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	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	Fisher's exact test_P	Fisher's exact test_Q
1p gain	30 (26%)	84	0.92453	1	0.51047	1	0.33482	1	0.10438	1	0.66776	1	0.65509	1
1q gain	41 (36%)	73	0.18154	1	0.77148	1	0.40319	1	0.11668	1	0.18483	1	0.63428	1
2p gain	16 (14%)	98	0.10755	1	0.091718	1	0.037123	1	0.2301	1	0.094303	1	0.041765	1
2q gain	4 (4%)	110	0.09169	1	0.37445	1	0.1597	1	0.41785	1	1	1	1	1
3p gain	20 (18%)	94	0.31233	1	0.088907	1	0.37829	1	0.37763	1	0.74781	1	0.66667	1
3q gain	57 (50%)	57	0.0085685	1	0.015601	1	0.0021717	0.923	0.00092135	0.397	0.6334	1	0.030874	1
4q gain	3 (3%)	111	0.31283	1	0.31982	1	0.45814	1	0.27802	1	0.20327	1	0.34325	1
5p gain	37 (32%)	77	0.0080644	1	0.93368	1	0.70563	1	0.92051	1	0.081852	1	0.29344	1
5q gain	13 (11%)	101	1	1	0.53183	1	1	1	0.7106	1	0.32507	1	0.45101	1
6p gain	14 (12%)	100	0.22145	1	0.019026	1	0.0045566	1	0.060865	1	0.023653	1	0.061852	1
6q gain	8 (7%)	106	0.8034	1	0.25923	1	0.16061	1	0.041399	1	0.30927	1	0.070824	1
7p gain	6 (5%)	108	0.56446	1	0.062325	1	0.13885	1	0.076341	1	0.36639	1	0.28146	1
7q gain	10 (9%)	104	0.17527	1	0.52669	1	0.22317	1	0.26588	1	0.70999	1	0.91761	1
8p gain	11 (10%)	103	0.65589	1	0.46746	1	0.14383	1	0.030298	1	0.72469	1	0.91866	1
8q gain	21 (18%)	93	0.24904	1	0.51522	1	0.068351	1	0.10301	1	0.32016	1	0.3189	1
9p gain	10 (9%)	104	0.83577	1	0.79997	1	0.74057	1	0.25899	1	0.84359	1	0.091133	1
9q gain	10 (9%)	104	0.35577	1	0.24807	1	0.31781	1	0.061295	1	0.7719	1	0.27247	1
10p gain	7 (6%)	107	1	1	0.94561	1	0.65072	1	0.54203	1	0.2956	1	1	1
10q gain	4 (4%)	110	0.81236	1	0.52203	1	1	1	1	1	0.38652	1	0.69328	1
12p gain	14 (12%)	100	0.25976	1	0.47142	1	0.2189	1	0.16577	1	0.16257	1	0.33435	1
12q gain	10 (9%)	104	0.39126	1	0.50505	1	0.89529	1	0.61795	1	0.54535	1	0.8375	1
13q gain	4 (4%)	110	0.25638	1	0.25589	1	NA	NA	NA	NA	0.46394	1	0.69328	1
14q gain	9 (8%)	105	0.73727	1	0.39333	1	0.25763	1	0.097406	1	0.28892	1	0.73926	1
15q gain	13 (11%)	101	0.1935	1	0.39831	1	0.47708	1	0.74421	1	0.93272	1	0.93141	1
16p gain	13 (11%)	101	0.1935	1	0.33178	1	0.64622	1	0.8909	1	0.20996	1	0.2673	1
16q gain	9 (8%)	105	0.23601	1	0.44981	1	1	1	1	1	0.20796	1	0.28702	1
17p gain	4 (4%)	110	0.55466	1	0.21709	1	1	1	1	1	0.15928	1	0.028966	1
17q gain	11 (10%)	103	0.77	1	0.27523	1	0.16061	1	0.041399	1	0.34756	1	0.098978	1
18p gain	11 (10%)	103	0.77	1	0.021922	1	0.5199	1	0.54838	1	0.22964	1	0.18968	1
18q gain	6 (5%)	108	1	1	0.0015731	0.673	0.61612	1	0.7825	1	0.31581	1	0.13626	1
19p gain	8 (7%)	106	0.36109	1	0.55496	1	0.61884	1	0.57596	1	0.14616	1	0.89386	1
19q gain	20 (18%)	94	0.038403	1	0.076973	1	0.46317	1	0.2619	1	0.006797	1	0.094001	1
20p gain	30 (26%)	84	0.0030849	1	0.39795	1	1	1	0.63234	1	0.41308	1	0.56222	1
20q gain	35 (31%)	79	0.059485	1	0.48226	1	0.91789	1	0.14409	1	0.5476	1	0.43166	1
21q gain	14 (12%)	100	0.8701	1	0.40036	1	0.071359	1	0.18042	1	0.16257	1	0.50382	1
22q gain	7 (6%)	107	0.048495	1	0.0034045	1	0.23741	1	0.076341	1	0.029795	1	0.88412	1
Xq gain	6 (5%)	108	0.042174	1	0.56939	1	0.2684	1	0.70493	1	0.16087	1	0.76134	1
1q loss	3 (3%)	111	0.20968	1	0.18294	1	0.10268	1	0.059523	1	0.64672	1	1	1
2p loss	3 (3%)	111	0.79172	1	0.26764	1	NA	NA	NA	NA	0.77289	1	0.7924	1
2q loss	5 (4%)	109	0.29942	1	0.019296	1	0.12364	1	0.17216	1	1	1	1	1
3p loss	26 (23%)	88	0.59437	1	0.0033514	1	0.68802	1	0.085217	1	0.012713	1	0.0040604	1
4p loss	37 (32%)	77	0.003045	1	0.30802	1	0.79528	1	0.95988	1	0.11012	1	0.76259	1
4q loss	23 (20%)	91	3.0006e-07	0.00013	0.23882	1	0.066134	1	0.1642	1	0.4742	1	0.50105	1
5p loss	3 (3%)	111	0.79172	1	0.23835	1	0.78673	1	0.27802	1	1	1	0.61594	1
5q loss	17 (15%)	97	0.019308	1	0.3591	1	0.88752	1	0.35165	1	0.11627	1	0.047369	1
6p loss	13 (11%)	101	0.27462	1	0.53183	1	0.22317	1	0.26588	1	0.71006	1	0.80538	1
6q loss	23 (20%)	91	0.91189	1	0.17953	1	0.50405	1	0.50278	1	0.43412	1	0.66019	1
7p loss	6 (5%)	108	0.26054	1	0.51404	1	0.012351	1	0.057995	1	0.095835	1	0.48263	1
7q loss	13 (11%)	101	0.32419	1	0.17518	1	0.0080261	1	0.00025064	0.108	0.013587	1	0.090911	1
8p loss	27 (24%)	87	0.40962	1	0.17544	1	0.21866	1	0.81924	1	0.9249	1	0.92086	1
8q loss	7 (6%)	107	0.41289	1	0.23117	1	0.039808	1	0.12129	1	0.33903	1	0.0048672	1
9p loss	9 (8%)	105	0.14345	1	0.63892	1	0.31781	1	0.48247	1	0.28892	1	0.28702	1
9q loss	10 (9%)	104	0.35577	1	0.041645	1	0.34974	1	0.15322	1	0.84359	1	0.053414	1
10p loss	20 (18%)	94	0.13482	1	0.36	1	0.39771	1	0.69092	1	0.58284	1	0.39691	1
10q loss	22 (19%)	92	0.19473	1	0.66031	1	0.8023	1	0.46267	1	0.27861	1	1	1
11p loss	23 (20%)	91	0.071819	1	0.46028	1	0.3676	1	0.89951	1	0.31218	1	0.66019	1
11q loss	25 (22%)	89	0.0010522	0.452	0.015106	1	0.8023	1	0.88895	1	0.31268	1	0.45681	1
12p loss	15 (13%)	99	0.18548	1	0.14171	1	0.12711	1	1	1	0.32609	1	0.35474	1
12q loss	4 (4%)	110	0.021806	1	0.1884	1	0.28503	1	0.65522	1	1	1	0.80923	1
13q loss	21 (18%)	93	0.60517	1	0.12053	1	0.83587	1	0.56205	1	0.91058	1	0.19121	1
14q loss	7 (6%)	107	0.41289	1	0.23117	1	0.0051504	1	0.041601	1	0.037308	1	0.0048672	1
15q loss	8 (7%)	106	0.14442	1	0.44419	1	0.2805	1	1	1	0.90518	1	0.80722	1
16p loss	7 (6%)	107	0.88567	1	0.17321	1	0.5953	1	0.60175	1	0.79375	1	0.16868	1
16q loss	13 (11%)	101	1	1	0.037592	1	0.060341	1	0.041399	1	0.61364	1	0.0079218	1
17p loss	26 (23%)	88	0.01151	1	0.60388	1	0.29272	1	0.86009	1	0.028194	1	0.11069	1
17q loss	5 (4%)	109	1	1	0.37034	1	0.21941	1	1	1	0.37007	1	0.51892	1
18p loss	16 (14%)	98	0.31571	1	0.1117	1	0.024444	1	0.082726	1	0.36694	1	0.064244	1
18q loss	22 (19%)	92	0.3921	1	0.0017909	0.763	0.0016171	0.691	0.0026188	1	0.10291	1	0.0023675	1
19p loss	11 (10%)	103	0.46132	1	0.094356	1	0.14127	1	0.35601	1	0.19475	1	0.0010837	0.465
19q loss	6 (5%)	108	0.40611	1	0.56939	1	0.48238	1	1	1	0.59598	1	0.029756	1
20p loss	5 (4%)	109	0.29942	1	0.78908	1	0.61612	1	0.7825	1	1	1	0.59534	1
21q loss	13 (11%)	101	0.00011009	0.0477	0.015161	1	0.73138	1	0.59838	1	1	1	0.86755	1
22q loss	12 (11%)	102	0.66847	1	0.059744	1	0.5259	1	0.087942	1	1	1	0.92577	1