Molecular subtypes	CN_CNMF		METHLYATION_CNMF		MRNASEQ_CNMF		MRNASEQ_CHIERARCHICAL		MIRSEQ_CNMF		MIRSEQ_CHIERARCHICAL		MIRSEQ_MATURE_CNMF		MIRSEQ_MATURE_CHIERARCHICAL	
	nCNV (%)	nWild-Type	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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	0 (0%)	291	0.0042945	1	0.50725	1	0.26908	1	0.58783	1	0.080554	1	0.15254	1	0.017462	1	0.10866	1
1q gain	0 (0%)	263	1.9903e-07	0.000116	0.00039531	0.2	0.0013871	0.652	0.06879	1	0.0016324	0.759	0.0013659	0.643	0.00046731	0.233	0.0037564	1
2p gain	0 (0%)	282	0.00043386	0.218	0.0014846	0.693	0.040562	1	0.019899	1	0.032504	1	0.0093831	1	0.00099292	0.478	0.0021395	0.98
2q gain	0 (0%)	283	0.0043947	1	0.010787	1	0.0010218	0.49	0.0033009	1	0.062323	1	0.042798	1	0.0094166	1	0.019783	1
3p gain	0 (0%)	295	0.24813	1	0.085985	1	0.62903	1	0.77322	1	0.54669	1	0.42705	1	0.88655	1	0.43126	1
3q gain	0 (0%)	277	0.00066628	0.327	0.17433	1	0.36322	1	0.24864	1	0.6429	1	0.058844	1	0.19298	1	0.13436	1
4p gain	0 (0%)	301	0.090283	1	0.28579	1	0.33156	1	0.34648	1	0.87159	1	1	1	0.78894	1	0.34641	1
5p gain	0 (0%)	264	1.9244e-06	0.0011	0.0044227	1	0.0053603	1	0.020749	1	0.1011	1	0.022605	1	0.006884	1	0.0046866	1
5q gain	0 (0%)	296	0.26012	1	0.95016	1	0.82604	1	0.51552	1	0.65097	1	0.4644	1	0.26625	1	0.5539	1
6p gain	0 (0%)	279	3.3739e-05	0.0185	5.5375e-05	0.0298	0.0080771	1	0.019491	1	0.0097232	1	0.022085	1	9.2854e-05	0.0492	0.0012795	0.605
6q gain	0 (0%)	284	9.533e-05	0.0504	0.00035257	0.179	0.039885	1	0.041475	1	0.057032	1	0.072225	1	8.057e-05	0.043	0.00524	1
7p gain	0 (0%)	210	7.1922e-14	4.35e-11	3.7921e-05	0.0207	0.10701	1	0.22896	1	0.074883	1	0.018268	1	0.0043787	1	0.00059886	0.296
7q gain	0 (0%)	229	2.1132e-13	1.27e-10	0.00056189	0.279	0.37553	1	0.49366	1	0.494	1	0.48138	1	0.13327	1	0.044957	1
8p gain	0 (0%)	216	2.7639e-10	1.64e-07	0.00045977	0.23	0.27562	1	0.0086185	1	0.0024868	1	0.49066	1	0.011606	1	0.037882	1
8q gain	0 (0%)	184	4.2873e-10	2.54e-07	3.9876e-07	0.000232	0.0063351	1	0.0013241	0.625	0.00031416	0.161	0.028874	1	0.00030042	0.154	5.4615e-05	0.0295
9p gain	0 (0%)	284	0.025802	1	0.13864	1	0.24333	1	0.33331	1	0.46561	1	0.20393	1	0.57664	1	0.037333	1
9q gain	0 (0%)	277	0.0057871	1	0.11336	1	0.37928	1	0.70009	1	0.70197	1	0.86691	1	0.21822	1	0.074075	1
10p gain	0 (0%)	261	3.7628e-09	2.22e-06	0.002043	0.94	0.00080375	0.392	0.000773	0.379	0.023993	1	0.0011117	0.529	0.17337	1	0.028099	1
10q gain	0 (0%)	280	2.6292e-05	0.0145	0.04812	1	0.22411	1	0.23732	1	0.57522	1	0.1409	1	0.11469	1	0.17258	1
11p gain	0 (0%)	294	0.84489	1	0.11493	1	0.74069	1	0.16062	1	0.056123	1	0.20259	1	0.6008	1	0.199	1
11q gain	0 (0%)	286	0.13661	1	0.033831	1	0.93748	1	0.72096	1	0.087246	1	0.44624	1	0.087101	1	0.027419	1
12p gain	0 (0%)	271	0.0036792	1	0.17817	1	0.064541	1	0.37827	1	0.036325	1	0.58301	1	0.0017401	0.807	0.073483	1
12q gain	0 (0%)	278	0.32856	1	0.16802	1	0.43502	1	0.48349	1	0.092269	1	0.38114	1	0.0095645	1	0.072547	1
13q gain	0 (0%)	241	1.2028e-06	0.000693	0.00032492	0.165	0.11387	1	0.97454	1	0.022647	1	0.0093035	1	0.028948	1	0.016471	1
14q gain	0 (0%)	301	0.043822	1	0.28345	1	NA	NA	NA	NA	0.056916	1	0.10374	1	NA	NA	NA	NA
15q gain	0 (0%)	296	0.032572	1	0.54299	1	0.077424	1	0.010122	1	0.029583	1	0.057353	1	0.034605	1	0.014659	1
16p gain	0 (0%)	293	0.023841	1	0.11581	1	0.28996	1	0.31859	1	0.97959	1	0.011187	1	0.75522	1	0.69545	1
16q gain	0 (0%)	294	0.11712	1	0.82574	1	0.84847	1	0.49262	1	0.85876	1	0.12071	1	0.6008	1	0.90095	1
17p gain	0 (0%)	299	0.021553	1	0.4568	1	0.75634	1	0.86789	1	0.29965	1	0.87522	1	0.18128	1	0.30169	1
17q gain	0 (0%)	291	0.0098316	1	0.66423	1	0.31375	1	0.18502	1	0.040367	1	0.70147	1	0.12614	1	0.30125	1
18p gain	0 (0%)	281	0.0037705	1	3.8703e-05	0.0211	0.066963	1	0.57726	1	0.040363	1	0.24308	1	0.45467	1	0.17472	1
18q gain	0 (0%)	292	0.2207	1	0.061522	1	0.14074	1	0.48637	1	0.006795	1	0.11856	1	0.12558	1	0.28224	1
19p gain	0 (0%)	293	0.26105	1	0.021917	1	0.91695	1	0.31275	1	0.84094	1	1	1	0.48241	1	0.59686	1
19q gain	0 (0%)	274	0.43091	1	0.38188	1	0.72702	1	0.24619	1	0.52438	1	0.53399	1	0.17722	1	0.2443	1
20p gain	0 (0%)	178	1.8563e-17	1.13e-14	5.6606e-09	3.33e-06	2.4374e-07	0.000142	0.00089536	0.434	2.7145e-06	0.00154	1.6091e-06	0.000924	0.0012556	0.595	9.6246e-07	0.000555
20q gain	0 (0%)	149	1.4749e-24	8.98e-22	7.3442e-14	4.44e-11	1.9763e-08	1.16e-05	1.2283e-06	0.000706	2.1147e-09	1.25e-06	2.6286e-11	1.56e-08	6.7957e-05	0.0364	1.3905e-11	8.32e-09
21q gain	0 (0%)	303	0.21173	1	0.86031	1	NA	NA	NA	NA	0.30041	1	0.25892	1	0.25971	1	0.25632	1
22q gain	0 (0%)	300	0.024438	1	0.18133	1	0.74748	1	0.14627	1	0.45127	1	0.76783	1	0.17738	1	0.16364	1
Xq gain	0 (0%)	301	0.34499	1	0.22265	1	NA	NA	NA	NA	0.11368	1	0.10374	1	NA	NA	NA	NA
1p loss	0 (0%)	292	1.4956e-05	0.00833	0.094458	1	0.045936	1	0.030357	1	0.12235	1	0.72963	1	0.68241	1	0.83163	1
1q loss	0 (0%)	302	0.15449	1	1	1	NA	NA	NA	NA	0.14711	1	0.79257	1	1	1	0.78904	1
2p loss	0 (0%)	300	0.026766	1	0.40025	1	0.30771	1	0.2314	1	0.45127	1	0.33353	1	0.28048	1	0.25552	1
2q loss	0 (0%)	301	0.043822	1	0.68008	1	0.56267	1	0.43006	1	0.472	1	0.078464	1	0.57788	1	0.55977	1
3p loss	0 (0%)	281	5.5081e-07	0.000319	0.00095371	0.46	0.00087415	0.426	0.01024	1	0.0010421	0.498	0.010591	1	0.0188	1	0.00014551	0.0764
3q loss	0 (0%)	292	5.7576e-05	0.031	0.019716	1	0.039176	1	0.1434	1	0.0074254	1	0.061167	1	0.015432	1	0.0040085	1
4p loss	0 (0%)	251	4.5829e-12	2.75e-09	0.0003895	0.197	0.0046405	1	0.00077843	0.381	3.2162e-05	0.0177	0.00023198	0.12	0.0001926	0.1	0.00041822	0.211
4q loss	0 (0%)	253	3.3697e-14	2.04e-11	4.2631e-05	0.0231	0.003414	1	0.00037056	0.188	1.873e-06	0.00107	0.00024632	0.127	9.2429e-05	0.0491	0.00045203	0.226
5p loss	0 (0%)	289	2.1156e-05	0.0117	0.0039198	1	0.018232	1	0.036271	1	0.010688	1	0.046008	1	0.079302	1	0.0076144	1
5q loss	0 (0%)	271	1.5855e-12	9.54e-10	2.4707e-06	0.00141	3.8731e-05	0.0211	0.0018194	0.842	7.9752e-05	0.0427	0.00017258	0.0901	0.00061161	0.301	7.4267e-07	0.00043
6p loss	0 (0%)	291	0.036839	1	0.29028	1	0.15729	1	0.17977	1	0.22796	1	0.48216	1	0.92017	1	0.16977	1
6q loss	0 (0%)	287	0.011392	1	0.1069	1	0.005639	1	0.072726	1	0.55283	1	0.81293	1	0.51398	1	0.31779	1
7p loss	0 (0%)	302	0.11789	1	NA	NA	0.3443	1	0.61473	1	0.40322	1	0.28562	1	NA	NA	NA	NA
7q loss	0 (0%)	293	0.00019952	0.104	0.04136	1	0.32082	1	1	1	0.014421	1	0.22036	1	0.0052765	1	0.21243	1
8p loss	0 (0%)	275	5.9009e-06	0.00332	0.024586	1	0.059716	1	0.28059	1	0.024756	1	0.056379	1	2.8405e-05	0.0157	0.0048725	1
8q loss	0 (0%)	298	0.011497	1	0.26782	1	0.75634	1	0.39235	1	0.33846	1	0.13045	1	0.28048	1	0.087571	1
9p loss	0 (0%)	255	1.4488e-11	8.65e-09	2.6425e-05	0.0146	0.0023335	1	0.010566	1	0.0015579	0.726	0.0011748	0.558	0.055315	1	0.035111	1
9q loss	0 (0%)	281	3.0577e-05	0.0168	0.0041454	1	0.023654	1	0.046314	1	0.032029	1	0.11822	1	0.093267	1	0.19305	1
10p loss	0 (0%)	289	0.00026147	0.134	0.0080781	1	0.073057	1	0.11547	1	0.015999	1	0.36269	1	0.030534	1	0.046862	1
10q loss	0 (0%)	290	0.0001334	0.0702	0.0030674	1	0.10583	1	0.25586	1	0.01153	1	0.046008	1	0.017462	1	0.0023429	1
11p loss	0 (0%)	288	0.00061055	0.301	0.00016784	0.0878	0.74517	1	0.17056	1	0.051754	1	0.032581	1	0.04369	1	0.046862	1
11q loss	0 (0%)	290	0.00026904	0.138	0.0089166	1	0.89154	1	0.89173	1	0.19989	1	0.4162	1	0.065636	1	0.38627	1
12p loss	0 (0%)	285	4.3797e-05	0.0237	0.00044736	0.225	0.0023399	1	0.0043552	1	0.0028558	1	0.011747	1	0.14126	1	0.00032281	0.165
12q loss	0 (0%)	294	0.0080725	1	0.0067934	1	0.060574	1	0.2942	1	0.11659	1	0.1649	1	0.83199	1	0.0081299	1
13q loss	0 (0%)	295	0.00088424	0.43	0.10603	1	0.22071	1	0.2365	1	0.38582	1	0.53631	1	0.26321	1	0.47462	1
14q loss	0 (0%)	278	8.18e-06	0.00458	0.00090484	0.438	0.0014245	0.667	0.018257	1	0.021435	1	0.017543	1	0.0095005	1	0.0025428	1
15q loss	0 (0%)	281	1.451e-07	8.49e-05	2.3446e-05	0.013	0.018286	1	0.017836	1	0.0013993	0.656	0.0042314	1	0.0023449	1	6.2037e-05	0.0333
16p loss	0 (0%)	277	2.1025e-11	1.25e-08	1.8928e-05	0.0105	0.00018634	0.0971	0.0010388	0.498	0.0055013	1	0.026105	1	8.478e-06	0.00474	8.0733e-05	0.043
16q loss	0 (0%)	274	3.9627e-11	2.35e-08	3.5133e-06	0.00199	0.0061952	1	0.0030006	1	0.012569	1	0.16019	1	0.0042692	1	0.0034062	1
17p loss	0 (0%)	242	6.3057e-12	3.78e-09	8.7194e-07	0.000504	0.0005946	0.294	0.0020958	0.962	0.00024478	0.126	0.0034044	1	0.0010873	0.519	0.00020509	0.106
17q loss	0 (0%)	286	0.00010273	0.0542	0.02449	1	0.080766	1	0.090642	1	0.072928	1	0.059882	1	0.054868	1	0.05292	1
18p loss	0 (0%)	266	0.00093194	0.45	0.01295	1	0.036562	1	0.076819	1	0.024684	1	0.59065	1	0.047904	1	0.17498	1
18q loss	0 (0%)	254	2.7364e-06	0.00155	0.020551	1	0.02118	1	0.0067373	1	0.0077668	1	0.065056	1	0.061936	1	0.05615	1
19p loss	0 (0%)	273	1.3727e-11	8.22e-09	4.4043e-06	0.00248	4.0531e-06	0.00229	0.0001576	0.0826	4.8619e-08	2.85e-05	4.2085e-06	0.00237	0.018763	1	4.9978e-05	0.027
19q loss	0 (0%)	283	2.7299e-07	0.000159	1.2575e-05	0.00702	0.00010913	0.0575	0.01351	1	3.9098e-06	0.00221	8.8842e-05	0.0473	0.05593	1	0.0022191	1
20p loss	0 (0%)	297	0.0045125	1	0.017003	1	0.00049194	0.245	0.0019555	0.903	0.069542	1	0.81182	1	0.17738	1	1	1
21q loss	0 (0%)	244	4.0808e-09	2.4e-06	6.8338e-06	0.00383	0.049245	1	0.0056779	1	0.17804	1	0.04887	1	0.25854	1	0.32603	1
22q loss	0 (0%)	266	7.2003e-15	4.37e-12	1.899e-06	0.00109	0.0019928	0.919	0.020745	1	3.7619e-05	0.0206	0.00055751	0.277	0.0073072	1	0.010064	1
Xq loss	0 (0%)	292	0.011559	1	0.10958	1	0.5272	1	0.29799	1	0.16361	1	0.13968	1	0.0045087	1	0.050239	1