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	50 (8%)	565	0.24019	1	0.37235	1	0.01513	1	0.74849	1	0.01456	1	0.01618	1	0.75064	1	0.51772	1	0.38449	1	0.31303	1	0.19341	1	0.59004	1
1q gain	117 (19%)	498	0.77478	1	0.55105	1	0.0051599	1	0.52759	1	0.12593	1	0.01741	1	0.91383	1	0.54804	1	0.17047	1	0.14078	1	0.5578	1	0.40763	1
2p gain	123 (20%)	492	0.02192	1	0.0053499	1	0.0017	1	0.00246	1	0.62101	1	0.56569	1	9.9999e-06	0.00935	3e-05	0.0256	0.03325	1	0.00126	0.983	0.98781	1	0.96976	1
2q gain	121 (20%)	494	0.01309	1	0.00142	1	2e-04	0.166	0.00086999	0.687	0.64779	1	0.85506	1	0.00083999	0.664	3e-05	0.0256	0.093199	1	0.0091999	1	0.93716	1	0.81275	1
3p gain	73 (12%)	542	0.01322	1	0.078609	1	9.9999e-06	0.00935	0.11768	1	0.12186	1	0.02421	1	0.73736	1	0.01321	1	0.10672	1	0.43556	1	0.10031	1	0.27199	1
3q gain	99 (16%)	516	0.034	1	0.00211	1	9.9999e-06	0.00935	0.01443	1	0.12467	1	0.01963	1	0.052079	1	0.00022	0.182	0.0427	1	0.54801	1	0.02003	1	0.051759	1
4p gain	20 (3%)	595	0.81455	1	0.56868	1	0.0068499	1	0.21009	1	0.15598	1	0.17525	1	0.01853	1	0.12272	1	0.58271	1	0.50381	1	0.6742	1	0.13444	1
4q gain	21 (3%)	594	0.22662	1	0.21569	1	0.02336	1	0.60429	1	0.11383	1	0.51555	1	0.087339	1	0.27535	1	0.33043	1	0.36561	1	0.88011	1	1	1
5p gain	105 (17%)	510	0.49626	1	0.12905	1	0.00027	0.222	0.76119	1	0.16218	1	0.1317	1	0.0055799	1	0.00013	0.109	0.75491	1	0.39303	1	0.45998	1	0.55771	1
5q gain	67 (11%)	548	0.90646	1	0.55191	1	4e-04	0.326	0.81831	1	0.65019	1	0.76655	1	0.057589	1	0.00457	1	0.54883	1	0.0018	1	0.99727	1	1	1
6p gain	124 (20%)	491	0.0143	1	0.00045	0.364	9.9999e-06	0.00935	0.28231	1	0.85366	1	0.96658	1	0.18887	1	0.01558	1	0.45773	1	0.71099	1	0.02631	1	0.03382	1
6q gain	111 (18%)	504	0.15489	1	0.00109	0.855	9.9999e-06	0.00935	0.32717	1	0.82673	1	0.73746	1	0.16328	1	0.02317	1	0.35774	1	0.89206	1	0.0092999	1	0.04695	1
7p gain	349 (57%)	266	4e-04	0.326	9.9999e-06	0.00935	9.9999e-06	0.00935	2e-05	0.0172	0.0091799	1	0.0078299	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.0057699	1	0.17799	1	0.02768	1	0.087659	1
7q gain	312 (51%)	303	0.00014	0.117	9.9999e-06	0.00935	9.9999e-06	0.00935	6.9999e-05	0.0591	0.13167	1	0.02763	1	5e-05	0.0424	9.9999e-06	0.00935	0.01335	1	0.23805	1	0.077019	1	0.43829	1
8p gain	170 (28%)	445	0.92411	1	0.53123	1	2e-05	0.0172	0.81025	1	0.23499	1	0.42569	1	0.0054499	1	0.01679	1	0.20427	1	0.26756	1	0.39401	1	0.11976	1
8q gain	315 (51%)	300	0.32933	1	0.10902	1	9.9999e-06	0.00935	0.056899	1	0.059369	1	0.077169	1	0.00045	0.364	0.00051999	0.419	0.29151	1	0.0098599	1	0.10684	1	0.04348	1
9p gain	123 (20%)	492	0.53871	1	0.5864	1	0.00241	1	0.58325	1	0.12817	1	0.25517	1	0.91533	1	0.18184	1	0.97864	1	0.92089	1	0.62857	1	0.79133	1
9q gain	102 (17%)	513	0.65632	1	0.83202	1	0.03711	1	0.95338	1	0.10242	1	0.31713	1	0.95053	1	0.58979	1	0.6423	1	0.41738	1	0.93332	1	0.83566	1
10p gain	49 (8%)	566	0.10952	1	0.11353	1	0.00378	1	0.83741	1	0.10703	1	0.04893	1	0.47303	1	0.98016	1	0.50512	1	0.30347	1	0.54288	1	0.46331	1
10q gain	29 (5%)	586	0.9106	1	0.25902	1	0.057599	1	0.14904	1	0.16729	1	0.70666	1	0.96545	1	0.85806	1	0.51905	1	0.66143	1	0.17987	1	0.95271	1
11p gain	85 (14%)	530	0.01237	1	0.0052299	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.65624	1	0.63086	1	0.00107	0.84	0.00060999	0.488	0.33173	1	0.40321	1	0.78669	1	0.97318	1
11q gain	77 (13%)	538	0.01693	1	0.00101	0.795	9.9999e-06	0.00935	9.9999e-06	0.00935	0.19365	1	0.37189	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.29912	1	0.060769	1	0.301	1	0.17961	1
12p gain	127 (21%)	488	0.35751	1	0.35926	1	0.00466	1	0.00337	1	0.46003	1	0.24198	1	0.77425	1	0.1256	1	0.41447	1	0.78423	1	0.56536	1	0.48474	1
12q gain	112 (18%)	503	0.2511	1	0.34593	1	0.00258	1	0.00149	1	0.49438	1	0.34878	1	0.539	1	0.057129	1	0.25519	1	0.52491	1	0.55236	1	0.42112	1
13q gain	368 (60%)	247	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	0.24042	1	0.38016	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.00053999	0.434	0.44139	1	0.01458	1	0.070009	1
14q gain	43 (7%)	572	0.73595	1	0.40339	1	0.01541	1	0.8777	1	0.78891	1	0.82767	1	0.54083	1	0.80541	1	0.8835	1	0.89023	1	0.78422	1	0.34141	1
15q gain	15 (2%)	600	0.29779	1	0.15316	1	0.062529	1	0.54227	1	0.17336	1	0.2086	1	0.92477	1	0.69435	1	1	1	0.72565	1	NA	NA	NA	NA
16p gain	147 (24%)	468	0.0059999	1	0.00424	1	9.9999e-06	0.00935	0.0099399	1	0.14154	1	0.66154	1	0.00012	0.101	9.9999e-06	0.00935	0.49196	1	0.43469	1	0.22345	1	0.18417	1
16q gain	145 (24%)	470	0.0087699	1	0.00374	1	9.9999e-06	0.00935	0.01953	1	0.23089	1	0.4713	1	0.00026	0.214	9.9999e-06	0.00935	0.78541	1	0.47704	1	0.10743	1	0.12183	1
17p gain	38 (6%)	577	0.44097	1	0.16279	1	0.75391	1	0.89988	1	0.1989	1	1	1	0.11043	1	0.25224	1	0.16898	1	0.72247	1	0.074049	1	0.93888	1
17q gain	113 (18%)	502	0.01118	1	0.0034	1	9.9999e-06	0.00935	0.00145	1	0.27481	1	0.67157	1	3e-05	0.0256	0.00015	0.125	0.00227	1	0.04365	1	0.86566	1	0.27958	1
18p gain	33 (5%)	582	0.30761	1	0.37171	1	0.00172	1	0.00060999	0.488	0.60385	1	0.060749	1	0.0094199	1	0.00055999	0.449	0.39419	1	0.078209	1	0.75848	1	0.97675	1
18q gain	20 (3%)	595	0.04482	1	0.43652	1	0.0089799	1	0.0080699	1	0.61339	1	0.01407	1	0.0084999	1	9.9999e-06	0.00935	0.12997	1	0.02232	1	0.67117	1	0.82946	1
19p gain	104 (17%)	511	0.32734	1	0.01889	1	9.9999e-06	0.00935	0.04155	1	0.15983	1	0.77249	1	0.31724	1	0.00053999	0.434	0.04227	1	0.72932	1	0.51665	1	0.089809	1
19q gain	114 (19%)	501	0.051139	1	0.00348	1	0.00025	0.206	0.077749	1	0.03148	1	0.4929	1	0.70063	1	0.00050999	0.411	0.21606	1	1	1	0.16529	1	0.084019	1
20p gain	354 (58%)	261	4e-04	0.326	9.9999e-06	0.00935	9.9999e-06	0.00935	0.00129	1	0.02777	1	0.11574	1	0.00048	0.388	9.9999e-06	0.00935	0.35715	1	0.092119	1	0.57503	1	0.11019	1
20q gain	465 (76%)	150	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	0.00317	1	0.0053499	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.016	1	0.00036	0.295	0.00066999	0.535	0.01919	1
21q gain	34 (6%)	581	0.31256	1	0.26364	1	4e-04	0.326	0.7644	1	0.48625	1	0.25566	1	0.80088	1	0.33735	1	0.40681	1	0.9678	1	0.4601	1	0.74336	1
22q gain	23 (4%)	592	0.11812	1	0.13674	1	0.01006	1	0.32978	1	0.85961	1	0.69429	1	0.11557	1	0.32197	1	0.69215	1	0.91726	1	0.84182	1	1	1
xq gain	105 (17%)	510	0.1398	1	0.26858	1	0.00052999	0.426	0.11909	1	0.10993	1	0.066569	1	0.66279	1	0.95802	1	0.37665	1	0.97831	1	0.76912	1	0.9444	1
1p loss	138 (22%)	477	0.066039	1	0.03023	1	9.9999e-06	0.00935	0.00238	1	0.96798	1	0.90908	1	4e-04	0.326	0.00088999	0.702	0.34787	1	0.066879	1	0.76589	1	0.31266	1
1q loss	80 (13%)	535	0.23479	1	0.21223	1	0.00035	0.288	0.19299	1	0.86622	1	0.81264	1	4e-05	0.034	0.0072299	1	0.768	1	0.0093399	1	0.16596	1	0.15278	1
2p loss	17 (3%)	598	1	1	0.62026	1	5e-04	0.403	0.03285	1	0.34857	1	0.80933	1	0.16731	1	0.02816	1	0.093939	1	0.22955	1	NA	NA	NA	NA
2q loss	14 (2%)	601	0.67419	1	0.24586	1	0.01471	1	0.18696	1	0.25	1	0.37073	1	0.12573	1	0.01177	1	0.089659	1	0.02215	1	NA	NA	NA	NA
3p loss	70 (11%)	545	0.35943	1	0.8357	1	0.48931	1	0.46219	1	0.53563	1	0.62606	1	0.53456	1	0.66541	1	0.77025	1	0.39864	1	0.38448	1	0.35067	1
3q loss	45 (7%)	570	0.24732	1	0.24805	1	0.90334	1	0.53554	1	0.32322	1	0.95787	1	0.59919	1	0.12878	1	0.57568	1	0.33853	1	0.65421	1	0.78775	1
4p loss	197 (32%)	418	0.0287	1	0.01633	1	9.9999e-06	0.00935	0.00131	1	0.47574	1	0.29598	1	0.00019	0.158	0.00014	0.117	0.082469	1	0.46512	1	0.20101	1	0.91939	1
4q loss	191 (31%)	424	0.04142	1	0.075269	1	9.9999e-06	0.00935	3e-05	0.0256	0.75986	1	0.59176	1	0.00123	0.961	5e-05	0.0424	0.10408	1	0.13662	1	0.03839	1	0.5021	1
5p loss	85 (14%)	530	0.37733	1	0.69814	1	0.00036	0.295	0.04531	1	0.74638	1	0.64272	1	0.62862	1	0.16615	1	0.95628	1	0.26304	1	0.45301	1	0.94357	1
5q loss	119 (19%)	496	0.01221	1	0.03731	1	9.9999e-06	0.00935	0.02736	1	0.20455	1	0.085269	1	0.01133	1	0.03278	1	0.47908	1	0.62907	1	0.69093	1	0.67422	1
6p loss	46 (7%)	569	0.56128	1	0.02255	1	0.51826	1	0.87075	1	0.069459	1	0.077509	1	0.65851	1	0.25339	1	0.4579	1	0.93593	1	0.53345	1	0.77668	1
6q loss	69 (11%)	546	0.43791	1	0.31038	1	0.31817	1	0.69117	1	0.23075	1	0.15639	1	0.13826	1	0.15797	1	0.51524	1	0.51593	1	0.13421	1	0.53215	1
7p loss	3 (0%)	612	NA	NA	NA	NA	0.61525	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
7q loss	5 (1%)	610	NA	NA	NA	NA	0.62509	1	1	1	1	1	0.74228	1	0.57591	1	0.7373	1	1	1	0.22357	1	NA	NA	NA	NA
8p loss	218 (35%)	397	0.0089899	1	0.0056199	1	9.9999e-06	0.00935	5.9999e-05	0.0507	0.44387	1	0.02679	1	0.00072999	0.58	9.9999e-06	0.00935	0.665	1	0.24012	1	0.00251	1	0.46988	1
8q loss	37 (6%)	578	0.91057	1	0.78104	1	0.00439	1	0.7163	1	0.95665	1	0.22603	1	0.46477	1	0.75252	1	0.27174	1	0.58053	1	0.051469	1	0.03948	1
9p loss	77 (13%)	538	0.4919	1	0.20183	1	0.00088999	0.702	0.0085999	1	0.84423	1	0.47347	1	0.00018	0.15	0.0075299	1	0.20765	1	0.11422	1	0.67663	1	0.71131	1
9q loss	77 (13%)	538	0.04771	1	0.01429	1	0.00075999	0.603	0.00162	1	0.85808	1	0.30356	1	9.9999e-05	0.0841	0.00111	0.869	0.39155	1	0.01743	1	0.80125	1	0.32465	1
10p loss	102 (17%)	513	0.01038	1	0.18682	1	9.9999e-06	0.00935	0.01086	1	0.01766	1	0.4113	1	0.00102	0.802	8.9999e-05	0.0758	0.20947	1	0.36088	1	0.054839	1	0.25091	1
10q loss	111 (18%)	504	0.02302	1	0.24805	1	9.9999e-06	0.00935	0.0094999	1	0.01198	1	0.3352	1	0.00078999	0.626	9.9999e-06	0.00935	0.61515	1	0.41571	1	0.04788	1	0.26803	1
11p loss	75 (12%)	540	0.95356	1	1	1	0.02126	1	0.19114	1	0.49975	1	0.60673	1	0.71093	1	0.21343	1	0.91161	1	0.23629	1	0.65871	1	0.85185	1
11q loss	93 (15%)	522	0.84579	1	0.6837	1	0.02697	1	0.04705	1	0.95671	1	0.70025	1	0.95816	1	0.48738	1	0.80492	1	0.41736	1	0.27698	1	0.28494	1
12p loss	71 (12%)	544	0.066499	1	0.0145	1	9.9999e-06	0.00935	0.059149	1	0.87511	1	0.58496	1	0.02622	1	0.00067999	0.542	0.81807	1	0.82159	1	0.28307	1	0.26215	1
12q loss	70 (11%)	545	0.12566	1	0.02593	1	9.9999e-06	0.00935	0.068819	1	0.64355	1	0.97389	1	0.00396	1	0.00038	0.311	0.26191	1	0.88512	1	0.42715	1	0.36575	1
13q loss	20 (3%)	595	0.29796	1	0.01647	1	0.01431	1	0.34747	1	0.29847	1	0.0069199	1	0.45051	1	0.2581	1	0.73448	1	0.78889	1	0.01408	1	0.41418	1
14q loss	207 (34%)	408	0.00027	0.222	6.9999e-05	0.0591	9.9999e-06	0.00935	9.9999e-06	0.00935	0.00257	1	0.18223	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.13448	1	0.11945	1	0.03656	1	0.04508	1
15q loss	229 (37%)	386	9.9999e-05	0.0841	0.00163	1	9.9999e-06	0.00935	0.00041	0.333	0.23291	1	0.78284	1	4e-05	0.034	9.9999e-06	0.00935	0.82055	1	0.68566	1	0.078589	1	0.20846	1
16p loss	41 (7%)	574	0.072599	1	0.37403	1	0.32855	1	0.94084	1	0.34259	1	0.23809	1	0.4624	1	0.54929	1	0.83499	1	0.23826	1	0.30334	1	0.95281	1
16q loss	44 (7%)	571	0.02532	1	0.585	1	0.0079599	1	0.90895	1	0.23903	1	0.23735	1	0.61378	1	0.71176	1	0.57381	1	0.55796	1	0.27753	1	0.87013	1
17p loss	341 (55%)	274	2e-05	0.0172	4e-05	0.034	9.9999e-06	0.00935	9.9999e-06	0.00935	0.12269	1	0.0084099	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.0352	1	0.0233	1	0.02812	1	0.37999	1
17q loss	94 (15%)	521	0.97895	1	0.61866	1	0.00068999	0.549	0.52912	1	0.94687	1	0.03696	1	0.86188	1	0.02548	1	0.77061	1	0.44254	1	0.71536	1	0.96155	1
18p loss	379 (62%)	236	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	0.03003	1	0.04799	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.0073999	1	0.0092399	1	0.00021	0.174	0.00115	0.899
18q loss	408 (66%)	207	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	9.9999e-06	0.00935	0.050699	1	0.10315	1	9.9999e-06	0.00935	9.9999e-06	0.00935	0.00073999	0.588	0.00462	1	0.00015	0.125	0.00035	0.288
19p loss	64 (10%)	551	0.37827	1	0.47714	1	0.00039	0.319	0.2842	1	0.69624	1	0.24579	1	0.00383	1	0.11548	1	0.15562	1	0.0062099	1	0.29128	1	0.0096299	1
19q loss	55 (9%)	560	0.66515	1	0.1492	1	0.00165	1	0.6879	1	0.11676	1	0.43249	1	0.03386	1	0.19808	1	0.22681	1	0.075499	1	0.71961	1	0.052929	1
20p loss	66 (11%)	549	0.061429	1	0.01271	1	5e-05	0.0424	0.00193	1	0.77702	1	0.84922	1	0.26882	1	0.00341	1	0.81633	1	0.47936	1	0.01483	1	0.00158	1
20q loss	6 (1%)	609	NA	NA	NA	NA	0.5852	1	0.82209	1	0.04246	1	1	1	0.20468	1	0.55469	1	0.40714	1	0.53151	1	NA	NA	NA	NA
21q loss	194 (32%)	421	0.01717	1	0.02163	1	9.9999e-06	0.00935	0.02104	1	0.7049	1	0.53495	1	0.00021	0.174	0.00365	1	0.138	1	0.14684	1	0.8031	1	0.1854	1
22q loss	203 (33%)	412	0.00496	1	0.00021	0.174	9.9999e-06	0.00935	0.065489	1	0.77937	1	0.79614	1	0.01983	1	2e-05	0.0172	0.9767	1	0.068629	1	0.45934	1	0.4172	1
xq loss	81 (13%)	534	0.98685	1	0.6911	1	0.10849	1	0.34415	1	0.053029	1	0.43827	1	0.50753	1	0.66381	1	0.04378	1	0.71678	1	0.46078	1	0.0071799	1