		Molecular subtypes	MRNA_CNMF		MRNA_CHIERARCHICAL		CN_CNMF		METHLYATION_CNMF		RPPA_CNMF		RPPA_CHIERARCHICAL		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	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	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%)	574	0.4079	1	0.37497	1	0.83498	1	0.31611	1	0.36808	1	0.23229	1	0.74216	1	0.48847	1	0.51953	1	0.8362	1	0.48713	1	0.61723	1
1q gain	0 (0%)	508	0.60149	1	0.96662	1	0.019359	1	0.74409	1	0.13611	1	0.17932	1	0.22992	1	0.24733	1	0.071521	1	0.35748	1	0.065449	1	0.24271	1
2p gain	0 (0%)	528	0.060801	1	0.00032169	0.263	0.0040083	1	6.6961e-05	0.056	0.044055	1	0.35745	1	0.00097772	0.782	0.0067301	1	0.10335	1	0.036519	1	0.48079	1	0.0098232	1
2q gain	0 (0%)	529	0.017776	1	8.5204e-05	0.0711	0.00059696	0.484	1.3487e-06	0.00115	0.11852	1	0.80609	1	0.0046907	1	0.012816	1	0.096625	1	0.13202	1	0.8463	1	0.15686	1
3p gain	0 (0%)	553	0.13264	1	0.59276	1	0.0020175	1	0.22529	1	0.85622	1	0.76991	1	0.72887	1	0.43993	1	0.11295	1	0.059205	1	0.30724	1	0.063399	1
3q gain	0 (0%)	536	0.23493	1	0.089138	1	5.4032e-06	0.00457	0.031964	1	0.34738	1	0.65544	1	0.11825	1	0.21245	1	0.042444	1	0.43522	1	0.10421	1	0.39763	1
4p gain	0 (0%)	582	NA	NA	NA	NA	0.41833	1	0.15007	1	0.37536	1	0.33915	1	0.20736	1	0.21456	1	0.13265	1	0.18624	1	0.079643	1	0.25162	1
4q gain	0 (0%)	581	0.70693	1	0.71936	1	0.23833	1	0.47011	1	0.59847	1	0.64544	1	NA	NA	NA	NA	0.40242	1	0.042023	1	NA	NA	NA	NA
5p gain	0 (0%)	527	0.13784	1	0.66124	1	0.0025967	1	0.19844	1	0.50908	1	0.86337	1	0.20846	1	0.030094	1	0.91494	1	0.88076	1	0.49021	1	0.95353	1
5q gain	0 (0%)	554	0.52676	1	0.82563	1	0.0038903	1	0.060008	1	0.91721	1	0.57368	1	0.064117	1	0.01234	1	0.7806	1	0.26184	1	0.89404	1	0.95739	1
6p gain	0 (0%)	509	0.18547	1	0.0029461	1	3.3929e-07	0.000292	0.22614	1	0.79011	1	0.12022	1	0.020618	1	0.50825	1	0.80691	1	0.66673	1	0.40637	1	0.96809	1
6q gain	0 (0%)	515	0.30905	1	0.04006	1	1.0912e-06	0.000933	0.14981	1	0.36252	1	0.041776	1	0.36499	1	0.29579	1	0.52022	1	0.75812	1	0.79699	1	0.44877	1
7p gain	0 (0%)	291	0.00082809	0.666	0.0012228	0.973	4.7272e-22	4.25e-19	1.8374e-07	0.000159	0.031577	1	0.020253	1	3.9586e-07	0.000341	5.5141e-08	4.79e-05	0.012936	1	0.070064	1	0.00010634	0.0885	0.63132	1
7q gain	0 (0%)	327	0.0012916	1	0.0090479	1	1.6953e-15	1.5e-12	8.2417e-06	0.00695	0.30063	1	0.1801	1	2.5263e-07	0.000218	9.8416e-07	0.000842	0.028943	1	0.25036	1	0.00034309	0.281	0.6649	1
8p gain	0 (0%)	478	0.96287	1	0.71705	1	1.1385e-06	0.000972	0.24505	1	0.24795	1	0.18503	1	0.5329	1	0.78733	1	0.51708	1	0.69589	1	0.22775	1	0.72266	1
8q gain	0 (0%)	351	0.14548	1	0.017245	1	1.1872e-39	1.07e-36	0.027978	1	0.13039	1	0.34167	1	0.0007641	0.615	0.011563	1	0.26633	1	0.53384	1	0.018604	1	0.46005	1
9p gain	0 (0%)	508	0.50322	1	1	1	0.041316	1	0.60052	1	0.70613	1	0.20389	1	0.3694	1	0.19599	1	0.7409	1	0.64006	1	0.42432	1	0.77805	1
9q gain	0 (0%)	524	0.38501	1	0.85376	1	0.11358	1	0.63908	1	0.58193	1	0.033571	1	1	1	0.74782	1	0.18691	1	0.59262	1	1	1	0.59022	1
10p gain	0 (0%)	561	0.19642	1	0.6282	1	0.045261	1	0.0073023	1	0.47436	1	0.85739	1	0.4976	1	0.38999	1	0.4457	1	0.68859	1	0.050432	1	0.52581	1
10q gain	0 (0%)	575	0.88738	1	0.2775	1	0.35881	1	0.018098	1	0.37734	1	0.2885	1	1	1	0.33153	1	0.52869	1	0.5959	1	0.25691	1	0.45648	1
11p gain	0 (0%)	548	0.061484	1	0.2751	1	9.4013e-05	0.0784	0.00013975	0.116	0.77162	1	0.76414	1	0.10197	1	0.0030773	1	0.574	1	0.82238	1	0.022533	1	0.072489	1
11q gain	0 (0%)	548	0.095636	1	0.029856	1	6.118e-05	0.0512	0.0004886	0.397	0.42896	1	0.65066	1	0.013479	1	0.0012641	1	0.67827	1	0.20998	1	0.0023233	1	0.75982	1
12p gain	0 (0%)	495	0.52141	1	0.79554	1	0.065438	1	0.0083064	1	0.62389	1	0.17044	1	0.72415	1	0.091949	1	0.064803	1	0.14726	1	0.0018949	1	0.012824	1
12q gain	0 (0%)	508	0.42228	1	0.90322	1	0.022039	1	0.0011871	0.946	0.79348	1	0.24583	1	0.45835	1	0.043068	1	0.058544	1	0.091358	1	0.000631	0.51	0.0032519	1
13q gain	0 (0%)	270	8.5622e-07	0.000734	0.00016435	0.135	1.8243e-39	1.65e-36	5.6994e-09	4.96e-06	0.033065	1	0.079997	1	3.2565e-06	0.00276	5.1984e-07	0.000447	0.00067699	0.546	0.7051	1	1.5913e-07	0.000138	0.038649	1
14q gain	0 (0%)	568	0.51891	1	0.25062	1	0.12313	1	1	1	0.91959	1	0.40803	1	0.17805	1	0.21481	1	0.67638	1	0.80658	1	0.74465	1	0.43463	1
15q gain	0 (0%)	582	NA	NA	NA	NA	0.4868	1	0.87643	1	0.22226	1	0.13101	1	0.74038	1	0.45279	1	0.86797	1	1	1	0.83596	1	0.47555	1
16p gain	0 (0%)	492	0.070186	1	0.13672	1	1.4096e-16	1.25e-13	0.00092838	0.745	0.56153	1	0.029508	1	0.011062	1	0.0026507	1	0.42807	1	0.43097	1	0.088546	1	0.7707	1
16q gain	0 (0%)	492	0.076574	1	0.13022	1	1.3918e-18	1.25e-15	0.001044	0.834	0.58192	1	0.018203	1	0.0065825	1	0.00066866	0.54	0.63939	1	0.90362	1	0.010545	1	0.47387	1
17p gain	0 (0%)	577	0.77999	1	0.0070285	1	0.7504	1	0.69696	1	0.51437	1	0.60668	1	0.66594	1	0.023981	1	0.69046	1	0.90384	1	1	1	0.61586	1
17q gain	0 (0%)	522	0.050357	1	0.034999	1	0.00065833	0.532	0.0046161	1	0.66639	1	0.083717	1	0.0018019	1	0.00020947	0.172	0.06559	1	0.95305	1	0.78309	1	0.47816	1
18p gain	0 (0%)	568	0.20744	1	0.059231	1	0.00035416	0.289	0.0064408	1	0.63988	1	0.89691	1	0.6802	1	0.36349	1	0.48586	1	0.4042	1	0.57881	1	0.85425	1
18q gain	0 (0%)	577	NA	NA	NA	NA	0.033389	1	0.0035859	1	0.77011	1	0.4677	1	0.22265	1	0.35597	1	0.13456	1	0.17855	1	0.19448	1	1	1
19p gain	0 (0%)	535	0.1938	1	0.14574	1	0.00011998	0.0996	0.015865	1	0.27934	1	0.028523	1	0.042282	1	0.026235	1	0.71304	1	0.35557	1	0.8675	1	0.84876	1
19q gain	0 (0%)	525	0.01571	1	0.041236	1	0.0039379	1	0.062206	1	0.026647	1	0.030213	1	0.20846	1	0.095708	1	1	1	0.41976	1	0.80336	1	0.22077	1
20p gain	0 (0%)	294	0.00014513	0.12	1.6458e-07	0.000142	1.3788e-17	1.23e-14	6.0204e-06	0.00509	0.0041347	1	0.022228	1	1.9571e-09	1.71e-06	2.0084e-09	1.75e-06	0.28068	1	0.66161	1	1.7968e-05	0.0151	0.40306	1
20q gain	0 (0%)	177	4.3778e-17	3.91e-14	4.3814e-16	3.9e-13	1.0935e-46	9.91e-44	5.4817e-17	4.88e-14	0.00018088	0.149	0.00015849	0.131	1.9601e-17	1.75e-14	2.257e-21	2.02e-18	0.048104	1	0.73518	1	1.2223e-12	1.07e-09	0.0035245	1
21q gain	0 (0%)	569	0.45625	1	0.71465	1	0.057096	1	0.30036	1	0.30521	1	0.13319	1	0.46524	1	0.93254	1	1	1	0.49777	1	0.78222	1	0.76434	1
22q gain	0 (0%)	582	0.69094	1	0.0070285	1	0.39032	1	0.47011	1	0.92612	1	0.4704	1	0.29892	1	0.10899	1	0.49068	1	0.39755	1	NA	NA	NA	NA
Xq gain	0 (0%)	572	0.17835	1	0.4456	1	0.031899	1	0.39173	1	0.14685	1	0.21986	1	1	1	0.75928	1	0.26758	1	0.91812	1	0.39799	1	0.8214	1
1p loss	0 (0%)	520	0.19356	1	0.0035767	1	0.00039684	0.324	0.00011507	0.0956	0.95353	1	0.81191	1	0.0079403	1	0.15925	1	0.2261	1	0.20221	1	0.5955	1	0.1454	1
1q loss	0 (0%)	564	0.55906	1	0.0258	1	0.18898	1	0.035597	1	0.747	1	0.94863	1	0.11629	1	0.46027	1	0.59952	1	1	1	0.68903	1	0.40317	1
2p loss	0 (0%)	578	1	1	0.73888	1	0.10105	1	NA	NA	0.043211	1	0.80273	1	NA	NA	NA	NA	0.035348	1	0.023446	1	NA	NA	NA	NA
2q loss	0 (0%)	581	0.73955	1	0.61416	1	0.58589	1	NA	NA	0.12336	1	0.29927	1	NA	NA	NA	NA	0.060881	1	0.014745	1	NA	NA	NA	NA
3p loss	0 (0%)	551	1	1	0.29167	1	0.36244	1	0.81685	1	0.78008	1	0.72439	1	1	1	0.42908	1	0.3786	1	0.85199	1	0.73971	1	0.61688	1
3q loss	0 (0%)	570	0.44953	1	0.01378	1	0.078004	1	0.069693	1	0.059873	1	0.46177	1	0.66641	1	1	1	0.89711	1	0.92443	1	0.7622	1	0.71359	1
4p loss	0 (0%)	462	0.17593	1	0.21032	1	1.8067e-12	1.58e-09	0.001054	0.841	0.38668	1	0.88949	1	0.44898	1	0.040824	1	0.013063	1	0.67528	1	0.0044499	1	0.60437	1
4q loss	0 (0%)	470	0.16238	1	0.13168	1	2.6196e-13	2.31e-10	0.00043733	0.356	0.48653	1	0.81014	1	0.51127	1	0.085131	1	0.013396	1	0.28618	1	0.03965	1	0.10525	1
5p loss	0 (0%)	555	0.26897	1	0.44993	1	0.00057022	0.463	0.030217	1	0.38583	1	0.44868	1	0.13428	1	0.05862	1	0.93842	1	0.29091	1	0.61899	1	0.21208	1
5q loss	0 (0%)	528	0.014448	1	0.01062	1	4.4819e-06	0.0038	0.061409	1	0.060103	1	0.87975	1	0.049072	1	0.019041	1	0.68623	1	0.18804	1	0.0095189	1	0.14276	1
6p loss	0 (0%)	570	0.13176	1	0.18635	1	0.64328	1	0.35586	1	0.39206	1	0.64127	1	0.4013	1	0.28667	1	0.64577	1	0.73501	1	0.39429	1	0.58433	1
6q loss	0 (0%)	555	0.78382	1	0.62104	1	0.66298	1	0.88572	1	0.21881	1	0.14518	1	0.79784	1	0.84151	1	0.61556	1	0.15544	1	0.72451	1	0.97334	1
7q loss	0 (0%)	586	NA	NA	NA	NA	0.39892	1	NA	NA	0.84425	1	1	1	NA	NA	NA	NA	0.78093	1	1	1	NA	NA	NA	NA
8p loss	0 (0%)	442	0.0040565	1	0.0018576	1	3.5494e-26	3.2e-23	0.00021254	0.174	0.080058	1	0.039313	1	0.017241	1	1.7256e-06	0.00147	0.41473	1	0.49416	1	0.00094533	0.757	0.48717	1
8q loss	0 (0%)	578	0.81462	1	0.86854	1	0.31678	1	0.57992	1	0.02872	1	0.65765	1	0.83575	1	0.81758	1	0.31353	1	0.14799	1	0.83596	1	0.086014	1
9p loss	0 (0%)	550	0.9107	1	0.28571	1	0.0016136	1	0.0020262	1	0.32015	1	0.14697	1	0.093771	1	0.10901	1	0.055609	1	0.6309	1	0.018277	1	0.077758	1
9q loss	0 (0%)	552	0.24114	1	0.0096951	1	0.00010194	0.0849	3.3876e-05	0.0284	0.53111	1	0.20908	1	0.015923	1	0.0096925	1	0.019926	1	0.89394	1	0.0031259	1	0.12402	1
10p loss	0 (0%)	548	0.71966	1	0.48999	1	0.0031644	1	0.41462	1	0.095772	1	0.68205	1	0.30457	1	0.05454	1	0.09571	1	0.30735	1	0.71586	1	1	1
10q loss	0 (0%)	543	0.33458	1	0.41893	1	9.1678e-06	0.00772	0.13527	1	0.021627	1	0.7719	1	0.065329	1	0.044408	1	0.54713	1	0.68737	1	0.12165	1	0.58334	1
11p loss	0 (0%)	547	0.72982	1	0.33609	1	0.029209	1	0.22181	1	0.28922	1	0.17436	1	0.17005	1	0.35582	1	0.32831	1	0.15888	1	0.2459	1	0.9117	1
11q loss	0 (0%)	537	0.82653	1	0.46367	1	0.0037598	1	0.063404	1	0.78072	1	0.29206	1	0.33276	1	0.73712	1	0.23338	1	0.094989	1	0.20113	1	0.94942	1
12p loss	0 (0%)	556	0.093826	1	0.22765	1	5.2572e-07	0.000451	0.32297	1	0.82927	1	0.37272	1	0.50746	1	0.8908	1	0.86343	1	0.21701	1	0.17457	1	0.49152	1
12q loss	0 (0%)	560	0.35195	1	0.083441	1	6.3539e-06	0.00536	0.32455	1	0.78398	1	0.63189	1	0.18516	1	0.26465	1	0.90403	1	0.74481	1	0.42987	1	0.81777	1
13q loss	0 (0%)	576	0.29716	1	0.28202	1	0.14568	1	0.16917	1	0.27037	1	0.10777	1	0.24507	1	0.057082	1	0.8006	1	0.56572	1	0.046038	1	0.30659	1
14q loss	0 (0%)	443	0.00014219	0.118	1.7675e-06	0.0015	1.0744e-37	9.7e-35	1.3409e-07	0.000116	0.0022992	1	0.0094415	1	2.8685e-05	0.0241	5.3501e-06	0.00453	0.10531	1	0.90277	1	4.9032e-07	0.000422	0.2481	1
15q loss	0 (0%)	431	0.0050013	1	0.003108	1	1.8627e-18	1.67e-15	0.0080297	1	0.31045	1	0.83197	1	0.0034116	1	0.00013948	0.116	0.48954	1	0.52303	1	0.00028019	0.23	0.49785	1
16p loss	0 (0%)	573	0.26576	1	0.18385	1	0.45979	1	0.16917	1	0.64356	1	0.64644	1	0.30188	1	0.25407	1	1	1	0.8362	1	0.66909	1	0.17175	1
16q loss	0 (0%)	571	0.028437	1	0.24292	1	0.061666	1	0.38497	1	0.65531	1	0.74782	1	0.18149	1	0.13803	1	0.095065	1	0.72414	1	0.33121	1	0.23473	1
17p loss	0 (0%)	333	0.00041887	0.341	0.0022309	1	1.5049e-23	1.36e-20	6.1126e-08	5.31e-05	0.26815	1	0.47306	1	4.7277e-05	0.0396	2.7838e-08	2.42e-05	0.0095324	1	0.012792	1	2.8294e-06	0.00241	0.35071	1
17q loss	0 (0%)	540	0.84393	1	0.48675	1	0.0054631	1	0.66647	1	0.34225	1	0.45448	1	0.056965	1	0.071099	1	0.41206	1	0.91064	1	0.081171	1	0.15458	1
18p loss	0 (0%)	254	5.2449e-13	4.62e-10	1.5838e-11	1.39e-08	9.9583e-49	9.03e-46	7.7448e-22	6.95e-19	0.0097384	1	0.010895	1	5.8444e-14	5.16e-11	8.0188e-16	7.12e-13	0.033302	1	0.90705	1	2.2131e-14	1.96e-11	0.012818	1
18q loss	0 (0%)	228	1.3553e-12	1.19e-09	4.3076e-12	3.77e-09	6.6397e-51	6.03e-48	8.8077e-23	7.93e-20	0.031093	1	0.094846	1	2.5454e-14	2.25e-11	1.7252e-14	1.53e-11	0.0032878	1	0.51754	1	2.8904e-13	2.55e-10	0.01392	1
19p loss	0 (0%)	568	0.73955	1	0.4311	1	0.00084871	0.682	0.024727	1	0.61421	1	0.70494	1	0.0041396	1	0.083726	1	0.059025	1	1	1	0.1371	1	0.1712	1
19q loss	0 (0%)	572	0.73955	1	0.4311	1	0.0022678	1	0.18604	1	0.7061	1	1	1	0.0035834	1	0.13613	1	0.26758	1	0.70733	1	0.069105	1	0.31908	1
20p loss	0 (0%)	540	0.041217	1	0.18413	1	0.00060329	0.489	0.16314	1	0.40173	1	0.58147	1	0.63275	1	0.12267	1	0.66611	1	0.93838	1	0.41249	1	0.69699	1
20q loss	0 (0%)	586	NA	NA	NA	NA	0.64677	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
21q loss	0 (0%)	470	0.37642	1	0.51686	1	0.0013286	1	0.074109	1	0.3103	1	0.3099	1	0.044857	1	0.054884	1	0.075863	1	0.68571	1	0.12449	1	0.70768	1
22q loss	0 (0%)	461	0.014768	1	0.0060575	1	3.506e-11	3.06e-08	0.059942	1	0.3361	1	0.26407	1	0.081482	1	0.0065601	1	0.18331	1	0.68387	1	0.0016442	1	0.36071	1
Xq loss	0 (0%)	577	0.76483	1	1	1	0.23737	1	0.67139	1	0.016982	1	0.34464	1	0.62994	1	0.52554	1	0.39345	1	0.20495	1	0.28857	1	0.10857	1
