0.86

Table S1550. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ACVR1B MUTATED	2	0	2	0	0	0
ACVR1B WILD-TYPE	57	48	88	53	113	31

'ACVR1B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.198 (Fisher's exact test), Q value = 0.85

Table S1551. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ACVR1B MUTATED	3	4	0
ACVR1B WILD-TYPE	502	275	190

'ACVR1B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.478 (Fisher's exact test), Q value = 1

Table S1552. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ACVR1B MUTATED	1	2	0	1	3	0
ACVR1B WILD-TYPE	262	149	79	260	165	52

'ACVR1B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.373 (Fisher's exact test), Q value = 0.98

Table S1553. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ACVR1B MUTATED	3	0	3	1
ACVR1B WILD-TYPE	269	177	230	275

'ACVR1B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1554. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ACVR1B MUTATED	2	2	0	1	1	1
ACVR1B WILD-TYPE	273	134	206	133	86	119

'ACVR1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.537 (Fisher's exact test), Q value = 1

Table S1555. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ACVR1B MUTATED	1	2	0	0	0
ACVR1B WILD-TYPE	177	118	66	92	112

'ACVR1B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 0.93

Table S1556. Gene #145: 'ACVR1B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ACVR1B MUTATED	3	0	0
ACVR1B WILD-TYPE	276	181	108

'GPR158 MUTATION STATUS' versus 'CN_CNMF'

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

Table S1557. Gene #146: 'GPR158 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
GPR158 MUTATED	1	1	0	1	0
GPR158 WILD-TYPE	246	362	86	230	36

'GPR158 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S1558. Gene #146: 'GPR158 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
GPR158 MUTATED	1	2	0
GPR158 WILD-TYPE	504	277	190

'GPR158 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.456 (Fisher's exact test), Q value = 1

Table S1559. Gene #146: 'GPR158 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
GPR158 MUTATED	0	0	0	1	2	0
GPR158 WILD-TYPE	263	151	79	260	166	52

'GPR158 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.325 (Fisher's exact test), Q value = 0.94

Table S1560. Gene #146: 'GPR158 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
GPR158 MUTATED	1	0	2	0
GPR158 WILD-TYPE	271	177	231	276

'GPR158 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.306 (Fisher's exact test), Q value = 0.93

Table S1561. Gene #146: 'GPR158 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
GPR158 MUTATED	0	0	2	0	0	1
GPR158 WILD-TYPE	275	136	204	134	87	119

'ARHGEF15 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S1562. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ARHGEF15 MUTATED	1	0	4	2	1	0	0	0
ARHGEF15 WILD-TYPE	20	38	110	95	107	73	19	39

'ARHGEF15 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.199 (Fisher's exact test), Q value = 0.86

Table S1563. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ARHGEF15 MUTATED	4	1	1	2	0
ARHGEF15 WILD-TYPE	92	151	115	87	56

'ARHGEF15 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.34 (Fisher's exact test), Q value = 0.96

Table S1564. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ARHGEF15 MUTATED	4	2	0	2	1
ARHGEF15 WILD-TYPE	243	361	86	229	35

'ARHGEF15 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S1565. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ARHGEF15 MUTATED	1	0	1	1	1	0
ARHGEF15 WILD-TYPE	127	96	155	106	108	52

'ARHGEF15 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.893 (Fisher's exact test), Q value = 1

Table S1566. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	145	131	118
ARHGEF15 MUTATED	2	3	2
ARHGEF15 WILD-TYPE	143	128	116

'ARHGEF15 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S1567. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	59	48	90	53	113	31
ARHGEF15 MUTATED	2	0	2	0	3	0
ARHGEF15 WILD-TYPE	57	48	88	53	110	31

'ARHGEF15 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.328 (Fisher's exact test), Q value = 0.94

Table S1568. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ARHGEF15 MUTATED	6	3	0
ARHGEF15 WILD-TYPE	499	276	190

'ARHGEF15 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S1569. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ARHGEF15 MUTATED	3	3	0	1	2	0
ARHGEF15 WILD-TYPE	260	148	79	260	166	52

'ARHGEF15 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1570. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ARHGEF15 MUTATED	3	1	1	3
ARHGEF15 WILD-TYPE	269	176	232	273

'ARHGEF15 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1571. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ARHGEF15 MUTATED	3	2	0	1	1	1
ARHGEF15 WILD-TYPE	272	134	206	133	86	119

'ARHGEF15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S1572. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ARHGEF15 MUTATED	2	1	0	0	0
ARHGEF15 WILD-TYPE	176	119	66	92	112

'ARHGEF15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.3 (Fisher's exact test), Q value = 0.93

Table S1573. Gene #147: 'ARHGEF15 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ARHGEF15 MUTATED	3	0	0
ARHGEF15 WILD-TYPE	276	181	108

'ZNF397 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0714 (Fisher's exact test), Q value = 0.63

Table S1574. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6	CLUS_7	CLUS_8
ALL	21	38	114	97	108	73	19	39
ZNF397 MUTATED	0	1	0	0	1	0	1	0
ZNF397 WILD-TYPE	21	37	114	97	107	73	18	39

'ZNF397 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S1575. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	96	152	116	89	56
ZNF397 MUTATED	0	2	1	0	0
ZNF397 WILD-TYPE	96	150	115	89	56

'ZNF397 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.167 (Fisher's exact test), Q value = 0.8

Table S1576. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
ZNF397 MUTATED	5	1	0	1	0
ZNF397 WILD-TYPE	242	362	86	230	36

'ZNF397 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S1577. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
ZNF397 MUTATED	2	2	1	1	0	0
ZNF397 WILD-TYPE	126	94	155	106	109	52

'ZNF397 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S1578. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
ZNF397 MUTATED	4	2	1
ZNF397 WILD-TYPE	501	277	189

'ZNF397 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S1579. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
ZNF397 MUTATED	2	1	0	4	0	0
ZNF397 WILD-TYPE	261	150	79	257	168	52

'ZNF397 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.723 (Fisher's exact test), Q value = 1

Table S1580. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
ZNF397 MUTATED	1	1	3	2
ZNF397 WILD-TYPE	271	176	230	274

'ZNF397 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.652 (Fisher's exact test), Q value = 1

Table S1581. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
ZNF397 MUTATED	3	0	2	2	0	0
ZNF397 WILD-TYPE	272	136	204	132	87	120

'ZNF397 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.608 (Fisher's exact test), Q value = 1

Table S1582. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	178	120	66	92	112
ZNF397 MUTATED	2	0	1	0	1
ZNF397 WILD-TYPE	176	120	65	92	111

'ZNF397 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S1583. Gene #148: 'ZNF397 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	279	181	108
ZNF397 MUTATED	2	2	0
ZNF397 WILD-TYPE	277	179	108

'COL9A2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.309 (Fisher's exact test), Q value = 0.93

Table S1584. Gene #149: 'COL9A2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
COL9A2 MUTATED	1	0	0	2	0
COL9A2 WILD-TYPE	246	363	86	229	36

'COL9A2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.76

Table S1585. Gene #149: 'COL9A2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
COL9A2 MUTATED	0	1	0	0	2	0
COL9A2 WILD-TYPE	128	95	156	107	107	52

'COL9A2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.296 (Fisher's exact test), Q value = 0.93

Table S1586. Gene #149: 'COL9A2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
COL9A2 MUTATED	1	2	0
COL9A2 WILD-TYPE	504	277	190

'COL9A2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S1587. Gene #149: 'COL9A2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
COL9A2 MUTATED	1	0	0	0	2	0
COL9A2 WILD-TYPE	262	151	79	261	166	52

'TXNDC2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 1

Table S1588. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
TXNDC2 MUTATED	0	2	1	1	0
TXNDC2 WILD-TYPE	247	361	85	230	36

'TXNDC2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.69 (Fisher's exact test), Q value = 1

Table S1589. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	128	96	156	107	109	52
TXNDC2 MUTATED	1	0	1	0	2	0
TXNDC2 WILD-TYPE	127	96	155	107	107	52

'TXNDC2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.118 (Fisher's exact test), Q value = 0.75

Table S1590. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
TXNDC2 MUTATED	1	3	0
TXNDC2 WILD-TYPE	504	276	190

'TXNDC2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.265 (Fisher's exact test), Q value = 0.93

Table S1591. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
TXNDC2 MUTATED	1	1	0	0	1	1
TXNDC2 WILD-TYPE	262	150	79	261	167	51

'TXNDC2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.234 (Fisher's exact test), Q value = 0.88

Table S1592. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
TXNDC2 MUTATED	3	0	0	1
TXNDC2 WILD-TYPE	269	177	233	275

'TXNDC2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.644 (Fisher's exact test), Q value = 1

Table S1593. Gene #150: 'TXNDC2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
TXNDC2 MUTATED	2	1	0	0	0	1
TXNDC2 WILD-TYPE	273	135	206	134	87	119

'CD244 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.355 (Fisher's exact test), Q value = 0.96

Table S1594. Gene #151: 'CD244 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	247	363	86	231	36
CD244 MUTATED	2	0	0	1	0
CD244 WILD-TYPE	245	363	86	230	36

'CD244 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.11 (Fisher's exact test), Q value = 0.75

Table S1595. Gene #151: 'CD244 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	505	279	190
CD244 MUTATED	0	2	1
CD244 WILD-TYPE	505	277	189

'CD244 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.28 (Fisher's exact test), Q value = 0.93

Table S1596. Gene #151: 'CD244 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	263	151	79	261	168	52
CD244 MUTATED	0	2	0	1	0	0
CD244 WILD-TYPE	263	149	79	260	168	52

'CD244 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S1597. Gene #151: 'CD244 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	272	177	233	276
CD244 MUTATED	1	0	1	1
CD244 WILD-TYPE	271	177	232	275

'CD244 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S1598. Gene #151: 'CD244 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	275	136	206	134	87	120
CD244 MUTATED	2	0	1	0	0	0
CD244 WILD-TYPE	273	136	205	134	87	120

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/BRCA-TP/15165591/transformed.cor.cli.txt
Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/BRCA-TP/15246568/BRCA-TP.transferedmergedcluster.txt
Number of patients = 977
Number of significantly mutated genes = 151
Number of Molecular subtypes = 12
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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