Molecular subtypes	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	10 (10%)	87	0.5397	1	0.39187	1	1	1	0.67742	1	0.61076	1	0.55784	1
1q gain	51 (53%)	46	0.0038637	1	0.046364	1	0.73186	1	0.31179	1	0.46277	1	0.62481	1
2p gain	8 (8%)	89	0.58596	1	0.13655	1	0.60117	1	0.48387	1	0.010406	1	0.79324	1
2q gain	7 (7%)	90	0.61819	1	0.056108	1	0.22727	1	0.15625	1	0.022845	1	0.84004	1
3p gain	7 (7%)	90	0.37693	1	0.75849	1	1	1	NA	NA	0.27195	1	0.71399	1
3q gain	7 (7%)	90	0.37693	1	0.75849	1	1	1	NA	NA	0.27195	1	0.71399	1
4p gain	6 (6%)	91	0.76594	1	0.10083	1	0.10264	1	0.0050673	1	0.31949	1	0.71399	1
5p gain	28 (29%)	69	0.03807	1	0.24715	1	1	1	0.56155	1	0.6238	1	0.56365	1
5q gain	20 (21%)	77	0.12885	1	0.52273	1	1	1	0.67357	1	0.35988	1	0.81038	1
6p gain	18 (19%)	79	0.0047386	1	0.0069219	1	1	1	1	1	0.23815	1	0.91918	1
6q gain	11 (11%)	86	0.080569	1	0.092229	1	0.60117	1	0.48387	1	0.39712	1	0.72618	1
7p gain	26 (27%)	71	0.05886	1	0.19536	1	0.14107	1	0.21184	1	0.10538	1	0.18753	1
7q gain	26 (27%)	71	0.10271	1	0.0098196	1	0.25873	1	0.31756	1	0.3097	1	0.19234	1
8p gain	14 (14%)	83	0.33787	1	0.458	1	0.65618	1	0.51891	1	0.67586	1	0.35881	1
8q gain	45 (46%)	52	4.6995e-09	1.86e-06	0.75034	1	1	1	0.80749	1	0.28711	1	0.30193	1
9p gain	4 (4%)	93	0.20074	1	0.5707	1	1	1	NA	NA	0.17204	1	0.56373	1
9q gain	3 (3%)	94	0.63338	1	0.79717	1	1	1	NA	NA	0.28967	1	1	1
10p gain	7 (7%)	90	0.43312	1	0.55286	1	0.10264	1	0.037304	1	0.66804	1	0.59385	1
10q gain	4 (4%)	93	0.25834	1	0.4438	1	1	1	NA	NA	0.17204	1	0.49075	1
11q gain	3 (3%)	94	0.19225	1	0.32475	1	NA	NA	NA	NA	0.76711	1	1	1
12p gain	4 (4%)	93	0.20074	1	0.68847	1	1	1	NA	NA	0.82597	1	1	1
12q gain	5 (5%)	92	0.073616	1	0.85049	1	1	1	NA	NA	0.70995	1	1	1
13q gain	5 (5%)	92	0.050758	1	0.59495	1	1	1	NA	NA	0.84531	1	0.60292	1
14q gain	5 (5%)	92	0.37395	1	0.35981	1	NA	NA	NA	NA	1	1	0.92095	1
15q gain	5 (5%)	92	0.31545	1	0.26384	1	1	1	NA	NA	0.70995	1	0.78108	1
16p gain	4 (4%)	93	0.20074	1	0.5707	1	0.48485	1	NA	NA	0.51886	1	0.56373	1
17p gain	5 (5%)	92	0.31545	1	0.099217	1	1	1	NA	NA	0.70995	1	0.78108	1
17q gain	20 (21%)	77	0.040613	1	0.94735	1	0.2245	1	0.014372	1	0.6733	1	0.8858	1
18p gain	3 (3%)	94	0.19225	1	0.4438	1	0.48485	1	NA	NA	0.76711	1	1	1
18q gain	4 (4%)	93	0.25834	1	0.14359	1	0.48485	1	NA	NA	0.51886	1	1	1
19p gain	9 (9%)	88	0.22262	1	0.014379	1	0.10264	1	0.0050673	1	0.043069	1	0.61487	1
19q gain	10 (10%)	87	0.48907	1	0.0054296	1	0.044477	1	0.00061454	0.242	0.24174	1	0.39526	1
20p gain	20 (21%)	77	0.37621	1	0.42654	1	0.085448	1	0.045764	1	0.74266	1	0.94551	1
20q gain	21 (22%)	76	0.26269	1	0.3989	1	0.2245	1	0.13744	1	0.56955	1	0.93213	1
21q gain	6 (6%)	91	0.31626	1	0.25374	1	1	1	NA	NA	1	1	0.54704	1
22q gain	8 (8%)	89	0.23802	1	0.34972	1	0.60117	1	0.27493	1	0.5407	1	0.4197	1
Xq gain	5 (5%)	92	0.12605	1	0.080012	1	0.22727	1	0.26989	1	0.19766	1	0.13027	1
1p loss	15 (15%)	82	0.4962	1	0.042183	1	1	1	0.038035	1	0.29346	1	0.72287	1
1q loss	5 (5%)	92	0.31545	1	0.18845	1	1	1	NA	NA	0.48852	1	0.84797	1
2p loss	3 (3%)	94	0.38482	1	0.60316	1	1	1	NA	NA	0.40964	1	0.48066	1
2q loss	4 (4%)	93	0.14405	1	0.45805	1	1	1	NA	NA	0.31062	1	0.27162	1
3p loss	8 (8%)	89	0.18122	1	0.14657	1	0.10264	1	0.037304	1	0.26819	1	0.55952	1
3q loss	3 (3%)	94	0.19225	1	0.035323	1	0.22727	1	0.058489	1	1	1	1	1
4p loss	9 (9%)	88	0.021012	1	0.49189	1	1	1	0.5625	1	1	1	0.48619	1
4q loss	18 (19%)	79	0.0010514	0.413	0.59134	1	1	1	1	1	0.535	1	0.55197	1
5q loss	5 (5%)	92	0.073616	1	0.5707	1	0.48485	1	NA	NA	0.25522	1	0.92095	1
6q loss	20 (21%)	77	0.51334	1	1	1	0.68802	1	0.64961	1	0.74266	1	0.61531	1
7p loss	5 (5%)	92	0.050758	1	0.85049	1	NA	NA	NA	NA	0.84531	1	0.84797	1
7q loss	7 (7%)	90	0.033708	1	1	1	1	1	NA	NA	0.76095	1	0.14493	1
8p loss	41 (42%)	56	0.0018375	0.718	0.64098	1	1	1	0.71582	1	0.60084	1	0.13312	1
8q loss	6 (6%)	91	0.0015021	0.589	0.4724	1	1	1	NA	NA	0.31949	1	0.71399	1
9p loss	20 (21%)	77	0.46451	1	0.85	1	1	1	0.33296	1	0.39879	1	0.67343	1
9q loss	19 (20%)	78	0.49873	1	0.42654	1	1	1	0.19626	1	0.69706	1	0.94207	1
10p loss	6 (6%)	91	0.20362	1	1	1	1	1	0.5625	1	0.854	1	0.76646	1
10q loss	17 (18%)	80	0.053433	1	0.25544	1	0.11754	1	0.051211	1	0.25519	1	0.10193	1
11p loss	6 (6%)	91	0.31626	1	0.55286	1	0.60117	1	0.48387	1	0.854	1	0.76646	1
11q loss	8 (8%)	89	0.23802	1	1	1	0.018404	1	0.0046606	1	0.34648	1	0.40225	1
12p loss	8 (8%)	89	0.33733	1	0.0086256	1	NA	NA	NA	NA	0.46281	1	0.24534	1
13q loss	30 (31%)	67	0.021896	1	0.11496	1	0.72828	1	0.47471	1	0.06193	1	0.5056	1
14q loss	26 (27%)	71	0.011365	1	0.50785	1	0.14107	1	0.071997	1	0.71252	1	0.59237	1
15q loss	9 (9%)	88	0.0052347	1	0.49189	1	1	1	1	1	0.46941	1	0.50563	1
16p loss	20 (21%)	77	0.077581	1	0.014879	1	1	1	0.72887	1	0.054209	1	0.0019976	0.779
16q loss	27 (28%)	70	0.0042898	1	0.00023276	0.0919	0.70799	1	0.52862	1	0.070722	1	0.0024649	0.959
17p loss	41 (42%)	56	0.0089914	1	0.018009	1	0.49351	1	0.23575	1	0.15196	1	0.042812	1
17q loss	6 (6%)	91	0.76594	1	0.077974	1	1	1	0.40625	1	0.854	1	1	1
18p loss	10 (10%)	87	0.19056	1	0.028965	1	0.60117	1	0.27493	1	0.91087	1	0.66494	1
18q loss	11 (11%)	86	0.024488	1	0.093787	1	0.60117	1	0.27493	1	0.8366	1	0.51817	1
19p loss	5 (5%)	92	0.51968	1	0.19826	1	1	1	NA	NA	1	1	0.45197	1
20p loss	5 (5%)	92	0.73354	1	0.59495	1	1	1	NA	NA	0.026035	1	0.28753	1
21q loss	16 (16%)	81	0.35718	1	0.56273	1	1	1	0.51891	1	0.29818	1	0.089743	1
22q loss	10 (10%)	87	0.37381	1	0.47257	1	0.33529	1	0.28763	1	0.91087	1	0.62674	1