Clinical Features	CN_CNMF		METHLYATION_CNMF		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	Chi-square test_P	Chi-square test_Q	Fisher's exact test_P	Fisher's exact test_Q	Chi-square test_P	Chi-square 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	24 (43%)	32	0.044275	1	0.73785	1	0.65675	1	0.82303	1	0.5176	1	0.079552	1	0.61094	1	0.36619	1
1q gain	31 (55%)	25	0.30522	1	0.73909	1	0.34184	1	0.48778	1	0.66318	1	0.55246	1	0.95183	1	1	1
2p gain	23 (41%)	33	0.75827	1	0.0099557	1	0.061054	1	0.030248	1	0.47739	1	0.039509	1	0.28124	1	0.029318	1
2q gain	21 (38%)	35	0.61179	1	0.01707	1	0.026341	1	0.096671	1	0.57924	1	0.031353	1	0.37828	1	0.026908	1
3p gain	12 (21%)	44	0.36902	1	0.25028	1	0.65369	1	0.4963	1	0.8608	1	0.41491	1	0.95893	1	0.48477	1
3q gain	23 (41%)	33	0.20888	1	0.044427	1	0.059396	1	0.30187	1	0.47739	1	0.32647	1	0.49188	1	0.24609	1
4p gain	9 (16%)	47	1	1	0.57106	1	1	1	0.6137	1	0.77616	1	0.5571	1	0.82481	1	0.76374	1
4q gain	3 (5%)	53	0.58095	1	0.27815	1	0.76947	1	0.14592	1	0.67338	1	1	1	0.68702	1	1	1
5p gain	23 (41%)	33	0.37636	1	0.36643	1	0.39874	1	0.71763	1	0.73739	1	1	1	0.8943	1	0.70364	1
5q gain	8 (14%)	48	0.78057	1	0.55659	1	0.63038	1	0.33847	1	0.080254	1	0.093351	1	0.23959	1	0.22116	1
6p gain	30 (54%)	26	0.31231	1	0.50355	1	0.84257	1	0.40194	1	1	1	0.26392	1	0.8916	1	0.63959	1
6q gain	27 (48%)	29	0.35144	1	0.19911	1	0.69644	1	0.20562	1	1	1	0.44638	1	0.80907	1	1	1
7p gain	21 (38%)	35	0.51925	1	0.53928	1	0.21359	1	0.11804	1	0.56514	1	0.44949	1	0.37274	1	0.22705	1
7q gain	17 (30%)	39	0.42402	1	0.83325	1	0.27933	1	0.85422	1	0.68451	1	0.50884	1	0.57043	1	0.72311	1
8p gain	19 (34%)	37	0.012503	1	0.71796	1	0.039933	1	0.3883	1	0.95181	1	0.299	1	0.80414	1	0.62376	1
8q gain	30 (54%)	26	0.0050899	1	0.18368	1	0.003095	1	0.3515	1	0.22432	1	0.44638	1	0.21783	1	0.11632	1
9p gain	6 (11%)	50	0.46513	1	0.61917	1	0.867	1	0.28368	1	0.83195	1	0.47664	1	0.79823	1	0.7101	1
10p gain	21 (38%)	35	0.89051	1	0.028399	1	0.13065	1	0.31532	1	0.31717	1	0.80835	1	0.51879	1	0.57044	1
10q gain	17 (30%)	39	1	1	0.29262	1	0.43761	1	0.25979	1	0.20535	1	0.51331	1	0.41204	1	0.21556	1
11p gain	5 (9%)	51	0.48285	1	0.4066	1	0.2076	1	0.57348	1	0.49378	1	1	1	0.35248	1	1	1
11q gain	7 (12%)	49	0.17005	1	0.33733	1	0.26617	1	0.69902	1	0.75452	1	0.73767	1	0.72616	1	1	1
12p gain	22 (39%)	34	0.43962	1	0.0052372	1	0.21486	1	0.072776	1	0.78344	1	0.82998	1	0.76202	1	0.77921	1
12q gain	11 (20%)	45	0.5549	1	0.50312	1	0.68531	1	0.71157	1	1	1	0.40309	1	0.52912	1	0.5696	1
13q gain	15 (27%)	41	0.6634	1	0.060973	1	0.049063	1	0.047994	1	0.22758	1	0.010842	1	0.065532	1	0.01574	1
14q gain	7 (12%)	49	0.36511	1	0.47465	1	0.23227	1	0.46237	1	0.20599	1	0.061584	1	0.21339	1	0.035497	1
15q gain	4 (7%)	52	0.38892	1	0.35975	1	0.67194	1	0.7665	1	0.75549	1	0.39005	1	0.52996	1	0.64287	1
16p gain	10 (18%)	46	0.039598	1	0.25627	1	0.12231	1	0.28656	1	1	1	0.11549	1	0.7159	1	0.15685	1
16q gain	6 (11%)	50	0.26923	1	0.76798	1	0.50089	1	0.80922	1	0.77063	1	0.70619	1	0.91692	1	1	1
17p gain	9 (16%)	47	0.21477	1	0.83198	1	0.59603	1	0.45937	1	0.28457	1	0.5571	1	0.27067	1	0.39345	1
17q gain	18 (32%)	38	0.87977	1	0.24556	1	0.88921	1	0.34644	1	0.39402	1	0.48042	1	0.7044	1	0.27738	1
18p gain	18 (32%)	38	1	1	0.041554	1	0.079462	1	0.021832	1	0.15159	1	0.62106	1	0.41079	1	0.30035	1
18q gain	14 (25%)	42	0.63499	1	0.11117	1	0.072165	1	0.11332	1	0.19921	1	0.37764	1	0.20957	1	0.051797	1
19p gain	24 (43%)	32	0.50052	1	0.17957	1	0.26337	1	0.73763	1	0.52367	1	0.47238	1	0.38914	1	0.29972	1
19q gain	28 (50%)	28	0.32046	1	0.070454	1	0.90415	1	0.45358	1	0.89075	1	1	1	0.53518	1	1	1
20p gain	37 (66%)	19	0.90571	1	0.48574	1	0.93278	1	0.62176	1	0.85158	1	0.53695	1	0.8426	1	0.54759	1
20q gain	44 (79%)	12	0.49305	1	0.89169	1	0.42417	1	0.83851	1	0.58179	1	0.33632	1	0.43177	1	0.46495	1
21q gain	18 (32%)	38	0.20675	1	0.37524	1	1	1	0.79591	1	0.88221	1	0.78376	1	1	1	0.62376	1
22q gain	8 (14%)	48	0.53495	1	0.92727	1	0.50287	1	0.52173	1	0.88663	1	0.53873	1	0.85164	1	0.75324	1
xq gain	14 (25%)	42	0.89639	1	0.45306	1	0.8577	1	0.50388	1	0.96202	1	0.55978	1	1	1	0.62974	1
1p loss	9 (16%)	47	0.051909	1	0.61251	1	1	1	0.66163	1	0.11115	1	0.01693	1	0.12534	1	0.044188	1
1q loss	9 (16%)	47	0.023802	1	0.52499	1	0.48119	1	0.35478	1	0.4208	1	0.13558	1	0.38627	1	0.29168	1
3p loss	20 (36%)	36	0.071087	1	0.37558	1	0.61731	1	0.21316	1	0.35179	1	0.37712	1	0.60282	1	0.39033	1
3q loss	14 (25%)	42	0.51407	1	0.46656	1	1	1	0.57592	1	0.49843	1	0.18075	1	0.65342	1	0.21475	1
4p loss	31 (55%)	25	0.059127	1	0.05955	1	0.15818	1	0.10852	1	0.042026	1	0.69883	1	0.27978	1	0.5412	1
4q loss	33 (59%)	23	0.065431	1	0.019611	1	0.0034504	1	0.01374	1	0.00019531	0.12	0.21792	1	0.018407	1	0.10051	1
5p loss	9 (16%)	47	0.71226	1	0.47625	1	0.79945	1	0.8103	1	1	1	1	1	1	1	1	1
5q loss	18 (32%)	38	0.87977	1	0.30764	1	0.39096	1	0.17024	1	0.36026	1	0.78376	1	0.15154	1	1	1
6p loss	5 (9%)	51	0.31456	1	0.81101	1	0.50089	1	0.85753	1	0.54424	1	0.69394	1	0.74531	1	1	1
6q loss	7 (12%)	49	0.018644	1	0.57669	1	0.40213	1	0.70437	1	0.70488	1	0.061584	1	0.72616	1	0.12123	1
7p loss	13 (23%)	43	0.4158	1	0.61739	1	0.79031	1	0.55236	1	0.30946	1	1	1	0.48322	1	0.62874	1
7q loss	13 (23%)	43	0.086447	1	0.82618	1	1	1	0.72336	1	0.68765	1	0.55978	1	0.63905	1	1	1
8p loss	23 (41%)	33	0.027275	1	0.97446	1	0.87459	1	0.4087	1	0.66623	1	0.29328	1	0.81919	1	0.65519	1
8q loss	9 (16%)	47	0.18741	1	0.75159	1	0.34427	1	0.69325	1	0.94983	1	1	1	1	1	0.76374	1
9p loss	34 (61%)	22	0.037668	1	0.014625	1	0.88849	1	0.73491	1	0.82867	1	0.75531	1	0.82555	1	1	1
9q loss	39 (70%)	17	0.06205	1	0.0033071	1	0.76737	1	0.84204	1	0.63548	1	1	1	0.87112	1	0.77933	1
10p loss	23 (41%)	33	0.85876	1	0.012621	1	0.29215	1	0.094645	1	0.23863	1	0.73595	1	0.421	1	0.82462	1
10q loss	21 (38%)	35	1	1	0.29592	1	0.070996	1	0.20122	1	0.1282	1	0.75531	1	0.18842	1	0.1764	1
11p loss	26 (46%)	30	0.83294	1	0.0042237	1	0.21859	1	0.42241	1	0.25931	1	0.44638	1	0.24137	1	0.30937	1
11q loss	24 (43%)	32	0.72403	1	0.0088452	1	0.54901	1	0.32847	1	0.2862	1	0.19447	1	0.38582	1	0.36619	1
12p loss	13 (23%)	43	0.19529	1	0.2967	1	0.43016	1	0.80776	1	0.54635	1	0.1035	1	0.27437	1	0.3278	1
12q loss	14 (25%)	42	0.49987	1	0.85353	1	0.62629	1	0.81322	1	0.95771	1	0.18075	1	0.456	1	0.36144	1
13q loss	26 (46%)	30	0.77462	1	0.0015566	0.957	0.15818	1	0.063186	1	0.35564	1	0.19294	1	0.25079	1	0.10718	1
14q loss	27 (48%)	29	1	1	0.099546	1	0.082878	1	0.092586	1	0.56883	1	0.59833	1	0.57521	1	1	1
15q loss	32 (57%)	24	0.0061274	1	0.69318	1	0.73161	1	0.89132	1	0.87105	1	0.76518	1	0.8813	1	0.82462	1
16p loss	32 (57%)	24	0.34989	1	0.46528	1	0.35022	1	0.39496	1	0.78912	1	0.51919	1	0.8813	1	0.46734	1
16q loss	37 (66%)	19	0.31751	1	0.7684	1	0.43842	1	0.63479	1	0.69193	1	0.78376	1	0.35949	1	0.77896	1
17p loss	34 (61%)	22	0.39655	1	0.27775	1	0.93704	1	0.93516	1	0.78512	1	1	1	0.42006	1	0.67098	1
17q loss	17 (30%)	39	0.89302	1	0.33135	1	0.36786	1	0.22938	1	0.90334	1	0.45085	1	0.76614	1	1	1
18p loss	18 (32%)	38	0.55618	1	0.012729	1	0.063808	1	0.041067	1	0.063427	1	0.19737	1	0.31298	1	0.051362	1
18q loss	20 (36%)	36	0.21183	1	0.054028	1	0.12302	1	0.062921	1	0.012974	1	0.012238	1	0.063411	1	0.0015825	0.972
19p loss	15 (27%)	41	0.91359	1	0.42719	1	0.091446	1	0.10577	1	0.31286	1	1	1	0.71262	1	1	1
19q loss	13 (23%)	43	1	1	0.11207	1	0.77567	1	0.56747	1	0.23248	1	0.70449	1	0.69349	1	0.62874	1
20p loss	7 (12%)	49	0.42895	1	0.2568	1	0.30417	1	0.18034	1	0.61664	1	0.73767	1	0.72616	1	0.50302	1
20q loss	4 (7%)	52	1	1	0.52337	1	0.23825	1	0.66945	1	1	1	1	1	1	1	1	1
21q loss	17 (30%)	39	0.84301	1	0.18742	1	0.61714	1	0.603	1	0.63723	1	0.73309	1	1	1	1	1
22q loss	33 (59%)	23	0.85876	1	0.96891	1	1	1	0.99473	1	0.70759	1	0.24237	1	0.60654	1	0.30516	1
xq loss	19 (34%)	37	0.43984	1	0.29934	1	1	1	0.95586	1	0.52966	1	1	1	0.5434	1	1	1