Correlation between copy number variation genes (focal events) and molecular subtypes

Overview

Introduction

This pipeline computes the correlation between significant copy number variation (cnv focal) genes and molecular subtypes.

Summary

Testing the association between copy number variation 69 focal events and 10 molecular subtypes across 408 patients, 339 significant findings detected with P value < 0.05 and Q value < 0.25.

amp_1p34.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_1q21.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_1q23.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_2p25.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_3p25.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_3q26.33 cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_4p16.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_4q13.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_5p15.33 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_6p22.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_6q21 cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
amp_6q23.3 cnv correlated to 'CN_CNMF'.
amp_7p21.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_7p11.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_8p11.23 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CNMF'.
amp_8p11.21 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
amp_8q22.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_9p24.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_10p14 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_11p13 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_11q13.3 cnv correlated to 'CN_CNMF' and 'MRNASEQ_CNMF'.
amp_11q22.2 cnv correlated to 'CN_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_12p12.1 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_12q15 cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_13q22.1 cnv correlated to 'CN_CNMF'.
amp_16p13.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_16q22.1 cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_17q12 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_17q23.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_19q12 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_19q13.43 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_20q11.21 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
amp_22q12.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_1p36.11 cnv correlated to 'MIRSEQ_CHIERARCHICAL'.
del_1q32.1 cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
del_2q22.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_2q34 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_2q37.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_3p14.2 cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_4q22.1 cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_4q34.2 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_5q12.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_6p25.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_6q21 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_6q27 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_7q36.3 cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_8p23.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_8p21.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_9p23 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_9p21.3 cnv correlated to 'CN_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_9q22.33 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_10p11.21 cnv correlated to 'MRNASEQ_CNMF'.
del_10q23.31 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
del_11p15.5 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_11q23.3 cnv correlated to 'CN_CNMF'.
del_11q25 cnv correlated to 'CN_CNMF'.
del_12p13.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
del_12q24.33 cnv correlated to 'CN_CNMF'.
del_13q14.2 cnv correlated to 'CN_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_14q24.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_15q13.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_16p13.3 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_16q23.1 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_17p12 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_18q23 cnv correlated to 'CN_CNMF', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_19p13.3 cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_22q13.32 cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_xp11.3 cnv correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.
del_xq21.33 cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

Results

Overview of the results

Table 1. Get Full Table Overview of the association between significant copy number variation of 69 focal events and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 339 significant findings detected.


		Clinical Features	CN CNMF	METHLYATION CNMF	RPPA CNMF	RPPA CHIERARCHICAL	MRNASEQ CNMF	MRNASEQ CHIERARCHICAL	MIRSEQ CNMF	MIRSEQ CHIERARCHICAL	MIRSEQ MATURE CNMF	MIRSEQ MATURE CHIERARCHICAL
	nCNV (%)	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
del 9p23	178 (44%)	230	1e-05 (8.85e-05)	0.00026 (0.00137)	0.0222 (0.0538)	0.00441 (0.0156)	0.0248 (0.058)	0.00011 (0.00069)	0.0449 (0.0933)	0.014 (0.0379)	2e-05 (0.000162)	0.00054 (0.00264)
del 9q22 33	178 (44%)	230	2e-05 (0.000162)	1e-05 (8.85e-05)	0.00025 (0.00133)	1e-05 (8.85e-05)	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.0082 (0.0254)	0.00017 (0.000961)	1e-05 (8.85e-05)	1e-05 (8.85e-05)
amp 3p25 2	190 (47%)	218	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.224 (0.32)	0.0269 (0.0616)	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.00011 (0.00069)	3e-05 (0.000216)	1e-05 (8.85e-05)	1e-05 (8.85e-05)
amp 4p16 3	73 (18%)	335	0.0463 (0.0956)	0.0218 (0.0538)	0.00573 (0.0194)	0.00047 (0.00233)	0.00025 (0.00133)	0.00014 (0.000833)	1e-05 (8.85e-05)	0.0332 (0.0738)	0.0552 (0.109)	0.025 (0.0581)
amp 9p24 1	88 (22%)	320	1e-05 (8.85e-05)	0.0009 (0.00403)	0.0307 (0.0693)	0.00901 (0.0271)	0.0262 (0.0605)	0.00171 (0.0067)	0.694 (0.743)	0.044 (0.0918)	8e-05 (0.000516)	0.00013 (0.000787)
del 22q13 32	187 (46%)	221	1e-05 (8.85e-05)	0.00071 (0.00331)	0.0411 (0.0877)	0.00105 (0.00456)	0.0425 (0.09)	0.00182 (0.00702)	0.286 (0.38)	0.00171 (0.0067)	0.0102 (0.0296)	1e-05 (8.85e-05)
amp 17q12	166 (41%)	242	1e-05 (8.85e-05)	0.00168 (0.00666)	0.197 (0.288)	0.118 (0.196)	0.00166 (0.00666)	0.0239 (0.0565)	0.00364 (0.0134)	0.0294 (0.0665)	0.0106 (0.0307)	1e-05 (8.85e-05)
del 3p14 2	117 (29%)	291	0.00037 (0.00188)	0.153 (0.239)	0.00016 (0.00092)	0.0094 (0.0281)	1e-05 (8.85e-05)	5e-05 (0.000345)	0.881 (0.898)	6e-05 (0.000406)	0.00016 (0.00092)	1e-05 (8.85e-05)
del 4q22 1	162 (40%)	246	1e-05 (8.85e-05)	0.0608 (0.118)	0.00161 (0.00657)	0.0153 (0.0407)	0.0223 (0.0538)	0.00117 (0.00501)	0.899 (0.911)	0.00761 (0.024)	0.0242 (0.057)	0.0149 (0.0399)
del 11p15 5	211 (52%)	197	1e-05 (8.85e-05)	0.00021 (0.00116)	0.608 (0.672)	0.00025 (0.00133)	0.00149 (0.00619)	1e-05 (8.85e-05)	0.0222 (0.0538)	0.3 (0.394)	0.0134 (0.0369)	0.0127 (0.0353)
del 13q14 2	156 (38%)	252	1e-05 (8.85e-05)	0.204 (0.298)	3e-05 (0.000216)	0.0163 (0.0428)	0.0221 (0.0538)	0.00986 (0.0288)	0.537 (0.612)	0.00033 (0.0017)	0.0061 (0.0202)	1e-05 (8.85e-05)
del 14q24 1	137 (34%)	271	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.947 (0.955)	0.0844 (0.153)	0.00665 (0.0215)	1e-05 (8.85e-05)	0.00698 (0.0224)	0.00089 (0.00401)	0.00366 (0.0134)	2e-05 (0.000162)
amp 1q23 3	216 (53%)	192	1e-05 (8.85e-05)	0.0109 (0.0311)	0.0616 (0.118)	0.859 (0.884)	0.158 (0.243)	0.0253 (0.0586)	0.00174 (0.00678)	0.00305 (0.0114)	0.0429 (0.0902)	0.00159 (0.00653)
amp 5p15 33	205 (50%)	203	1e-05 (8.85e-05)	0.00827 (0.0255)	0.00039 (0.00196)	0.00964 (0.0284)	0.412 (0.504)	0.0179 (0.0463)	0.485 (0.569)	3e-05 (0.000216)	0.32 (0.412)	0.00119 (0.00504)
del 8p21 3	252 (62%)	156	1e-05 (8.85e-05)	3e-05 (0.000216)	0.118 (0.196)	0.0329 (0.0734)	0.49 (0.571)	0.00952 (0.0282)	0.0171 (0.0445)	0.00766 (0.024)	0.149 (0.233)	0.0006 (0.0029)
amp 7p21 1	201 (49%)	207	1e-05 (8.85e-05)	0.00269 (0.0101)	0.0224 (0.0539)	0.0953 (0.167)	0.703 (0.751)	0.0238 (0.0563)	0.17 (0.257)	0.00734 (0.0233)	0.399 (0.49)	1e-05 (8.85e-05)
amp 8q22 3	264 (65%)	144	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.0119 (0.0334)	0.833 (0.866)	0.333 (0.423)	0.256 (0.35)	0.0185 (0.0471)	0.00588 (0.0196)	0.0704 (0.131)	0.00015 (0.000885)
amp 11p13	51 (12%)	357	1e-05 (8.85e-05)	0.00508 (0.0176)	0.00119 (0.00504)	0.0373 (0.081)	0.0579 (0.113)	0.00074 (0.0034)	0.251 (0.346)	0.12 (0.199)	0.0523 (0.105)	0.00319 (0.0118)
amp 12q15	118 (29%)	290	0.00117 (0.00501)	0.14 (0.226)	0.886 (0.902)	0.58 (0.648)	0.00434 (0.0155)	0.00834 (0.0255)	0.214 (0.309)	0.021 (0.0524)	0.00733 (0.0233)	0.0004 (0.002)
del 2q37 1	208 (51%)	200	1e-05 (8.85e-05)	0.00014 (0.000833)	0.0542 (0.108)	0.589 (0.655)	0.061 (0.118)	0.0486 (0.099)	0.0133 (0.0367)	0.0462 (0.0956)	0.142 (0.227)	0.00443 (0.0156)
del 5q12 1	202 (50%)	206	1e-05 (8.85e-05)	0.00019 (0.00106)	0.0739 (0.137)	0.268 (0.363)	0.652 (0.704)	0.00443 (0.0156)	0.022 (0.0538)	0.00012 (0.000746)	0.0595 (0.116)	0.00076 (0.00345)
del 6p25 3	106 (26%)	302	1e-05 (8.85e-05)	0.0007 (0.00329)	0.0386 (0.0833)	0.896 (0.909)	0.422 (0.514)	0.0156 (0.041)	0.249 (0.345)	0.0317 (0.0712)	0.0519 (0.105)	0.00769 (0.024)
del 6q27	190 (47%)	218	1e-05 (8.85e-05)	0.0272 (0.0623)	0.21 (0.305)	0.0821 (0.15)	0.542 (0.616)	0.0108 (0.031)	0.0236 (0.0562)	3e-05 (0.000216)	0.375 (0.464)	1e-05 (8.85e-05)
del 8p23 3	242 (59%)	166	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.0913 (0.162)	0.0053 (0.0182)	0.144 (0.228)	0.00016 (0.00092)	0.0965 (0.168)	0.0138 (0.0375)	0.133 (0.216)	0.00164 (0.00662)
del 9p21 3	239 (59%)	169	1e-05 (8.85e-05)	0.3 (0.394)	0.053 (0.106)	0.00544 (0.0186)	0.0373 (0.081)	0.0218 (0.0538)	0.152 (0.237)	0.0924 (0.164)	0.0386 (0.0833)	4e-05 (0.000279)
del 15q13 1	160 (39%)	248	1e-05 (8.85e-05)	4e-05 (0.000279)	0.0939 (0.166)	0.539 (0.613)	0.626 (0.684)	0.362 (0.452)	0.015 (0.0399)	6e-05 (0.000406)	0.0122 (0.034)	1e-05 (8.85e-05)
amp 1p34 2	101 (25%)	307	1e-05 (8.85e-05)	0.00022 (0.0012)	0.287 (0.381)	0.658 (0.709)	0.876 (0.895)	0.0968 (0.168)	0.0344 (0.0759)	0.0195 (0.0491)	0.244 (0.342)	0.0115 (0.0325)
amp 2p25 1	150 (37%)	258	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.268 (0.363)	0.634 (0.689)	0.114 (0.192)	3e-05 (0.000216)	0.0555 (0.109)	0.0268 (0.0615)	0.0524 (0.105)	7e-05 (0.00046)
amp 3q26 33	218 (53%)	190	1e-05 (8.85e-05)	0.692 (0.743)	0.00191 (0.00732)	0.186 (0.274)	0.535 (0.612)	0.0231 (0.0551)	0.543 (0.616)	0.00586 (0.0196)	0.181 (0.271)	1e-05 (8.85e-05)
amp 7p11 2	190 (47%)	218	1e-05 (8.85e-05)	0.00736 (0.0233)	0.00167 (0.00666)	0.221 (0.316)	0.823 (0.859)	0.255 (0.35)	0.513 (0.59)	0.0354 (0.0778)	0.17 (0.257)	3e-05 (0.000216)
amp 11q22 2	71 (17%)	337	3e-05 (0.000216)	0.147 (0.231)	0.889 (0.904)	0.413 (0.505)	0.425 (0.516)	0.164 (0.252)	0.0423 (0.0899)	0.0226 (0.0541)	0.00054 (0.00264)	0.0198 (0.0498)
amp 16q22 1	108 (26%)	300	1e-05 (8.85e-05)	0.459 (0.548)	0.326 (0.418)	0.273 (0.367)	0.191 (0.281)	0.0045 (0.0157)	0.043 (0.0902)	0.00833 (0.0255)	0.15 (0.234)	0.00652 (0.0213)
amp 19q13 43	154 (38%)	254	1e-05 (8.85e-05)	0.00076 (0.00345)	0.115 (0.193)	0.551 (0.62)	0.208 (0.302)	0.639 (0.691)	0.504 (0.581)	0.00317 (0.0118)	0.0323 (0.0723)	0.00425 (0.0153)
amp 20q11 21	262 (64%)	146	1e-05 (8.85e-05)	0.0084 (0.0255)	0.178 (0.267)	0.581 (0.648)	0.66 (0.71)	0.0409 (0.0876)	0.46 (0.548)	0.0421 (0.0896)	0.32 (0.412)	0.00095 (0.0042)
del 6q21	190 (47%)	218	1e-05 (8.85e-05)	0.019 (0.0481)	0.296 (0.391)	0.414 (0.505)	0.544 (0.616)	0.0902 (0.161)	0.0149 (0.0399)	7e-05 (0.00046)	0.238 (0.336)	2e-05 (0.000162)
del 12p13 1	68 (17%)	340	0.0105 (0.0304)	0.00074 (0.0034)	0.841 (0.873)	0.221 (0.316)	0.00647 (0.0213)	4e-05 (0.000279)	0.575 (0.643)	0.617 (0.676)	0.0164 (0.0429)	0.214 (0.309)
del 16p13 3	174 (43%)	234	1e-05 (8.85e-05)	0.00162 (0.00658)	0.00566 (0.0192)	0.436 (0.526)	0.862 (0.885)	0.264 (0.359)	0.618 (0.676)	0.0372 (0.081)	0.554 (0.621)	0.0136 (0.037)
del 17p12	209 (51%)	199	1e-05 (8.85e-05)	0.00131 (0.00548)	0.247 (0.344)	0.318 (0.412)	0.0538 (0.107)	0.00952 (0.0282)	0.607 (0.672)	0.00022 (0.0012)	0.36 (0.451)	0.00017 (0.000961)
del 18q23	180 (44%)	228	3e-05 (0.000216)	0.483 (0.568)	0.743 (0.786)	0.708 (0.754)	0.462 (0.549)	0.114 (0.192)	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.00588 (0.0196)	0.00103 (0.0045)
del 19p13 3	146 (36%)	262	1e-05 (8.85e-05)	0.169 (0.257)	0.333 (0.423)	0.183 (0.273)	0.0338 (0.0749)	0.00178 (0.0069)	0.263 (0.359)	0.0065 (0.0213)	0.177 (0.267)	0.00029 (0.00152)
amp 1q21 3	202 (50%)	206	1e-05 (8.85e-05)	0.00019 (0.00106)	0.336 (0.427)	0.637 (0.69)	0.191 (0.281)	0.113 (0.191)	0.141 (0.226)	0.0431 (0.0902)	0.621 (0.679)	0.00409 (0.0148)
amp 4q13 3	62 (15%)	346	1e-05 (8.85e-05)	0.0116 (0.0328)	0.279 (0.371)	0.663 (0.712)	0.103 (0.176)	0.447 (0.537)	0.00934 (0.028)	0.0683 (0.127)	0.0655 (0.123)	0.0427 (0.09)
amp 8p11 21	140 (34%)	268	1e-05 (8.85e-05)	0.00222 (0.00842)	0.0876 (0.157)	0.613 (0.674)	0.141 (0.226)	0.307 (0.401)	0.00776 (0.0241)	0.0142 (0.0383)	0.544 (0.616)	0.246 (0.343)
amp 10p14	182 (45%)	226	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.252 (0.346)	0.166 (0.253)	0.347 (0.437)	3e-05 (0.000216)	0.103 (0.176)	0.157 (0.242)	0.453 (0.542)	2e-05 (0.000162)
amp 19q12	164 (40%)	244	1e-05 (8.85e-05)	0.00013 (0.000787)	0.324 (0.417)	0.872 (0.893)	0.305 (0.4)	0.163 (0.25)	0.275 (0.369)	0.0119 (0.0334)	0.241 (0.339)	0.0274 (0.0624)
amp 22q12 2	87 (21%)	321	1e-05 (8.85e-05)	0.0182 (0.0468)	0.785 (0.825)	0.753 (0.796)	0.00876 (0.0265)	0.0628 (0.12)	0.129 (0.212)	0.255 (0.35)	0.481 (0.567)	0.0464 (0.0956)
del 2q34	174 (43%)	234	1e-05 (8.85e-05)	0.00065 (0.00309)	0.00655 (0.0213)	0.486 (0.569)	0.46 (0.548)	0.108 (0.183)	0.109 (0.184)	0.535 (0.612)	0.49 (0.571)	0.00058 (0.00282)
del 4q34 2	177 (43%)	231	1e-05 (8.85e-05)	0.0186 (0.0471)	0.0666 (0.125)	0.0755 (0.139)	0.214 (0.309)	0.04 (0.0859)	0.291 (0.385)	0.0642 (0.121)	0.492 (0.571)	0.00068 (0.00321)
del 16q23 1	119 (29%)	289	1e-05 (8.85e-05)	0.00258 (0.00973)	0.0769 (0.141)	0.1 (0.172)	0.054 (0.107)	0.0642 (0.121)	0.132 (0.215)	0.025 (0.0581)	0.0867 (0.156)	7e-05 (0.00046)
del xq21 33	84 (21%)	324	0.24 (0.338)	0.00692 (0.0223)	0.33 (0.421)	0.251 (0.346)	0.0219 (0.0538)	0.0955 (0.167)	0.0866 (0.156)	0.0506 (0.102)	0.0112 (0.0319)	0.0183 (0.0469)
amp 6p22 3	170 (42%)	238	1e-05 (8.85e-05)	1e-05 (8.85e-05)	0.0642 (0.121)	0.853 (0.881)	0.265 (0.36)	0.635 (0.689)	0.0805 (0.147)	0.276 (0.369)	0.228 (0.323)	2e-05 (0.000162)
amp 8p11 23	123 (30%)	285	1e-05 (8.85e-05)	0.0108 (0.031)	0.612 (0.674)	0.346 (0.436)	0.493 (0.572)	0.276 (0.369)	0.0248 (0.058)	0.492 (0.571)	0.563 (0.63)	0.941 (0.951)
amp 12p12 1	131 (32%)	277	0.00092 (0.0041)	0.0574 (0.113)	0.122 (0.2)	0.792 (0.832)	0.444 (0.534)	0.549 (0.62)	0.73 (0.774)	0.0287 (0.0652)	0.0792 (0.145)	0.0361 (0.079)
amp 16p13 2	87 (21%)	321	2e-05 (0.000162)	8e-05 (0.000516)	0.985 (0.987)	0.779 (0.822)	0.214 (0.309)	0.0833 (0.151)	0.182 (0.272)	0.0718 (0.133)	0.231 (0.328)	0.0217 (0.0538)
amp 17q23 3	194 (48%)	214	1e-05 (8.85e-05)	0.0155 (0.041)	0.119 (0.197)	0.855 (0.882)	0.117 (0.196)	0.365 (0.454)	0.185 (0.274)	0.468 (0.555)	0.146 (0.23)	0.0003 (0.00156)
del 2q22 1	134 (33%)	274	0.00064 (0.00307)	0.0185 (0.0471)	0.491 (0.571)	0.976 (0.981)	0.145 (0.23)	0.16 (0.246)	0.0598 (0.116)	0.249 (0.345)	0.183 (0.273)	0.00966 (0.0284)
del 7q36 3	60 (15%)	348	0.00013 (0.000787)	0.446 (0.536)	0.119 (0.197)	0.0964 (0.168)	0.156 (0.242)	0.483 (0.568)	0.346 (0.436)	0.00121 (0.00509)	0.0621 (0.119)	0.00372 (0.0135)
del 10q23 31	166 (41%)	242	1e-05 (8.85e-05)	0.00103 (0.0045)	0.0935 (0.165)	0.0943 (0.166)	0.0474 (0.0974)	0.631 (0.687)	0.388 (0.477)	0.0975 (0.168)	0.608 (0.672)	0.0632 (0.121)
amp 6q21	35 (9%)	373	0.00528 (0.0182)	0.0485 (0.099)	0.217 (0.312)	0.387 (0.477)	0.201 (0.293)	0.0585 (0.114)	0.85 (0.88)	0.925 (0.936)	0.247 (0.344)	0.144 (0.228)
amp 11q13 3	135 (33%)	273	1e-05 (8.85e-05)	0.0993 (0.17)	0.818 (0.856)	0.0845 (0.153)	0.021 (0.0524)	0.323 (0.416)	0.375 (0.464)	0.171 (0.259)	0.328 (0.419)	0.708 (0.754)
del 1q32 1	71 (17%)	337	0.00446 (0.0156)	0.0177 (0.0458)	0.501 (0.58)	0.235 (0.333)	0.308 (0.401)	0.0505 (0.102)	0.55 (0.62)	0.279 (0.371)	0.401 (0.491)	0.131 (0.214)
amp 6q23 3	46 (11%)	362	0.0135 (0.0369)	0.714 (0.759)	0.468 (0.555)	0.227 (0.323)	0.269 (0.364)	0.828 (0.863)	0.141 (0.226)	0.0984 (0.169)	0.147 (0.231)	0.127 (0.209)
amp 13q22 1	128 (31%)	280	0.00034 (0.00174)	0.861 (0.885)	0.32 (0.412)	0.819 (0.857)	0.87 (0.892)	0.368 (0.458)	0.878 (0.896)	0.553 (0.621)	0.732 (0.776)	0.224 (0.32)
del 1p36 11	91 (22%)	317	0.616 (0.676)	0.0643 (0.121)	0.097 (0.168)	0.327 (0.419)	0.597 (0.663)	0.954 (0.961)	0.702 (0.751)	0.0476 (0.0975)	0.134 (0.216)	0.251 (0.346)
del 10p11 21	74 (18%)	334	0.362 (0.452)	0.832 (0.865)	0.155 (0.24)	0.512 (0.59)	0.00156 (0.00645)	0.0676 (0.126)	0.783 (0.824)	0.0576 (0.113)	0.374 (0.464)	0.501 (0.58)
del 11q23 3	155 (38%)	253	0.00199 (0.00759)	0.097 (0.168)	0.156 (0.242)	0.525 (0.602)	0.0904 (0.161)	0.36 (0.451)	0.184 (0.273)	0.144 (0.228)	0.474 (0.56)	0.474 (0.56)
del 11q25	143 (35%)	265	0.00011 (0.00069)	0.167 (0.254)	0.426 (0.516)	0.431 (0.521)	0.0828 (0.151)	0.309 (0.403)	0.31 (0.403)	0.182 (0.272)	0.431 (0.521)	0.27 (0.364)
del 12q24 33	88 (22%)	320	3e-05 (0.000216)	0.349 (0.438)	0.301 (0.395)	0.337 (0.427)	0.818 (0.856)	0.383 (0.472)	1 (1.00)	0.629 (0.685)	0.981 (0.984)	0.243 (0.341)
del xp11 3	92 (23%)	316	0.19 (0.28)	0.132 (0.215)	0.974 (0.979)	0.844 (0.875)	0.133 (0.216)	0.587 (0.653)	0.108 (0.183)	0.29 (0.385)	0.521 (0.598)	0.0339 (0.0749)

'amp_1p34.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S1. Gene #1: 'amp_1p34.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 1(1P34.2) MUTATED	15	67	8	11
AMP PEAK 1(1P34.2) WILD-TYPE	154	73	51	29

Figure S1. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_1p34.2' versus 'METHLYATION_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.0012

Table S2. Gene #1: 'amp_1p34.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 1(1P34.2) MUTATED	29	46	10	16
AMP PEAK 1(1P34.2) WILD-TYPE	109	70	59	69

Figure S2. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_1p34.2' versus 'MIRSEQ_CNMF'

P value = 0.0344 (Fisher's exact test), Q value = 0.076

Table S3. Gene #1: 'amp_1p34.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 1(1P34.2) MUTATED	32	32	37
AMP PEAK 1(1P34.2) WILD-TYPE	88	64	152

Figure S3. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_1p34.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0195 (Fisher's exact test), Q value = 0.049

Table S4. Gene #1: 'amp_1p34.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 1(1P34.2) MUTATED	22	30	12	19	18
AMP PEAK 1(1P34.2) WILD-TYPE	67	69	81	51	36

Figure S4. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_1p34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0115 (Fisher's exact test), Q value = 0.033

Table S5. Gene #1: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 1(1P34.2) MUTATED	19	17	26	19	1	18
AMP PEAK 1(1P34.2) WILD-TYPE	55	29	67	47	30	66

Figure S5. Get High-res Image Gene #1: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S6. Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 2(1Q21.3) MUTATED	43	108	32	19
AMP PEAK 2(1Q21.3) WILD-TYPE	126	32	27	21

Figure S6. Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_1q21.3' versus 'METHLYATION_CNMF'

P value = 0.00019 (Fisher's exact test), Q value = 0.0011

Table S7. Gene #2: 'amp_1q21.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 2(1Q21.3) MUTATED	58	77	27	40
AMP PEAK 2(1Q21.3) WILD-TYPE	80	39	42	45

Figure S7. Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_1q21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0431 (Fisher's exact test), Q value = 0.09

Table S8. Gene #2: 'amp_1q21.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 2(1Q21.3) MUTATED	41	56	36	42	26
AMP PEAK 2(1Q21.3) WILD-TYPE	48	43	57	28	28

Figure S8. Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00409 (Fisher's exact test), Q value = 0.015

Table S9. Gene #2: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 2(1Q21.3) MUTATED	32	26	58	37	9	34
AMP PEAK 2(1Q21.3) WILD-TYPE	42	20	35	29	22	50

Figure S9. Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q23.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S10. Gene #3: 'amp_1q23.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 3(1Q23.3) MUTATED	54	116	26	20
AMP PEAK 3(1Q23.3) WILD-TYPE	115	24	33	20

Figure S10. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_1q23.3' versus 'METHLYATION_CNMF'

P value = 0.0109 (Fisher's exact test), Q value = 0.031

Table S11. Gene #3: 'amp_1q23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 3(1Q23.3) MUTATED	68	76	30	42
AMP PEAK 3(1Q23.3) WILD-TYPE	70	40	39	43

Figure S11. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_1q23.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0253 (Fisher's exact test), Q value = 0.059

Table S12. Gene #3: 'amp_1q23.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 3(1Q23.3) MUTATED	75	53	87
AMP PEAK 3(1Q23.3) WILD-TYPE	43	59	87

Figure S12. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_1q23.3' versus 'MIRSEQ_CNMF'

P value = 0.00174 (Fisher's exact test), Q value = 0.0068

Table S13. Gene #3: 'amp_1q23.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 3(1Q23.3) MUTATED	58	66	91
AMP PEAK 3(1Q23.3) WILD-TYPE	62	30	98

Figure S13. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_1q23.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00305 (Fisher's exact test), Q value = 0.011

Table S14. Gene #3: 'amp_1q23.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 3(1Q23.3) MUTATED	42	64	37	44	28
AMP PEAK 3(1Q23.3) WILD-TYPE	47	35	56	26	26

Figure S14. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_1q23.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0429 (Fisher's exact test), Q value = 0.09

Table S15. Gene #3: 'amp_1q23.3' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 3(1Q23.3) MUTATED	46	31	68	65
AMP PEAK 3(1Q23.3) WILD-TYPE	52	12	66	54

Figure S15. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_1q23.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00159 (Fisher's exact test), Q value = 0.0065

Table S16. Gene #3: 'amp_1q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 3(1Q23.3) MUTATED	36	33	58	37	10	36
AMP PEAK 3(1Q23.3) WILD-TYPE	38	13	35	29	21	48

Figure S16. Get High-res Image Gene #3: 'amp_1q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_2p25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S17. Gene #4: 'amp_2p25.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 4(2P25.1) MUTATED	28	86	14	22
AMP PEAK 4(2P25.1) WILD-TYPE	141	54	45	18

Figure S17. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_2p25.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S18. Gene #4: 'amp_2p25.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 4(2P25.1) MUTATED	38	73	15	24
AMP PEAK 4(2P25.1) WILD-TYPE	100	43	54	61

Figure S18. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_2p25.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S19. Gene #4: 'amp_2p25.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 4(2P25.1) MUTATED	63	37	49
AMP PEAK 4(2P25.1) WILD-TYPE	55	75	125

Figure S19. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_2p25.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0268 (Fisher's exact test), Q value = 0.062

Table S20. Gene #4: 'amp_2p25.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 4(2P25.1) MUTATED	30	42	24	34	18
AMP PEAK 4(2P25.1) WILD-TYPE	59	57	69	36	36

Figure S20. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_2p25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00046

Table S21. Gene #4: 'amp_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 4(2P25.1) MUTATED	26	24	46	25	3	22
AMP PEAK 4(2P25.1) WILD-TYPE	48	22	47	41	28	62

Figure S21. Get High-res Image Gene #4: 'amp_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3p25.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S22. Gene #5: 'amp_3p25.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 5(3P25.2) MUTATED	41	102	22	25
AMP PEAK 5(3P25.2) WILD-TYPE	128	38	37	15

Figure S22. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_3p25.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S23. Gene #5: 'amp_3p25.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 5(3P25.2) MUTATED	46	82	30	32
AMP PEAK 5(3P25.2) WILD-TYPE	92	34	39	53

Figure S23. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_3p25.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.0269 (Fisher's exact test), Q value = 0.062

Table S24. Gene #5: 'amp_3p25.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
AMP PEAK 5(3P25.2) MUTATED	42	65	35	10
AMP PEAK 5(3P25.2) WILD-TYPE	48	56	63	21

Figure S24. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'amp_3p25.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S25. Gene #5: 'amp_3p25.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 5(3P25.2) MUTATED	55	108	25
AMP PEAK 5(3P25.2) WILD-TYPE	61	72	83

Figure S25. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_3p25.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S26. Gene #5: 'amp_3p25.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 5(3P25.2) MUTATED	78	60	50
AMP PEAK 5(3P25.2) WILD-TYPE	40	52	124

Figure S26. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_3p25.2' versus 'MIRSEQ_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.00069

Table S27. Gene #5: 'amp_3p25.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 5(3P25.2) MUTATED	44	62	83
AMP PEAK 5(3P25.2) WILD-TYPE	76	34	106

Figure S27. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_3p25.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S28. Gene #5: 'amp_3p25.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 5(3P25.2) MUTATED	27	59	33	42	28
AMP PEAK 5(3P25.2) WILD-TYPE	62	40	60	28	26

Figure S28. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_3p25.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S29. Gene #5: 'amp_3p25.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 5(3P25.2) MUTATED	30	36	66	53
AMP PEAK 5(3P25.2) WILD-TYPE	68	7	68	66

Figure S29. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_3p25.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S30. Gene #5: 'amp_3p25.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 5(3P25.2) MUTATED	36	34	63	23	2	27
AMP PEAK 5(3P25.2) WILD-TYPE	38	12	30	43	29	57

Figure S30. Get High-res Image Gene #5: 'amp_3p25.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3q26.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S31. Gene #6: 'amp_3q26.33' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 6(3Q26.33) MUTATED	62	100	28	28
AMP PEAK 6(3Q26.33) WILD-TYPE	107	40	31	12

Figure S31. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #1: 'CN_CNMF'

'amp_3q26.33' versus 'RPPA_CNMF'

P value = 0.00191 (Fisher's exact test), Q value = 0.0073

Table S32. Gene #6: 'amp_3q26.33' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 6(3Q26.33) MUTATED	59	48	68
AMP PEAK 6(3Q26.33) WILD-TYPE	63	66	36

Figure S32. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_3q26.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0231 (Fisher's exact test), Q value = 0.055

Table S33. Gene #6: 'amp_3q26.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 6(3Q26.33) MUTATED	74	50	93
AMP PEAK 6(3Q26.33) WILD-TYPE	44	62	81

Figure S33. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_3q26.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00586 (Fisher's exact test), Q value = 0.02

Table S34. Gene #6: 'amp_3q26.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 6(3Q26.33) MUTATED	50	56	34	44	32
AMP PEAK 6(3Q26.33) WILD-TYPE	39	43	59	26	22

Figure S34. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_3q26.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S35. Gene #6: 'amp_3q26.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 6(3Q26.33) MUTATED	36	30	58	42	4	40
AMP PEAK 6(3Q26.33) WILD-TYPE	38	16	35	24	27	44

Figure S35. Get High-res Image Gene #6: 'amp_3q26.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_4p16.3' versus 'CN_CNMF'

P value = 0.0463 (Fisher's exact test), Q value = 0.096

Table S36. Gene #7: 'amp_4p16.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 7(4P16.3) MUTATED	23	34	7	9
AMP PEAK 7(4P16.3) WILD-TYPE	146	106	52	31

Figure S36. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_4p16.3' versus 'METHLYATION_CNMF'

P value = 0.0218 (Fisher's exact test), Q value = 0.054

Table S37. Gene #7: 'amp_4p16.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 7(4P16.3) MUTATED	15	29	11	18
AMP PEAK 7(4P16.3) WILD-TYPE	123	87	58	67

Figure S37. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_4p16.3' versus 'RPPA_CNMF'

P value = 0.00573 (Fisher's exact test), Q value = 0.019

Table S38. Gene #7: 'amp_4p16.3' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 7(4P16.3) MUTATED	12	28	23
AMP PEAK 7(4P16.3) WILD-TYPE	110	86	81

Figure S38. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_4p16.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.00047 (Fisher's exact test), Q value = 0.0023

Table S39. Gene #7: 'amp_4p16.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
AMP PEAK 7(4P16.3) MUTATED	13	37	10	3
AMP PEAK 7(4P16.3) WILD-TYPE	77	84	88	28

Figure S39. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'amp_4p16.3' versus 'MRNASEQ_CNMF'

P value = 0.00025 (Fisher's exact test), Q value = 0.0013

Table S40. Gene #7: 'amp_4p16.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 7(4P16.3) MUTATED	10	47	15
AMP PEAK 7(4P16.3) WILD-TYPE	106	133	93

Figure S40. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_4p16.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00014 (Fisher's exact test), Q value = 0.00083

Table S41. Gene #7: 'amp_4p16.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 7(4P16.3) MUTATED	20	34	18
AMP PEAK 7(4P16.3) WILD-TYPE	98	78	156

Figure S41. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_4p16.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S42. Gene #7: 'amp_4p16.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 7(4P16.3) MUTATED	6	27	40
AMP PEAK 7(4P16.3) WILD-TYPE	114	69	149

Figure S42. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_4p16.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0332 (Fisher's exact test), Q value = 0.074

Table S43. Gene #7: 'amp_4p16.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 7(4P16.3) MUTATED	13	22	18	17	3
AMP PEAK 7(4P16.3) WILD-TYPE	76	77	75	53	51

Figure S43. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.025 (Fisher's exact test), Q value = 0.058

Table S44. Gene #7: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 7(4P16.3) MUTATED	5	9	22	15	8	12
AMP PEAK 7(4P16.3) WILD-TYPE	69	37	71	51	23	72

Figure S44. Get High-res Image Gene #7: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_4q13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S45. Gene #8: 'amp_4q13.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 8(4Q13.3) MUTATED	11	40	4	7
AMP PEAK 8(4Q13.3) WILD-TYPE	158	100	55	33

Figure S45. Get High-res Image Gene #8: 'amp_4q13.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_4q13.3' versus 'METHLYATION_CNMF'

P value = 0.0116 (Fisher's exact test), Q value = 0.033

Table S46. Gene #8: 'amp_4q13.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 8(4Q13.3) MUTATED	17	28	5	12
AMP PEAK 8(4Q13.3) WILD-TYPE	121	88	64	73

Figure S46. Get High-res Image Gene #8: 'amp_4q13.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_4q13.3' versus 'MIRSEQ_CNMF'

P value = 0.00934 (Fisher's exact test), Q value = 0.028

Table S47. Gene #8: 'amp_4q13.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 8(4Q13.3) MUTATED	9	20	33
AMP PEAK 8(4Q13.3) WILD-TYPE	111	76	156

Figure S47. Get High-res Image Gene #8: 'amp_4q13.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_4q13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0427 (Fisher's exact test), Q value = 0.09

Table S48. Gene #8: 'amp_4q13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 8(4Q13.3) MUTATED	6	7	22	14	3	9
AMP PEAK 8(4Q13.3) WILD-TYPE	68	39	71	52	28	75

Figure S48. Get High-res Image Gene #8: 'amp_4q13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_5p15.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S49. Gene #9: 'amp_5p15.33' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 9(5P15.33) MUTATED	42	96	42	25
AMP PEAK 9(5P15.33) WILD-TYPE	127	44	17	15

Figure S49. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #1: 'CN_CNMF'

'amp_5p15.33' versus 'METHLYATION_CNMF'

P value = 0.00827 (Fisher's exact test), Q value = 0.025

Table S50. Gene #9: 'amp_5p15.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 9(5P15.33) MUTATED	75	65	22	43
AMP PEAK 9(5P15.33) WILD-TYPE	63	51	47	42

Figure S50. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_5p15.33' versus 'RPPA_CNMF'

P value = 0.00039 (Fisher's exact test), Q value = 0.002

Table S51. Gene #9: 'amp_5p15.33' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 9(5P15.33) MUTATED	63	39	63
AMP PEAK 9(5P15.33) WILD-TYPE	59	75	41

Figure S51. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_5p15.33' versus 'RPPA_CHIERARCHICAL'

P value = 0.00964 (Fisher's exact test), Q value = 0.028

Table S52. Gene #9: 'amp_5p15.33' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
AMP PEAK 9(5P15.33) MUTATED	41	47	58	19
AMP PEAK 9(5P15.33) WILD-TYPE	49	74	40	12

Figure S52. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'amp_5p15.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0179 (Fisher's exact test), Q value = 0.046

Table S53. Gene #9: 'amp_5p15.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 9(5P15.33) MUTATED	50	51	101
AMP PEAK 9(5P15.33) WILD-TYPE	68	61	73

Figure S53. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_5p15.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S54. Gene #9: 'amp_5p15.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 9(5P15.33) MUTATED	43	62	27	41	31
AMP PEAK 9(5P15.33) WILD-TYPE	46	37	66	29	23

Figure S54. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_5p15.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00119 (Fisher's exact test), Q value = 0.005

Table S55. Gene #9: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 9(5P15.33) MUTATED	31	26	50	37	6	51
AMP PEAK 9(5P15.33) WILD-TYPE	43	20	43	29	25	33

Figure S55. Get High-res Image Gene #9: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S56. Gene #10: 'amp_6p22.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 10(6P22.3) MUTATED	25	94	36	15
AMP PEAK 10(6P22.3) WILD-TYPE	144	46	23	25

Figure S56. Get High-res Image Gene #10: 'amp_6p22.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_6p22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S57. Gene #10: 'amp_6p22.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 10(6P22.3) MUTATED	53	73	20	24
AMP PEAK 10(6P22.3) WILD-TYPE	85	43	49	61

Figure S57. Get High-res Image Gene #10: 'amp_6p22.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_6p22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S58. Gene #10: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 10(6P22.3) MUTATED	28	18	58	20	4	40
AMP PEAK 10(6P22.3) WILD-TYPE	46	28	35	46	27	44

Figure S58. Get High-res Image Gene #10: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6q21' versus 'CN_CNMF'

P value = 0.00528 (Fisher's exact test), Q value = 0.018

Table S59. Gene #11: 'amp_6q21' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 11(6Q21) MUTATED	9	20	6	0
AMP PEAK 11(6Q21) WILD-TYPE	160	120	53	40

Figure S59. Get High-res Image Gene #11: 'amp_6q21' versus Molecular Subtype #1: 'CN_CNMF'

'amp_6q21' versus 'METHLYATION_CNMF'

P value = 0.0485 (Fisher's exact test), Q value = 0.099

Table S60. Gene #11: 'amp_6q21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 11(6Q21) MUTATED	7	17	6	5
AMP PEAK 11(6Q21) WILD-TYPE	131	99	63	80

Figure S60. Get High-res Image Gene #11: 'amp_6q21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_6q23.3' versus 'CN_CNMF'

P value = 0.0135 (Fisher's exact test), Q value = 0.037

Table S61. Gene #12: 'amp_6q23.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 12(6Q23.3) MUTATED	12	26	5	3
AMP PEAK 12(6Q23.3) WILD-TYPE	157	114	54	37

Figure S61. Get High-res Image Gene #12: 'amp_6q23.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_7p21.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S62. Gene #13: 'amp_7p21.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 13(7P21.1) MUTATED	40	95	38	28
AMP PEAK 13(7P21.1) WILD-TYPE	129	45	21	12

Figure S62. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_7p21.1' versus 'METHLYATION_CNMF'

P value = 0.00269 (Fisher's exact test), Q value = 0.01

Table S63. Gene #13: 'amp_7p21.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 13(7P21.1) MUTATED	69	72	26	34
AMP PEAK 13(7P21.1) WILD-TYPE	69	44	43	51

Figure S63. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_7p21.1' versus 'RPPA_CNMF'

P value = 0.0224 (Fisher's exact test), Q value = 0.054

Table S64. Gene #13: 'amp_7p21.1' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 13(7P21.1) MUTATED	55	48	62
AMP PEAK 13(7P21.1) WILD-TYPE	67	66	42

Figure S64. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_7p21.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0238 (Fisher's exact test), Q value = 0.056

Table S65. Gene #13: 'amp_7p21.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 13(7P21.1) MUTATED	65	43	91
AMP PEAK 13(7P21.1) WILD-TYPE	53	69	83

Figure S65. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_7p21.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00734 (Fisher's exact test), Q value = 0.023

Table S66. Gene #13: 'amp_7p21.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 13(7P21.1) MUTATED	47	53	32	43	24
AMP PEAK 13(7P21.1) WILD-TYPE	42	46	61	27	30

Figure S66. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_7p21.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S67. Gene #13: 'amp_7p21.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 13(7P21.1) MUTATED	29	21	55	38	2	49
AMP PEAK 13(7P21.1) WILD-TYPE	45	25	38	28	29	35

Figure S67. Get High-res Image Gene #13: 'amp_7p21.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_7p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S68. Gene #14: 'amp_7p11.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 14(7P11.2) MUTATED	37	88	38	27
AMP PEAK 14(7P11.2) WILD-TYPE	132	52	21	13

Figure S68. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_7p11.2' versus 'METHLYATION_CNMF'

P value = 0.00736 (Fisher's exact test), Q value = 0.023

Table S69. Gene #14: 'amp_7p11.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 14(7P11.2) MUTATED	66	67	24	33
AMP PEAK 14(7P11.2) WILD-TYPE	72	49	45	52

Figure S69. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_7p11.2' versus 'RPPA_CNMF'

P value = 0.00167 (Fisher's exact test), Q value = 0.0067

Table S70. Gene #14: 'amp_7p11.2' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 14(7P11.2) MUTATED	51	43	63
AMP PEAK 14(7P11.2) WILD-TYPE	71	71	41

Figure S70. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_7p11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0354 (Fisher's exact test), Q value = 0.078

Table S71. Gene #14: 'amp_7p11.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 14(7P11.2) MUTATED	48	49	32	38	22
AMP PEAK 14(7P11.2) WILD-TYPE	41	50	61	32	32

Figure S71. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_7p11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S72. Gene #14: 'amp_7p11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 14(7P11.2) MUTATED	27	21	51	35	3	47
AMP PEAK 14(7P11.2) WILD-TYPE	47	25	42	31	28	37

Figure S72. Get High-res Image Gene #14: 'amp_7p11.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8p11.23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S73. Gene #15: 'amp_8p11.23' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 15(8P11.23) MUTATED	36	36	17	34
AMP PEAK 15(8P11.23) WILD-TYPE	133	104	42	6

Figure S73. Get High-res Image Gene #15: 'amp_8p11.23' versus Molecular Subtype #1: 'CN_CNMF'

'amp_8p11.23' versus 'METHLYATION_CNMF'

P value = 0.0108 (Fisher's exact test), Q value = 0.031

Table S74. Gene #15: 'amp_8p11.23' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 15(8P11.23) MUTATED	35	41	13	34
AMP PEAK 15(8P11.23) WILD-TYPE	103	75	56	51

Figure S74. Get High-res Image Gene #15: 'amp_8p11.23' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_8p11.23' versus 'MIRSEQ_CNMF'

P value = 0.0248 (Fisher's exact test), Q value = 0.058

Table S75. Gene #15: 'amp_8p11.23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 15(8P11.23) MUTATED	27	26	69
AMP PEAK 15(8P11.23) WILD-TYPE	93	70	120

Figure S75. Get High-res Image Gene #15: 'amp_8p11.23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_8p11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S76. Gene #16: 'amp_8p11.21' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 16(8P11.21) MUTATED	40	46	18	36
AMP PEAK 16(8P11.21) WILD-TYPE	129	94	41	4

Figure S76. Get High-res Image Gene #16: 'amp_8p11.21' versus Molecular Subtype #1: 'CN_CNMF'

'amp_8p11.21' versus 'METHLYATION_CNMF'

P value = 0.00222 (Fisher's exact test), Q value = 0.0084

Table S77. Gene #16: 'amp_8p11.21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 16(8P11.21) MUTATED	40	52	14	34
AMP PEAK 16(8P11.21) WILD-TYPE	98	64	55	51

Figure S77. Get High-res Image Gene #16: 'amp_8p11.21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_8p11.21' versus 'MIRSEQ_CNMF'

P value = 0.00776 (Fisher's exact test), Q value = 0.024

Table S78. Gene #16: 'amp_8p11.21' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 16(8P11.21) MUTATED	30	30	79
AMP PEAK 16(8P11.21) WILD-TYPE	90	66	110

Figure S78. Get High-res Image Gene #16: 'amp_8p11.21' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_8p11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0142 (Fisher's exact test), Q value = 0.038

Table S79. Gene #16: 'amp_8p11.21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 16(8P11.21) MUTATED	29	34	30	35	11
AMP PEAK 16(8P11.21) WILD-TYPE	60	65	63	35	43

Figure S79. Get High-res Image Gene #16: 'amp_8p11.21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_8q22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S80. Gene #17: 'amp_8q22.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 17(8Q22.3) MUTATED	82	110	36	36
AMP PEAK 17(8Q22.3) WILD-TYPE	87	30	23	4

Figure S80. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_8q22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S81. Gene #17: 'amp_8q22.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 17(8Q22.3) MUTATED	83	96	34	51
AMP PEAK 17(8Q22.3) WILD-TYPE	55	20	35	34

Figure S81. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_8q22.3' versus 'RPPA_CNMF'

P value = 0.0119 (Fisher's exact test), Q value = 0.033

Table S82. Gene #17: 'amp_8q22.3' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 17(8Q22.3) MUTATED	75	66	79
AMP PEAK 17(8Q22.3) WILD-TYPE	47	48	25

Figure S82. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_8q22.3' versus 'MIRSEQ_CNMF'

P value = 0.0185 (Fisher's exact test), Q value = 0.047

Table S83. Gene #17: 'amp_8q22.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 17(8Q22.3) MUTATED	66	70	126
AMP PEAK 17(8Q22.3) WILD-TYPE	54	26	63

Figure S83. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_8q22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00588 (Fisher's exact test), Q value = 0.02

Table S84. Gene #17: 'amp_8q22.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 17(8Q22.3) MUTATED	57	70	51	55	29
AMP PEAK 17(8Q22.3) WILD-TYPE	32	29	42	15	25

Figure S84. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_8q22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00015 (Fisher's exact test), Q value = 0.00088

Table S85. Gene #17: 'amp_8q22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 17(8Q22.3) MUTATED	42	36	71	43	10	55
AMP PEAK 17(8Q22.3) WILD-TYPE	32	10	22	23	21	29

Figure S85. Get High-res Image Gene #17: 'amp_8q22.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_9p24.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S86. Gene #18: 'amp_9p24.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 18(9P24.1) MUTATED	18	31	31	8
AMP PEAK 18(9P24.1) WILD-TYPE	151	109	28	32

Figure S86. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_9p24.1' versus 'METHLYATION_CNMF'

P value = 9e-04 (Fisher's exact test), Q value = 0.004

Table S87. Gene #18: 'amp_9p24.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 18(9P24.1) MUTATED	44	20	6	18
AMP PEAK 18(9P24.1) WILD-TYPE	94	96	63	67

Figure S87. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_9p24.1' versus 'RPPA_CNMF'

P value = 0.0307 (Fisher's exact test), Q value = 0.069

Table S88. Gene #18: 'amp_9p24.1' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 18(9P24.1) MUTATED	34	16	24
AMP PEAK 18(9P24.1) WILD-TYPE	88	98	80

Figure S88. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_9p24.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.00901 (Fisher's exact test), Q value = 0.027

Table S89. Gene #18: 'amp_9p24.1' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
AMP PEAK 18(9P24.1) MUTATED	19	16	28	11
AMP PEAK 18(9P24.1) WILD-TYPE	71	105	70	20

Figure S89. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'amp_9p24.1' versus 'MRNASEQ_CNMF'

P value = 0.0262 (Fisher's exact test), Q value = 0.061

Table S90. Gene #18: 'amp_9p24.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 18(9P24.1) MUTATED	25	29	32
AMP PEAK 18(9P24.1) WILD-TYPE	91	151	76

Figure S90. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_9p24.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00171 (Fisher's exact test), Q value = 0.0067

Table S91. Gene #18: 'amp_9p24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 18(9P24.1) MUTATED	21	14	51
AMP PEAK 18(9P24.1) WILD-TYPE	97	98	123

Figure S91. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_9p24.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.044 (Fisher's exact test), Q value = 0.092

Table S92. Gene #18: 'amp_9p24.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 18(9P24.1) MUTATED	27	23	11	15	12
AMP PEAK 18(9P24.1) WILD-TYPE	62	76	82	55	42

Figure S92. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_9p24.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00052

Table S93. Gene #18: 'amp_9p24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 18(9P24.1) MUTATED	38	7	18	22
AMP PEAK 18(9P24.1) WILD-TYPE	60	36	116	97

Figure S93. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_9p24.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00013 (Fisher's exact test), Q value = 0.00079

Table S94. Gene #18: 'amp_9p24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 18(9P24.1) MUTATED	18	8	19	6	2	32
AMP PEAK 18(9P24.1) WILD-TYPE	56	38	74	60	29	52

Figure S94. Get High-res Image Gene #18: 'amp_9p24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_10p14' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S95. Gene #19: 'amp_10p14' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 19(10P14) MUTATED	25	99	33	25
AMP PEAK 19(10P14) WILD-TYPE	144	41	26	15

Figure S95. Get High-res Image Gene #19: 'amp_10p14' versus Molecular Subtype #1: 'CN_CNMF'

'amp_10p14' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S96. Gene #19: 'amp_10p14' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 19(10P14) MUTATED	54	76	27	25
AMP PEAK 19(10P14) WILD-TYPE	84	40	42	60

Figure S96. Get High-res Image Gene #19: 'amp_10p14' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_10p14' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S97. Gene #19: 'amp_10p14' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 19(10P14) MUTATED	73	39	68
AMP PEAK 19(10P14) WILD-TYPE	45	73	106

Figure S97. Get High-res Image Gene #19: 'amp_10p14' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_10p14' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S98. Gene #19: 'amp_10p14' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 19(10P14) MUTATED	35	24	52	32	2	31
AMP PEAK 19(10P14) WILD-TYPE	39	22	41	34	29	53

Figure S98. Get High-res Image Gene #19: 'amp_10p14' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11p13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S99. Gene #20: 'amp_11p13' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 20(11P13) MUTATED	7	15	24	5
AMP PEAK 20(11P13) WILD-TYPE	162	125	35	35

Figure S99. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #1: 'CN_CNMF'

'amp_11p13' versus 'METHLYATION_CNMF'

P value = 0.00508 (Fisher's exact test), Q value = 0.018

Table S100. Gene #20: 'amp_11p13' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 20(11P13) MUTATED	24	19	3	5
AMP PEAK 20(11P13) WILD-TYPE	114	97	66	80

Figure S100. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_11p13' versus 'RPPA_CNMF'

P value = 0.00119 (Fisher's exact test), Q value = 0.005

Table S101. Gene #20: 'amp_11p13' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
AMP PEAK 20(11P13) MUTATED	22	5	18
AMP PEAK 20(11P13) WILD-TYPE	100	109	86

Figure S101. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #3: 'RPPA_CNMF'

'amp_11p13' versus 'RPPA_CHIERARCHICAL'

P value = 0.0373 (Fisher's exact test), Q value = 0.081

Table S102. Gene #20: 'amp_11p13' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
AMP PEAK 20(11P13) MUTATED	14	8	17	6
AMP PEAK 20(11P13) WILD-TYPE	76	113	81	25

Figure S102. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'amp_11p13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00074 (Fisher's exact test), Q value = 0.0034

Table S103. Gene #20: 'amp_11p13' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 20(11P13) MUTATED	16	4	31
AMP PEAK 20(11P13) WILD-TYPE	102	108	143

Figure S103. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_11p13' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00319 (Fisher's exact test), Q value = 0.012

Table S104. Gene #20: 'amp_11p13' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 20(11P13) MUTATED	9	3	9	9	0	21
AMP PEAK 20(11P13) WILD-TYPE	65	43	84	57	31	63

Figure S104. Get High-res Image Gene #20: 'amp_11p13' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11q13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S105. Gene #21: 'amp_11q13.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 21(11Q13.3) MUTATED	41	55	14	25
AMP PEAK 21(11Q13.3) WILD-TYPE	128	85	45	15

Figure S105. Get High-res Image Gene #21: 'amp_11q13.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_11q13.3' versus 'MRNASEQ_CNMF'

P value = 0.021 (Fisher's exact test), Q value = 0.052

Table S106. Gene #21: 'amp_11q13.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 21(11Q13.3) MUTATED	27	69	38
AMP PEAK 21(11Q13.3) WILD-TYPE	89	111	70

Figure S106. Get High-res Image Gene #21: 'amp_11q13.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_11q22.2' versus 'CN_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S107. Gene #22: 'amp_11q22.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 22(11Q22.2) MUTATED	14	28	13	16
AMP PEAK 22(11Q22.2) WILD-TYPE	155	112	46	24

Figure S107. Get High-res Image Gene #22: 'amp_11q22.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_11q22.2' versus 'MIRSEQ_CNMF'

P value = 0.0423 (Fisher's exact test), Q value = 0.09

Table S108. Gene #22: 'amp_11q22.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 22(11Q22.2) MUTATED	16	25	30
AMP PEAK 22(11Q22.2) WILD-TYPE	104	71	159

Figure S108. Get High-res Image Gene #22: 'amp_11q22.2' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_11q22.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0226 (Fisher's exact test), Q value = 0.054

Table S109. Gene #22: 'amp_11q22.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 22(11Q22.2) MUTATED	15	26	10	15	5
AMP PEAK 22(11Q22.2) WILD-TYPE	74	73	83	55	49

Figure S109. Get High-res Image Gene #22: 'amp_11q22.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_11q22.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00054 (Fisher's exact test), Q value = 0.0026

Table S110. Gene #22: 'amp_11q22.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 22(11Q22.2) MUTATED	29	12	15	15
AMP PEAK 22(11Q22.2) WILD-TYPE	69	31	119	104

Figure S110. Get High-res Image Gene #22: 'amp_11q22.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_11q22.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0198 (Fisher's exact test), Q value = 0.05

Table S111. Gene #22: 'amp_11q22.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 22(11Q22.2) MUTATED	10	13	12	11	2	23
AMP PEAK 22(11Q22.2) WILD-TYPE	64	33	81	55	29	61

Figure S111. Get High-res Image Gene #22: 'amp_11q22.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12p12.1' versus 'CN_CNMF'

P value = 0.00092 (Fisher's exact test), Q value = 0.0041

Table S112. Gene #23: 'amp_12p12.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 23(12P12.1) MUTATED	36	54	24	17
AMP PEAK 23(12P12.1) WILD-TYPE	133	86	35	23

Figure S112. Get High-res Image Gene #23: 'amp_12p12.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_12p12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0287 (Fisher's exact test), Q value = 0.065

Table S113. Gene #23: 'amp_12p12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 23(12P12.1) MUTATED	34	33	21	30	13
AMP PEAK 23(12P12.1) WILD-TYPE	55	66	72	40	41

Figure S113. Get High-res Image Gene #23: 'amp_12p12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_12p12.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0361 (Fisher's exact test), Q value = 0.079

Table S114. Gene #23: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 23(12P12.1) MUTATED	15	14	34	27	6	32
AMP PEAK 23(12P12.1) WILD-TYPE	59	32	59	39	25	52

Figure S114. Get High-res Image Gene #23: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12q15' versus 'CN_CNMF'

P value = 0.00117 (Fisher's exact test), Q value = 0.005

Table S115. Gene #24: 'amp_12q15' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 24(12Q15) MUTATED	42	57	9	10
AMP PEAK 24(12Q15) WILD-TYPE	127	83	50	30

Figure S115. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #1: 'CN_CNMF'

'amp_12q15' versus 'MRNASEQ_CNMF'

P value = 0.00434 (Fisher's exact test), Q value = 0.016

Table S116. Gene #24: 'amp_12q15' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 24(12Q15) MUTATED	35	64	19
AMP PEAK 24(12Q15) WILD-TYPE	81	116	89

Figure S116. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_12q15' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00834 (Fisher's exact test), Q value = 0.025

Table S117. Gene #24: 'amp_12q15' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 24(12Q15) MUTATED	41	40	37
AMP PEAK 24(12Q15) WILD-TYPE	77	72	137

Figure S117. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_12q15' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.021 (Fisher's exact test), Q value = 0.052

Table S118. Gene #24: 'amp_12q15' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 24(12Q15) MUTATED	16	35	23	27	17
AMP PEAK 24(12Q15) WILD-TYPE	73	64	70	43	37

Figure S118. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_12q15' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00733 (Fisher's exact test), Q value = 0.023

Table S119. Gene #24: 'amp_12q15' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 24(12Q15) MUTATED	17	18	41	41
AMP PEAK 24(12Q15) WILD-TYPE	81	25	93	78

Figure S119. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_12q15' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-04 (Fisher's exact test), Q value = 0.002

Table S120. Gene #24: 'amp_12q15' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 24(12Q15) MUTATED	21	17	31	30	7	11
AMP PEAK 24(12Q15) WILD-TYPE	53	29	62	36	24	73

Figure S120. Get High-res Image Gene #24: 'amp_12q15' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_13q22.1' versus 'CN_CNMF'

P value = 0.00034 (Fisher's exact test), Q value = 0.0017

Table S121. Gene #25: 'amp_13q22.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 25(13Q22.1) MUTATED	34	56	23	15
AMP PEAK 25(13Q22.1) WILD-TYPE	135	84	36	25

Figure S121. Get High-res Image Gene #25: 'amp_13q22.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_16p13.2' versus 'CN_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S122. Gene #26: 'amp_16p13.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 26(16P13.2) MUTATED	22	50	9	6
AMP PEAK 26(16P13.2) WILD-TYPE	147	90	50	34

Figure S122. Get High-res Image Gene #26: 'amp_16p13.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_16p13.2' versus 'METHLYATION_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00052

Table S123. Gene #26: 'amp_16p13.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 26(16P13.2) MUTATED	26	42	10	9
AMP PEAK 26(16P13.2) WILD-TYPE	112	74	59	76

Figure S123. Get High-res Image Gene #26: 'amp_16p13.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_16p13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0217 (Fisher's exact test), Q value = 0.054

Table S124. Gene #26: 'amp_16p13.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 26(16P13.2) MUTATED	14	12	29	13	1	18
AMP PEAK 26(16P13.2) WILD-TYPE	60	34	64	53	30	66

Figure S124. Get High-res Image Gene #26: 'amp_16p13.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_16q22.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S125. Gene #27: 'amp_16q22.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 27(16Q22.1) MUTATED	31	58	10	9
AMP PEAK 27(16Q22.1) WILD-TYPE	138	82	49	31

Figure S125. Get High-res Image Gene #27: 'amp_16q22.1' versus Molecular Subtype #1: 'CN_CNMF'

'amp_16q22.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0045 (Fisher's exact test), Q value = 0.016

Table S126. Gene #27: 'amp_16q22.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 27(16Q22.1) MUTATED	41	18	48
AMP PEAK 27(16Q22.1) WILD-TYPE	77	94	126

Figure S126. Get High-res Image Gene #27: 'amp_16q22.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_16q22.1' versus 'MIRSEQ_CNMF'

P value = 0.043 (Fisher's exact test), Q value = 0.09

Table S127. Gene #27: 'amp_16q22.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 27(16Q22.1) MUTATED	35	33	40
AMP PEAK 27(16Q22.1) WILD-TYPE	85	63	149

Figure S127. Get High-res Image Gene #27: 'amp_16q22.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_16q22.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00833 (Fisher's exact test), Q value = 0.025

Table S128. Gene #27: 'amp_16q22.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 27(16Q22.1) MUTATED	25	35	13	17	18
AMP PEAK 27(16Q22.1) WILD-TYPE	64	64	80	53	36

Figure S128. Get High-res Image Gene #27: 'amp_16q22.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_16q22.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00652 (Fisher's exact test), Q value = 0.021

Table S129. Gene #27: 'amp_16q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 27(16Q22.1) MUTATED	23	13	23	25	1	22
AMP PEAK 27(16Q22.1) WILD-TYPE	51	33	70	41	30	62

Figure S129. Get High-res Image Gene #27: 'amp_16q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S130. Gene #28: 'amp_17q12' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 28(17Q12) MUTATED	46	77	18	25
AMP PEAK 28(17Q12) WILD-TYPE	123	63	41	15

Figure S130. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #1: 'CN_CNMF'

'amp_17q12' versus 'METHLYATION_CNMF'

P value = 0.00168 (Fisher's exact test), Q value = 0.0067

Table S131. Gene #28: 'amp_17q12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 28(17Q12) MUTATED	40	61	27	38
AMP PEAK 28(17Q12) WILD-TYPE	98	55	42	47

Figure S131. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_17q12' versus 'MRNASEQ_CNMF'

P value = 0.00166 (Fisher's exact test), Q value = 0.0067

Table S132. Gene #28: 'amp_17q12' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 28(17Q12) MUTATED	40	91	34
AMP PEAK 28(17Q12) WILD-TYPE	76	89	74

Figure S132. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_17q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0239 (Fisher's exact test), Q value = 0.056

Table S133. Gene #28: 'amp_17q12' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 28(17Q12) MUTATED	50	56	59
AMP PEAK 28(17Q12) WILD-TYPE	68	56	115

Figure S133. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_CNMF'

P value = 0.00364 (Fisher's exact test), Q value = 0.013

Table S134. Gene #28: 'amp_17q12' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
AMP PEAK 28(17Q12) MUTATED	35	49	81
AMP PEAK 28(17Q12) WILD-TYPE	85	47	108

Figure S134. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'amp_17q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0294 (Fisher's exact test), Q value = 0.066

Table S135. Gene #28: 'amp_17q12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 28(17Q12) MUTATED	29	46	33	38	19
AMP PEAK 28(17Q12) WILD-TYPE	60	53	60	32	35

Figure S135. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0106 (Fisher's exact test), Q value = 0.031

Table S136. Gene #28: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 28(17Q12) MUTATED	31	24	64	43
AMP PEAK 28(17Q12) WILD-TYPE	67	19	70	76

Figure S136. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_17q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S137. Gene #28: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 28(17Q12) MUTATED	23	26	57	25	5	26
AMP PEAK 28(17Q12) WILD-TYPE	51	20	36	41	26	58

Figure S137. Get High-res Image Gene #28: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q23.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S138. Gene #29: 'amp_17q23.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 29(17Q23.3) MUTATED	56	87	24	27
AMP PEAK 29(17Q23.3) WILD-TYPE	113	53	35	13

Figure S138. Get High-res Image Gene #29: 'amp_17q23.3' versus Molecular Subtype #1: 'CN_CNMF'

'amp_17q23.3' versus 'METHLYATION_CNMF'

P value = 0.0155 (Fisher's exact test), Q value = 0.041

Table S139. Gene #29: 'amp_17q23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 29(17Q23.3) MUTATED	55	69	30	40
AMP PEAK 29(17Q23.3) WILD-TYPE	83	47	39	45

Figure S139. Get High-res Image Gene #29: 'amp_17q23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_17q23.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3e-04 (Fisher's exact test), Q value = 0.0016

Table S140. Gene #29: 'amp_17q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 29(17Q23.3) MUTATED	28	27	55	38	6	36
AMP PEAK 29(17Q23.3) WILD-TYPE	46	19	38	28	25	48

Figure S140. Get High-res Image Gene #29: 'amp_17q23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S141. Gene #30: 'amp_19q12' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 30(19Q12) MUTATED	35	91	21	17
AMP PEAK 30(19Q12) WILD-TYPE	134	49	38	23

Figure S141. Get High-res Image Gene #30: 'amp_19q12' versus Molecular Subtype #1: 'CN_CNMF'

'amp_19q12' versus 'METHLYATION_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00079

Table S142. Gene #30: 'amp_19q12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 30(19Q12) MUTATED	43	67	27	27
AMP PEAK 30(19Q12) WILD-TYPE	95	49	42	58

Figure S142. Get High-res Image Gene #30: 'amp_19q12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_19q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0119 (Fisher's exact test), Q value = 0.033

Table S143. Gene #30: 'amp_19q12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 30(19Q12) MUTATED	32	43	26	36	27
AMP PEAK 30(19Q12) WILD-TYPE	57	56	67	34	27

Figure S143. Get High-res Image Gene #30: 'amp_19q12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0274 (Fisher's exact test), Q value = 0.062

Table S144. Gene #30: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 30(19Q12) MUTATED	27	19	46	32	6	29
AMP PEAK 30(19Q12) WILD-TYPE	47	27	47	34	25	55

Figure S144. Get High-res Image Gene #30: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q13.43' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S145. Gene #31: 'amp_19q13.43' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 31(19Q13.43) MUTATED	35	82	19	18
AMP PEAK 31(19Q13.43) WILD-TYPE	134	58	40	22

Figure S145. Get High-res Image Gene #31: 'amp_19q13.43' versus Molecular Subtype #1: 'CN_CNMF'

'amp_19q13.43' versus 'METHLYATION_CNMF'

P value = 0.00076 (Fisher's exact test), Q value = 0.0034

Table S146. Gene #31: 'amp_19q13.43' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 31(19Q13.43) MUTATED	39	61	22	32
AMP PEAK 31(19Q13.43) WILD-TYPE	99	55	47	53

Figure S146. Get High-res Image Gene #31: 'amp_19q13.43' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_19q13.43' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00317 (Fisher's exact test), Q value = 0.012

Table S147. Gene #31: 'amp_19q13.43' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 31(19Q13.43) MUTATED	30	43	24	38	19
AMP PEAK 31(19Q13.43) WILD-TYPE	59	56	69	32	35

Figure S147. Get High-res Image Gene #31: 'amp_19q13.43' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_19q13.43' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0323 (Fisher's exact test), Q value = 0.072

Table S148. Gene #31: 'amp_19q13.43' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
AMP PEAK 31(19Q13.43) MUTATED	32	24	55	39
AMP PEAK 31(19Q13.43) WILD-TYPE	66	19	79	80

Figure S148. Get High-res Image Gene #31: 'amp_19q13.43' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'amp_19q13.43' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00425 (Fisher's exact test), Q value = 0.015

Table S149. Gene #31: 'amp_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 31(19Q13.43) MUTATED	22	24	47	24	7	26
AMP PEAK 31(19Q13.43) WILD-TYPE	52	22	46	42	24	58

Figure S149. Get High-res Image Gene #31: 'amp_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S150. Gene #32: 'amp_20q11.21' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 32(20Q11.21) MUTATED	73	108	47	34
AMP PEAK 32(20Q11.21) WILD-TYPE	96	32	12	6

Figure S150. Get High-res Image Gene #32: 'amp_20q11.21' versus Molecular Subtype #1: 'CN_CNMF'

'amp_20q11.21' versus 'METHLYATION_CNMF'

P value = 0.0084 (Fisher's exact test), Q value = 0.026

Table S151. Gene #32: 'amp_20q11.21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 32(20Q11.21) MUTATED	82	88	37	55
AMP PEAK 32(20Q11.21) WILD-TYPE	56	28	32	30

Figure S151. Get High-res Image Gene #32: 'amp_20q11.21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_20q11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0409 (Fisher's exact test), Q value = 0.088

Table S152. Gene #32: 'amp_20q11.21' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
AMP PEAK 32(20Q11.21) MUTATED	86	64	110
AMP PEAK 32(20Q11.21) WILD-TYPE	32	48	64

Figure S152. Get High-res Image Gene #32: 'amp_20q11.21' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'amp_20q11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0421 (Fisher's exact test), Q value = 0.09

Table S153. Gene #32: 'amp_20q11.21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
AMP PEAK 32(20Q11.21) MUTATED	53	71	51	52	35
AMP PEAK 32(20Q11.21) WILD-TYPE	36	28	42	18	19

Figure S153. Get High-res Image Gene #32: 'amp_20q11.21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'amp_20q11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00095 (Fisher's exact test), Q value = 0.0042

Table S154. Gene #32: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 32(20Q11.21) MUTATED	48	34	69	46	10	51
AMP PEAK 32(20Q11.21) WILD-TYPE	26	12	24	20	21	33

Figure S154. Get High-res Image Gene #32: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_22q12.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S155. Gene #33: 'amp_22q12.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
AMP PEAK 33(22Q12.2) MUTATED	19	48	9	11
AMP PEAK 33(22Q12.2) WILD-TYPE	150	92	50	29

Figure S155. Get High-res Image Gene #33: 'amp_22q12.2' versus Molecular Subtype #1: 'CN_CNMF'

'amp_22q12.2' versus 'METHLYATION_CNMF'

P value = 0.0182 (Fisher's exact test), Q value = 0.047

Table S156. Gene #33: 'amp_22q12.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
AMP PEAK 33(22Q12.2) MUTATED	20	35	12	20
AMP PEAK 33(22Q12.2) WILD-TYPE	118	81	57	65

Figure S156. Get High-res Image Gene #33: 'amp_22q12.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'amp_22q12.2' versus 'MRNASEQ_CNMF'

P value = 0.00876 (Fisher's exact test), Q value = 0.027

Table S157. Gene #33: 'amp_22q12.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
AMP PEAK 33(22Q12.2) MUTATED	22	50	14
AMP PEAK 33(22Q12.2) WILD-TYPE	94	130	94

Figure S157. Get High-res Image Gene #33: 'amp_22q12.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'amp_22q12.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0464 (Fisher's exact test), Q value = 0.096

Table S158. Gene #33: 'amp_22q12.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
AMP PEAK 33(22Q12.2) MUTATED	17	10	29	10	2	17
AMP PEAK 33(22Q12.2) WILD-TYPE	57	36	64	56	29	67

Figure S158. Get High-res Image Gene #33: 'amp_22q12.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_1p36.11' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0476 (Fisher's exact test), Q value = 0.097

Table S159. Gene #34: 'del_1p36.11' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 1(1P36.11) MUTATED	20	30	16	18	6
DEL PEAK 1(1P36.11) WILD-TYPE	69	69	77	52	48

Figure S159. Get High-res Image Gene #34: 'del_1p36.11' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_1q32.1' versus 'CN_CNMF'

P value = 0.00446 (Fisher's exact test), Q value = 0.016

Table S160. Gene #35: 'del_1q32.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 2(1Q32.1) MUTATED	18	36	12	5
DEL PEAK 2(1Q32.1) WILD-TYPE	151	104	47	35

Figure S160. Get High-res Image Gene #35: 'del_1q32.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_1q32.1' versus 'METHLYATION_CNMF'

P value = 0.0177 (Fisher's exact test), Q value = 0.046

Table S161. Gene #35: 'del_1q32.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 2(1Q32.1) MUTATED	17	31	12	11
DEL PEAK 2(1Q32.1) WILD-TYPE	121	85	57	74

Figure S161. Get High-res Image Gene #35: 'del_1q32.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_2q22.1' versus 'CN_CNMF'

P value = 0.00064 (Fisher's exact test), Q value = 0.0031

Table S162. Gene #36: 'del_2q22.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 3(2Q22.1) MUTATED	37	60	22	15
DEL PEAK 3(2Q22.1) WILD-TYPE	132	80	37	25

Figure S162. Get High-res Image Gene #36: 'del_2q22.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_2q22.1' versus 'METHLYATION_CNMF'

P value = 0.0185 (Fisher's exact test), Q value = 0.047

Table S163. Gene #36: 'del_2q22.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 3(2Q22.1) MUTATED	36	51	19	28
DEL PEAK 3(2Q22.1) WILD-TYPE	102	65	50	57

Figure S163. Get High-res Image Gene #36: 'del_2q22.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_2q22.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00966 (Fisher's exact test), Q value = 0.028

Table S164. Gene #36: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 3(2Q22.1) MUTATED	20	16	43	20	4	24
DEL PEAK 3(2Q22.1) WILD-TYPE	54	30	50	46	27	60

Figure S164. Get High-res Image Gene #36: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_2q34' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S165. Gene #37: 'del_2q34' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 4(2Q34) MUTATED	39	83	37	15
DEL PEAK 4(2Q34) WILD-TYPE	130	57	22	25

Figure S165. Get High-res Image Gene #37: 'del_2q34' versus Molecular Subtype #1: 'CN_CNMF'

'del_2q34' versus 'METHLYATION_CNMF'

P value = 0.00065 (Fisher's exact test), Q value = 0.0031

Table S166. Gene #37: 'del_2q34' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 4(2Q34) MUTATED	45	67	26	36
DEL PEAK 4(2Q34) WILD-TYPE	93	49	43	49

Figure S166. Get High-res Image Gene #37: 'del_2q34' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_2q34' versus 'RPPA_CNMF'

P value = 0.00655 (Fisher's exact test), Q value = 0.021

Table S167. Gene #37: 'del_2q34' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 4(2Q34) MUTATED	45	39	56
DEL PEAK 4(2Q34) WILD-TYPE	77	75	48

Figure S167. Get High-res Image Gene #37: 'del_2q34' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_2q34' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00058 (Fisher's exact test), Q value = 0.0028

Table S168. Gene #37: 'del_2q34' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 4(2Q34) MUTATED	30	24	51	23	4	36
DEL PEAK 4(2Q34) WILD-TYPE	44	22	42	43	27	48

Figure S168. Get High-res Image Gene #37: 'del_2q34' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_2q37.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S169. Gene #38: 'del_2q37.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 5(2Q37.1) MUTATED	51	100	38	19
DEL PEAK 5(2Q37.1) WILD-TYPE	118	40	21	21

Figure S169. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_2q37.1' versus 'METHLYATION_CNMF'

P value = 0.00014 (Fisher's exact test), Q value = 0.00083

Table S170. Gene #38: 'del_2q37.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 5(2Q37.1) MUTATED	52	75	31	50
DEL PEAK 5(2Q37.1) WILD-TYPE	86	41	38	35

Figure S170. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_2q37.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0486 (Fisher's exact test), Q value = 0.099

Table S171. Gene #38: 'del_2q37.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 5(2Q37.1) MUTATED	62	66	77
DEL PEAK 5(2Q37.1) WILD-TYPE	56	46	97

Figure S171. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_2q37.1' versus 'MIRSEQ_CNMF'

P value = 0.0133 (Fisher's exact test), Q value = 0.037

Table S172. Gene #38: 'del_2q37.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 5(2Q37.1) MUTATED	51	60	96
DEL PEAK 5(2Q37.1) WILD-TYPE	69	36	93

Figure S172. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_2q37.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0462 (Fisher's exact test), Q value = 0.096

Table S173. Gene #38: 'del_2q37.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 5(2Q37.1) MUTATED	42	59	43	42	21
DEL PEAK 5(2Q37.1) WILD-TYPE	47	40	50	28	33

Figure S173. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_2q37.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00443 (Fisher's exact test), Q value = 0.016

Table S174. Gene #38: 'del_2q37.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 5(2Q37.1) MUTATED	34	27	61	33	9	38
DEL PEAK 5(2Q37.1) WILD-TYPE	40	19	32	33	22	46

Figure S174. Get High-res Image Gene #38: 'del_2q37.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_3p14.2' versus 'CN_CNMF'

P value = 0.00037 (Fisher's exact test), Q value = 0.0019

Table S175. Gene #39: 'del_3p14.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 6(3P14.2) MUTATED	33	54	13	17
DEL PEAK 6(3P14.2) WILD-TYPE	136	86	46	23

Figure S175. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #1: 'CN_CNMF'

'del_3p14.2' versus 'RPPA_CNMF'

P value = 0.00016 (Fisher's exact test), Q value = 0.00092

Table S176. Gene #39: 'del_3p14.2' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 6(3P14.2) MUTATED	37	18	42
DEL PEAK 6(3P14.2) WILD-TYPE	85	96	62

Figure S176. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_3p14.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.0094 (Fisher's exact test), Q value = 0.028

Table S177. Gene #39: 'del_3p14.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 6(3P14.2) MUTATED	28	22	35	12
DEL PEAK 6(3P14.2) WILD-TYPE	62	99	63	19

Figure S177. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_3p14.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S178. Gene #39: 'del_3p14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 6(3P14.2) MUTATED	22	35	58
DEL PEAK 6(3P14.2) WILD-TYPE	94	145	50

Figure S178. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_3p14.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.00034

Table S179. Gene #39: 'del_3p14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 6(3P14.2) MUTATED	27	19	69
DEL PEAK 6(3P14.2) WILD-TYPE	91	93	105

Figure S179. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 6e-05 (Fisher's exact test), Q value = 0.00041

Table S180. Gene #39: 'del_3p14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 6(3P14.2) MUTATED	42	25	14	25	11
DEL PEAK 6(3P14.2) WILD-TYPE	47	74	79	45	43

Figure S180. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00016 (Fisher's exact test), Q value = 0.00092

Table S181. Gene #39: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 6(3P14.2) MUTATED	47	10	31	27
DEL PEAK 6(3P14.2) WILD-TYPE	51	33	103	92

Figure S181. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_3p14.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S182. Gene #39: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 6(3P14.2) MUTATED	11	12	29	26	1	36
DEL PEAK 6(3P14.2) WILD-TYPE	63	34	64	40	30	48

Figure S182. Get High-res Image Gene #39: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q22.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S183. Gene #40: 'del_4q22.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 7(4Q22.1) MUTATED	38	68	34	22
DEL PEAK 7(4Q22.1) WILD-TYPE	131	72	25	18

Figure S183. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_4q22.1' versus 'RPPA_CNMF'

P value = 0.00161 (Fisher's exact test), Q value = 0.0066

Table S184. Gene #40: 'del_4q22.1' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 7(4Q22.1) MUTATED	51	28	48
DEL PEAK 7(4Q22.1) WILD-TYPE	71	86	56

Figure S184. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_4q22.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.0153 (Fisher's exact test), Q value = 0.041

Table S185. Gene #40: 'del_4q22.1' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 7(4Q22.1) MUTATED	43	35	41	8
DEL PEAK 7(4Q22.1) WILD-TYPE	47	86	57	23

Figure S185. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_4q22.1' versus 'MRNASEQ_CNMF'

P value = 0.0223 (Fisher's exact test), Q value = 0.054

Table S186. Gene #40: 'del_4q22.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 7(4Q22.1) MUTATED	47	59	53
DEL PEAK 7(4Q22.1) WILD-TYPE	69	121	55

Figure S186. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_4q22.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00117 (Fisher's exact test), Q value = 0.005

Table S187. Gene #40: 'del_4q22.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 7(4Q22.1) MUTATED	53	28	78
DEL PEAK 7(4Q22.1) WILD-TYPE	65	84	96

Figure S187. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_4q22.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00761 (Fisher's exact test), Q value = 0.024

Table S188. Gene #40: 'del_4q22.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 7(4Q22.1) MUTATED	48	39	25	28	22
DEL PEAK 7(4Q22.1) WILD-TYPE	41	60	68	42	32

Figure S188. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_4q22.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0242 (Fisher's exact test), Q value = 0.057

Table S189. Gene #40: 'del_4q22.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 7(4Q22.1) MUTATED	48	12	44	52
DEL PEAK 7(4Q22.1) WILD-TYPE	50	31	90	67

Figure S189. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_4q22.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0149 (Fisher's exact test), Q value = 0.04

Table S190. Gene #40: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 7(4Q22.1) MUTATED	26	15	34	32	6	43
DEL PEAK 7(4Q22.1) WILD-TYPE	48	31	59	34	25	41

Figure S190. Get High-res Image Gene #40: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q34.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S191. Gene #41: 'del_4q34.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 8(4Q34.2) MUTATED	36	81	40	20
DEL PEAK 8(4Q34.2) WILD-TYPE	133	59	19	20

Figure S191. Get High-res Image Gene #41: 'del_4q34.2' versus Molecular Subtype #1: 'CN_CNMF'

'del_4q34.2' versus 'METHLYATION_CNMF'

P value = 0.0186 (Fisher's exact test), Q value = 0.047

Table S192. Gene #41: 'del_4q34.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 8(4Q34.2) MUTATED	56	64	23	34
DEL PEAK 8(4Q34.2) WILD-TYPE	82	52	46	51

Figure S192. Get High-res Image Gene #41: 'del_4q34.2' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_4q34.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.04 (Fisher's exact test), Q value = 0.086

Table S193. Gene #41: 'del_4q34.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 8(4Q34.2) MUTATED	55	37	82
DEL PEAK 8(4Q34.2) WILD-TYPE	63	75	92

Figure S193. Get High-res Image Gene #41: 'del_4q34.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_4q34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00068 (Fisher's exact test), Q value = 0.0032

Table S194. Gene #41: 'del_4q34.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 8(4Q34.2) MUTATED	27	20	45	33	3	42
DEL PEAK 8(4Q34.2) WILD-TYPE	47	26	48	33	28	42

Figure S194. Get High-res Image Gene #41: 'del_4q34.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_5q12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S195. Gene #42: 'del_5q12.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 9(5Q12.1) MUTATED	44	100	35	23
DEL PEAK 9(5Q12.1) WILD-TYPE	125	40	24	17

Figure S195. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_5q12.1' versus 'METHLYATION_CNMF'

P value = 0.00019 (Fisher's exact test), Q value = 0.0011

Table S196. Gene #42: 'del_5q12.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 9(5Q12.1) MUTATED	65	76	23	38
DEL PEAK 9(5Q12.1) WILD-TYPE	73	40	46	47

Figure S196. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_5q12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00443 (Fisher's exact test), Q value = 0.016

Table S197. Gene #42: 'del_5q12.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 9(5Q12.1) MUTATED	73	46	82
DEL PEAK 9(5Q12.1) WILD-TYPE	45	66	92

Figure S197. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_5q12.1' versus 'MIRSEQ_CNMF'

P value = 0.022 (Fisher's exact test), Q value = 0.054

Table S198. Gene #42: 'del_5q12.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 9(5Q12.1) MUTATED	62	58	82
DEL PEAK 9(5Q12.1) WILD-TYPE	58	38	107

Figure S198. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_5q12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00012 (Fisher's exact test), Q value = 0.00075

Table S199. Gene #42: 'del_5q12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 9(5Q12.1) MUTATED	42	60	28	43	29
DEL PEAK 9(5Q12.1) WILD-TYPE	47	39	65	27	25

Figure S199. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_5q12.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00076 (Fisher's exact test), Q value = 0.0034

Table S200. Gene #42: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 9(5Q12.1) MUTATED	37	31	50	38	6	37
DEL PEAK 9(5Q12.1) WILD-TYPE	37	15	43	28	25	47

Figure S200. Get High-res Image Gene #42: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6p25.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S201. Gene #43: 'del_6p25.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 10(6P25.3) MUTATED	20	49	19	18
DEL PEAK 10(6P25.3) WILD-TYPE	149	91	40	22

Figure S201. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_6p25.3' versus 'METHLYATION_CNMF'

P value = 7e-04 (Fisher's exact test), Q value = 0.0033

Table S202. Gene #43: 'del_6p25.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 10(6P25.3) MUTATED	26	47	16	17
DEL PEAK 10(6P25.3) WILD-TYPE	112	69	53	68

Figure S202. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_6p25.3' versus 'RPPA_CNMF'

P value = 0.0386 (Fisher's exact test), Q value = 0.083

Table S203. Gene #43: 'del_6p25.3' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 10(6P25.3) MUTATED	34	24	38
DEL PEAK 10(6P25.3) WILD-TYPE	88	90	66

Figure S203. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_6p25.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0156 (Fisher's exact test), Q value = 0.041

Table S204. Gene #43: 'del_6p25.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 10(6P25.3) MUTATED	42	26	36
DEL PEAK 10(6P25.3) WILD-TYPE	76	86	138

Figure S204. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_6p25.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0317 (Fisher's exact test), Q value = 0.071

Table S205. Gene #43: 'del_6p25.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 10(6P25.3) MUTATED	22	30	14	25	14
DEL PEAK 10(6P25.3) WILD-TYPE	67	69	79	45	40

Figure S205. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_6p25.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00769 (Fisher's exact test), Q value = 0.024

Table S206. Gene #43: 'del_6p25.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 10(6P25.3) MUTATED	17	16	30	20	1	19
DEL PEAK 10(6P25.3) WILD-TYPE	57	30	63	46	30	65

Figure S206. Get High-res Image Gene #43: 'del_6p25.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S207. Gene #44: 'del_6q21' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 11(6Q21) MUTATED	44	94	25	27
DEL PEAK 11(6Q21) WILD-TYPE	125	46	34	13

Figure S207. Get High-res Image Gene #44: 'del_6q21' versus Molecular Subtype #1: 'CN_CNMF'

'del_6q21' versus 'METHLYATION_CNMF'

P value = 0.019 (Fisher's exact test), Q value = 0.048

Table S208. Gene #44: 'del_6q21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 11(6Q21) MUTATED	54	67	28	41
DEL PEAK 11(6Q21) WILD-TYPE	84	49	41	44

Figure S208. Get High-res Image Gene #44: 'del_6q21' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_6q21' versus 'MIRSEQ_CNMF'

P value = 0.0149 (Fisher's exact test), Q value = 0.04

Table S209. Gene #44: 'del_6q21' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 11(6Q21) MUTATED	59	55	75
DEL PEAK 11(6Q21) WILD-TYPE	61	41	114

Figure S209. Get High-res Image Gene #44: 'del_6q21' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_6q21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00046

Table S210. Gene #44: 'del_6q21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 11(6Q21) MUTATED	36	60	27	39	27
DEL PEAK 11(6Q21) WILD-TYPE	53	39	66	31	27

Figure S210. Get High-res Image Gene #44: 'del_6q21' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_6q21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S211. Gene #44: 'del_6q21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 11(6Q21) MUTATED	30	30	54	37	4	32
DEL PEAK 11(6Q21) WILD-TYPE	44	16	39	29	27	52

Figure S211. Get High-res Image Gene #44: 'del_6q21' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q27' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S212. Gene #45: 'del_6q27' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 12(6Q27) MUTATED	43	93	26	28
DEL PEAK 12(6Q27) WILD-TYPE	126	47	33	12

Figure S212. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #1: 'CN_CNMF'

'del_6q27' versus 'METHLYATION_CNMF'

P value = 0.0272 (Fisher's exact test), Q value = 0.062

Table S213. Gene #45: 'del_6q27' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 12(6Q27) MUTATED	54	67	30	39
DEL PEAK 12(6Q27) WILD-TYPE	84	49	39	46

Figure S213. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_6q27' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0108 (Fisher's exact test), Q value = 0.031

Table S214. Gene #45: 'del_6q27' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 12(6Q27) MUTATED	69	47	73
DEL PEAK 12(6Q27) WILD-TYPE	49	65	101

Figure S214. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_6q27' versus 'MIRSEQ_CNMF'

P value = 0.0236 (Fisher's exact test), Q value = 0.056

Table S215. Gene #45: 'del_6q27' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 12(6Q27) MUTATED	58	55	76
DEL PEAK 12(6Q27) WILD-TYPE	62	41	113

Figure S215. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_6q27' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S216. Gene #45: 'del_6q27' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 12(6Q27) MUTATED	33	57	28	44	27
DEL PEAK 12(6Q27) WILD-TYPE	56	42	65	26	27

Figure S216. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_6q27' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S217. Gene #45: 'del_6q27' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 12(6Q27) MUTATED	33	28	55	38	3	30
DEL PEAK 12(6Q27) WILD-TYPE	41	18	38	28	28	54

Figure S217. Get High-res Image Gene #45: 'del_6q27' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7q36.3' versus 'CN_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00079

Table S218. Gene #46: 'del_7q36.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 13(7Q36.3) MUTATED	10	30	11	9
DEL PEAK 13(7Q36.3) WILD-TYPE	159	110	48	31

Figure S218. Get High-res Image Gene #46: 'del_7q36.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_7q36.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00121 (Fisher's exact test), Q value = 0.0051

Table S219. Gene #46: 'del_7q36.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 13(7Q36.3) MUTATED	14	16	7	20	3
DEL PEAK 13(7Q36.3) WILD-TYPE	75	83	86	50	51

Figure S219. Get High-res Image Gene #46: 'del_7q36.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_7q36.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00372 (Fisher's exact test), Q value = 0.014

Table S220. Gene #46: 'del_7q36.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 13(7Q36.3) MUTATED	3	7	20	13	1	16
DEL PEAK 13(7Q36.3) WILD-TYPE	71	39	73	53	30	68

Figure S220. Get High-res Image Gene #46: 'del_7q36.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p23.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S221. Gene #47: 'del_8p23.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 14(8P23.3) MUTATED	64	119	46	13
DEL PEAK 14(8P23.3) WILD-TYPE	105	21	13	27

Figure S221. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_8p23.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S222. Gene #47: 'del_8p23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 14(8P23.3) MUTATED	88	89	26	39
DEL PEAK 14(8P23.3) WILD-TYPE	50	27	43	46

Figure S222. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_8p23.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0053 (Fisher's exact test), Q value = 0.018

Table S223. Gene #47: 'del_8p23.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 14(8P23.3) MUTATED	57	55	66	20
DEL PEAK 14(8P23.3) WILD-TYPE	33	66	32	11

Figure S223. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_8p23.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00016 (Fisher's exact test), Q value = 0.00092

Table S224. Gene #47: 'del_8p23.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 14(8P23.3) MUTATED	85	50	106
DEL PEAK 14(8P23.3) WILD-TYPE	33	62	68

Figure S224. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_8p23.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0138 (Fisher's exact test), Q value = 0.038

Table S225. Gene #47: 'del_8p23.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 14(8P23.3) MUTATED	49	69	44	41	37
DEL PEAK 14(8P23.3) WILD-TYPE	40	30	49	29	17

Figure S225. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_8p23.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00164 (Fisher's exact test), Q value = 0.0066

Table S226. Gene #47: 'del_8p23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 14(8P23.3) MUTATED	46	30	59	40	7	53
DEL PEAK 14(8P23.3) WILD-TYPE	28	16	34	26	24	31

Figure S226. Get High-res Image Gene #47: 'del_8p23.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S227. Gene #48: 'del_8p21.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 15(8P21.3) MUTATED	66	126	46	14
DEL PEAK 15(8P21.3) WILD-TYPE	103	14	13	26

Figure S227. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_8p21.3' versus 'METHLYATION_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S228. Gene #48: 'del_8p21.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 15(8P21.3) MUTATED	90	89	31	42
DEL PEAK 15(8P21.3) WILD-TYPE	48	27	38	43

Figure S228. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_8p21.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0329 (Fisher's exact test), Q value = 0.073

Table S229. Gene #48: 'del_8p21.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 15(8P21.3) MUTATED	60	62	67	21
DEL PEAK 15(8P21.3) WILD-TYPE	30	59	31	10

Figure S229. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_8p21.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00952 (Fisher's exact test), Q value = 0.028

Table S230. Gene #48: 'del_8p21.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 15(8P21.3) MUTATED	83	57	111
DEL PEAK 15(8P21.3) WILD-TYPE	35	55	63

Figure S230. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_8p21.3' versus 'MIRSEQ_CNMF'

P value = 0.0171 (Fisher's exact test), Q value = 0.045

Table S231. Gene #48: 'del_8p21.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 15(8P21.3) MUTATED	70	71	109
DEL PEAK 15(8P21.3) WILD-TYPE	50	25	80

Figure S231. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_8p21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00766 (Fisher's exact test), Q value = 0.024

Table S232. Gene #48: 'del_8p21.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 15(8P21.3) MUTATED	49	75	49	42	35
DEL PEAK 15(8P21.3) WILD-TYPE	40	24	44	28	19

Figure S232. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_8p21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 6e-04 (Fisher's exact test), Q value = 0.0029

Table S233. Gene #48: 'del_8p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 15(8P21.3) MUTATED	45	33	64	39	8	56
DEL PEAK 15(8P21.3) WILD-TYPE	29	13	29	27	23	28

Figure S233. Get High-res Image Gene #48: 'del_8p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S234. Gene #49: 'del_9p23' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 16(9P23) MUTATED	82	75	2	19
DEL PEAK 16(9P23) WILD-TYPE	87	65	57	21

Figure S234. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #1: 'CN_CNMF'

'del_9p23' versus 'METHLYATION_CNMF'

P value = 0.00026 (Fisher's exact test), Q value = 0.0014

Table S235. Gene #49: 'del_9p23' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 16(9P23) MUTATED	40	60	37	41
DEL PEAK 16(9P23) WILD-TYPE	98	56	32	44

Figure S235. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_9p23' versus 'RPPA_CNMF'

P value = 0.0222 (Fisher's exact test), Q value = 0.054

Table S236. Gene #49: 'del_9p23' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 16(9P23) MUTATED	44	61	43
DEL PEAK 16(9P23) WILD-TYPE	78	53	61

Figure S236. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_9p23' versus 'RPPA_CHIERARCHICAL'

P value = 0.00441 (Fisher's exact test), Q value = 0.016

Table S237. Gene #49: 'del_9p23' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 16(9P23) MUTATED	40	66	30	12
DEL PEAK 16(9P23) WILD-TYPE	50	55	68	19

Figure S237. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_9p23' versus 'MRNASEQ_CNMF'

P value = 0.0248 (Fisher's exact test), Q value = 0.058

Table S238. Gene #49: 'del_9p23' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 16(9P23) MUTATED	48	92	38
DEL PEAK 16(9P23) WILD-TYPE	68	88	70

Figure S238. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_9p23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.00069

Table S239. Gene #49: 'del_9p23' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 16(9P23) MUTATED	62	60	56
DEL PEAK 16(9P23) WILD-TYPE	56	52	118

Figure S239. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_CNMF'

P value = 0.0449 (Fisher's exact test), Q value = 0.093

Table S240. Gene #49: 'del_9p23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 16(9P23) MUTATED	45	52	80
DEL PEAK 16(9P23) WILD-TYPE	75	44	109

Figure S240. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_9p23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.014 (Fisher's exact test), Q value = 0.038

Table S241. Gene #49: 'del_9p23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 16(9P23) MUTATED	28	49	38	40	22
DEL PEAK 16(9P23) WILD-TYPE	61	50	55	30	32

Figure S241. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S242. Gene #49: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 16(9P23) MUTATED	22	26	69	56
DEL PEAK 16(9P23) WILD-TYPE	76	17	65	63

Figure S242. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_9p23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00054 (Fisher's exact test), Q value = 0.0026

Table S243. Gene #49: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 16(9P23) MUTATED	27	26	43	37	18	22
DEL PEAK 16(9P23) WILD-TYPE	47	20	50	29	13	62

Figure S243. Get High-res Image Gene #49: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S244. Gene #50: 'del_9p21.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 17(9P21.3) MUTATED	118	89	7	25
DEL PEAK 17(9P21.3) WILD-TYPE	51	51	52	15

Figure S244. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_9p21.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.00544 (Fisher's exact test), Q value = 0.019

Table S245. Gene #50: 'del_9p21.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 17(9P21.3) MUTATED	48	83	47	22
DEL PEAK 17(9P21.3) WILD-TYPE	42	38	51	9

Figure S245. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_9p21.3' versus 'MRNASEQ_CNMF'

P value = 0.0373 (Fisher's exact test), Q value = 0.081

Table S246. Gene #50: 'del_9p21.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 17(9P21.3) MUTATED	58	117	63
DEL PEAK 17(9P21.3) WILD-TYPE	58	63	45

Figure S246. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_9p21.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0218 (Fisher's exact test), Q value = 0.054

Table S247. Gene #50: 'del_9p21.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 17(9P21.3) MUTATED	75	74	89
DEL PEAK 17(9P21.3) WILD-TYPE	43	38	85

Figure S247. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_9p21.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0386 (Fisher's exact test), Q value = 0.083

Table S248. Gene #50: 'del_9p21.3' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 17(9P21.3) MUTATED	47	30	86	69
DEL PEAK 17(9P21.3) WILD-TYPE	51	13	48	50

Figure S248. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_9p21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.00028

Table S249. Gene #50: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 17(9P21.3) MUTATED	34	33	52	49	25	39
DEL PEAK 17(9P21.3) WILD-TYPE	40	13	41	17	6	45

Figure S249. Get High-res Image Gene #50: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q22.33' versus 'CN_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S250. Gene #51: 'del_9q22.33' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 18(9Q22.33) MUTATED	82	67	8	21
DEL PEAK 18(9Q22.33) WILD-TYPE	87	73	51	19

Figure S250. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #1: 'CN_CNMF'

'del_9q22.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S251. Gene #51: 'del_9q22.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 18(9Q22.33) MUTATED	35	61	38	44
DEL PEAK 18(9Q22.33) WILD-TYPE	103	55	31	41

Figure S251. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_9q22.33' versus 'RPPA_CNMF'

P value = 0.00025 (Fisher's exact test), Q value = 0.0013

Table S252. Gene #51: 'del_9q22.33' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 18(9Q22.33) MUTATED	44	66	35
DEL PEAK 18(9Q22.33) WILD-TYPE	78	48	69

Figure S252. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_9q22.33' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S253. Gene #51: 'del_9q22.33' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 18(9Q22.33) MUTATED	40	76	21	8
DEL PEAK 18(9Q22.33) WILD-TYPE	50	45	77	23

Figure S253. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_9q22.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S254. Gene #51: 'del_9q22.33' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 18(9Q22.33) MUTATED	42	107	29
DEL PEAK 18(9Q22.33) WILD-TYPE	74	73	79

Figure S254. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_9q22.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S255. Gene #51: 'del_9q22.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 18(9Q22.33) MUTATED	64	68	46
DEL PEAK 18(9Q22.33) WILD-TYPE	54	44	128

Figure S255. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_9q22.33' versus 'MIRSEQ_CNMF'

P value = 0.0082 (Fisher's exact test), Q value = 0.025

Table S256. Gene #51: 'del_9q22.33' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 18(9Q22.33) MUTATED	39	50	88
DEL PEAK 18(9Q22.33) WILD-TYPE	81	46	101

Figure S256. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_9q22.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.00096

Table S257. Gene #51: 'del_9q22.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 18(9Q22.33) MUTATED	21	45	46	41	24
DEL PEAK 18(9Q22.33) WILD-TYPE	68	54	47	29	30

Figure S257. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_9q22.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S258. Gene #51: 'del_9q22.33' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 18(9Q22.33) MUTATED	19	25	80	49
DEL PEAK 18(9Q22.33) WILD-TYPE	79	18	54	70

Figure S258. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_9q22.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S259. Gene #51: 'del_9q22.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 18(9Q22.33) MUTATED	29	25	48	34	25	12
DEL PEAK 18(9Q22.33) WILD-TYPE	45	21	45	32	6	72

Figure S259. Get High-res Image Gene #51: 'del_9q22.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10p11.21' versus 'MRNASEQ_CNMF'

P value = 0.00156 (Fisher's exact test), Q value = 0.0064

Table S260. Gene #52: 'del_10p11.21' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 19(10P11.21) MUTATED	11	31	30
DEL PEAK 19(10P11.21) WILD-TYPE	105	149	78

Figure S260. Get High-res Image Gene #52: 'del_10p11.21' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_10q23.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S261. Gene #53: 'del_10q23.31' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 20(10Q23.31) MUTATED	34	80	34	18
DEL PEAK 20(10Q23.31) WILD-TYPE	135	60	25	22

Figure S261. Get High-res Image Gene #53: 'del_10q23.31' versus Molecular Subtype #1: 'CN_CNMF'

'del_10q23.31' versus 'METHLYATION_CNMF'

P value = 0.00103 (Fisher's exact test), Q value = 0.0045

Table S262. Gene #53: 'del_10q23.31' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 20(10Q23.31) MUTATED	46	65	23	32
DEL PEAK 20(10Q23.31) WILD-TYPE	92	51	46	53

Figure S262. Get High-res Image Gene #53: 'del_10q23.31' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_10q23.31' versus 'MRNASEQ_CNMF'

P value = 0.0474 (Fisher's exact test), Q value = 0.097

Table S263. Gene #53: 'del_10q23.31' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 20(10Q23.31) MUTATED	36	81	46
DEL PEAK 20(10Q23.31) WILD-TYPE	80	99	62

Figure S263. Get High-res Image Gene #53: 'del_10q23.31' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_11p15.5' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S264. Gene #54: 'del_11p15.5' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 21(11P15.5) MUTATED	66	102	18	25
DEL PEAK 21(11P15.5) WILD-TYPE	103	38	41	15

Figure S264. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #1: 'CN_CNMF'

'del_11p15.5' versus 'METHLYATION_CNMF'

P value = 0.00021 (Fisher's exact test), Q value = 0.0012

Table S265. Gene #54: 'del_11p15.5' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 21(11P15.5) MUTATED	51	71	44	45
DEL PEAK 21(11P15.5) WILD-TYPE	87	45	25	40

Figure S265. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_11p15.5' versus 'RPPA_CHIERARCHICAL'

P value = 0.00025 (Fisher's exact test), Q value = 0.0013

Table S266. Gene #54: 'del_11p15.5' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 21(11P15.5) MUTATED	56	72	37	10
DEL PEAK 21(11P15.5) WILD-TYPE	34	49	61	21

Figure S266. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_11p15.5' versus 'MRNASEQ_CNMF'

P value = 0.00149 (Fisher's exact test), Q value = 0.0062

Table S267. Gene #54: 'del_11p15.5' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 21(11P15.5) MUTATED	54	110	44
DEL PEAK 21(11P15.5) WILD-TYPE	62	70	64

Figure S267. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_11p15.5' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S268. Gene #54: 'del_11p15.5' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 21(11P15.5) MUTATED	76	66	66
DEL PEAK 21(11P15.5) WILD-TYPE	42	46	108

Figure S268. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_11p15.5' versus 'MIRSEQ_CNMF'

P value = 0.0222 (Fisher's exact test), Q value = 0.054

Table S269. Gene #54: 'del_11p15.5' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 21(11P15.5) MUTATED	54	61	95
DEL PEAK 21(11P15.5) WILD-TYPE	66	35	94

Figure S269. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_11p15.5' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0134 (Fisher's exact test), Q value = 0.037

Table S270. Gene #54: 'del_11p15.5' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 21(11P15.5) MUTATED	37	25	75	68
DEL PEAK 21(11P15.5) WILD-TYPE	61	18	59	51

Figure S270. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_11p15.5' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0127 (Fisher's exact test), Q value = 0.035

Table S271. Gene #54: 'del_11p15.5' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 21(11P15.5) MUTATED	40	29	54	37	16	29
DEL PEAK 21(11P15.5) WILD-TYPE	34	17	39	29	15	55

Figure S271. Get High-res Image Gene #54: 'del_11p15.5' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_11q23.3' versus 'CN_CNMF'

P value = 0.00199 (Fisher's exact test), Q value = 0.0076

Table S272. Gene #55: 'del_11q23.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 22(11Q23.3) MUTATED	50	66	18	21
DEL PEAK 22(11Q23.3) WILD-TYPE	119	74	41	19

Figure S272. Get High-res Image Gene #55: 'del_11q23.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_11q25' versus 'CN_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.00069

Table S273. Gene #56: 'del_11q25' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 23(11Q25) MUTATED	42	65	16	20
DEL PEAK 23(11Q25) WILD-TYPE	127	75	43	20

Figure S273. Get High-res Image Gene #56: 'del_11q25' versus Molecular Subtype #1: 'CN_CNMF'

'del_12p13.1' versus 'CN_CNMF'

P value = 0.0105 (Fisher's exact test), Q value = 0.03

Table S274. Gene #57: 'del_12p13.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 24(12P13.1) MUTATED	19	35	7	7
DEL PEAK 24(12P13.1) WILD-TYPE	150	105	52	33

Figure S274. Get High-res Image Gene #57: 'del_12p13.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_12p13.1' versus 'METHLYATION_CNMF'

P value = 0.00074 (Fisher's exact test), Q value = 0.0034

Table S275. Gene #57: 'del_12p13.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 24(12P13.1) MUTATED	13	33	11	11
DEL PEAK 24(12P13.1) WILD-TYPE	125	83	58	74

Figure S275. Get High-res Image Gene #57: 'del_12p13.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_12p13.1' versus 'MRNASEQ_CNMF'

P value = 0.00647 (Fisher's exact test), Q value = 0.021

Table S276. Gene #57: 'del_12p13.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 24(12P13.1) MUTATED	21	38	8
DEL PEAK 24(12P13.1) WILD-TYPE	95	142	100

Figure S276. Get High-res Image Gene #57: 'del_12p13.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_12p13.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.00028

Table S277. Gene #57: 'del_12p13.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 24(12P13.1) MUTATED	34	18	15
DEL PEAK 24(12P13.1) WILD-TYPE	84	94	159

Figure S277. Get High-res Image Gene #57: 'del_12p13.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_12p13.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0164 (Fisher's exact test), Q value = 0.043

Table S278. Gene #57: 'del_12p13.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 24(12P13.1) MUTATED	7	9	27	24
DEL PEAK 24(12P13.1) WILD-TYPE	91	34	107	95

Figure S278. Get High-res Image Gene #57: 'del_12p13.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_12q24.33' versus 'CN_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S279. Gene #58: 'del_12q24.33' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 25(12Q24.33) MUTATED	17	41	20	10
DEL PEAK 25(12Q24.33) WILD-TYPE	152	99	39	30

Figure S279. Get High-res Image Gene #58: 'del_12q24.33' versus Molecular Subtype #1: 'CN_CNMF'

'del_13q14.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S280. Gene #59: 'del_13q14.2' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 26(13Q14.2) MUTATED	24	69	43	20
DEL PEAK 26(13Q14.2) WILD-TYPE	145	71	16	20

Figure S280. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #1: 'CN_CNMF'

'del_13q14.2' versus 'RPPA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S281. Gene #59: 'del_13q14.2' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 26(13Q14.2) MUTATED	43	30	59
DEL PEAK 26(13Q14.2) WILD-TYPE	79	84	45

Figure S281. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_13q14.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.0163 (Fisher's exact test), Q value = 0.043

Table S282. Gene #59: 'del_13q14.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 26(13Q14.2) MUTATED	36	40	49	7
DEL PEAK 26(13Q14.2) WILD-TYPE	54	81	49	24

Figure S282. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_13q14.2' versus 'MRNASEQ_CNMF'

P value = 0.0221 (Fisher's exact test), Q value = 0.054

Table S283. Gene #59: 'del_13q14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 26(13Q14.2) MUTATED	46	56	51
DEL PEAK 26(13Q14.2) WILD-TYPE	70	124	57

Figure S283. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_13q14.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00986 (Fisher's exact test), Q value = 0.029

Table S284. Gene #59: 'del_13q14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 26(13Q14.2) MUTATED	43	31	79
DEL PEAK 26(13Q14.2) WILD-TYPE	75	81	95

Figure S284. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_13q14.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00033 (Fisher's exact test), Q value = 0.0017

Table S285. Gene #59: 'del_13q14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 26(13Q14.2) MUTATED	47	42	21	30	16
DEL PEAK 26(13Q14.2) WILD-TYPE	42	57	72	40	38

Figure S285. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_13q14.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0061 (Fisher's exact test), Q value = 0.02

Table S286. Gene #59: 'del_13q14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 26(13Q14.2) MUTATED	52	14	52	36
DEL PEAK 26(13Q14.2) WILD-TYPE	46	29	82	83

Figure S286. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_13q14.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S287. Gene #59: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 26(13Q14.2) MUTATED	17	18	48	21	3	47
DEL PEAK 26(13Q14.2) WILD-TYPE	57	28	45	45	28	37

Figure S287. Get High-res Image Gene #59: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_14q24.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S288. Gene #60: 'del_14q24.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 27(14Q24.1) MUTATED	32	83	12	10
DEL PEAK 27(14Q24.1) WILD-TYPE	137	57	47	30

Figure S288. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_14q24.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S289. Gene #60: 'del_14q24.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 27(14Q24.1) MUTATED	35	63	25	14
DEL PEAK 27(14Q24.1) WILD-TYPE	103	53	44	71

Figure S289. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_14q24.1' versus 'MRNASEQ_CNMF'

P value = 0.00665 (Fisher's exact test), Q value = 0.022

Table S290. Gene #60: 'del_14q24.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 27(14Q24.1) MUTATED	37	74	25
DEL PEAK 27(14Q24.1) WILD-TYPE	79	106	83

Figure S290. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_14q24.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S291. Gene #60: 'del_14q24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 27(14Q24.1) MUTATED	64	35	37
DEL PEAK 27(14Q24.1) WILD-TYPE	54	77	137

Figure S291. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_14q24.1' versus 'MIRSEQ_CNMF'

P value = 0.00698 (Fisher's exact test), Q value = 0.022

Table S292. Gene #60: 'del_14q24.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 27(14Q24.1) MUTATED	37	45	54
DEL PEAK 27(14Q24.1) WILD-TYPE	83	51	135

Figure S292. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_14q24.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00089 (Fisher's exact test), Q value = 0.004

Table S293. Gene #60: 'del_14q24.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 27(14Q24.1) MUTATED	22	40	20	34	20
DEL PEAK 27(14Q24.1) WILD-TYPE	67	59	73	36	34

Figure S293. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_14q24.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00366 (Fisher's exact test), Q value = 0.013

Table S294. Gene #60: 'del_14q24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 27(14Q24.1) MUTATED	23	23	42	46
DEL PEAK 27(14Q24.1) WILD-TYPE	75	20	92	73

Figure S294. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_14q24.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00016

Table S295. Gene #60: 'del_14q24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 27(14Q24.1) MUTATED	22	22	40	31	3	16
DEL PEAK 27(14Q24.1) WILD-TYPE	52	24	53	35	28	68

Figure S295. Get High-res Image Gene #60: 'del_14q24.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_15q13.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S296. Gene #61: 'del_15q13.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 28(15Q13.1) MUTATED	23	80	39	18
DEL PEAK 28(15Q13.1) WILD-TYPE	146	60	20	22

Figure S296. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_15q13.1' versus 'METHLYATION_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.00028

Table S297. Gene #61: 'del_15q13.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 28(15Q13.1) MUTATED	55	64	16	25
DEL PEAK 28(15Q13.1) WILD-TYPE	83	52	53	60

Figure S297. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_15q13.1' versus 'MIRSEQ_CNMF'

P value = 0.015 (Fisher's exact test), Q value = 0.04

Table S298. Gene #61: 'del_15q13.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 28(15Q13.1) MUTATED	41	50	69
DEL PEAK 28(15Q13.1) WILD-TYPE	79	46	120

Figure S298. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_15q13.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 6e-05 (Fisher's exact test), Q value = 0.00041

Table S299. Gene #61: 'del_15q13.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 28(15Q13.1) MUTATED	30	52	21	37	20
DEL PEAK 28(15Q13.1) WILD-TYPE	59	47	72	33	34

Figure S299. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_15q13.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0122 (Fisher's exact test), Q value = 0.034

Table S300. Gene #61: 'del_15q13.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 28(15Q13.1) MUTATED	43	26	48	40
DEL PEAK 28(15Q13.1) WILD-TYPE	55	17	86	79

Figure S300. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_15q13.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S301. Gene #61: 'del_15q13.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 28(15Q13.1) MUTATED	24	26	45	24	1	37
DEL PEAK 28(15Q13.1) WILD-TYPE	50	20	48	42	30	47

Figure S301. Get High-res Image Gene #61: 'del_15q13.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S302. Gene #62: 'del_16p13.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 29(16P13.3) MUTATED	30	82	45	17
DEL PEAK 29(16P13.3) WILD-TYPE	139	58	14	23

Figure S302. Get High-res Image Gene #62: 'del_16p13.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_16p13.3' versus 'METHLYATION_CNMF'

P value = 0.00162 (Fisher's exact test), Q value = 0.0066

Table S303. Gene #62: 'del_16p13.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 29(16P13.3) MUTATED	55	65	19	35
DEL PEAK 29(16P13.3) WILD-TYPE	83	51	50	50

Figure S303. Get High-res Image Gene #62: 'del_16p13.3' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_16p13.3' versus 'RPPA_CNMF'

P value = 0.00566 (Fisher's exact test), Q value = 0.019

Table S304. Gene #62: 'del_16p13.3' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 29(16P13.3) MUTATED	54	36	55
DEL PEAK 29(16P13.3) WILD-TYPE	68	78	49

Figure S304. Get High-res Image Gene #62: 'del_16p13.3' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_16p13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0372 (Fisher's exact test), Q value = 0.081

Table S305. Gene #62: 'del_16p13.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 29(16P13.3) MUTATED	39	47	28	37	22
DEL PEAK 29(16P13.3) WILD-TYPE	50	52	65	33	32

Figure S305. Get High-res Image Gene #62: 'del_16p13.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_16p13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0136 (Fisher's exact test), Q value = 0.037

Table S306. Gene #62: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 29(16P13.3) MUTATED	29	19	46	24	6	45
DEL PEAK 29(16P13.3) WILD-TYPE	45	27	47	42	25	39

Figure S306. Get High-res Image Gene #62: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q23.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S307. Gene #63: 'del_16q23.1' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 30(16Q23.1) MUTATED	14	50	36	19
DEL PEAK 30(16Q23.1) WILD-TYPE	155	90	23	21

Figure S307. Get High-res Image Gene #63: 'del_16q23.1' versus Molecular Subtype #1: 'CN_CNMF'

'del_16q23.1' versus 'METHLYATION_CNMF'

P value = 0.00258 (Fisher's exact test), Q value = 0.0097

Table S308. Gene #63: 'del_16q23.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 30(16Q23.1) MUTATED	37	46	10	26
DEL PEAK 30(16Q23.1) WILD-TYPE	101	70	59	59

Figure S308. Get High-res Image Gene #63: 'del_16q23.1' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_16q23.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.025 (Fisher's exact test), Q value = 0.058

Table S309. Gene #63: 'del_16q23.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 30(16Q23.1) MUTATED	28	32	19	29	11
DEL PEAK 30(16Q23.1) WILD-TYPE	61	67	74	41	43

Figure S309. Get High-res Image Gene #63: 'del_16q23.1' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_16q23.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00046

Table S310. Gene #63: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 30(16Q23.1) MUTATED	12	15	37	15	2	34
DEL PEAK 30(16Q23.1) WILD-TYPE	62	31	56	51	29	50

Figure S310. Get High-res Image Gene #63: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17p12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S311. Gene #64: 'del_17p12' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 31(17P12) MUTATED	61	93	26	29
DEL PEAK 31(17P12) WILD-TYPE	108	47	33	11

Figure S311. Get High-res Image Gene #64: 'del_17p12' versus Molecular Subtype #1: 'CN_CNMF'

'del_17p12' versus 'METHLYATION_CNMF'

P value = 0.00131 (Fisher's exact test), Q value = 0.0055

Table S312. Gene #64: 'del_17p12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 31(17P12) MUTATED	60	76	37	36
DEL PEAK 31(17P12) WILD-TYPE	78	40	32	49

Figure S312. Get High-res Image Gene #64: 'del_17p12' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_17p12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00952 (Fisher's exact test), Q value = 0.028

Table S313. Gene #64: 'del_17p12' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 31(17P12) MUTATED	74	53	79
DEL PEAK 31(17P12) WILD-TYPE	44	59	95

Figure S313. Get High-res Image Gene #64: 'del_17p12' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_17p12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00022 (Fisher's exact test), Q value = 0.0012

Table S314. Gene #64: 'del_17p12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 31(17P12) MUTATED	43	51	34	51	28
DEL PEAK 31(17P12) WILD-TYPE	46	48	59	19	26

Figure S314. Get High-res Image Gene #64: 'del_17p12' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_17p12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.00096

Table S315. Gene #64: 'del_17p12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 31(17P12) MUTATED	32	26	60	41	7	36
DEL PEAK 31(17P12) WILD-TYPE	42	20	33	25	24	48

Figure S315. Get High-res Image Gene #64: 'del_17p12' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_18q23' versus 'CN_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.00022

Table S316. Gene #65: 'del_18q23' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 32(18Q23) MUTATED	53	82	28	17
DEL PEAK 32(18Q23) WILD-TYPE	116	58	31	23

Figure S316. Get High-res Image Gene #65: 'del_18q23' versus Molecular Subtype #1: 'CN_CNMF'

'del_18q23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S317. Gene #65: 'del_18q23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	120	96	189
DEL PEAK 32(18Q23) MUTATED	53	64	62
DEL PEAK 32(18Q23) WILD-TYPE	67	32	127

Figure S317. Get High-res Image Gene #65: 'del_18q23' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'del_18q23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S318. Gene #65: 'del_18q23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 32(18Q23) MUTATED	29	73	29	28	20
DEL PEAK 32(18Q23) WILD-TYPE	60	26	64	42	34

Figure S318. Get High-res Image Gene #65: 'del_18q23' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_18q23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00588 (Fisher's exact test), Q value = 0.02

Table S319. Gene #65: 'del_18q23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 32(18Q23) MUTATED	42	30	53	53
DEL PEAK 32(18Q23) WILD-TYPE	56	13	81	66

Figure S319. Get High-res Image Gene #65: 'del_18q23' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_18q23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00103 (Fisher's exact test), Q value = 0.0045

Table S320. Gene #65: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 32(18Q23) MUTATED	33	34	40	25	9	37
DEL PEAK 32(18Q23) WILD-TYPE	41	12	53	41	22	47

Figure S320. Get High-res Image Gene #65: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S321. Gene #66: 'del_19p13.3' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 33(19P13.3) MUTATED	35	74	16	21
DEL PEAK 33(19P13.3) WILD-TYPE	134	66	43	19

Figure S321. Get High-res Image Gene #66: 'del_19p13.3' versus Molecular Subtype #1: 'CN_CNMF'

'del_19p13.3' versus 'MRNASEQ_CNMF'

P value = 0.0338 (Fisher's exact test), Q value = 0.075

Table S322. Gene #66: 'del_19p13.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 33(19P13.3) MUTATED	41	54	49
DEL PEAK 33(19P13.3) WILD-TYPE	75	126	59

Figure S322. Get High-res Image Gene #66: 'del_19p13.3' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_19p13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00178 (Fisher's exact test), Q value = 0.0069

Table S323. Gene #66: 'del_19p13.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 33(19P13.3) MUTATED	49	25	70
DEL PEAK 33(19P13.3) WILD-TYPE	69	87	104

Figure S323. Get High-res Image Gene #66: 'del_19p13.3' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_19p13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0065 (Fisher's exact test), Q value = 0.021

Table S324. Gene #66: 'del_19p13.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 33(19P13.3) MUTATED	35	44	20	29	16
DEL PEAK 33(19P13.3) WILD-TYPE	54	55	73	41	38

Figure S324. Get High-res Image Gene #66: 'del_19p13.3' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_19p13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00029 (Fisher's exact test), Q value = 0.0015

Table S325. Gene #66: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 33(19P13.3) MUTATED	20	19	36	34	2	30
DEL PEAK 33(19P13.3) WILD-TYPE	54	27	57	32	29	54

Figure S325. Get High-res Image Gene #66: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_22q13.32' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S326. Gene #67: 'del_22q13.32' versus Molecular Subtype #1: 'CN_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	169	140	59	40
DEL PEAK 34(22Q13.32) MUTATED	27	92	49	19
DEL PEAK 34(22Q13.32) WILD-TYPE	142	48	10	21

Figure S326. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #1: 'CN_CNMF'

'del_22q13.32' versus 'METHLYATION_CNMF'

P value = 0.00071 (Fisher's exact test), Q value = 0.0033

Table S327. Gene #67: 'del_22q13.32' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 34(22Q13.32) MUTATED	69	64	18	36
DEL PEAK 34(22Q13.32) WILD-TYPE	69	52	51	49

Figure S327. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_22q13.32' versus 'RPPA_CNMF'

P value = 0.0411 (Fisher's exact test), Q value = 0.088

Table S328. Gene #67: 'del_22q13.32' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	122	114	104
DEL PEAK 34(22Q13.32) MUTATED	65	42	47
DEL PEAK 34(22Q13.32) WILD-TYPE	57	72	57

Figure S328. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #3: 'RPPA_CNMF'

'del_22q13.32' versus 'RPPA_CHIERARCHICAL'

P value = 0.00105 (Fisher's exact test), Q value = 0.0046

Table S329. Gene #67: 'del_22q13.32' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	90	121	98	31
DEL PEAK 34(22Q13.32) MUTATED	55	41	46	12
DEL PEAK 34(22Q13.32) WILD-TYPE	35	80	52	19

Figure S329. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'del_22q13.32' versus 'MRNASEQ_CNMF'

P value = 0.0425 (Fisher's exact test), Q value = 0.09

Table S330. Gene #67: 'del_22q13.32' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 34(22Q13.32) MUTATED	59	69	55
DEL PEAK 34(22Q13.32) WILD-TYPE	57	111	53

Figure S330. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_22q13.32' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00182 (Fisher's exact test), Q value = 0.007

Table S331. Gene #67: 'del_22q13.32' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	118	112	174
DEL PEAK 34(22Q13.32) MUTATED	58	35	90
DEL PEAK 34(22Q13.32) WILD-TYPE	60	77	84

Figure S331. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00171 (Fisher's exact test), Q value = 0.0067

Table S332. Gene #67: 'del_22q13.32' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5
ALL	89	99	93	70	54
DEL PEAK 34(22Q13.32) MUTATED	44	55	26	35	26
DEL PEAK 34(22Q13.32) WILD-TYPE	45	44	67	35	28

Figure S332. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0102 (Fisher's exact test), Q value = 0.03

Table S333. Gene #67: 'del_22q13.32' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 34(22Q13.32) MUTATED	58	18	50	57
DEL PEAK 34(22Q13.32) WILD-TYPE	40	25	84	62

Figure S333. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_22q13.32' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 8.8e-05

Table S334. Gene #67: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 34(22Q13.32) MUTATED	29	19	50	34	1	50
DEL PEAK 34(22Q13.32) WILD-TYPE	45	27	43	32	30	34

Figure S334. Get High-res Image Gene #67: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_xp11.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0339 (Fisher's exact test), Q value = 0.075

Table S335. Gene #68: 'del_xp11.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 35(XP11.3) MUTATED	11	6	20	22	11	19
DEL PEAK 35(XP11.3) WILD-TYPE	63	40	73	44	20	65

Figure S335. Get High-res Image Gene #68: 'del_xp11.3' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_xq21.33' versus 'METHLYATION_CNMF'

P value = 0.00692 (Fisher's exact test), Q value = 0.022

Table S336. Gene #69: 'del_xq21.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	138	116	69	85
DEL PEAK 36(XQ21.33) MUTATED	17	32	12	23
DEL PEAK 36(XQ21.33) WILD-TYPE	121	84	57	62

Figure S336. Get High-res Image Gene #69: 'del_xq21.33' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'del_xq21.33' versus 'MRNASEQ_CNMF'

P value = 0.0219 (Fisher's exact test), Q value = 0.054

Table S337. Gene #69: 'del_xq21.33' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3
ALL	116	180	108
DEL PEAK 36(XQ21.33) MUTATED	14	44	25
DEL PEAK 36(XQ21.33) WILD-TYPE	102	136	83

Figure S337. Get High-res Image Gene #69: 'del_xq21.33' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'del_xq21.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0112 (Fisher's exact test), Q value = 0.032

Table S338. Gene #69: 'del_xq21.33' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4
ALL	98	43	134	119
DEL PEAK 36(XQ21.33) MUTATED	13	11	38	18
DEL PEAK 36(XQ21.33) WILD-TYPE	85	32	96	101

Figure S338. Get High-res Image Gene #69: 'del_xq21.33' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'del_xq21.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0183 (Fisher's exact test), Q value = 0.047

Table S339. Gene #69: 'del_xq21.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients	CLUS_1	CLUS_2	CLUS_3	CLUS_4	CLUS_5	CLUS_6
ALL	74	46	93	66	31	84
DEL PEAK 36(XQ21.33) MUTATED	7	10	26	16	9	12
DEL PEAK 36(XQ21.33) WILD-TYPE	67	36	67	50	22	72

Figure S339. Get High-res Image Gene #69: 'del_xq21.33' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

Methods & Data

Input

Copy number data file = all_lesions.txt from GISTIC pipeline
Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/BLCA-TP/19780563/transformed.cor.cli.txt
Molecular subtype file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/BLCA-TP/20125359/BLCA-TP.transferedmergedcluster.txt
Number of patients = 408
Number of significantly focal cnvs = 69
Number of molecular subtypes = 10
Exclude genes that fewer than K tumors have alterations, 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.

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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