Table: Gene sets enriched in phenotype Stage I (176 samples) 

	GS follow link to MSigDB		SIZE	ES	NES	NOM p-val	FDR q-val	FWER p-val	RANK AT MAX	LEADING EDGE
1	GNF2_MAPT		22	0.56	1.64	0.035	1.000	0.419	971	tags=55%, list=23%, signal=70%
2	MORF_THPO		45	0.44	1.58	0.020	1.000	0.557	1026	tags=44%, list=24%, signal=58%
3	GNF2_RTN1		31	0.48	1.51	0.052	1.000	0.700	971	tags=42%, list=23%, signal=54%
4	MORF_LCAT		37	0.43	1.50	0.039	0.927	0.707	656	tags=35%, list=15%, signal=41%
5	GNF2_DNM1		34	0.45	1.45	0.058	1.000	0.800	982	tags=47%, list=23%, signal=61%
6	MORF_PRKCA		59	0.38	1.43	0.050	0.942	0.829	1026	tags=41%, list=24%, signal=53%
7	MORF_ATF2		95	0.36	1.43	0.038	0.822	0.835	1026	tags=37%, list=24%, signal=47%
8	MORF_CTSB		59	0.40	1.40	0.096	0.862	0.884	854	tags=34%, list=20%, signal=42%
9	MORF_MAGEA8		81	0.35	1.39	0.062	0.819	0.905	1026	tags=36%, list=24%, signal=46%
10	MORF_IFNA1		68	0.36	1.38	0.080	0.792	0.921	1026	tags=38%, list=24%, signal=49%
11	MORF_RAD51L3		114	0.33	1.36	0.064	0.777	0.928	1029	tags=35%, list=24%, signal=45%
12	MORF_DCC		33	0.40	1.35	0.096	0.750	0.939	656	tags=27%, list=15%, signal=32%
13	MORF_FRK		32	0.42	1.35	0.129	0.705	0.945	656	tags=28%, list=15%, signal=33%
14	MORF_PTPRB		83	0.33	1.32	0.093	0.761	0.966	1029	tags=35%, list=24%, signal=45%
15	MORF_EPHA7		39	0.37	1.31	0.127	0.723	0.967	656	tags=28%, list=15%, signal=33%
16	MORF_SUPT3H		103	0.33	1.30	0.125	0.714	0.974	1029	tags=35%, list=24%, signal=45%
17	MORF_MAGEA9		124	0.30	1.29	0.097	0.728	0.976	1029	tags=32%, list=24%, signal=41%
18	MORF_FLT1		32	0.37	1.25	0.188	0.804	0.984	255	tags=19%, list=6%, signal=20%
19	GNF2_RAB3A		20	0.42	1.22	0.217	0.887	0.992	1170	tags=50%, list=27%, signal=68%
20	MORF_MDM2		78	0.31	1.21	0.181	0.862	0.993	1029	tags=32%, list=24%, signal=41%
21	MORF_MLLT10		86	0.28	1.18	0.190	0.946	0.994	1029	tags=33%, list=24%, signal=42%
22	MORF_CAMK4		91	0.29	1.18	0.199	0.913	0.994	1029	tags=33%, list=24%, signal=42%
23	MORF_IL16		67	0.29	1.16	0.234	0.946	0.995	1029	tags=34%, list=24%, signal=44%
24	MORF_FSHR		86	0.29	1.14	0.257	0.975	0.998	1026	tags=33%, list=24%, signal=42%
25	GNF2_HCK		16	0.40	1.14	0.289	0.947	0.998	853	tags=44%, list=20%, signal=54%
26	MORF_TFDP2		62	0.27	1.13	0.246	0.931	0.998	148	tags=11%, list=3%, signal=12%
27	MORF_IL4		63	0.30	1.12	0.286	0.925	0.998	1026	tags=33%, list=24%, signal=43%
28	MORF_MAP2K7		59	0.31	1.11	0.336	0.933	0.999	1026	tags=34%, list=24%, signal=44%
29	MORF_ARL3		94	0.27	1.11	0.289	0.901	0.999	1029	tags=31%, list=24%, signal=40%
30	MORF_DMPK		47	0.30	1.09	0.331	0.953	0.999	710	tags=26%, list=17%, signal=30%
31	MORF_MT4		53	0.26	1.07	0.329	0.965	1.000	1018	tags=36%, list=24%, signal=46%
32	GNF2_CASP1		18	0.36	1.07	0.370	0.935	1.000	951	tags=44%, list=22%, signal=57%
33	MORF_IL9		28	0.34	1.07	0.363	0.920	1.000	596	tags=25%, list=14%, signal=29%
34	MORF_MYL3		24	0.32	1.06	0.373	0.915	1.000	1029	tags=42%, list=24%, signal=54%
35	MORF_ERCC4		92	0.25	1.06	0.362	0.908	1.000	1029	tags=29%, list=24%, signal=38%
36	MORF_FOSL1		112	0.24	1.06	0.346	0.890	1.000	1029	tags=29%, list=24%, signal=37%
37	MORF_RBBP8		42	0.27	1.04	0.390	0.896	1.000	1018	tags=40%, list=24%, signal=53%
38	GNF2_AF1Q		20	0.34	1.03	0.435	0.928	1.000	971	tags=35%, list=23%, signal=45%
39	GCM_BNIP1		15	0.34	1.01	0.460	0.948	1.000	576	tags=27%, list=13%, signal=31%
40	GCM_HMGA2		22	0.31	1.00	0.445	0.964	1.000	576	tags=27%, list=13%, signal=31%
41	MORF_RAB3A		27	0.30	1.00	0.427	0.944	1.000	435	tags=22%, list=10%, signal=25%
42	MORF_ETV3		17	0.35	0.99	0.465	0.937	1.000	255	tags=18%, list=6%, signal=19%
43	MORF_TNFRSF6		50	0.28	0.99	0.445	0.916	1.000	1026	tags=30%, list=24%, signal=39%
44	GCM_RING1		20	0.32	0.99	0.441	0.898	1.000	576	tags=25%, list=13%, signal=29%
45	MORF_NOS2A		83	0.25	0.99	0.479	0.879	1.000	1029	tags=30%, list=24%, signal=39%
46	MORF_TNFRSF25		64	0.23	0.99	0.487	0.869	1.000	351	tags=14%, list=8%, signal=15%
47	MORF_MYC		23	0.32	0.98	0.493	0.871	1.000	255	tags=17%, list=6%, signal=18%
48	GNF2_MYD88		15	0.35	0.97	0.500	0.876	1.000	951	tags=33%, list=22%, signal=43%
49	MORF_BCL2L11		59	0.26	0.97	0.515	0.874	1.000	1026	tags=29%, list=24%, signal=37%
50	MORF_JAG1		20	0.30	0.96	0.497	0.866	1.000	150	tags=15%, list=3%, signal=15%
51	GCM_NF2		21	0.31	0.95	0.532	0.877	1.000	1305	tags=38%, list=30%, signal=54%
52	GCM_SMARCD1		22	0.28	0.95	0.541	0.873	1.000	576	tags=23%, list=13%, signal=26%
53	MORF_ITGA2		18	0.32	0.93	0.556	0.893	1.000	990	tags=28%, list=23%, signal=36%
54	MORF_RPA2		22	0.31	0.93	0.552	0.892	1.000	652	tags=23%, list=15%, signal=27%
55	GCM_PTK2		27	0.27	0.92	0.574	0.886	1.000	1305	tags=37%, list=30%, signal=53%
56	MORF_PRKACA		29	0.25	0.87	0.669	0.988	1.000	148	tags=10%, list=3%, signal=11%
57	MORF_CASP10		30	0.24	0.87	0.696	0.988	1.000	148	tags=10%, list=3%, signal=10%
58	CAR_MLANA		16	0.28	0.86	0.665	0.988	1.000	710	tags=25%, list=17%, signal=30%
59	GCM_MAPK10		25	0.26	0.85	0.684	0.991	1.000	191	tags=12%, list=4%, signal=12%
60	MORF_PAX7		73	0.22	0.84	0.732	0.999	1.000	446	tags=14%, list=10%, signal=15%
61	MORF_PTPRR		33	0.28	0.83	0.668	0.998	1.000	854	tags=24%, list=20%, signal=30%
62	GNF2_STAT6		19	0.28	0.82	0.693	1.000	1.000	1476	tags=47%, list=34%, signal=72%
63	GCM_FANCC		19	0.26	0.82	0.724	0.985	1.000	576	tags=21%, list=13%, signal=24%
64	MORF_CD8A		41	0.23	0.82	0.730	0.972	1.000	578	tags=17%, list=13%, signal=20%
65	MORF_RAGE		33	0.23	0.81	0.751	0.976	1.000	1018	tags=33%, list=24%, signal=43%
66	GCM_NCAM1		25	0.24	0.80	0.803	0.990	1.000	533	tags=20%, list=12%, signal=23%
67	MORF_MAP3K14		33	0.21	0.77	0.836	1.000	1.000	435	tags=18%, list=10%, signal=20%
68	MORF_GNB1		27	0.25	0.76	0.743	1.000	1.000	1390	tags=41%, list=32%, signal=60%
69	MORF_CDH4		43	0.22	0.76	0.799	1.000	1.000	578	tags=19%, list=13%, signal=21%
70	GCM_DLG1		16	0.25	0.75	0.804	1.000	1.000	3238	tags=100%, list=75%, signal=403%
71	MORF_LTK		32	0.21	0.75	0.846	0.998	1.000	1018	tags=31%, list=24%, signal=41%
72	MORF_THRA		16	0.26	0.72	0.805	1.000	1.000	601	tags=25%, list=14%, signal=29%
73	MORF_HDAC1		21	0.24	0.72	0.812	1.000	1.000	1382	tags=43%, list=32%, signal=63%
74	MORF_IKBKG		24	0.23	0.70	0.853	1.000	1.000	652	tags=21%, list=15%, signal=24%
75	MORF_EIF3S2		15	0.24	0.68	0.866	1.000	1.000	711	tags=20%, list=17%, signal=24%
76	GNF2_GSTM1		18	0.23	0.68	0.886	1.000	1.000	839	tags=33%, list=20%, signal=41%
77	MORF_DEK		20	0.24	0.67	0.874	1.000	1.000	1382	tags=40%, list=32%, signal=59%
78	MORF_PHB		15	0.27	0.67	0.846	1.000	1.000	652	tags=20%, list=15%, signal=23%
79	MORF_SOD1		18	0.23	0.65	0.889	1.000	1.000	485	tags=17%, list=11%, signal=19%
80	MORF_ARAF1		15	0.23	0.65	0.898	1.000	1.000	1058	tags=33%, list=25%, signal=44%
81	MORF_KDR		32	0.18	0.63	0.965	1.000	1.000	1219	tags=34%, list=28%, signal=48%
82	MORF_BMPR2		17	0.22	0.63	0.921	1.000	1.000	656	tags=24%, list=15%, signal=28%
83	GCM_RAB10		19	0.20	0.62	0.955	0.989	1.000	3452	tags=100%, list=80%, signal=505%
84	MORF_PDCD1		24	0.18	0.57	0.969	1.000	1.000	3522	tags=100%, list=82%, signal=550%
85	MORF_XRCC5		16	0.21	0.57	0.941	0.997	1.000	711	tags=25%, list=17%, signal=30%
86	MORF_PRKAG1		21	0.19	0.51	0.946	1.000	1.000	652	tags=19%, list=15%, signal=22%
87	GCM_MAP4K4		30	0.14	0.49	0.998	0.993	1.000	265	tags=7%, list=6%, signal=7%