		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	
	nMutated (%)	nWild-Type	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	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	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	Fisher's exact test_P	Fisher's exact test_Q
PTEN	29 (4%)	742	0.22565	1	0.43675	1	0.16217	1	0.38935	1	0.88203	1	0.2657	1	0.17711	1	0.96766	1	0.67393	1	0.69111	1	0.10154	1	0.13953	1
MLL3	61 (8%)	710	0.27852	1	0.9223	1	0.83388	1	0.70393	1	0.70239	1	0.96821	1	0.27509	1	0.92176	1	0.13684	1	0.22145	1	0.6044	1	0.92584	1
NUDT11	8 (1%)	763	NA	NA	NA	NA	0.70169	1	0.17941	1	NA	NA	NA	NA	0.17226	1	0.89651	1	0.80029	1	0.27542	1	0.70069	1	0.27245	1
GIGYF2	13 (2%)	758	NA	NA	NA	NA	0.45394	1	0.68534	1	NA	NA	NA	NA	0.54601	1	0.43713	1	0.87066	1	1	1	0.6724	1	0.81676	1
ZNF384	14 (2%)	757	NA	NA	NA	NA	0.48734	1	0.43662	1	NA	NA	NA	NA	0.50968	1	0.67004	1	0.81957	1	0.39649	1	0.40121	1	0.70999	1
DCP1B	5 (1%)	766	NA	NA	NA	NA	0.36455	1	0.12612	1	NA	NA	NA	NA	0.77164	1	0.72323	1	1	1	0.52742	1	0.58821	1	0.79467	1
PIK3CA	261 (34%)	510	8.8999e-15	7.81e-12	3.8799e-10	3.38e-07	1.6772e-13	1.47e-10	7.3072e-11	6.39e-08	1.6388e-05	0.014	1.0648e-06	0.000919	3.8326e-29	3.39e-26	6.8439e-11	5.99e-08	2.315e-10	2.02e-07	3.1598e-18	2.78e-15	0.00018427	0.155	4.1293e-07	0.000358
NCOA3	29 (4%)	742	0.54907	1	1	1	0.97473	1	0.5047	1	1	1	1	1	0.61132	1	0.74609	1	0.49649	1	0.22984	1	0.062202	1	0.77251	1
AOAH	19 (2%)	752	NA	NA	NA	NA	0.42582	1	0.73637	1	NA	NA	NA	NA	0.64636	1	0.17461	1	0.086127	1	0.87102	1	0.14956	1	0.72067	1
RBMX	13 (2%)	758	NA	NA	NA	NA	0.0015106	1	0.23588	1	NA	NA	NA	NA	0.56305	1	0.18262	1	0.53198	1	0.34475	1	1	1	0.49978	1
RUNX1	25 (3%)	746	0.0055169	1	0.044232	1	0.00093052	0.769	0.056316	1	1	1	0.25194	1	0.022186	1	0.57998	1	0.06663	1	0.30514	1	0.059349	1	0.93353	1
PIK3R1	21 (3%)	750	0.17209	1	0.61649	1	0.49248	1	0.70872	1	0.53782	1	0.29702	1	0.12021	1	0.38466	1	0.38666	1	0.87102	1	0.6724	1	0.61693	1
MEF2A	14 (2%)	757	NA	NA	NA	NA	0.57671	1	0.37665	1	NA	NA	NA	NA	0.55297	1	0.27116	1	0.035238	1	0.038617	1	0.060584	1	0.2104	1
NCOR2	29 (4%)	742	0.67551	1	1	1	0.11209	1	0.48268	1	0.83853	1	0.68963	1	0.83808	1	0.59336	1	0.76738	1	0.46152	1	0.88739	1	0.77656	1
AKT1	19 (2%)	752	0.06343	1	0.92454	1	0.0033259	1	0.00021616	0.181	0.16241	1	0.34532	1	0.00021017	0.176	0.34782	1	0.063322	1	0.016691	1	0.21555	1	0.12484	1
GATA3	81 (11%)	690	0.0005751	0.477	0.00010133	0.0856	0.0040369	1	0.010043	1	0.0011529	0.949	0.00040708	0.34	4.6522e-05	0.0396	2.7512e-09	2.39e-06	3.5036e-06	0.00301	1.0567e-06	0.000913	1.1812e-06	0.00102	0.00010159	0.0857
NR1H2	18 (2%)	753	0.32598	1	0.26699	1	0.94048	1	0.16341	1	0.063975	1	0.11594	1	0.40117	1	0.24559	1	0.21476	1	0.29185	1	0.77994	1	0.038503	1
MAP3K4	18 (2%)	753	0.10846	1	0.72143	1	0.76841	1	0.17162	1	0.073322	1	0.68963	1	0.22325	1	0.40757	1	0.50865	1	0.41346	1	0.2723	1	0.15476	1
TP53	257 (33%)	514	7.0755e-37	6.28e-34	2.4254e-33	2.15e-30	8.753e-53	7.8e-50	6.9452e-21	6.11e-18	1.8749e-27	1.66e-24	1.102e-23	9.71e-21	3.3096e-56	2.95e-53	1.1394e-48	1.01e-45	2.6519e-38	2.35e-35	4.0047e-43	3.56e-40	2.8788e-27	2.54e-24	1.0741e-27	9.5e-25
TPRX1	7 (1%)	764	NA	NA	NA	NA	0.20542	1	0.50354	1	NA	NA	NA	NA	0.95837	1	1	1	0.74212	1	1	1	1	1	1	1
CDH1	55 (7%)	716	1.6718e-07	0.000145	8.2018e-05	0.0695	2.1968e-08	1.91e-05	0.0010338	0.852	0.00025549	0.214	0.00057945	0.48	3.3691e-06	0.0029	5.1525e-08	4.47e-05	7.6951e-11	6.72e-08	7.415e-12	6.5e-09	6.5448e-05	0.0555	8.5596e-05	0.0724
ATN1	17 (2%)	754	0.064261	1	0.054511	1	0.063086	1	0.89559	1	0.16884	1	0.29141	1	0.077561	1	0.85491	1	0.80239	1	0.25678	1	0.3213	1	0.11539	1
MAP2K4	32 (4%)	739	0.029235	1	0.0031315	1	0.050696	1	0.010517	1	0.0023792	1	0.034428	1	0.0055447	1	0.00046889	0.39	0.004306	1	0.00099684	0.822	0.0016355	1	0.026351	1
MAP3K1	57 (7%)	714	4.3258e-06	0.00371	4.3824e-05	0.0373	2.0756e-05	0.0177	0.018539	1	0.00020416	0.171	1.9896e-06	0.00171	0.00011847	0.0999	1.994e-05	0.017	4.2353e-07	0.000366	1.7299e-05	0.0148	2.4827e-05	0.0212	0.00028358	0.237
CBFB	16 (2%)	755	0.18352	1	0.64781	1	0.024527	1	0.0008626	0.714	0.34961	1	0.56866	1	0.00056344	0.468	0.12368	1	0.032708	1	6.1215e-05	0.052	0.070835	1	0.034001	1
CTCF	18 (2%)	753	0.026496	1	0.31977	1	0.0092394	1	0.020587	1	0.068249	1	0.36929	1	0.0045047	1	0.42782	1	0.085153	1	0.1836	1	0.83052	1	0.42634	1
CCDC144NL	8 (1%)	763	NA	NA	NA	NA	0.00091566	0.757	0.40791	1	NA	NA	NA	NA	0.66354	1	0.19095	1	0.27283	1	0.47799	1	0.44269	1	0.3963	1
AKD1	19 (2%)	752	0.92566	1	0.43682	1	0.29985	1	0.2303	1	0.46668	1	0.24234	1	0.67169	1	0.041243	1	0.12929	1	0.35775	1	0.077309	1	0.1461	1
RB1	14 (2%)	757	0.52273	1	0.1721	1	0.072745	1	0.13844	1	0.48293	1	0.76154	1	0.32912	1	0.29732	1	0.33287	1	0.037457	1	0.17895	1	0.084215	1
FOXA1	15 (2%)	756	0.7357	1	0.11583	1	0.13534	1	0.026194	1	1	1	0.5168	1	0.89156	1	0.1575	1	0.47827	1	0.53254	1	0.53182	1	0.32867	1
PHLDA1	9 (1%)	762	0.32088	1	0.2751	1	0.32491	1	0.69105	1	1	1	0.28034	1	0.67986	1	0.81417	1	0.32006	1	0.90902	1	0.38932	1	0.38219	1
VEZF1	8 (1%)	763	NA	NA	NA	NA	0.40909	1	0.54832	1	NA	NA	NA	NA	0.19199	1	0.89554	1	1	1	0.81765	1	1	1	0.85198	1
ZFP36L1	10 (1%)	761	0.83919	1	0.68646	1	0.028024	1	0.13784	1	0.025798	1	0.39178	1	0.84007	1	0.59866	1	0.83422	1	0.41659	1	0.64309	1	0.73502	1
NCOR1	31 (4%)	740	0.48764	1	0.33042	1	0.35421	1	0.7453	1	0.72317	1	0.72615	1	0.52793	1	0.15393	1	0.44644	1	0.28089	1	0.52819	1	0.74718	1
AQP7	9 (1%)	762	0.6379	1	0.068244	1	0.75221	1	0.71871	1	NA	NA	NA	NA	0.72071	1	0.50927	1	0.31602	1	0.65716	1	0.73479	1	0.43413	1
TBX3	18 (2%)	753	0.61241	1	0.34526	1	0.79141	1	0.17976	1	0.15974	1	0.55094	1	0.39478	1	0.40757	1	0.90233	1	0.90959	1	0.79112	1	1	1
DSPP	26 (3%)	745	0.94455	1	0.4158	1	0.56107	1	0.93901	1	0.098697	1	0.38708	1	0.71045	1	0.054405	1	0.099238	1	0.7355	1	0.26141	1	0.6751	1
RPGR	16 (2%)	755	0.29663	1	0.20509	1	0.99925	1	0.72434	1	0.61624	1	0.37325	1	0.28458	1	0.26891	1	0.62607	1	0.14756	1	0.64906	1	0.50961	1
BCL6B	8 (1%)	763	NA	NA	NA	NA	0.47779	1	0.63016	1	NA	NA	NA	NA	0.24909	1	0.79136	1	1	1	0.81765	1	0.73479	1	0.54856	1
TBL1XR1	9 (1%)	762	0.10865	1	0.29485	1	0.15624	1	NA	NA	0.45536	1	0.56866	1	0.043173	1	0.15173	1	0.44597	1	0.16819	1	0.86441	1	0.27675	1
CRIPAK	13 (2%)	758	NA	NA	NA	NA	0.39803	1	0.45922	1	NA	NA	NA	NA	0.45343	1	0.29214	1	0.65662	1	0.55049	1	0.14018	1	0.13206	1
MYB	11 (1%)	760	0.78645	1	1	1	0.26898	1	0.35474	1	1	1	0.68963	1	0.79751	1	0.57354	1	0.72574	1	0.73192	1	0.5474	1	1	1
GPS2	6 (1%)	765	0.0076799	1	0.02839	1	0.12836	1	0.28289	1	1	1	1	1	0.49013	1	0.55892	1	0.19798	1	0.27764	1	NA	NA	NA	NA
PABPC3	8 (1%)	763	0.16324	1	0.80139	1	0.74083	1	0.98057	1	NA	NA	NA	NA	0.67986	1	0.89651	1	0.71277	1	0.90878	1	1	1	1	1
E2F4	4 (1%)	767	NA	NA	NA	NA	0.92851	1	NA	NA	NA	NA	NA	NA	0.86779	1	0.68673	1	0.81639	1	1	1	NA	NA	NA	NA
DNAH12	12 (2%)	759	0.96689	1	0.26634	1	0.84945	1	0.54081	1	0.68948	1	0.68963	1	0.07991	1	0.75339	1	0.86042	1	1	1	0.79112	1	0.32358	1
CDKN1B	7 (1%)	764	0.35772	1	0.11035	1	0.0027083	1	0.031152	1	0.33082	1	0.39197	1	0.26761	1	0.36716	1	0.040976	1	0.2541	1	0.50191	1	0.5587	1
HNF1A	9 (1%)	762	NA	NA	NA	NA	0.19414	1	0.66005	1	NA	NA	NA	NA	0.33624	1	0.10716	1	0.12995	1	0.16819	1	0.63003	1	0.15643	1
CCDC66	14 (2%)	757	0.36696	1	0.4455	1	0.2681	1	0.8655	1	1	1	0.63316	1	0.051439	1	0.27863	1	0.51636	1	0.18966	1	0.37105	1	0.099176	1
CASP8	10 (1%)	761	0.35508	1	0.19708	1	0.60767	1	0.47331	1	0.40246	1	1	1	0.26583	1	0.55042	1	0.059332	1	0.032962	1	0.18898	1	0.22668	1
STXBP2	10 (1%)	761	NA	NA	NA	NA	0.9235	1	0.95417	1	NA	NA	NA	NA	0.8074	1	0.50313	1	0.47464	1	0.50533	1	0.8143	1	0.88442	1
HIST1H3B	7 (1%)	764	0.38283	1	1	1	0.55331	1	0.70532	1	1	1	0.82708	1	0.21455	1	0.69146	1	1	1	0.79627	1	0.42904	1	0.29977	1
CTU2	5 (1%)	766	NA	NA	NA	NA	0.26011	1	0.53442	1	NA	NA	NA	NA	0.71726	1	0.72323	1	1	1	0.075431	1	0.46606	1	0.030434	1
TTN	122 (16%)	649	0.12192	1	0.038469	1	0.00017024	0.143	0.032938	1	6.2253e-05	0.0529	0.052035	1	0.00038205	0.319	0.0046546	1	0.06148	1	0.0068111	1	0.068656	1	0.045491	1
SHROOM4	12 (2%)	759	0.64041	1	0.18326	1	0.1066	1	0.43456	1	0.15759	1	0.31381	1	0.24497	1	0.41863	1	0.73982	1	0.70111	1	0.91417	1	0.48585	1
HLA-A	4 (1%)	767	0.81613	1	0.54285	1	0.26393	1	NA	NA	1	1	0.82708	1	0.011559	1	0.27736	1	0.65878	1	0.21369	1	NA	NA	NA	NA
SLC25A5	3 (0%)	768	NA	NA	NA	NA	0.24272	1	0.70019	1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
SELPLG	7 (1%)	764	NA	NA	NA	NA	0.27842	1	0.10011	1	NA	NA	NA	NA	0.078972	1	0.16647	1	0.31026	1	0.12762	1	1	1	0.22899	1
KRTAP9-9	6 (1%)	765	NA	NA	NA	NA	0.26164	1	0.22848	1	NA	NA	NA	NA	0.13768	1	1	1	0.86864	1	0.49835	1	1	1	0.073146	1
KRTAP4-5	4 (1%)	767	NA	NA	NA	NA	0.44794	1	0.28186	1	NA	NA	NA	NA	0.14604	1	0.12849	1	0.24838	1	0.69082	1	0.094929	1	1	1
SF3B1	14 (2%)	757	0.62869	1	0.094857	1	0.37821	1	0.22359	1	0.25347	1	0.004986	1	0.2535	1	0.1575	1	0.11922	1	0.47539	1	0.63092	1	0.067048	1
FGFR2	7 (1%)	764	0.60247	1	0.54285	1	0.8479	1	0.30201	1	1	1	0.82708	1	0.24909	1	0.79136	1	0.60298	1	0.49407	1	0.39004	1	0.068751	1
MUC2	22 (3%)	749	0.82997	1	0.25866	1	0.32807	1	0.30884	1	0.7782	1	0.88144	1	0.50001	1	0.42241	1	0.59842	1	0.72542	1	0.75192	1	0.287	1
MED12	20 (3%)	751	0.60328	1	0.32577	1	0.35219	1	0.72296	1	0.45536	1	0.80281	1	0.70119	1	1	1	0.42926	1	0.80283	1	0.29363	1	0.23039	1
USP36	13 (2%)	758	0.66846	1	0.42948	1	0.65266	1	0.38843	1	NA	NA	NA	NA	0.77823	1	0.27116	1	1	1	0.82253	1	0.92246	1	0.81676	1
DENND4B	8 (1%)	763	NA	NA	NA	NA	0.20938	1	0.034578	1	NA	NA	NA	NA	0.077266	1	0.45725	1	0.10729	1	0.14746	1	0.16494	1	0.08534	1
RAI1	7 (1%)	764	NA	NA	NA	NA	0.37462	1	0.89945	1	1	1	0.78219	1	0.82565	1	0.32593	1	0.5198	1	0.16314	1	0.63092	1	0.82959	1
ODF1	5 (1%)	766	NA	NA	NA	NA	0.92851	1	0.4445	1	NA	NA	NA	NA	0.68869	1	0.27736	1	0.81639	1	0.35632	1	0.64309	1	1	1
AXL	6 (1%)	765	NA	NA	NA	NA	0.37654	1	0.20999	1	NA	NA	NA	NA	0.82568	1	0.081587	1	0.71439	1	1	1	0.50191	1	0.27816	1
RPL18	4 (1%)	767	NA	NA	NA	NA	0.50065	1	0.19195	1	NA	NA	NA	NA	0.12087	1	0.094382	1	0.10966	1	0.04957	1	0.27417	1	0.44128	1
KRT38	4 (1%)	767	0.60247	1	0.8116	1	0.23754	1	0.75452	1	0.40246	1	0.63316	1	0.62545	1	1	1	0.81639	1	0.082309	1	NA	NA	NA	NA
ASXL2	8 (1%)	763	0.36034	1	0.21437	1	0.78093	1	0.42025	1	NA	NA	NA	NA	0.81206	1	0.52305	1	0.60298	1	0.44064	1	0.74982	1	0.18004	1
TICAM1	5 (1%)	766	NA	NA	NA	NA	0.7551	1	0.87267	1	NA	NA	NA	NA	0.94862	1	0.44917	1	1	1	0.52742	1	0.81929	1	1	1
RBM5	12 (2%)	759	NA	NA	NA	NA	0.75847	1	0.77222	1	NA	NA	NA	NA	0.75019	1	0.80916	1	0.3076	1	0.20725	1	0.051367	1	0.52291	1
ASPHD1	3 (0%)	768	NA	NA	NA	NA	0.68605	1	0.87636	1	NA	NA	NA	NA	0.56391	1	0.80988	1	1	1	1	1	1	1	1	1
PPEF1	8 (1%)	763	0.85303	1	1	1	0.35467	1	0.47219	1	1	1	1	1	0.43223	1	0.59186	1	0.27283	1	0.38352	1	0.10282	1	0.12029	1
MUC20	10 (1%)	761	NA	NA	NA	NA	0.014858	1	0.1776	1	NA	NA	NA	NA	0.00043008	0.358	0.054636	1	0.36004	1	0.12483	1	0.64906	1	0.14048	1
TMEM184A	4 (1%)	767	NA	NA	NA	NA	0.5432	1	0.0060914	1	NA	NA	NA	NA	0.9577	1	0.68673	1	1	1	0.27801	1	0.0067701	1	0.0012482	1
FAM171B	8 (1%)	763	0.9247	1	0.29072	1	0.55199	1	0.056486	1	NA	NA	NA	NA	0.1999	1	0.0017518	1	0.60298	1	0.037408	1	0.17256	1	0.12797	1
PRRX1	6 (1%)	765	0.57729	1	0.52186	1	0.39848	1	0.093932	1	0.83853	1	0.39197	1	0.48891	1	0.4965	1	0.29328	1	0.43499	1	0.58788	1	0.67986	1
ATP13A4	9 (1%)	762	0.60247	1	0.35582	1	0.13358	1	0.36178	1	NA	NA	NA	NA	0.86502	1	0.33516	1	0.90702	1	0.63096	1	0.44269	1	0.50564	1
MUC21	6 (1%)	765	0.31688	1	0.42948	1	0.12836	1	0.2773	1	NA	NA	NA	NA	0.64894	1	0.4965	1	0.86864	1	0.24158	1	1	1	0.29977	1
HLA-B	4 (1%)	767	NA	NA	NA	NA	0.61152	1	0.69956	1	NA	NA	NA	NA	0.38146	1	1	1	0.81639	1	0.35632	1	1	1	1	1
RBM23	6 (1%)	765	NA	NA	NA	NA	0.66715	1	0.32805	1	NA	NA	NA	NA	0.78941	1	0.035799	1	0.35137	1	0.087158	1	0.64309	1	0.73502	1
UBC	8 (1%)	763	0.33635	1	1	1	0.74395	1	0.30902	1	0.55623	1	0.82708	1	0.21452	1	1	1	0.89859	1	0.27542	1	NA	NA	NA	NA
SPRED3	4 (1%)	767	NA	NA	NA	NA	0.84468	1	0.7513	1	NA	NA	NA	NA	0.9577	1	0.46897	1	0.53638	1	0.27801	1	0.42904	1	0.29977	1
KCNN3	6 (1%)	765	0.96764	1	1	1	0.070738	1	0.31109	1	NA	NA	NA	NA	0.10152	1	0.37941	1	0.35137	1	0.67321	1	0.27417	1	0.18004	1
GNRH2	3 (0%)	768	NA	NA	NA	NA	0.24718	1	NA	NA	NA	NA	NA	NA	0.82169	1	1	1	0.77469	1	0.80052	1	NA	NA	NA	NA
MED15	7 (1%)	764	NA	NA	NA	NA	0.43695	1	0.12429	1	NA	NA	NA	NA	0.52357	1	0.28801	1	0.23492	1	0.2541	1	0.17869	1	0.22899	1
