		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	32 (7%)	406	0.81076	1	0.63643	1	0.079269	1	0.76508	1	0.01125	1	0.073969	1	0.84021	1	0.25919	1	0.67669	1	0.10173	1	0.79492	1	0.74199	1
1q gain	79 (18%)	359	0.87263	1	0.66623	1	0.0098499	1	0.15684	1	0.23922	1	0.01297	1	0.35876	1	0.39475	1	0.88382	1	0.086779	1	0.03277	1	0.80165	1
2p gain	77 (18%)	361	0.071399	1	0.02096	1	7.9999e-05	0.0641	0.0070999	1	0.11132	1	0.13063	1	3e-05	0.0247	0.01004	1	0.40514	1	0.01469	1	0.29522	1	0.00154	1
2q gain	73 (17%)	365	0.071039	1	0.02185	1	5.9999e-05	0.0486	0.00399	1	0.28807	1	0.14534	1	0.00069999	0.528	0.0076999	1	0.49214	1	0.072639	1	0.49287	1	0.10149	1
3p gain	43 (10%)	395	0.13888	1	0.0071799	1	2e-05	0.0166	0.25117	1	0.14393	1	0.12513	1	0.38231	1	0.36636	1	0.68864	1	0.84881	1	0.63148	1	0.25486	1
3q gain	62 (14%)	376	0.094759	1	0.00013	0.103	9.9999e-06	0.00927	0.050929	1	0.091619	1	0.2839	1	0.11607	1	0.04133	1	0.67007	1	0.63898	1	0.15238	1	0.66088	1
4p gain	11 (3%)	427	NA	NA	NA	NA	0.0074699	1	0.12616	1	0.31522	1	0.92314	1	0.32522	1	0.86155	1	0.6101	1	0.57656	1	0.5063	1	0.7144	1
4q gain	16 (4%)	422	0.12682	1	0.1189	1	0.00175	1	0.79286	1	0.0068899	1	0.12029	1	0.10986	1	0.41589	1	0.14761	1	0.13292	1	0.39319	1	0.78227	1
5p gain	66 (15%)	372	0.41543	1	0.18021	1	0.00045	0.346	0.41419	1	0.46729	1	0.99755	1	0.1049	1	0.12266	1	0.81894	1	0.36118	1	0.22657	1	0.78622	1
5q gain	41 (9%)	397	0.87406	1	0.77528	1	0.00255	1	0.50026	1	0.47425	1	0.64016	1	0.098859	1	0.074949	1	0.50907	1	0.095209	1	0.77444	1	0.9473	1
6p gain	82 (19%)	356	0.21368	1	3e-05	0.0247	9.9999e-06	0.00927	0.2262	1	0.56443	1	0.98886	1	0.0054799	1	0.01815	1	0.58952	1	0.97438	1	0.00193	1	0.11457	1
6q gain	74 (17%)	364	0.18542	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.32959	1	0.95686	1	0.5198	1	0.079359	1	0.15553	1	0.52478	1	0.95485	1	0.00017	0.134	0.12686	1
7p gain	238 (54%)	200	0.0057099	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.00032	0.248	2e-04	0.157	0.00209	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.53755	1	0.47777	1	3e-05	0.0247	0.0097299	1
7q gain	215 (49%)	223	0.00371	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.01344	1	0.0058199	1	0.0097799	1	4e-05	0.0326	9.9999e-06	0.00927	0.46847	1	0.65727	1	2e-05	0.0166	0.01407	1
8p gain	126 (29%)	312	0.97526	1	0.96484	1	3e-05	0.0247	0.96055	1	0.43794	1	0.16382	1	0.0060599	1	0.063299	1	0.51201	1	0.11651	1	0.96602	1	0.059009	1
8q gain	217 (50%)	221	0.88294	1	0.01675	1	9.9999e-06	0.00927	0.02994	1	0.12778	1	0.04063	1	0.00354	1	0.00038	0.293	0.71493	1	0.01999	1	0.0246	1	0.066179	1
9p gain	76 (17%)	362	0.19432	1	0.13671	1	0.086489	1	0.82129	1	0.00198	1	0.38407	1	0.76756	1	0.25782	1	0.87557	1	0.92407	1	0.078089	1	0.77909	1
9q gain	66 (15%)	372	0.16602	1	0.20159	1	0.35949	1	0.49377	1	0.00039	0.301	0.56994	1	0.93652	1	0.65264	1	0.42253	1	0.26313	1	0.31054	1	0.76408	1
10p gain	32 (7%)	406	0.59832	1	1	1	0.0059999	1	0.86466	1	0.02113	1	0.070439	1	0.060319	1	0.50759	1	0.42622	1	0.72074	1	0.0084299	1	0.37603	1
10q gain	18 (4%)	420	0.16952	1	0.44143	1	0.0082599	1	0.10716	1	0.36426	1	0.5961	1	0.78293	1	0.88871	1	0.75507	1	0.86392	1	0.03732	1	0.45639	1
11p gain	52 (12%)	386	0.00060999	0.464	0.00012	0.0955	9.9999e-06	0.00927	0.00019	0.15	0.091929	1	0.43233	1	0.0084599	1	0.00013	0.103	0.82046	1	0.00471	1	0.03141	1	0.04701	1
11q gain	49 (11%)	389	0.00023	0.18	9.9999e-06	0.00927	9.9999e-06	0.00927	0.0023	1	0.02885	1	0.60002	1	8.9999e-05	0.0719	9.9999e-06	0.00927	0.62715	1	0.0063099	1	0.0073399	1	0.02413	1
12p gain	90 (21%)	348	0.17665	1	1	1	0.01944	1	0.0068799	1	0.72706	1	0.7669	1	0.97352	1	0.14391	1	0.28086	1	0.41767	1	0.46146	1	0.73427	1
12q gain	83 (19%)	355	0.19744	1	0.89793	1	0.01163	1	0.0053399	1	0.54628	1	0.79289	1	0.90983	1	0.22083	1	0.11109	1	0.10229	1	0.26993	1	0.63118	1
13q gain	250 (57%)	188	5.9999e-05	0.0486	9.9999e-06	0.00927	9.9999e-06	0.00927	0.00058999	0.449	0.03149	1	0.093179	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.43273	1	0.73926	1	9.9999e-06	0.00927	0.00388	1
14q gain	34 (8%)	404	0.33798	1	0.63491	1	0.00225	1	0.92374	1	0.40581	1	0.75858	1	0.2703	1	0.19663	1	0.67338	1	0.18141	1	0.32255	1	0.89213	1
15q gain	12 (3%)	426	1	1	0.80875	1	0.02531	1	0.8096	1	0.081009	1	0.080389	1	1	1	0.94053	1	0.92179	1	0.76496	1	0.67524	1	0.76093	1
16p gain	103 (24%)	335	9.9999e-05	0.0797	9.9999e-06	0.00927	9.9999e-06	0.00927	0.16538	1	0.1583	1	0.10384	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.57122	1	0.18648	1	0.01183	1	0.01495	1
16q gain	101 (23%)	337	3e-05	0.0247	9.9999e-06	0.00927	9.9999e-06	0.00927	0.25418	1	0.18266	1	0.15483	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.80549	1	0.18159	1	0.00202	1	0.00182	1
17p gain	27 (6%)	411	0.83901	1	0.56442	1	0.28876	1	0.44674	1	0.20944	1	0.4296	1	0.86221	1	0.17948	1	0.51984	1	0.82771	1	0.9391	1	0.18842	1
17q gain	80 (18%)	358	0.1208	1	0.056039	1	9.9999e-06	0.00927	0.00037	0.286	0.36184	1	0.027	1	9.9999e-06	0.00927	0.00037	0.286	0.0070999	1	0.096579	1	0.073229	1	0.03747	1
18p gain	22 (5%)	416	0.091219	1	0.67358	1	2e-04	0.157	0.00095999	0.718	0.82973	1	0.89342	1	0.12358	1	5.9999e-05	0.0486	0.27041	1	0.17682	1	0.45182	1	0.47639	1
18q gain	13 (3%)	425	0.14376	1	1	1	0.0072899	1	0.0084499	1	0.67692	1	0.47339	1	0.01118	1	9.9999e-06	0.00927	0.5575	1	0.18798	1	0.2434	1	0.43972	1
19p gain	68 (16%)	370	0.14809	1	0.074999	1	3e-05	0.0247	0.04535	1	0.25798	1	0.26666	1	0.43762	1	0.00105	0.783	0.074469	1	0.23954	1	0.0057699	1	0.11954	1
19q gain	77 (18%)	361	0.11379	1	0.055009	1	0.00312	1	0.21938	1	0.04235	1	0.04092	1	0.35264	1	0.00023	0.18	0.14835	1	0.64316	1	0.02394	1	0.057369	1
20p gain	236 (54%)	202	0.00317	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.00054999	0.42	0.04307	1	0.23474	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.70349	1	0.070849	1	0.00128	0.951	0.00476	1
20q gain	312 (71%)	126	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	0.00046	0.353	0.00056999	0.435	9.9999e-06	0.00927	9.9999e-06	0.00927	0.79581	1	0.00109	0.811	9.9999e-06	0.00927	9.9999e-06	0.00927
21q gain	22 (5%)	416	0.0359	1	0.29842	1	0.04511	1	0.81375	1	0.72951	1	0.97259	1	0.95545	1	0.46621	1	0.2209	1	0.26598	1	0.37133	1	1	1
22q gain	12 (3%)	426	1	1	0.79056	1	0.16182	1	0.12831	1	0.60474	1	0.32136	1	0.36926	1	0.37874	1	1	1	0.68644	1	0.51721	1	0.40714	1
xq gain	71 (16%)	367	0.01327	1	0.26382	1	0.0065999	1	0.11659	1	0.19927	1	0.43867	1	0.14922	1	0.59171	1	0.37518	1	0.95231	1	0.1572	1	0.71047	1
1p loss	96 (22%)	342	0.0261	1	0.17977	1	9.9999e-06	0.00927	0.00198	1	0.58268	1	0.77246	1	5.9999e-05	0.0486	9.9999e-06	0.00927	0.77924	1	0.02189	1	0.00464	1	0.00062999	0.478
1q loss	54 (12%)	384	0.4092	1	0.58015	1	2e-05	0.0166	0.080659	1	0.64586	1	0.78253	1	0.0051799	1	0.01472	1	0.64397	1	0.00179	1	0.0069399	1	0.0066599	1
2p loss	6 (1%)	432	0.89799	1	0.81268	1	0.0134	1	NA	NA	0.70087	1	0.78849	1	0.14383	1	0.44357	1	0.64047	1	0.48102	1	NA	NA	NA	NA
2q loss	7 (2%)	431	1	1	0.50562	1	0.093219	1	NA	NA	0.30924	1	0.43908	1	0.0462	1	0.28623	1	0.38689	1	0.24412	1	NA	NA	NA	NA
3p loss	53 (12%)	385	0.77877	1	0.48832	1	0.00191	1	0.34777	1	0.59622	1	0.62605	1	0.03105	1	0.15234	1	0.61153	1	0.6047	1	0.00057999	0.442	0.21375	1
3q loss	33 (8%)	405	0.82228	1	1	1	0.01987	1	0.76219	1	0.40686	1	0.87186	1	0.19912	1	0.46128	1	0.2614	1	0.93293	1	0.01488	1	0.60856	1
4p loss	132 (30%)	306	6.9999e-05	0.0563	0.00139	1	9.9999e-06	0.00927	0.00016	0.127	0.10333	1	0.36204	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.46108	1	0.38123	1	2e-05	0.0166	0.03274	1
4q loss	120 (27%)	318	0.00027	0.21	0.0091899	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.10598	1	0.25187	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.25726	1	0.25138	1	4e-05	0.0326	0.0060199	1
5p loss	54 (12%)	384	0.78054	1	0.94573	1	5.9999e-05	0.0486	0.00447	1	0.36247	1	0.7309	1	0.01113	1	0.01847	1	0.8367	1	0.73079	1	0.098739	1	0.78004	1
5q loss	74 (17%)	364	0.16514	1	0.30316	1	9.9999e-06	0.00927	0.01256	1	0.02349	1	0.14481	1	8.9999e-05	0.0719	0.0062399	1	0.90317	1	0.69681	1	0.00218	1	0.57075	1
6p loss	33 (8%)	405	1	1	0.45587	1	0.00178	1	0.36746	1	0.17443	1	0.13827	1	0.50503	1	0.95927	1	0.61702	1	0.78524	1	0.03211	1	0.6585	1
6q loss	45 (10%)	393	0.82346	1	1	1	0.00327	1	0.42422	1	0.19918	1	0.097809	1	0.32414	1	0.5187	1	0.61007	1	0.96366	1	0.32518	1	0.67848	1
7q loss	3 (1%)	435	NA	NA	NA	NA	0.14239	1	0.48104	1	NA	NA	NA	NA	0.71357	1	0.91361	1	0.56229	1	0.62798	1	NA	NA	NA	NA
8p loss	137 (31%)	301	0.02329	1	0.00093999	0.705	9.9999e-06	0.00927	3e-04	0.233	0.01755	1	0.02018	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.58281	1	0.15288	1	9.9999e-06	0.00927	0.00404	1
8q loss	24 (5%)	414	0.81042	1	0.40121	1	0.01446	1	0.3663	1	0.27116	1	0.46732	1	0.01717	1	0.055329	1	0.52601	1	0.54912	1	0.13911	1	0.145	1
9p loss	51 (12%)	387	0.56818	1	0.064429	1	9.9999e-06	0.00927	0.00106	0.79	0.90887	1	0.35993	1	0.00087999	0.662	0.00067999	0.514	0.3717	1	0.2783	1	0.00070999	0.535	0.27739	1
9q loss	51 (12%)	387	0.11857	1	0.060089	1	9.9999e-06	0.00927	6.9999e-05	0.0563	0.97639	1	0.66206	1	0.00081999	0.617	0.0027	1	0.44631	1	0.16518	1	3e-05	0.0247	0.090369	1
10p loss	66 (15%)	372	0.02079	1	0.02476	1	9.9999e-06	0.00927	0.00142	1	0.0134	1	0.35277	1	0.011	1	0.00027	0.21	0.49707	1	0.2334	1	0.00144	1	0.01528	1
10q loss	70 (16%)	368	0.0237	1	0.04188	1	9.9999e-06	0.00927	0.00039	0.301	0.01225	1	0.17587	1	0.00133	0.986	9.9999e-06	0.00927	0.61159	1	0.39144	1	0.00017	0.134	0.0056099	1
11p loss	49 (11%)	389	0.22449	1	0.19349	1	0.00025	0.195	0.0071599	1	0.8079	1	0.87064	1	0.01175	1	0.03018	1	0.90974	1	0.24011	1	2e-05	0.0166	0.20831	1
11q loss	61 (14%)	377	0.04076	1	0.01507	1	0.00021	0.165	0.00098999	0.74	0.60431	1	0.93052	1	0.02756	1	0.00302	1	0.84027	1	0.68225	1	0.00023	0.18	0.058159	1
12p loss	46 (11%)	392	0.060369	1	0.0075599	1	9.9999e-06	0.00927	0.0060899	1	0.41103	1	0.79897	1	0.00354	1	6.9999e-05	0.0563	0.88	1	0.40825	1	0.00281	1	0.084789	1
12q loss	49 (11%)	389	0.10981	1	0.0072199	1	9.9999e-06	0.00927	0.0073299	1	0.52369	1	0.687	1	0.00046	0.353	0.00017	0.134	0.95398	1	0.68334	1	0.00065999	0.5	0.01546	1
13q loss	12 (3%)	426	0.87368	1	0.43837	1	0.054439	1	0.04081	1	0.00155	1	0.091259	1	0.17181	1	0.9711	1	0.59907	1	0.10431	1	0.078399	1	0.15944	1
14q loss	134 (31%)	304	9.9999e-06	0.00927	3e-05	0.0247	9.9999e-06	0.00927	2e-05	0.0166	0.00187	1	0.02372	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.25127	1	0.02124	1	4e-05	0.0326	0.00175	1
15q loss	150 (34%)	288	0.00153	1	0.00154	1	9.9999e-06	0.00927	0.00061999	0.471	0.01174	1	0.03824	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.86229	1	0.77311	1	5.9999e-05	0.0486	0.00087999	0.662
16p loss	31 (7%)	407	0.40594	1	0.68781	1	0.24528	1	0.3859	1	0.38781	1	0.01299	1	0.50403	1	0.43648	1	0.50064	1	0.48096	1	0.24963	1	0.97968	1
16q loss	28 (6%)	410	0.40378	1	0.68847	1	0.066299	1	0.5767	1	0.21668	1	0.03312	1	0.57207	1	0.7794	1	0.52272	1	0.75443	1	0.22904	1	1	1
17p loss	229 (52%)	209	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	0.01974	1	0.00409	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.7975	1	0.03899	1	9.9999e-06	0.00927	0.00093999	0.705
17q loss	62 (14%)	376	0.11076	1	0.516	1	0.00219	1	0.0079899	1	0.56627	1	0.61959	1	0.00025	0.195	0.04546	1	0.36063	1	0.30221	1	0.0064899	1	0.00015	0.119
18p loss	245 (56%)	193	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	0.00139	1	0.00404	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.99073	1	0.01904	1	9.9999e-06	0.00927	4e-05	0.0326
18q loss	262 (60%)	176	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	9.9999e-06	0.00927	0.0062799	1	0.00342	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.74614	1	0.01227	1	9.9999e-06	0.00927	7.9999e-05	0.0641
19p loss	41 (9%)	397	1	1	0.34288	1	0.01335	1	0.25161	1	0.61053	1	0.38659	1	0.01621	1	0.0072799	1	0.04027	1	0.00256	1	0.48563	1	0.04765	1
19q loss	36 (8%)	402	0.73444	1	0.70713	1	0.01116	1	0.37202	1	0.2312	1	0.13018	1	0.01497	1	0.01114	1	0.28924	1	0.067479	1	0.26609	1	0.13567	1
20p loss	43 (10%)	395	0.088959	1	0.00227	1	9.9999e-06	0.00927	0.092249	1	0.90871	1	0.25967	1	0.080659	1	0.02355	1	0.8265	1	0.04595	1	0.060229	1	0.23732	1
20q loss	4 (1%)	434	NA	NA	NA	NA	0.73469	1	NA	NA	NA	NA	NA	NA	0.20803	1	0.58465	1	0.38819	1	0.30445	1	NA	NA	NA	NA
21q loss	120 (27%)	318	0.0095399	1	0.085289	1	9.9999e-06	0.00927	0.052289	1	0.22538	1	0.59652	1	0.00131	0.972	0.01814	1	0.45472	1	0.051589	1	0.00174	1	0.069369	1
22q loss	141 (32%)	297	3e-04	0.233	4e-04	0.308	9.9999e-06	0.00927	0.00143	1	0.17735	1	0.30527	1	9.9999e-06	0.00927	9.9999e-06	0.00927	0.18708	1	0.39955	1	5e-05	0.0405	0.00238	1
xq loss	51 (12%)	387	0.01605	1	0.24682	1	0.00049	0.375	0.13528	1	0.11219	1	0.38643	1	0.088529	1	0.22178	1	0.079749	1	0.59746	1	0.04745	1	0.19451	1
