Clinical Features	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
1p gain	6 (4%)	156	0.63986	0.872	0.13141	0.445	NA	NA	NA	NA	0.78537	0.937	0.94273	1	0.33193	0.673	0.76408	0.937	0.76026	0.937	0.96314	1
1q gain	19 (12%)	143	0.01529	0.132	0.03803	0.22	0.7656	0.937	1	1	0.47689	0.778	0.42167	0.738	0.64366	0.872	0.68162	0.897	0.50445	0.797	0.57829	0.842
2p gain	6 (4%)	156	0.30889	0.657	0.0060399	0.0682	0.088479	0.366	1	1	0.23664	0.579	0.34478	0.68	0.10601	0.405	0.33713	0.673	0.10815	0.411	0.19536	0.522
4p gain	4 (2%)	158	0.25505	0.597	0.36818	0.692	NA	NA	NA	NA	0.751	0.937	0.5547	0.822	0.45832	0.769	0.78738	0.937	0.8053	0.94	0.96335	1
4q gain	3 (2%)	159	0.01399	0.128	0.80134	0.94	NA	NA	NA	NA	0.46692	0.778	0.74156	0.937	0.62815	0.864	0.83662	0.962	0.78024	0.937	0.89918	1
5p gain	11 (7%)	151	0.86945	0.985	0.14341	0.455	0.48708	0.787	1	1	0.94165	1	0.65952	0.882	0.92383	1	0.61355	0.856	0.63368	0.87	0.85112	0.97
5q gain	7 (4%)	155	0.96876	1	0.002	0.0292	NA	NA	NA	NA	0.071329	0.316	0.29744	0.645	0.55456	0.822	0.38192	0.707	1	1	0.47581	0.778
6p gain	14 (9%)	148	0.56564	0.828	0.3592	0.69	0.15606	0.467	0.20002	0.532	0.42491	0.742	0.10511	0.404	0.17203	0.492	0.30164	0.648	0.69226	0.901	0.27192	0.622
6q gain	8 (5%)	154	0.18443	0.508	0.1202	0.419	0.88735	1	0.1152	0.417	0.21064	0.546	0.099219	0.392	0.47518	0.778	0.56204	0.826	0.2464	0.585	0.095679	0.387
7p gain	27 (17%)	135	0.41272	0.728	0.18034	0.504	0.84903	0.97	0.14888	0.463	0.14052	0.455	0.37768	0.703	0.36871	0.692	0.071299	0.316	0.22761	0.567	0.055809	0.283
7q gain	21 (13%)	141	0.26538	0.611	0.055469	0.283	0.90858	1	0.04422	0.242	0.13517	0.446	0.1583	0.468	0.079549	0.337	0.1791	0.503	0.5023	0.796	0.38479	0.711
8p gain	9 (6%)	153	0.15515	0.467	0.23822	0.581	0.40036	0.722	1	1	0.063519	0.305	0.01324	0.125	0.02919	0.192	0.03848	0.22	0.41694	0.733	0.092509	0.376
8q gain	13 (8%)	149	0.22714	0.567	0.75344	0.937	0.59308	0.845	1	1	0.10382	0.402	0.075819	0.328	0.18865	0.514	0.20065	0.532	0.80449	0.94	0.42772	0.743
9p gain	4 (2%)	158	0.76604	0.937	0.69036	0.901	NA	NA	NA	NA	0.14995	0.463	0.22359	0.567	0.30789	0.657	0.25515	0.597	0.35763	0.69	0.46827	0.778
9q gain	3 (2%)	159	0.82055	0.951	0.4437	0.759	NA	NA	NA	NA	0.22896	0.568	0.23908	0.581	0.49132	0.788	0.34347	0.679	0.28562	0.64	0.29656	0.645
10p gain	12 (7%)	150	0.7171	0.923	0.072489	0.319	1	1	0.11869	0.417	0.85408	0.972	0.51622	0.803	1	1	0.83848	0.962	0.82359	0.953	0.13264	0.446
10q gain	10 (6%)	152	0.54393	0.822	0.24378	0.584	1	1	0.11961	0.419	0.57767	0.842	0.59394	0.845	0.60368	0.852	0.51039	0.797	0.78911	0.938	0.14312	0.455
11p gain	5 (3%)	157	0.03843	0.22	0.51572	0.803	0.54816	0.822	1	1	0.50892	0.797	0.30182	0.648	0.52664	0.807	0.49535	0.788	0.059419	0.293	0.3351	0.673
12p gain	11 (7%)	151	0.23592	0.579	0.0051299	0.0589	0.4765	0.778	0.11774	0.417	0.61007	0.855	0.32222	0.665	0.01405	0.128	0.21151	0.546	0.01176	0.113	0.02778	0.191
12q gain	14 (9%)	148	0.15349	0.467	0.13476	0.446	0.84135	0.964	0.49404	0.788	0.66709	0.884	0.65573	0.88	0.0338	0.213	0.29219	0.64	0.054919	0.283	0.1627	0.473
13q gain	9 (6%)	153	0.03804	0.22	0.056289	0.283	0.30523	0.653	0.62343	0.864	0.0088499	0.0925	0.0091099	0.0938	0.02121	0.163	0.054539	0.283	0.0076999	0.0841	0.00474	0.0562
14q gain	4 (2%)	158	0.55323	0.822	0.68825	0.901	NA	NA	NA	NA	1	1	0.55298	0.822	0.313	0.661	0.78656	0.937	0.80613	0.94	0.33828	0.673
15q gain	14 (9%)	148	0.066049	0.312	0.13341	0.446	0.66252	0.883	0.35009	0.683	0.27021	0.62	0.76792	0.937	0.31426	0.661	0.79176	0.938	0.36249	0.69	0.59312	0.845
16p gain	6 (4%)	156	0.58633	0.845	0.55513	0.822	NA	NA	NA	NA	0.78471	0.937	0.7417	0.937	0.51027	0.797	0.81944	0.951	0.46808	0.778	0.52309	0.805
16q gain	6 (4%)	156	0.11794	0.417	1	1	NA	NA	NA	NA	0.15936	0.468	0.69785	0.904	0.66882	0.885	0.76471	0.937	0.7588	0.937	0.36143	0.69
17q gain	6 (4%)	156	0.63508	0.87	0.13371	0.446	NA	NA	NA	NA	0.15986	0.468	0.69845	0.904	0.33026	0.672	0.76752	0.937	0.44785	0.761	0.71001	0.917
18p gain	8 (5%)	154	0.13557	0.446	0.65654	0.88	0.43518	0.751	0.11806	0.417	0.5187	0.805	0.64654	0.872	0.47412	0.778	0.56171	0.826	0.098499	0.392	0.75122	0.937
18q gain	10 (6%)	152	0.36637	0.692	0.91487	1	0.47575	0.778	0.03865	0.22	0.3737	0.698	0.53579	0.817	0.77918	0.937	0.43544	0.751	0.12569	0.431	0.71941	0.924
19p gain	20 (12%)	142	0.21019	0.546	0.1402	0.455	0.86507	0.981	0.7809	0.937	0.80153	0.94	0.64533	0.872	0.32388	0.667	0.92438	1	0.26425	0.611	0.41103	0.727
19q gain	14 (9%)	148	0.066749	0.312	0.03377	0.213	0.087659	0.365	0.54054	0.822	0.54654	0.822	0.22578	0.567	0.59873	0.848	0.66376	0.883	0.58287	0.844	0.18873	0.514
20p gain	12 (7%)	150	0.45285	0.764	0.74171	0.937	0.26522	0.611	0.72639	0.927	0.29266	0.64	0.34139	0.677	0.11744	0.417	0.38186	0.707	0.75986	0.937	0.6924	0.901
20q gain	10 (6%)	152	0.71225	0.918	0.49236	0.788	0.15478	0.467	1	1	0.10931	0.414	0.062739	0.303	0.0344	0.213	0.076829	0.33	0.078449	0.335	0.22767	0.567
21q gain	3 (2%)	159	0.81995	0.951	0.14297	0.455	NA	NA	NA	NA	0.23204	0.572	0.068339	0.312	0.11307	0.417	0.40554	0.725	0.2874	0.64	0.11594	0.417
22q gain	3 (2%)	159	0.61984	0.863	0.14358	0.455	NA	NA	NA	NA	0.23077	0.571	0.1479	0.462	0.11402	0.417	0.40856	0.726	0.03923	0.221	0.49426	0.788
xp gain	6 (4%)	156	0.16281	0.473	0.10103	0.393	NA	NA	NA	NA	0.33735	0.673	0.01555	0.133	0.17465	0.497	0.070009	0.316	0.02888	0.192	0.01448	0.128
xq gain	5 (3%)	157	0.2917	0.64	0.25278	0.596	NA	NA	NA	NA	0.54525	0.822	0.055379	0.283	0.18603	0.511	0.068119	0.312	0.02148	0.163	0.00249	0.0342
1p loss	97 (60%)	65	2e-05	0.0014	0.00372	0.0476	0.12243	0.424	5e-05	0.00219	0.0071699	0.0797	0.00378	0.0476	0.00028	0.00891	0.02549	0.184	0.00063999	0.0125	0.00282	0.038
1q loss	25 (15%)	137	0.39299	0.718	0.59111	0.845	1	1	0.04302	0.237	0.12802	0.437	0.57788	0.842	0.47599	0.778	0.19519	0.522	0.15889	0.468	0.52327	0.805
2p loss	10 (6%)	152	0.15022	0.463	0.067039	0.312	0.75545	0.937	0.42797	0.743	0.00489	0.057	0.18087	0.504	0.29112	0.64	0.00064999	0.0125	0.29272	0.64	0.01146	0.112
2q loss	13 (8%)	149	0.91446	1	0.45196	0.764	0.68198	0.897	0.42946	0.744	0.40617	0.725	0.14243	0.455	0.76119	0.937	0.097119	0.388	0.28168	0.636	0.50771	0.797
3p loss	60 (37%)	102	0.01367	0.128	0.15575	0.467	0.22387	0.567	0.54665	0.822	3e-04	0.00913	9.9999e-06	0.001	0.00054999	0.0124	0.00381	0.0476	0.00078999	0.0138	2e-05	0.0014
3q loss	87 (54%)	75	9.9999e-06	0.001	0.97915	1	0.067719	0.312	0.02572	0.184	0.055039	0.283	9.9999e-06	0.001	0.00076999	0.0138	0.04305	0.237	0.0038	0.0476	0.00049	0.0114
4p loss	11 (7%)	151	0.00462	0.0558	0.1457	0.458	0.60879	0.855	0.34956	0.683	0.0078099	0.0841	0.18154	0.504	0.27668	0.629	0.39279	0.718	0.071029	0.316	0.02937	0.192
4q loss	10 (6%)	152	0.096819	0.388	0.24566	0.585	0.61235	0.856	0.35016	0.683	0.01947	0.155	0.33864	0.673	0.32144	0.665	0.52526	0.806	0.28847	0.64	0.089569	0.369
5p loss	5 (3%)	157	0.72822	0.927	0.44558	0.759	NA	NA	NA	NA	0.03604	0.217	0.03613	0.217	0.18408	0.508	0.16552	0.479	0.24549	0.585	0.091379	0.374
5q loss	7 (4%)	155	0.50253	0.796	0.78147	0.937	0.32577	0.667	1	1	0.64497	0.872	0.52356	0.805	0.79546	0.939	0.35774	0.69	0.58165	0.844	0.5903	0.845
6q loss	18 (11%)	144	0.00041	0.0106	0.00043	0.0107	0.03979	0.223	0.21639	0.555	0.00154	0.0234	6.9999e-05	0.00258	0.00049	0.0114	4e-05	0.00219	0.061979	0.303	0.00121	0.0192
7q loss	7 (4%)	155	0.40541	0.725	0.31765	0.664	0.19171	0.518	0.1133	0.417	0.02226	0.166	0.10085	0.393	0.02843	0.192	0.0115	0.112	0.2433	0.584	0.15908	0.468
8p loss	21 (13%)	141	0.11367	0.417	0.59708	0.848	0.72696	0.927	0.75635	0.937	0.083219	0.351	0.073179	0.32	0.38698	0.711	0.81444	0.949	0.44874	0.761	0.28626	0.64
8q loss	12 (7%)	150	0.1514	0.465	0.92559	1	0.48342	0.785	1	1	0.32488	0.667	0.62216	0.864	0.056869	0.283	0.43943	0.756	0.87562	0.989	0.37415	0.698
9p loss	11 (7%)	151	0.17735	0.503	0.39989	0.722	0.0143	0.128	0.01808	0.147	0.19292	0.519	0.17889	0.503	0.6265	0.864	0.067829	0.312	0.26296	0.611	0.074409	0.324
9q loss	12 (7%)	150	0.55828	0.824	0.19136	0.518	0.24088	0.582	0.34895	0.683	0.38671	0.711	0.48622	0.787	0.751	0.937	0.29463	0.642	0.60996	0.855	0.68934	0.901
11p loss	54 (33%)	108	0.02175	0.164	0.00033	0.00962	0.053789	0.283	0.14147	0.455	0.00064999	0.0125	9.9999e-06	0.001	5e-05	0.00219	9.9999e-06	0.001	0.00022	0.00733	9.9999e-06	0.001
11q loss	40 (25%)	122	2e-05	0.0014	0.02968	0.192	0.15529	0.467	0.11521	0.417	0.00063999	0.0125	0.00081999	0.014	5e-05	0.00219	0.00036	0.00996	0.00037	0.00996	3e-05	0.00191
12p loss	3 (2%)	159	0.02783	0.191	0.33474	0.673	0.3684	0.692	0.78681	0.937	0.64169	0.872	0.29103	0.64	0.7835	0.937	1	1	0.04698	0.255	0.65069	0.876
13q loss	8 (5%)	154	0.77082	0.937	0.40715	0.725	0.77396	0.937	0.67133	0.887	0.31658	0.663	0.11555	0.417	0.66577	0.884	0.2264	0.567	0.3967	0.721	0.48926	0.788
14q loss	20 (12%)	142	0.72744	0.927	0.24772	0.586	0.2413	0.582	0.20342	0.537	0.3205	0.665	0.79293	0.938	0.28014	0.635	0.00162	0.0241	0.062559	0.303	0.00065999	0.0125
15q loss	3 (2%)	159	0.75025	0.937	1	1	NA	NA	NA	NA	1	1	0.86354	0.981	0.62667	0.864	0.83171	0.959	0.5628	0.826	0.62535	0.864
16p loss	9 (6%)	153	0.52256	0.805	0.32159	0.665	0.47686	0.778	0.44464	0.759	0.5337	0.816	0.3629	0.69	0.22574	0.567	0.40502	0.725	0.8026	0.94	0.35401	0.688
16q loss	5 (3%)	157	0.90652	1	1	1	0.6966	0.904	0.78649	0.937	0.4102	0.727	0.02677	0.187	0.26418	0.611	0.59149	0.845	0.32869	0.671	0.64678	0.872
17p loss	62 (38%)	100	0.00090999	0.0152	0.00226	0.0316	0.36014	0.69	0.14597	0.458	0.02677	0.187	0.01994	0.157	0.02555	0.184	0.01842	0.148	0.12407	0.428	0.0351	0.216
17q loss	15 (9%)	147	0.13166	0.445	0.1103	0.415	0.20508	0.54	0.068689	0.312	0.21483	0.553	0.49511	0.788	0.74819	0.937	0.36455	0.692	0.39876	0.722	0.16955	0.487
18p loss	16 (10%)	146	0.02959	0.192	0.74161	0.937	0.725	0.927	0.20904	0.546	0.82892	0.958	0.75373	0.937	0.79897	0.94	0.31375	0.661	0.48336	0.785	0.55195	0.822
18q loss	6 (4%)	156	0.4738	0.778	0.87342	0.988	0.54887	0.822	0.056969	0.283	0.58652	0.845	0.65991	0.882	0.50554	0.797	0.58353	0.844	0.41995	0.737	0.68543	0.9
19q loss	5 (3%)	157	0.79078	0.938	0.84747	0.969	NA	NA	NA	NA	1	1	1	1	0.31345	0.661	0.77206	0.937	0.03811	0.22	0.89293	1
20q loss	3 (2%)	159	0.33724	0.673	1	1	NA	NA	NA	NA	1	1	0.64129	0.872	0.7821	0.937	1	1	0.21075	0.546	0.39568	0.721
21q loss	36 (22%)	126	0.16992	0.487	0.01776	0.147	0.94476	1	0.45524	0.766	0.04884	0.263	0.93839	1	0.83765	0.962	0.60261	0.852	0.91818	1	0.29892	0.646
22q loss	58 (36%)	104	9.9999e-06	0.001	0.02067	0.161	0.55411	0.822	0.084629	0.355	0.01791	0.147	0.0022	0.0314	0.03188	0.205	0.051989	0.278	0.03425	0.213	0.10096	0.393
xp loss	48 (30%)	114	0.00017	0.00595	5.9999e-05	0.00233	0.03626	0.217	0.44064	0.756	0.01481	0.13	0.00108	0.0176	0.00069999	0.0129	0.01772	0.147	0.27576	0.629	0.0083899	0.089
xq loss	49 (30%)	113	5.9999e-05	0.00233	5e-05	0.00219	0.02387	0.176	0.61052	0.855	0.0093199	0.0945	0.00057999	0.0125	0.00125	0.0194	0.01028	0.103	0.35988	0.69	0.00415	0.051