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	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%)	291	0.0042945	1	0.5711	1	0.12778	1	0.020273	1	0.067364	1	0.65736	1
1q gain	0 (0%)	263	1.9903e-07	8.54e-05	0.00034711	0.129	0.00046038	0.169	4.3471e-05	0.0172	0.00013815	0.0528	0.0082561	1
2p gain	0 (0%)	282	0.00043386	0.161	0.0020572	0.718	0.34638	1	0.43164	1	0.31918	1	0.0042578	1
2q gain	0 (0%)	283	0.0043947	1	0.00097972	0.351	0.024118	1	0.052909	1	0.18714	1	0.011733	1
3p gain	0 (0%)	295	0.24813	1	0.098706	1	0.55492	1	1	1	1	1	1	1
3q gain	0 (0%)	277	0.00066628	0.241	0.18838	1	0.56038	1	0.89484	1	1	1	0.15886	1
4p gain	0 (0%)	301	0.090283	1	0.28586	1	NA	NA	NA	NA	0.82665	1	0.55328	1
5p gain	0 (0%)	264	1.9244e-06	0.000808	0.0061355	1	0.00041385	0.154	0.099669	1	0.13594	1	0.064109	1
5q gain	0 (0%)	296	0.26012	1	0.95038	1	0.4023	1	0.90473	1	0.76023	1	0.61117	1
6p gain	0 (0%)	279	3.3739e-05	0.0134	7.7345e-05	0.03	0.013328	1	0.034171	1	0.0010662	0.378	0.026078	1
6q gain	0 (0%)	284	9.533e-05	0.0368	0.0004365	0.161	0.012722	1	0.048905	1	0.008602	1	0.053869	1
7p gain	0 (0%)	210	7.1922e-14	3.21e-11	5.1286e-05	0.0202	0.031079	1	0.050249	1	0.076828	1	0.19246	1
7q gain	0 (0%)	229	2.1132e-13	9.4e-11	0.00063046	0.229	0.16561	1	0.48324	1	0.089873	1	0.70255	1
8p gain	0 (0%)	216	2.7639e-10	1.21e-07	0.00048894	0.179	0.1698	1	0.023904	1	0.017841	1	0.42869	1
8q gain	0 (0%)	184	4.2873e-10	1.87e-07	6.9195e-07	0.000295	0.0086561	1	0.020894	1	0.0072601	1	0.030591	1
9p gain	0 (0%)	284	0.025802	1	0.15271	1	0.27908	1	0.52433	1	0.78888	1	0.12358	1
9q gain	0 (0%)	277	0.0057871	1	0.13203	1	0.35769	1	0.38247	1	0.6254	1	0.67038	1
10p gain	0 (0%)	261	3.7628e-09	1.64e-06	0.0028059	0.965	0.0010914	0.386	0.012017	1	0.58149	1	0.0035661	1
10q gain	0 (0%)	280	2.6292e-05	0.0105	0.055969	1	0.11323	1	0.28482	1	0.39071	1	0.39313	1
11p gain	0 (0%)	294	0.84489	1	0.12199	1	0.76805	1	0.059066	1	0.27032	1	0.51182	1
11q gain	0 (0%)	286	0.13661	1	0.041355	1	0.80369	1	0.26044	1	0.13601	1	0.53556	1
12p gain	0 (0%)	271	0.0036792	1	0.21836	1	0.015877	1	0.12586	1	0.1071	1	0.85334	1
12q gain	0 (0%)	278	0.32856	1	0.18664	1	0.25964	1	0.49986	1	0.18301	1	0.41917	1
13q gain	0 (0%)	241	1.2028e-06	0.000509	0.00060537	0.221	0.36739	1	0.34402	1	0.56005	1	0.0096765	1
14q gain	0 (0%)	301	0.043822	1	0.34939	1	NA	NA	NA	NA	0.79719	1	0.071964	1
15q gain	0 (0%)	296	0.032572	1	0.58032	1	0.07093	1	0.0016057	0.562	0.79095	1	0.23983	1
16p gain	0 (0%)	293	0.023841	1	0.13093	1	0.081233	1	0.29184	1	1	1	0.2931	1
16q gain	0 (0%)	294	0.11712	1	0.82554	1	0.30594	1	0.42573	1	0.32059	1	0.2076	1
17p gain	0 (0%)	299	0.021553	1	0.45765	1	0.72855	1	0.32714	1	0.50046	1	0.87536	1
17q gain	0 (0%)	291	0.0098316	1	0.67529	1	0.32336	1	0.41649	1	0.1352	1	0.58245	1
18p gain	0 (0%)	281	0.0037705	1	5.6401e-05	0.0221	0.045108	1	0.34027	1	0.49208	1	0.89941	1
18q gain	0 (0%)	292	0.2207	1	0.067404	1	0.073117	1	0.33751	1	0.31225	1	0.58549	1
19p gain	0 (0%)	293	0.26105	1	0.020134	1	0.87432	1	0.11305	1	0.25974	1	0.77967	1
19q gain	0 (0%)	274	0.43091	1	0.41856	1	0.53057	1	0.44335	1	0.40008	1	0.55014	1
20p gain	0 (0%)	178	1.8563e-17	8.35e-15	7.5885e-09	3.29e-06	4.0617e-05	0.0161	0.03223	1	0.020109	1	1.8937e-05	0.00769
20q gain	0 (0%)	149	1.4749e-24	6.65e-22	1.8898e-13	8.43e-11	4.9987e-08	2.15e-05	0.0001454	0.0553	0.0031479	1	7.8107e-09	3.37e-06
21q gain	0 (0%)	303	0.21173	1	0.8606	1	NA	NA	NA	NA	NA	NA	NA	NA
22q gain	0 (0%)	300	0.024438	1	0.23293	1	0.72205	1	1	1	0.55041	1	0.676	1
Xq gain	0 (0%)	301	0.34499	1	0.22307	1	NA	NA	NA	NA	NA	NA	NA	NA
1p loss	0 (0%)	292	1.4956e-05	0.0061	0.10268	1	0.16692	1	0.15538	1	0.085295	1	0.8359	1
1q loss	0 (0%)	302	0.15449	1	1	1	NA	NA	NA	NA	NA	NA	NA	NA
2p loss	0 (0%)	300	0.026766	1	0.45164	1	0.35144	1	0.38495	1	0.29369	1	0.035436	1
2q loss	0 (0%)	301	0.043822	1	0.68075	1	0.58739	1	0.68591	1	0.55041	1	0.035859	1
3p loss	0 (0%)	281	5.5081e-07	0.000235	0.001047	0.373	0.037347	1	0.019946	1	0.0093176	1	0.051292	1
3q loss	0 (0%)	292	5.7576e-05	0.0225	0.021455	1	0.075701	1	0.18401	1	0.0030002	1	0.012963	1
4p loss	0 (0%)	251	4.5829e-12	2.03e-09	7.3169e-05	0.0285	0.0056776	1	0.0084996	1	7.0088e-06	0.00289	2.2789e-05	0.00918
4q loss	0 (0%)	253	3.3697e-14	1.51e-11	5.9081e-06	0.00245	0.015068	1	0.0052169	1	1.8503e-06	0.000779	1.4951e-05	0.0061
5p loss	0 (0%)	289	2.1156e-05	0.00855	0.0048338	1	0.14821	1	0.050614	1	0.16596	1	0.051441	1
5q loss	0 (0%)	271	1.5855e-12	7.04e-10	1.6516e-06	0.000697	0.0033779	1	0.0013995	0.493	0.0050535	1	0.00014959	0.0567
6p loss	0 (0%)	291	0.036839	1	0.29027	1	0.44361	1	0.029162	1	0.83156	1	0.28767	1
6q loss	0 (0%)	287	0.011392	1	0.12269	1	0.01423	1	0.061719	1	0.78888	1	0.44041	1
7p loss	0 (0%)	302	0.11789	1	NA	NA	0.065611	1	0.37305	1	0.79719	1	0.2031	1
7q loss	0 (0%)	293	0.00019952	0.0752	0.04357	1	0.33898	1	0.56086	1	0.043367	1	0.25967	1
8p loss	0 (0%)	275	5.9009e-06	0.00245	0.030227	1	0.042361	1	0.012687	1	0.042226	1	0.29789	1
8q loss	0 (0%)	298	0.011497	1	0.2672	1	0.72855	1	0.32714	1	0.50046	1	0.26763	1
9p loss	0 (0%)	255	1.4488e-11	6.37e-09	3.4556e-06	0.00144	0.0073575	1	0.01647	1	0.063908	1	0.017054	1
9q loss	0 (0%)	281	3.0577e-05	0.0122	0.0026118	0.909	0.29111	1	0.32402	1	0.16254	1	0.34132	1
10p loss	0 (0%)	289	0.00026147	0.0983	0.01025	1	0.053037	1	0.0050314	1	0.3309	1	0.22463	1
10q loss	0 (0%)	290	0.0001334	0.0511	0.0039272	1	0.27224	1	0.029609	1	0.093622	1	0.11778	1
11p loss	0 (0%)	288	0.00061055	0.222	0.00029093	0.109	0.80311	1	0.094529	1	0.14537	1	0.27514	1
11q loss	0 (0%)	290	0.00026904	0.101	0.010049	1	0.85502	1	0.54255	1	0.085295	1	0.91689	1
12p loss	0 (0%)	285	4.3797e-05	0.0173	6.832e-05	0.0266	0.0044036	1	0.00099324	0.355	0.076937	1	0.01273	1
12q loss	0 (0%)	294	0.0080725	1	0.0014669	0.515	0.074198	1	0.085437	1	0.76023	1	0.094305	1
13q loss	0 (0%)	295	0.00088424	0.318	0.16221	1	0.17402	1	0.085437	1	0.28199	1	0.67832	1
14q loss	0 (0%)	278	8.18e-06	0.00335	0.00012715	0.0488	0.013328	1	0.055882	1	0.013604	1	0.01193	1
15q loss	0 (0%)	281	1.451e-07	6.24e-05	3.7464e-05	0.0149	0.059801	1	0.0033416	1	0.01163	1	0.0053412	1
16p loss	0 (0%)	277	2.1025e-11	9.23e-09	2.5393e-05	0.0102	2.8645e-05	0.0115	0.00048284	0.177	0.055538	1	0.2239	1
16q loss	0 (0%)	274	3.9627e-11	1.74e-08	5.7105e-06	0.00238	0.0012609	0.445	0.0027466	0.953	0.070386	1	0.63983	1
17p loss	0 (0%)	242	6.3057e-12	2.79e-09	7.7294e-07	0.000329	0.00014049	0.0535	0.0079159	1	0.036634	1	0.019687	1
17q loss	0 (0%)	286	0.00010273	0.0396	0.0086962	1	0.010961	1	0.14418	1	0.17393	1	0.069837	1
18p loss	0 (0%)	266	0.00093194	0.335	0.010412	1	0.084981	1	0.11352	1	0.022253	1	0.16926	1
18q loss	0 (0%)	254	2.7364e-06	0.00115	0.0041284	1	0.017911	1	0.12718	1	0.043977	1	0.027113	1
19p loss	0 (0%)	273	1.3727e-11	6.05e-09	7.3189e-06	0.00301	8.4014e-05	0.0325	0.00026807	0.101	0.03805	1	4.0465e-06	0.00169
19q loss	0 (0%)	283	2.7299e-07	0.000117	2.0502e-05	0.0083	0.0027866	0.961	0.0078341	1	0.076081	1	1.388e-05	0.00568
20p loss	0 (0%)	297	0.0045125	1	0.018633	1	0.0001506	0.0569	0.090148	1	0.30457	1	0.89433	1
21q loss	0 (0%)	244	4.0808e-09	1.77e-06	6.6981e-06	0.00277	0.053141	1	0.021314	1	0.076031	1	0.43687	1
22q loss	0 (0%)	266	7.2003e-15	3.23e-12	8.9081e-07	0.000378	0.00080266	0.29	0.0027568	0.954	0.0040142	1	0.0049265	1
Xq loss	0 (0%)	292	0.011559	1	0.11573	1	0.25552	1	0.18401	1	0.28199	1	0.35799	1