		Clinical Features	MRNA_CNMF		MRNA_CHIERARCHICAL		MIR_CNMF		MIR_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	Fisher's exact test_P	Fisher's exact test_Q	Fisher's exact test_P	Fisher's exact test_Q
1p gain	168 (29%)	411	0.080369	1	0.34895	1	0.12239	1	0.73012	1	0.00038	0.398	0.18323	1	0.10501	1	0.26349	1	0.61128	1	0.9485	1	0.25211	1	0.68318	1	0.23053	1	0.52461	1
1q gain	221 (38%)	358	0.83174	1	0.26915	1	0.70464	1	0.22681	1	9.9999e-06	0.011	0.0086399	1	0.50155	1	0.54798	1	0.43483	1	0.27734	1	0.2289	1	0.10586	1	0.19838	1	0.56172	1
2p gain	186 (32%)	393	9.9999e-06	0.011	2e-05	0.0215	0.88624	1	0.00051999	0.542	9.9999e-06	0.011	9.9999e-06	0.011	0.03568	1	0.077789	1	0.00016	0.17	0.00178	1	0.82206	1	0.02555	1	0.67492	1	0.60836	1
2q gain	155 (27%)	424	0.00056999	0.592	6.9999e-05	0.0746	1	1	0.0073899	1	9.9999e-06	0.011	0.00023	0.243	0.10888	1	0.32216	1	0.00368	1	0.02044	1	0.60874	1	0.0065299	1	1	1	0.74645	1
3p gain	160 (28%)	419	0.43697	1	0.4488	1	0.070029	1	0.52786	1	0.01161	1	0.78562	1	1	1	0.38308	1	0.66019	1	0.68713	1	0.99059	1	0.81871	1	1	1	0.81209	1
3q gain	275 (47%)	304	0.93442	1	0.86673	1	0.34405	1	0.4267	1	9.9999e-06	0.011	0.01631	1	0.63865	1	0.25798	1	0.69382	1	0.92654	1	0.25255	1	0.089319	1	1	1	0.63529	1
4p gain	60 (10%)	519	0.24615	1	0.19198	1	0.00499	1	0.060829	1	0.017	1	0.11924	1	0.46142	1	0.39539	1	0.60576	1	0.83992	1	0.32314	1	0.01796	1	1	1	0.57161	1
4q gain	32 (6%)	547	0.49408	1	0.7636	1	0.21231	1	0.080019	1	0.00461	1	0.0077499	1	0.3504	1	0.2256	1	0.76275	1	0.85673	1	0.22681	1	0.063969	1	NA	NA	NA	NA
5p gain	199 (34%)	380	0.56696	1	0.7102	1	0.8553	1	0.76186	1	0.00041	0.429	0.194	1	0.49521	1	0.072149	1	0.12707	1	0.53995	1	0.17913	1	0.57523	1	0.66563	1	0.2159	1
5q gain	60 (10%)	519	0.058879	1	0.19559	1	0.82216	1	0.89207	1	0.845	1	0.49588	1	0.46419	1	0.36917	1	0.70954	1	0.40717	1	0.38175	1	0.7911	1	0.48052	1	NA	NA
6p gain	170 (29%)	409	0.51337	1	0.0042	1	0.90367	1	0.01336	1	9.9999e-06	0.011	8.9999e-05	0.0957	0.86377	1	0.23043	1	0.15873	1	0.0079799	1	0.36132	1	0.064469	1	0.41486	1	0.76166	1
6q gain	97 (17%)	482	0.65987	1	0.051709	1	0.82095	1	0.02206	1	9.9999e-06	0.011	9.9999e-06	0.011	0.78913	1	0.99748	1	0.00475	1	0.02179	1	0.19693	1	0.02947	1	0.3808	1	0.57602	1
7p gain	181 (31%)	398	0.58862	1	0.4752	1	0.084759	1	0.10836	1	9.9999e-06	0.011	0.00025	0.264	0.64634	1	0.49992	1	0.53049	1	0.68336	1	0.96587	1	0.11915	1	1	1	0.76249	1
7q gain	203 (35%)	376	0.65107	1	0.084639	1	0.30048	1	0.38007	1	9.9999e-06	0.011	0.00156	1	0.46	1	0.24804	1	0.92476	1	0.64317	1	0.15111	1	0.62822	1	0.64617	1	0.36889	1
8p gain	119 (21%)	460	0.067949	1	0.0038	1	0.39863	1	0.42058	1	0.69265	1	0.80813	1	0.13672	1	0.00336	1	0.61814	1	1	1	0.13258	1	0.49343	1	0.22078	1	0.10069	1
8q gain	242 (42%)	337	0.0207	1	0.00063999	0.664	0.080719	1	0.14091	1	0.25918	1	0.44846	1	0.31895	1	0.26681	1	0.02995	1	0.085279	1	0.55962	1	0.86309	1	0.03096	1	0.68551	1
9p gain	92 (16%)	487	0.11327	1	0.42311	1	0.23734	1	0.86732	1	0.00273	1	0.0084699	1	0.40013	1	0.72557	1	0.69185	1	0.41161	1	0.1864	1	0.18822	1	0.62406	1	0.6082	1
9q gain	45 (8%)	534	0.25241	1	0.30889	1	0.092569	1	0.53328	1	0.13792	1	0.22362	1	0.57882	1	0.02679	1	0.48333	1	0.091399	1	0.49562	1	0.75236	1	0.45455	1	NA	NA
10p gain	188 (32%)	391	0.00417	1	0.02173	1	0.67815	1	0.37647	1	9.9999e-06	0.011	0.00021	0.222	0.97925	1	0.0094699	1	0.01069	1	0.12473	1	0.55747	1	0.00065999	0.684	1	1	0.94057	1
10q gain	111 (19%)	468	0.00423	1	0.0091099	1	0.24002	1	0.11704	1	0.00393	1	0.093539	1	0.76798	1	0.061469	1	0.10534	1	0.22018	1	0.73065	1	0.24703	1	0.64617	1	0.65887	1
11p gain	77 (13%)	502	0.71293	1	0.10014	1	0.63979	1	0.46832	1	0.1364	1	0.01377	1	0.0278	1	0.02617	1	0.058099	1	0.0348	1	0.55874	1	0.83758	1	1	1	NA	NA
11q gain	115 (20%)	464	0.39373	1	0.25077	1	0.88324	1	0.18122	1	0.0044	1	0.00187	1	0.20583	1	0.00078999	0.817	0.30346	1	0.15591	1	0.40941	1	0.7788	1	0.32331	1	0.10566	1
12p gain	255 (44%)	324	9.9999e-05	0.106	0.00154	1	0.74146	1	0.00099999	1	9.9999e-06	0.011	9.9999e-06	0.011	0.30503	1	0.31706	1	0.00053999	0.562	0.00378	1	0.2265	1	0.00026	0.274	0.41486	1	0.25149	1
12q gain	177 (31%)	402	0.0046	1	0.056489	1	0.62645	1	0.03414	1	9.9999e-06	0.011	2e-05	0.0215	0.01899	1	0.22128	1	0.00192	1	0.0089999	1	0.10209	1	0.01051	1	0.074303	1	0.29004	1
13q gain	60 (10%)	519	0.0074099	1	0.00035	0.367	0.58624	1	0.025	1	5.9999e-05	0.0641	3e-05	0.0321	0.49236	1	0.40857	1	0.22998	1	0.42713	1	0.15136	1	0.098699	1	0.45455	1	NA	NA
14q gain	59 (10%)	520	0.13868	1	0.1915	1	0.40489	1	0.69875	1	0.41089	1	0.74107	1	0.33016	1	0.17153	1	0.50328	1	0.5679	1	0.65598	1	0.63049	1	1	1	NA	NA
15q gain	40 (7%)	539	0.84822	1	0.47923	1	0.087589	1	0.75756	1	0.097639	1	0.60447	1	0.11362	1	0.10899	1	0.73801	1	0.93092	1	0.31368	1	0.20348	1	1	1	NA	NA
16p gain	59 (10%)	520	0.00232	1	0.0050499	1	0.4053	1	0.17513	1	0.02962	1	0.0176	1	0.34773	1	0.03467	1	0.6499	1	0.79887	1	0.12241	1	0.079979	1	0.48052	1	NA	NA
16q gain	31 (5%)	548	0.00094999	0.979	0.04385	1	0.16216	1	0.22078	1	0.2682	1	0.00319	1	0.45486	1	0.02602	1	1	1	0.36353	1	0.00072999	0.756	0.10526	1	1	1	NA	NA
17p gain	22 (4%)	557	0.43129	1	0.11279	1	0.055229	1	0.052459	1	0.15361	1	0.23069	1	0.49851	1	0.40636	1	0.21054	1	0.00371	1	0.17423	1	0.83769	1	NA	NA	NA	NA
17q gain	47 (8%)	532	0.42278	1	0.03783	1	0.75812	1	0.0369	1	0.52176	1	0.38887	1	0.58816	1	0.37324	1	0.90164	1	0.02269	1	0.82291	1	0.87857	1	1	1	NA	NA
18p gain	120 (21%)	459	0.18394	1	0.098449	1	0.87096	1	0.39185	1	0.00153	1	3e-04	0.316	0.02385	1	0.11053	1	0.8116	1	0.69027	1	0.35034	1	0.23442	1	0.64617	1	0.81217	1
18q gain	72 (12%)	507	0.64378	1	0.16551	1	0.23051	1	0.39028	1	0.02364	1	0.02441	1	0.51441	1	0.39708	1	0.48406	1	0.27136	1	0.10724	1	0.19363	1	1	1	1	1
19p gain	171 (30%)	408	0.075689	1	0.45187	1	0.51745	1	0.115	1	2e-05	0.0215	0.02649	1	0.056649	1	0.32369	1	0.1904	1	0.57891	1	0.26867	1	0.31025	1	1	1	0.74435	1
19q gain	161 (28%)	418	0.25931	1	0.75266	1	0.90709	1	0.16878	1	5.9999e-05	0.0641	0.13252	1	0.47621	1	0.46235	1	0.20492	1	0.43788	1	0.27148	1	0.67393	1	0.59398	1	0.72178	1
20p gain	289 (50%)	290	0.00142	1	0.0011	1	0.72323	1	0.00029	0.305	9.9999e-06	0.011	9.9999e-06	0.011	0.33193	1	0.37085	1	0.00373	1	0.16583	1	0.22498	1	0.00341	1	0.39128	1	0.5235	1
20q gain	328 (57%)	251	3e-05	0.0321	0.00024	0.253	0.66774	1	7.9999e-05	0.0852	9.9999e-06	0.011	9.9999e-06	0.011	0.66023	1	0.082209	1	0.0091499	1	0.13766	1	0.25687	1	0.0051599	1	1	1	0.49506	1
21q gain	109 (19%)	470	0.29148	1	0.8794	1	0.96198	1	0.58227	1	0.00169	1	0.01626	1	0.45602	1	0.39322	1	0.33471	1	0.84288	1	0.02288	1	0.044	1	1	1	NA	NA
22q gain	24 (4%)	555	0.36727	1	0.60008	1	0.93209	1	0.60461	1	0.36786	1	0.17037	1	0.39152	1	0.37496	1	0.56252	1	0.60845	1	0.096799	1	0.081479	1	0.57143	1	0.38174	1
xq gain	106 (18%)	473	0.48243	1	0.82769	1	0.8428	1	0.26695	1	0.00048	0.501	0.93344	1	0.31068	1	0.83731	1	0.76224	1	0.92957	1	0.47406	1	0.30021	1	1	1	0.90842	1
1p loss	65 (11%)	514	0.03224	1	0.00033	0.346	0.46525	1	0.19482	1	0.46698	1	0.2906	1	0.02068	1	0.21139	1	0.63212	1	0.508	1	0.44567	1	0.30893	1	1	1	NA	NA
1q loss	43 (7%)	536	0.11752	1	0.01436	1	0.058069	1	0.60087	1	0.69029	1	0.38317	1	0.22213	1	0.61943	1	0.46572	1	1	1	0.96918	1	0.93222	1	NA	NA	NA	NA
2p loss	53 (9%)	526	0.93058	1	0.02385	1	0.61744	1	0.48945	1	0.5779	1	0.77485	1	0.48447	1	0.8935	1	0.335	1	0.81594	1	0.72157	1	0.4024	1	0.48052	1	NA	NA
2q loss	59 (10%)	520	0.91893	1	0.27022	1	0.69695	1	0.15055	1	0.85515	1	0.68153	1	0.88978	1	0.93776	1	0.4992	1	0.79434	1	0.55607	1	0.22958	1	0.48052	1	NA	NA
3p loss	95 (16%)	484	0.02285	1	0.00083999	0.867	0.81814	1	0.0058399	1	0.00054999	0.572	0.00276	1	0.65037	1	0.26712	1	0.062059	1	0.0055899	1	0.12225	1	0.091219	1	1	1	0.1238	1
3q loss	43 (7%)	536	0.01345	1	0.03953	1	0.2856	1	0.057619	1	0.02959	1	0.00292	1	0.93298	1	0.36122	1	0.23149	1	0.091749	1	0.3046	1	0.00112	1	0.59398	1	0.03331	1
4p loss	316 (55%)	263	0.36587	1	0.02323	1	0.28157	1	0.61484	1	0.00416	1	0.48155	1	0.15029	1	0.13159	1	0.42595	1	0.44083	1	0.12008	1	0.19728	1	1	1	0.62388	1
4q loss	362 (63%)	217	0.20751	1	0.081929	1	0.50046	1	0.71552	1	0.00127	1	0.56071	1	0.1206	1	0.01792	1	0.26884	1	0.35036	1	0.21356	1	0.1806	1	1	1	0.36821	1
5p loss	133 (23%)	446	0.074719	1	0.03132	1	0.53926	1	0.087339	1	0.01238	1	0.0070199	1	0.088749	1	0.057269	1	0.00018	0.191	0.04701	1	0.56938	1	0.04992	1	1	1	0.90515	1
5q loss	223 (39%)	356	0.00042	0.439	0.00159	1	0.70848	1	0.01288	1	0.00042	0.439	9.9999e-06	0.011	0.034	1	0.093559	1	0.0011	1	0.14731	1	0.61951	1	0.0067499	1	0.37771	1	0.71855	1
6p loss	165 (28%)	414	0.96958	1	0.02006	1	0.45	1	0.50662	1	0.14711	1	0.11974	1	0.77996	1	0.84868	1	0.40977	1	0.04299	1	0.47974	1	0.10202	1	0.57143	1	0.574	1
6q loss	242 (42%)	337	0.96232	1	0.076219	1	0.43272	1	0.097219	1	0.03411	1	0.071169	1	0.62402	1	0.65775	1	0.01899	1	0.02067	1	0.7922	1	0.57058	1	0.59398	1	0.90202	1
7p loss	121 (21%)	458	0.99117	1	0.40379	1	0.47853	1	0.69941	1	0.11105	1	0.1487	1	0.54109	1	0.32783	1	0.7746	1	0.71162	1	0.53765	1	0.79957	1	0.59398	1	0.20165	1
7q loss	81 (14%)	498	0.33559	1	0.088979	1	0.34727	1	0.29964	1	0.73737	1	0.11046	1	0.8203	1	0.069629	1	0.47809	1	0.3117	1	0.12365	1	0.81991	1	1	1	0.33753	1
8p loss	277 (48%)	302	0.74081	1	0.89033	1	0.24209	1	0.94638	1	0.00241	1	0.11037	1	0.11852	1	0.29714	1	0.48108	1	0.70335	1	0.70114	1	0.03701	1	1	1	0.9401	1
8q loss	90 (16%)	489	0.0076199	1	0.0052099	1	0.51916	1	0.26279	1	0.00106	1	0.03465	1	0.02168	1	0.23401	1	0.00094999	0.979	0.02885	1	0.66294	1	0.12426	1	1	1	0.90108	1
9p loss	262 (45%)	317	0.00323	1	0.0059799	1	0.50959	1	0.18298	1	0.01617	1	0.069069	1	0.79321	1	0.5459	1	0.89902	1	0.10705	1	0.054559	1	0.254	1	0.39128	1	0.15413	1
9q loss	286 (49%)	293	0.0071299	1	0.01301	1	0.22241	1	0.03437	1	9.9999e-06	0.011	0.0053799	1	0.6091	1	0.6818	1	0.0073399	1	0.051689	1	0.22558	1	0.057559	1	1	1	0.62457	1
10p loss	97 (17%)	482	0.22262	1	0.96269	1	0.22104	1	0.33644	1	0.64296	1	0.23236	1	0.59406	1	0.087839	1	0.65211	1	0.55457	1	0.35931	1	0.83334	1	1	1	0.22143	1
10q loss	124 (21%)	455	0.93817	1	0.82514	1	0.00449	1	0.29624	1	0.02292	1	0.00188	1	0.30223	1	0.40683	1	0.77314	1	0.74087	1	0.69267	1	0.37149	1	0.3808	1	0.69546	1
11p loss	198 (34%)	381	0.23948	1	0.01087	1	0.54462	1	0.3105	1	0.19931	1	0.03667	1	0.099969	1	0.61149	1	0.04085	1	0.10998	1	0.47178	1	0.1426	1	0.32331	1	0.80231	1
11q loss	148 (26%)	431	0.29634	1	0.90196	1	0.21114	1	0.5609	1	0.0094599	1	0.070049	1	0.42277	1	0.7668	1	0.26924	1	0.801	1	0.4954	1	0.17637	1	0.59398	1	0.38439	1
12p loss	79 (14%)	500	0.00262	1	0.01101	1	0.65747	1	0.0064899	1	0.00104	1	0.25397	1	0.87027	1	0.15204	1	0.31476	1	0.20086	1	0.0095499	1	0.0061799	1	0.29323	1	0.72506	1
12q loss	105 (18%)	474	0.082589	1	0.083089	1	0.7277	1	0.17038	1	0.02226	1	0.2233	1	0.26552	1	0.55817	1	0.17281	1	0.14871	1	0.02586	1	0.03042	1	0.13534	1	0.04118	1
13q loss	310 (54%)	269	0.02975	1	0.0082199	1	0.80383	1	0.01746	1	0.051519	1	9.9999e-06	0.011	0.0056599	1	0.34393	1	0.46739	1	0.41982	1	0.21729	1	0.53514	1	0.66563	1	0.14952	1
14q loss	215 (37%)	364	0.25003	1	0.1912	1	0.96722	1	0.39814	1	9.9999e-06	0.011	0.00367	1	0.98073	1	0.60711	1	0.00374	1	0.0482	1	0.85452	1	0.40193	1	0.3808	1	0.22387	1
15q loss	280 (48%)	299	0.00049	0.511	0.01631	1	7.9999e-05	0.0852	0.00032	0.336	9.9999e-06	0.011	9.9999e-06	0.011	0.37764	1	0.81294	1	0.066239	1	0.61201	1	0.0081299	1	0.00062999	0.654	0.042731	1	0.62293	1
16p loss	334 (58%)	245	0.37956	1	0.84638	1	0.04024	1	0.35127	1	0.21731	1	0.11499	1	0.76557	1	0.22742	1	0.03972	1	0.24608	1	0.04831	1	0.068309	1	0.67492	1	0.36778	1
16q loss	413 (71%)	166	0.57881	1	0.87001	1	0.00285	1	0.079519	1	0.02816	1	0.064489	1	0.90711	1	0.30834	1	0.19622	1	0.36993	1	0.054129	1	0.12855	1	0.62406	1	0.60647	1
17p loss	478 (83%)	101	0.33687	1	0.22752	1	0.13585	1	0.20463	1	0.59237	1	0.24857	1	0.55368	1	0.18873	1	0.10226	1	0.057129	1	0.4744	1	0.47637	1	1	1	NA	NA
17q loss	383 (66%)	196	0.084449	1	0.02832	1	0.01494	1	0.01161	1	0.94398	1	0.55734	1	0.57013	1	0.29374	1	0.53429	1	0.096959	1	0.077569	1	0.71273	1	0.62406	1	0.27761	1
18p loss	235 (41%)	344	0.41113	1	0.95167	1	0.47196	1	0.02137	1	0.54554	1	0.00218	1	0.31326	1	0.0067199	1	0.02384	1	0.11398	1	0.838	1	0.53801	1	0.66563	1	0.57941	1
18q loss	293 (51%)	286	0.34261	1	0.97178	1	0.29636	1	0.95713	1	0.85406	1	0.10448	1	0.71308	1	0.03536	1	0.01144	1	0.091209	1	0.97789	1	0.77867	1	0.66992	1	0.24698	1
19p loss	185 (32%)	394	0.97762	1	0.45421	1	0.32803	1	0.04373	1	0.00498	1	0.0191	1	0.0097199	1	0.88746	1	0.6669	1	0.31277	1	0.67488	1	0.11867	1	0.011499	1	0.12558	1
19q loss	178 (31%)	401	0.6924	1	0.24608	1	0.25042	1	0.01498	1	0.00448	1	0.072849	1	0.060199	1	0.67758	1	0.92494	1	0.71896	1	0.30024	1	0.051959	1	0.0053476	1	0.42669	1
20p loss	50 (9%)	529	0.35261	1	0.72243	1	0.22191	1	0.61966	1	0.11075	1	0.46898	1	0.10311	1	0.19967	1	0.073289	1	0.00338	1	0.00078999	0.817	0.2697	1	0.48052	1	NA	NA
20q loss	32 (6%)	547	0.11545	1	0.50035	1	0.03668	1	0.5071	1	0.44248	1	0.63792	1	0.04864	1	0.097179	1	0.13259	1	0.01364	1	0.13558	1	0.37778	1	0.48052	1	NA	NA
21q loss	199 (34%)	380	0.81781	1	0.051879	1	0.38551	1	0.18485	1	0.49	1	0.14078	1	0.65211	1	0.43624	1	0.58262	1	0.40808	1	0.68873	1	0.73301	1	0.16188	1	0.58145	1
22q loss	430 (74%)	149	0.00242	1	0.092959	1	0.03689	1	0.12701	1	0.00015	0.159	0.00194	1	0.085479	1	0.02391	1	0.086269	1	0.12921	1	0.04107	1	0.57389	1	0.13534	1	0.10743	1
xq loss	277 (48%)	302	0.052789	1	0.18632	1	0.25331	1	0.90869	1	0.00135	1	0.16219	1	0.32784	1	0.04682	1	0.50823	1	0.89788	1	0.74518	1	0.41486	1	1	1	0.28903	1
