Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL	
	nCNV (%)	nWild-Type	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	0 (0%)	214	NA	NA	NA	NA	0.02718	1	0.084255	1	3.3857e-05	0.0104	0.10269	1	0.39141	1	0.11409	1
1q gain	0 (0%)	212	NA	NA	NA	NA	0.0012629	0.356	0.10297	1	0.031166	1	0.61823	1	0.91837	1	0.36753	1
6p gain	0 (0%)	216	NA	NA	NA	NA	0.21329	1	0.42728	1	0.051665	1	0.27942	1	0.15749	1	0.68059	1
7p gain	0 (0%)	183	0.17504	1	0.16171	1	1.8578e-17	6.17e-15	6.2208e-11	2.02e-08	8.1656e-12	2.66e-09	0.00020377	0.0605	1.9335e-05	0.00601	0.0022113	0.606
7q gain	0 (0%)	169	0.28205	1	0.14444	1	6.782e-15	2.23e-12	2.1391e-09	6.93e-07	6.5645e-08	2.12e-05	0.0013934	0.39	0.00011221	0.0337	0.058623	1
8p gain	0 (0%)	206	NA	NA	NA	NA	0.033689	1	0.2346	1	0.60632	1	0.46405	1	0.046092	1	0.37205	1
8q gain	0 (0%)	203	NA	NA	NA	NA	0.0046726	1	0.060637	1	0.37723	1	0.20267	1	0.060566	1	0.33887	1
9p gain	0 (0%)	216	NA	NA	NA	NA	0.21329	1	0.54318	1	0.071471	1	1	1	1	1	0.11899	1
9q gain	0 (0%)	214	NA	NA	NA	NA	0.02718	1	0.27332	1	0.0023081	0.63	0.51885	1	0.79353	1	0.27605	1
10p gain	0 (0%)	199	NA	NA	NA	NA	6.4093e-07	0.000205	1.431e-05	0.00451	0.017501	1	0.094034	1	0.87316	1	0.92119	1
11p gain	0 (0%)	211	NA	NA	NA	NA	0.50028	1	0.23294	1	0.0039457	1	0.0026055	0.701	0.17902	1	0.42424	1
11q gain	0 (0%)	206	NA	NA	NA	NA	0.35309	1	0.34651	1	0.1716	1	0.10729	1	0.75927	1	0.37205	1
12p gain	0 (0%)	209	NA	NA	NA	NA	0.036807	1	0.10627	1	0.28595	1	0.17029	1	0.09939	1	0.041991	1
12q gain	0 (0%)	215	NA	NA	NA	NA	0.84818	1	0.76339	1	0.93405	1	0.34627	1	0.053288	1	0.11822	1
18p gain	0 (0%)	216	NA	NA	NA	NA	0.21329	1	0.54318	1	0.56941	1	0.27942	1	0.46908	1	0.17335	1
19p gain	0 (0%)	209	NA	NA	NA	NA	2.2549e-05	0.00699	5.9072e-05	0.0181	0.0012203	0.345	0.010239	1	0.021778	1	0.017671	1
19q gain	0 (0%)	211	NA	NA	NA	NA	0.0003397	0.1	0.00070736	0.207	0.00033593	0.0994	0.021732	1	0.042199	1	0.10415	1
20p gain	0 (0%)	203	NA	NA	NA	NA	1.6641e-05	0.00523	7.6855e-05	0.0234	1.7004e-05	0.00532	0.25858	1	0.012308	1	0.16152	1
20q gain	0 (0%)	204	NA	NA	NA	NA	8.0385e-05	0.0244	5.2431e-05	0.0161	7.3458e-08	2.37e-05	0.025208	1	0.00083273	0.242	0.019766	1
21q gain	0 (0%)	217	NA	NA	NA	NA	0.3283	1	0.60045	1	0.15818	1	0.08785	1	1	1	1	1
1p loss	0 (0%)	153	0.0036069	0.956	0.0086182	1	4.5646e-47	1.57e-44	2.382e-51	8.19e-49	1.6058e-24	5.43e-22	1.3739e-30	4.67e-28	3.3002e-14	1.08e-11	5.6721e-07	0.000182
1q loss	0 (0%)	211	0.088889	1	0.097094	1	8.3814e-05	0.0253	2.6613e-05	0.00822	0.0060313	1	0.00013044	0.039	0.0069383	1	0.50573	1
2p loss	0 (0%)	216	NA	NA	NA	NA	0.8251	1	1	1	0.46401	1	0.37036	1	0.33942	1	0.040403	1
2q loss	0 (0%)	217	NA	NA	NA	NA	0.79595	1	1	1	0.51312	1	0.25944	1	0.025765	1	1	1
3p loss	0 (0%)	216	NA	NA	NA	NA	0.55287	1	0.54318	1	0.35637	1	0.27942	1	0.19951	1	0.68059	1
3q loss	0 (0%)	211	0.17504	1	1	1	0.12771	1	0.069915	1	0.54707	1	0.45331	1	0.86898	1	1	1
4p loss	0 (0%)	205	0.41538	1	0.32872	1	0.00088221	0.255	0.00014429	0.043	0.00010751	0.0324	0.00041817	0.123	1.4112e-05	0.00446	0.39678	1
4q loss	0 (0%)	196	0.83946	1	0.82832	1	0.0048973	1	0.00039897	0.117	0.0019954	0.55	0.0035527	0.945	1.1591e-06	0.000369	0.058901	1
5p loss	0 (0%)	209	1	1	0.38766	1	0.016243	1	0.023274	1	0.84671	1	0.35957	1	0.037875	1	0.34882	1
5q loss	0 (0%)	211	0.61538	1	0.097094	1	0.04528	1	0.069915	1	0.043898	1	0.021732	1	0.0024431	0.66	0.17062	1
6p loss	0 (0%)	213	NA	NA	NA	NA	0.12011	1	0.023871	1	0.13906	1	1	1	0.50131	1	0.10629	1
6q loss	0 (0%)	199	NA	NA	NA	NA	0.0043112	1	0.012155	1	0.36237	1	0.33233	1	0.20636	1	0.33665	1
8p loss	0 (0%)	217	NA	NA	NA	NA	0.17032	1	0.16659	1	0.57083	1	1	1	0.025765	1	1	1
9p loss	0 (0%)	182	0.38387	1	0.82832	1	0.0028858	0.773	0.064249	1	0.69245	1	0.24542	1	0.67173	1	0.94714	1
9q loss	0 (0%)	214	NA	NA	NA	NA	0.070248	1	0.0431	1	0.011059	1	0.00088239	0.255	0.0049825	1	0.53109	1
10p loss	0 (0%)	189	0.27077	1	0.24068	1	2.3011e-17	7.62e-15	2.623e-22	8.84e-20	4.7878e-19	1.59e-16	0.0016029	0.447	0.011117	1	0.0017187	0.478
10q loss	0 (0%)	188	0.27077	1	0.24068	1	3.463e-16	1.14e-13	2.7666e-21	9.27e-19	3.8132e-20	1.27e-17	0.0010942	0.313	0.0079335	1	0.004675	1
11p loss	0 (0%)	200	0.81538	1	0.52615	1	0.0019931	0.55	0.0011104	0.316	0.016205	1	0.0089692	1	0.0057898	1	0.35869	1
11q loss	0 (0%)	216	NA	NA	NA	NA	0.0024251	0.657	0.17716	1	0.001869	0.518	0.27942	1	0.63288	1	0.040403	1
12q loss	0 (0%)	212	NA	NA	NA	NA	0.044397	1	0.1981	1	0.68631	1	0.61823	1	0.11591	1	1	1
13q loss	0 (0%)	192	1	1	0.38766	1	0.63483	1	0.16994	1	0.85974	1	0.53653	1	0.72171	1	0.61679	1
14q loss	0 (0%)	196	NA	NA	NA	NA	0.0011119	0.316	0.00083495	0.242	0.0012643	0.356	0.45188	1	0.069627	1	0.11242	1
15q loss	0 (0%)	208	NA	NA	NA	NA	0.0058203	1	0.0042763	1	0.00097692	0.28	0.0050375	1	0.49745	1	1	1
16q loss	0 (0%)	214	NA	NA	NA	NA	0.66175	1	0.084255	1	0.30188	1	0.51885	1	0.7132	1	0.75467	1
18p loss	0 (0%)	205	0.34359	1	0.41333	1	0.14411	1	0.062315	1	0.11899	1	0.11708	1	0.075638	1	0.12542	1
18q loss	0 (0%)	204	0.088889	1	0.097094	1	0.0029558	0.789	0.0055045	1	0.002398	0.652	0.026375	1	0.10926	1	0.23636	1
19p loss	0 (0%)	210	0.30151	1	0.077258	1	0.06178	1	0.14885	1	0.074739	1	0.020379	1	0.027829	1	0.83361	1
19q loss	0 (0%)	144	0.24667	1	0.14491	1	1.4012e-45	4.79e-43	1.0054e-36	3.43e-34	9.5737e-22	3.22e-19	4.5028e-27	1.53e-24	4.7461e-13	1.55e-10	7.3266e-07	0.000234
21q loss	0 (0%)	212	NA	NA	NA	NA	0.58775	1	0.60512	1	0.46036	1	0.61823	1	0.064717	1	0.0092826	1
22q loss	0 (0%)	205	1	1	0.76308	1	7.1522e-06	0.00227	6.3429e-05	0.0193	1.9195e-05	0.00599	0.045058	1	0.29297	1	0.29035	1
Xq loss	0 (0%)	214	NA	NA	NA	NA	0.1322	1	0.35009	1	0.69752	1	0.10269	1	0.04681	1	0.3826	1