		Clinical Features	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	12 (7%)	150	0.51325	1	0.94108	1	0.44997	1	0.52977	1	0.03208	1	0.01782	1	0.21962	1	0.77034	1	0.9406	1	0.45758	1	0.93122	1	0.71014	1
1q gain	32 (20%)	130	0.67037	1	0.61365	1	0.02199	1	0.38444	1	0.033	1	0.18198	1	0.31886	1	0.78409	1	0.57146	1	0.79574	1	0.14981	1	0.32504	1
2p gain	39 (24%)	123	0.50379	1	0.01985	1	0.055469	1	0.066369	1	0.66799	1	0.63949	1	0.04572	1	0.04144	1	0.18513	1	0.076669	1	0.9144	1	0.47063	1
2q gain	41 (25%)	121	0.092139	1	0.058169	1	0.01375	1	0.16266	1	0.72032	1	0.82673	1	0.081379	1	0.0092299	1	0.21586	1	0.30557	1	0.53507	1	0.23878	1
3p gain	27 (17%)	135	1	1	0.90448	1	0.18807	1	0.68296	1	0.086719	1	0.45577	1	0.42902	1	0.62671	1	0.37815	1	0.35712	1	0.63839	1	0.56052	1
3q gain	34 (21%)	128	0.60416	1	0.61227	1	0.064459	1	0.90838	1	0.25259	1	0.4203	1	0.41874	1	0.22578	1	0.22214	1	0.31859	1	0.93479	1	0.84008	1
4p gain	9 (6%)	153	1	1	0.79187	1	1	1	0.76323	1	0.088909	1	0.17102	1	0.35747	1	0.43695	1	0.22205	1	0.37343	1	0.60155	1	1	1
4q gain	5 (3%)	157	0.29446	1	0.64958	1	1	1	NA	NA	0.21986	1	0.48694	1	0.55534	1	1	1	0.89084	1	1	1	NA	NA	NA	NA
5p gain	34 (21%)	128	0.204	1	0.098719	1	0.02705	1	0.1253	1	0.21528	1	0.68828	1	0.0447	1	0.004	1	0.19174	1	0.92217	1	0.20045	1	0.62594	1
5q gain	22 (14%)	140	0.24406	1	0.088489	1	0.41445	1	0.02676	1	0.072419	1	0.91802	1	0.24018	1	0.060799	1	0.29664	1	0.61131	1	0.25275	1	0.21813	1
6p gain	40 (25%)	122	0.33558	1	0.56481	1	8.9999e-05	0.0812	0.00475	1	0.77238	1	0.25591	1	0.6166	1	0.59186	1	0.23869	1	0.30043	1	0.42343	1	0.62485	1
6q gain	35 (22%)	127	0.67144	1	0.2281	1	2e-05	0.0181	0.0107	1	0.84383	1	0.47151	1	0.66425	1	0.32897	1	0.33741	1	0.58102	1	0.78809	1	0.68203	1
7p gain	100 (62%)	62	0.00219	1	0.00266	1	9.9999e-06	0.00911	0.0087799	1	0.48581	1	0.37453	1	0.01972	1	0.00019	0.171	0.04088	1	0.096459	1	0.03632	1	0.384	1
7q gain	83 (51%)	79	0.04807	1	0.0075599	1	5e-05	0.0451	0.25949	1	0.61787	1	0.94862	1	0.04121	1	0.00266	1	0.49859	1	0.82932	1	0.37928	1	0.62097	1
8p gain	39 (24%)	123	0.58632	1	0.35839	1	0.01384	1	0.73422	1	0.30417	1	0.04253	1	0.21382	1	0.39139	1	0.77116	1	0.20346	1	0.195	1	0.94721	1
8q gain	88 (54%)	74	0.0077499	1	0.21263	1	9.9999e-06	0.00911	0.1928	1	0.54788	1	0.78513	1	0.5692	1	0.074779	1	0.24473	1	0.066009	1	0.89376	1	1	1
9p gain	42 (26%)	120	0.0182	1	0.20001	1	0.62635	1	0.20379	1	0.65361	1	0.229	1	0.02206	1	0.99411	1	0.27299	1	0.33059	1	0.13184	1	0.63158	1
9q gain	33 (20%)	129	0.01511	1	0.20999	1	0.32757	1	0.49687	1	0.56376	1	0.099939	1	0.24404	1	0.16192	1	0.78503	1	0.62206	1	0.29936	1	0.69428	1
10p gain	12 (7%)	150	1	1	0.91833	1	0.15503	1	0.2741	1	0.66815	1	0.74804	1	0.089459	1	0.04146	1	0.6512	1	0.91863	1	0.38596	1	0.0065399	1
10q gain	6 (4%)	156	0.51593	1	0.082989	1	0.26847	1	0.7798	1	1	1	0.87269	1	0.40874	1	0.083579	1	0.77153	1	0.86447	1	NA	NA	NA	NA
11p gain	30 (19%)	132	0.13391	1	0.38708	1	0.01806	1	0.39306	1	0.8432	1	0.39608	1	0.19085	1	0.02734	1	0.03105	1	0.28477	1	0.12871	1	0.16988	1
11q gain	25 (15%)	137	0.23919	1	0.42994	1	0.00124	1	0.03368	1	0.57391	1	0.30178	1	0.050489	1	0.00107	0.958	0.02556	1	0.5875	1	0.23253	1	1	1
12p gain	33 (20%)	129	0.69263	1	0.48243	1	0.00322	1	0.72479	1	0.18266	1	0.124	1	0.23133	1	0.32257	1	0.37428	1	0.5512	1	0.37937	1	0.68061	1
12q gain	23 (14%)	139	0.91166	1	0.51284	1	0.094569	1	0.30649	1	0.37336	1	0.25781	1	0.19054	1	0.94862	1	0.29904	1	0.33081	1	0.068799	1	0.28212	1
13q gain	110 (68%)	52	0.28208	1	0.38061	1	8.9999e-05	0.0812	0.084289	1	0.83703	1	0.32053	1	0.00436	1	0.02644	1	0.00278	1	0.065909	1	0.18982	1	0.58014	1
14q gain	8 (5%)	154	0.83372	1	0.91578	1	0.14584	1	0.17584	1	0.51895	1	0.54571	1	0.41291	1	0.39885	1	0.1283	1	0.86311	1	NA	NA	NA	NA
15q gain	3 (2%)	159	NA	NA	NA	NA	0.71809	1	0.48438	1	NA	NA	NA	NA	0.35173	1	0.69675	1	NA	NA	NA	NA	NA	NA	NA	NA
16p gain	39 (24%)	123	0.14778	1	0.85143	1	0.00133	1	0.51213	1	0.92258	1	1	1	0.25387	1	0.32232	1	0.15323	1	0.67561	1	0.058499	1	0.14334	1
16q gain	39 (24%)	123	0.04923	1	0.59529	1	2e-05	0.0181	0.48564	1	1	1	0.67048	1	0.02943	1	0.04306	1	0.02091	1	0.24327	1	0.02426	1	0.060629	1
17p gain	8 (5%)	154	0.11099	1	0.37848	1	0.02738	1	0.37585	1	1	1	0.87119	1	0.14529	1	0.55563	1	0.48776	1	0.44199	1	0.22852	1	0.79358	1
17q gain	30 (19%)	132	0.19881	1	0.9429	1	0.00032	0.287	0.38683	1	0.87791	1	0.94024	1	0.41953	1	0.37296	1	0.054199	1	0.46056	1	0.41494	1	1	1
18p gain	8 (5%)	154	0.51857	1	0.38922	1	0.0059299	1	0.73037	1	0.8066	1	0.73896	1	0.88656	1	0.92377	1	0.50129	1	0.56072	1	0.62108	1	0.45643	1
18q gain	6 (4%)	156	NA	NA	NA	NA	0.079459	1	0.46056	1	0.49171	1	0.89215	1	0.45711	1	0.89148	1	0.65284	1	0.62909	1	0.62314	1	0.45832	1
19p gain	31 (19%)	131	0.066939	1	0.41828	1	0.01063	1	1	1	0.54882	1	0.4613	1	0.88105	1	0.63596	1	0.13528	1	0.95624	1	0.66711	1	1	1
19q gain	30 (19%)	132	0.081089	1	0.53097	1	0.01308	1	0.87944	1	0.95708	1	0.59213	1	0.25998	1	0.35321	1	0.35595	1	0.57947	1	0.25569	1	0.40848	1
20p gain	104 (64%)	58	0.096279	1	0.72535	1	0.38197	1	0.56192	1	0.056299	1	0.50059	1	0.48642	1	0.27951	1	0.42782	1	0.073819	1	0.57467	1	0.20772	1
20q gain	142 (88%)	20	0.0081899	1	0.16239	1	0.00041	0.367	0.34034	1	0.16162	1	0.33687	1	0.12283	1	0.02022	1	0.04372	1	0.36167	1	0.33727	1	0.3098	1
21q gain	10 (6%)	152	0.53754	1	0.65833	1	0.17134	1	1	1	0.62244	1	0.7942	1	0.88651	1	0.73925	1	0.29104	1	0.72372	1	0.69432	1	0.70647	1
22q gain	9 (6%)	153	0.72909	1	0.060849	1	0.2787	1	1	1	0.42499	1	0.23696	1	0.47623	1	0.081869	1	1	1	1	1	0.68816	1	0.088349	1
xq gain	32 (20%)	130	0.10584	1	0.33475	1	0.050089	1	0.43735	1	0.78031	1	0.44189	1	0.15803	1	0.43613	1	0.96487	1	0.95795	1	0.71998	1	0.70345	1
1p loss	44 (27%)	118	0.6918	1	0.02728	1	0.00026	0.234	0.27145	1	0.93468	1	0.20771	1	0.80432	1	0.070559	1	0.44026	1	0.60944	1	0.92035	1	0.19244	1
1q loss	25 (15%)	137	0.91128	1	0.057559	1	0.02188	1	0.04418	1	0.72618	1	0.38293	1	0.71763	1	0.60294	1	0.51708	1	0.23839	1	0.80493	1	0.10908	1
2p loss	11 (7%)	151	0.63732	1	0.75168	1	0.01106	1	0.48164	1	0.90766	1	0.53991	1	0.1235	1	0.24196	1	0.43478	1	0.60403	1	1	1	1	1
2q loss	6 (4%)	156	1	1	0.57037	1	0.15184	1	NA	NA	0.10238	1	0.30407	1	0.19793	1	0.22485	1	0.20291	1	0.46746	1	NA	NA	NA	NA
3p loss	15 (9%)	147	1	1	0.365	1	0.12369	1	0.84191	1	0.25625	1	0.8972	1	0.15871	1	0.53667	1	0.45401	1	0.13488	1	0.11449	1	1	1
3q loss	10 (6%)	152	0.51669	1	0.79154	1	0.062589	1	0.40674	1	0.32766	1	0.65919	1	0.03762	1	0.28662	1	0.49588	1	0.0096199	1	0.29205	1	1	1
4p loss	58 (36%)	104	0.66572	1	0.37191	1	9.9999e-06	0.00911	0.036	1	0.96995	1	0.51241	1	0.52387	1	0.64339	1	0.97431	1	0.098669	1	0.54327	1	0.62263	1
4q loss	65 (40%)	97	0.78119	1	0.27011	1	4e-05	0.0362	0.0408	1	0.81645	1	0.51507	1	0.7022	1	0.2682	1	0.81224	1	0.21749	1	0.92977	1	0.60273	1
5p loss	26 (16%)	136	0.23921	1	0.81716	1	0.23185	1	0.19593	1	0.52654	1	0.066299	1	0.69599	1	0.22643	1	0.72443	1	0.57805	1	0.31555	1	0.25519	1
5q loss	40 (25%)	122	0.090759	1	0.01128	1	0.0060999	1	0.3475	1	1	1	0.66943	1	0.96879	1	0.20517	1	0.94413	1	0.20726	1	0.64529	1	0.80145	1
6p loss	13 (8%)	149	0.54375	1	0.9282	1	0.85194	1	0.14241	1	0.30682	1	0.35916	1	0.72487	1	0.24184	1	0.56553	1	0.25633	1	0.38423	1	0.14678	1
6q loss	22 (14%)	140	0.16903	1	0.6425	1	0.13431	1	0.50175	1	0.45064	1	0.6054	1	0.1344	1	0.03838	1	0.26132	1	0.4101	1	0.16979	1	0.34516	1
7q loss	3 (2%)	159	NA	NA	NA	NA	0.20364	1	NA	NA	0.78566	1	0.7723	1	0.59915	1	1	1	0.85865	1	1	1	NA	NA	NA	NA
8p loss	75 (46%)	87	0.18369	1	0.36791	1	0.01703	1	0.66896	1	0.70448	1	0.23786	1	0.28245	1	0.32815	1	0.84752	1	0.97352	1	0.01893	1	0.43198	1
8q loss	11 (7%)	151	0.17919	1	0.7395	1	0.16106	1	0.37739	1	0.79646	1	0.27733	1	0.18574	1	0.19236	1	0.86542	1	0.30307	1	0.74079	1	0.80569	1
9p loss	22 (14%)	140	0.6317	1	0.61712	1	0.2432	1	0.22582	1	0.74731	1	0.56688	1	0.82244	1	0.95549	1	0.30955	1	0.04723	1	0.15322	1	0.12228	1
9q loss	22 (14%)	140	0.20827	1	0.44682	1	0.36729	1	0.23887	1	0.94212	1	0.90206	1	0.98782	1	0.38023	1	0.069759	1	0.00181	1	0.16166	1	0.056389	1
10p loss	32 (20%)	130	0.14228	1	0.1728	1	0.60405	1	0.096549	1	0.14559	1	0.23977	1	0.87489	1	0.50226	1	0.83775	1	0.11508	1	0.8929	1	0.2213	1
10q loss	37 (23%)	125	0.17639	1	0.1554	1	0.097359	1	0.14339	1	0.12977	1	0.0331	1	0.49437	1	0.16283	1	0.68168	1	0.087249	1	0.85202	1	0.28957	1
11p loss	24 (15%)	138	0.24361	1	0.37256	1	0.00314	1	0.1388	1	0.20278	1	0.18138	1	0.30594	1	0.085699	1	0.99445	1	0.71218	1	0.48877	1	0.054199	1
11q loss	30 (19%)	132	0.056379	1	0.20451	1	0.00026	0.234	0.0303	1	0.60456	1	0.38485	1	0.11116	1	0.0073199	1	0.20598	1	0.37642	1	0.31282	1	0.085749	1
12p loss	22 (14%)	140	0.42497	1	0.28255	1	0.15533	1	0.43027	1	0.69502	1	0.079209	1	0.92034	1	0.21525	1	0.45046	1	0.77461	1	0.23608	1	0.79735	1
12q loss	20 (12%)	142	0.28143	1	0.4068	1	0.059519	1	0.93089	1	0.64278	1	0.32807	1	0.9372	1	0.072019	1	0.45833	1	0.20573	1	0.26705	1	0.61084	1
13q loss	8 (5%)	154	0.51742	1	1	1	0.24745	1	0.10651	1	0.055809	1	0.43304	1	1	1	0.89058	1	0.1755	1	1	1	0.74437	1	0.5665	1
14q loss	65 (40%)	97	0.49707	1	0.24829	1	0.0116	1	0.64606	1	0.80276	1	0.4912	1	0.1081	1	0.16387	1	0.33685	1	0.19905	1	0.79188	1	0.48081	1
15q loss	72 (44%)	90	0.45192	1	0.11041	1	0.00146	1	1	1	0.088769	1	0.25172	1	0.86616	1	0.50145	1	0.81657	1	0.63292	1	0.97583	1	0.8325	1
16p loss	9 (6%)	153	0.37921	1	0.75668	1	0.19612	1	0.062119	1	0.65262	1	0.63286	1	0.96309	1	0.96342	1	0.56373	1	1	1	0.67774	1	0.57035	1
16q loss	14 (9%)	148	0.27967	1	0.67662	1	0.00202	1	0.14794	1	0.64279	1	0.71253	1	0.75399	1	0.73009	1	0.56651	1	0.85765	1	0.79238	1	0.55177	1
17p loss	104 (64%)	58	0.20336	1	0.37455	1	0.04375	1	0.1693	1	0.97126	1	0.31999	1	0.79968	1	0.96159	1	0.98073	1	0.39546	1	0.52636	1	0.51558	1
17q loss	25 (15%)	137	0.90254	1	0.7371	1	0.00354	1	0.077449	1	0.74864	1	0.97446	1	0.31571	1	0.62624	1	0.86914	1	0.94544	1	0.39269	1	1	1
18p loss	125 (77%)	37	0.059349	1	0.70813	1	9.9999e-06	0.00911	0.0294	1	0.59882	1	0.15324	1	0.65886	1	0.23185	1	0.1698	1	0.16224	1	0.17686	1	1	1
18q loss	135 (83%)	27	0.02099	1	0.17333	1	3e-05	0.0271	0.01646	1	0.79708	1	0.48395	1	0.89021	1	0.68013	1	0.42361	1	0.02709	1	0.02291	1	0.63586	1
19p loss	22 (14%)	140	0.72758	1	0.83519	1	0.050559	1	0.04605	1	0.70043	1	0.83306	1	0.22174	1	0.21249	1	0.27347	1	0.02126	1	0.67563	1	1	1
19q loss	21 (13%)	141	0.83285	1	0.501	1	0.39051	1	0.13723	1	0.88226	1	0.77647	1	0.33223	1	0.26521	1	0.04535	1	0.0096199	1	0.75853	1	0.9299	1
20p loss	25 (15%)	137	1	1	0.95285	1	0.074439	1	0.41227	1	0.20647	1	0.68688	1	0.67472	1	0.68249	1	0.11125	1	0.061159	1	0.02968	1	0.16614	1
21q loss	66 (41%)	96	0.28587	1	0.24664	1	0.02666	1	0.96526	1	0.97208	1	0.53038	1	0.57847	1	0.83312	1	0.01519	1	0.18365	1	0.42688	1	0.47087	1
22q loss	57 (35%)	105	0.85278	1	0.31065	1	0.064899	1	0.73781	1	0.74803	1	0.29923	1	0.066429	1	0.094599	1	0.0060299	1	0.17926	1	0.36922	1	0.41056	1
xq loss	25 (15%)	137	1	1	0.71355	1	0.11545	1	0.46861	1	0.56705	1	0.97181	1	0.74387	1	0.90261	1	0.93461	1	0.6813	1	0.97204	1	0.51638	1
