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chr17:17,017,584-21,062,061

Best TWAS P=1.41e-17 · Best GWAS P=3.2e-18 conditioned to 1

Associated models

#	Study	Tissue	Gene	h2	eQTL R2	model	# weights	model R2	model R2 P	eQTL GWAS Z	TWAS Z	TWAS P	Top SNP corr	PP3	PP4	joint
13	GTEx	Artery Tibial	SPECC1	0.24	0.21	lasso	2	0.21	2.0e-16	-8.55	-8.5	1.4e-17	1.00	0.01	0.99	TRUE
71	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	TOP3A	0.11	0.01	enet	10	0.05	5.8e-04	6.09	-7.7	1.1e-14	-0.01	0.01	0.77	TRUE
51	ROSMAP	Brain Pre-frontal Cortex	TOM1L2	0.15	0.11	blup	414	0.10	1.4e-12	4.98	-6.0	2.1e-09	0.04	0.84	0.16	TRUE
1	CommonMind	Brain Pre-frontal Cortex	AKAP10	0.04	0.03	lasso	1	0.03	1.9e-04	8.36	-8.4	6.1e-17	0.78	0.04	0.93	FALSE
50	ROSMAP	Brain Pre-frontal Cortex	SPECC1	0.17	0.27	lasso	11	0.26	1.3e-33	-8.07	-8.2	3.7e-16	0.82	0.51	0.49	FALSE
25	GTEx	Esophagus Mucosa	RP11-78O7.2	0.06	0.07	lasso	2	0.06	4.7e-05	8.52	8.1	4.8e-16	-0.66	0.05	0.90	FALSE
59	The Cancer Genome Atlas	Breast Invasive Carcinoma	CYTSB	0.03	0.03	lasso	4	0.02	2.8e-05	7.65	-7.7	1.8e-14	0.70	0.58	0.41	FALSE
9	GTEx	Adrenal Gland	CTD-2303H24.2	0.31	0.05	lasso	7	0.12	3.6e-05	6.00	7.7	1.9e-14	0.01	0.05	0.81	FALSE
19	GTEx	Cells EBV-transformed lymphocytes	SPECC1	0.12	0.13	lasso	2	0.11	1.6e-04	7.62	-7.6	2.1e-14	0.68	0.20	0.43	FALSE
68	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	TOP3A	0.07	0.02	blup	48	0.02	1.3e-03	6.09	-7.5	4.4e-14	-0.01	0.01	0.94	FALSE
77	The Cancer Genome Atlas	Lung Adenocarcinoma	SMCR7	0.05	0.03	enet	7	0.05	3.7e-06	5.91	-7.5	9.2e-14	-0.01	0.01	0.98	FALSE
44	GTEx	Testis	USP32P3	0.11	0.19	lasso	3	0.16	8.6e-08	6.98	7.3	2.2e-13	-0.65	0.50	0.49	FALSE
79	The Cancer Genome Atlas	Lung Adenocarcinoma	TOP3A	0.08	0.04	enet	8	0.07	3.7e-08	-4.82	-7.3	4.0e-13	-0.02	0.10	0.89	FALSE
76	The Cancer Genome Atlas	Lung Adenocarcinoma	MYO15A	0.08	0.02	blup	79	0.04	1.6e-05	-4.15	-7.2	4.4e-13	0.00	0.06	0.90	FALSE
8	GTEx	Adrenal Gland	MIEF2	0.34	0.19	lasso	7	0.26	8.1e-10	5.86	-7.1	1.2e-12	0.02	0.05	0.95	FALSE
65	The Cancer Genome Atlas	Colon Adenocarcinoma	LGALS9B	0.08	0.08	lasso	1	0.08	2.7e-05	-7.07	7.1	1.6e-12	-0.70	0.00	0.99	FALSE
66	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	LGALS9B	0.04	0.03	enet	1	0.02	2.0e-03	-7.07	7.1	1.6e-12	-0.70	0.00	0.97	FALSE
60	The Cancer Genome Atlas	Breast Invasive Carcinoma	FLII	0.04	0.01	blup	47	0.02	7.2e-05	6.09	-7.0	2.3e-12	-0.03	0.02	0.79	FALSE
70	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	FLII	0.16	0.00	enet	6	0.06	1.4e-04	6.04	-7.0	2.8e-12	-0.04	0.02	0.52	FALSE
23	GTEx	Colon Transverse	SPECC1	0.10	0.06	lasso	3	0.10	1.5e-05	-3.97	-6.8	8.6e-12	0.78	0.41	0.50	FALSE
91	The Cancer Genome Atlas	Prostate Adenocarcinoma	SMCR7	0.07	0.04	blup	33	0.03	3.0e-04	6.09	-6.8	1.0e-11	-0.02	0.01	0.95	FALSE
84	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	ALKBH5	0.22	0.10	blup	66	0.12	1.4e-05	6.29	-6.8	1.3e-11	0.02	0.02	0.88	FALSE
83	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	TOP3A	0.16	0.06	lasso	4	0.07	1.9e-05	5.86	-6.8	1.4e-11	0.00	0.01	0.96	FALSE
64	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	SMCR7	0.19	0.03	blup	33	0.06	4.5e-04	5.84	-6.7	2.4e-11	0.01	0.01	0.72	FALSE
97	The Cancer Genome Atlas	Stomach Adenocarcinoma	TOP3A	0.09	0.06	blup	48	0.05	1.8e-04	-4.25	-6.7	2.5e-11	-0.03	0.34	0.38	FALSE
98	The Cancer Genome Atlas	Thyroid Carcinoma	MYO15A	0.06	0.02	enet	5	0.02	8.8e-03	-4.55	-6.6	3.1e-11	-0.02	0.21	0.10	FALSE
63	The Cancer Genome Atlas	Breast Invasive Carcinoma	TOP3A	0.05	0.02	enet	8	0.03	1.2e-07	-4.60	-6.6	3.2e-11	-0.04	0.06	0.93	FALSE
75	The Cancer Genome Atlas	Lung Adenocarcinoma	FLII	0.04	0.01	blup	47	0.03	5.1e-04	6.09	-6.6	3.9e-11	-0.02	0.01	0.90	FALSE
27	GTEx	Esophagus Muscularis	LLGL1	0.19	0.06	lasso	5	0.06	1.1e-04	6.29	6.5	5.7e-11	-0.02	0.01	0.99	FALSE
88	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	TOP3A	0.13	0.00	enet	12	0.06	2.3e-03	-4.35	-6.5	7.8e-11	-0.02	0.03	0.20	FALSE
62	The Cancer Genome Atlas	Breast Invasive Carcinoma	SMCR8	0.02	0.01	blup	34	0.01	1.5e-02	5.84	-6.5	8.7e-11	-0.01	0.00	0.37	FALSE
73	The Cancer Genome Atlas	Lung Adenocarcinoma	ALKBH5	0.09	0.02	lasso	3	0.03	1.2e-04	6.09	-6.5	9.3e-11	0.01	0.02	0.92	FALSE
82	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	SMCR8	0.06	0.05	lasso	3	0.05	4.2e-04	5.86	-6.5	9.6e-11	0.00	0.00	0.89	FALSE
92	The Cancer Genome Atlas	Prostate Adenocarcinoma	TOP3A	0.15	0.06	lasso	3	0.09	2.9e-09	5.13	-6.5	1.0e-10	-0.02	0.05	0.94	FALSE
41	GTEx	Small Intestine Terminal Ileum	CTD-2303H24.2	0.38	0.28	lasso	9	0.26	1.7e-06	5.91	6.5	1.1e-10	-0.02	0.01	0.97	FALSE
99	The Cancer Genome Atlas	Thyroid Carcinoma	SMCR7	0.10	0.01	blup	33	0.05	8.9e-06	5.84	-6.4	1.6e-10	-0.02	0.03	0.94	FALSE
72	The Cancer Genome Atlas	Brain Lower Grade Glioma	MYO15A	0.04	0.02	lasso	3	0.02	2.5e-03	6.29	-6.4	1.9e-10	0.02	0.02	0.71	FALSE
16	GTEx	Breast Mammary Tissue	CCDC144B	0.19	0.00	enet	18	0.06	4.0e-04	-0.98	-6.3	2.6e-10	-0.06	0.04	0.20	FALSE
54	YFS	Blood	LLGL1	0.21	0.12	lasso	9	0.14	1.9e-43	5.13	-6.3	2.7e-10	-0.01	0.96	0.04	FALSE
85	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	FLII	0.20	0.08	blup	54	0.13	7.0e-06	1.92	-6.3	2.8e-10	-0.03	0.04	0.66	FALSE
61	The Cancer Genome Atlas	Breast Invasive Carcinoma	SMCR7	0.06	0.00	enet	7	0.02	1.5e-05	5.84	-6.3	3.1e-10	-0.04	0.01	0.71	FALSE
46	GTEx	Vagina	SHMT1	0.38	0.02	lasso	4	-0.01	6.6e-01	5.91	6.3	3.2e-10	0.00	0.03	0.41	FALSE
53	ROSMAP	Brain Pre-frontal Cortex	NOS2P3	0.30	0.47	lasso	7	0.53	3.4e-80	-8.05	6.3	3.4e-10	-0.62	0.52	0.48	FALSE
93	The Cancer Genome Atlas	Soft Tissue Sarcoma	TOP3A	0.08	0.03	enet	24	0.04	1.6e-03	-4.60	-6.3	3.8e-10	-0.02	0.04	0.61	FALSE
94	The Cancer Genome Atlas	Stomach Adenocarcinoma	FLII	0.05	0.04	blup	47	0.03	1.7e-03	6.09	-6.2	5.2e-10	0.01	0.01	0.83	FALSE
4	CommonMind	Brain Pre-frontal Cortex	MYO15A	0.17	0.12	bslmm	313	0.14	4.5e-16	6.75	-6.1	1.2e-09	-0.02	0.00	1.00	FALSE
78	The Cancer Genome Atlas	Lung Adenocarcinoma	SMCR8	0.06	0.01	enet	9	0.03	3.3e-04	-4.63	-6.1	1.2e-09	-0.03	0.04	0.16	FALSE
18	GTEx	Breast Mammary Tissue (Female)	CCDC144B	0.31	0.01	lasso	6	0.06	9.1e-03	-2.16	-6.1	1.3e-09	0.02	0.03	0.16	FALSE
67	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	SMCR8	0.10	0.02	blup	33	0.03	8.1e-05	-1.13	-6.0	2.2e-09	-0.02	0.05	0.22	FALSE
12	GTEx	Artery Tibial	DRG2	0.13	0.00	enet	18	0.01	1.1e-01	4.89	-6.0	2.3e-09	0.08	0.14	0.20	FALSE
42	GTEx	Spleen	SHMT1	0.54	0.30	lasso	8	0.24	7.6e-07	6.00	6.0	2.3e-09	-0.01	0.05	0.93	FALSE
86	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	SMCR7	0.13	0.05	enet	11	0.08	4.3e-04	-4.35	-6.0	2.6e-09	-0.03	0.02	0.72	FALSE
5	CommonMind	Brain Pre-frontal Cortex	SPECC1	0.24	0.21	lasso	3	0.26	4.2e-31	7.11	-5.9	3.1e-09	0.45	0.94	0.06	FALSE
2	CommonMind	Brain Pre-frontal Cortex	CCDC144B	0.21	0.05	enet	30	0.16	1.5e-18	2.30	5.9	3.3e-09	0.01	0.31	0.69	FALSE
26	GTEx	Esophagus Mucosa	CTD-2303H24.2	0.21	0.09	enet	29	0.17	2.4e-11	-3.59	5.9	3.5e-09	0.01	0.16	0.84	FALSE
14	GTEx	Brain Cerebellar Hemisphere	DRG2	0.36	0.08	enet	25	0.10	1.9e-03	1.81	-5.9	4.7e-09	0.04	0.04	0.13	FALSE
36	GTEx	Muscle Skeletal	MIEF2	0.19	0.12	lasso	1	0.11	1.6e-10	5.86	-5.9	4.7e-09	0.01	0.06	0.94	FALSE
52	ROSMAP	Brain Pre-frontal Cortex	RP1-37N7.3	0.06	0.04	lasso	1	0.03	1.4e-04	5.84	-5.8	5.1e-09	0.01	0.18	0.66	FALSE
80	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	MYO15A	0.03	0.02	blup	79	0.02	9.4e-04	3.13	-5.8	5.3e-09	0.00	0.02	0.72	FALSE
49	METSIM	Adipose	LGALS9B	0.08	0.04	blup	176	0.06	8.6e-09	7.65	5.8	5.7e-09	-0.55	0.15	0.85	FALSE
22	GTEx	Cells Transformed fibroblasts	MIEF2	0.17	0.04	lasso	5	0.07	1.0e-05	5.84	-5.8	5.8e-09	0.01	0.07	0.78	FALSE
89	The Cancer Genome Atlas	Prostate Adenocarcinoma	ALKBH5	0.19	0.02	blup	63	0.04	3.4e-05	5.91	-5.7	9.9e-09	0.00	0.05	0.91	FALSE
69	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	SMCR7	0.04	0.01	blup	34	0.02	1.0e-03	-4.67	-5.7	1.1e-08	-0.04	0.06	0.36	FALSE
17	GTEx	Breast Mammary Tissue (Male)	CTD-2303H24.2	0.27	0.00	enet	33	0.01	1.5e-01	2.29	5.7	1.3e-08	0.02	0.03	0.36	FALSE
7	GTEx	Adrenal Gland	LLGL1	0.21	0.05	lasso	8	0.07	2.3e-03	-4.55	-5.7	1.4e-08	-0.02	0.26	0.30	FALSE
57	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	TOP3A	0.05	0.01	blup	53	0.02	1.0e-02	-4.82	-5.6	1.8e-08	-0.05	0.06	0.17	FALSE
21	GTEx	Cells Transformed fibroblasts	TOP3A	0.32	0.12	enet	31	0.12	2.3e-09	5.84	-5.6	2.2e-08	-0.02	0.08	0.92	FALSE
32	GTEx	Liver	SHMT1	0.36	0.22	lasso	4	0.20	3.5e-06	5.88	5.6	2.3e-08	-0.01	0.05	0.89	FALSE
40	GTEx	Skin Sun Exposed Lower leg	CTD-2303H24.2	0.24	0.08	enet	20	0.13	3.9e-11	2.29	5.5	2.9e-08	0.03	0.95	0.04	FALSE
55	YFS	Blood	TOP3A	0.04	0.02	enet	20	0.03	9.3e-10	5.91	5.5	3.1e-08	0.06	0.15	0.85	FALSE
31	GTEx	Heart Left Ventricle	CTD-2303H24.2	0.24	0.04	lasso	6	0.10	4.3e-06	5.91	5.5	4.2e-08	0.02	0.13	0.85	FALSE
30	GTEx	Heart Atrial Appendage	CTD-2303H24.2	0.26	0.11	lasso	6	0.13	1.5e-06	-3.59	5.5	4.3e-08	0.02	0.19	0.68	FALSE
38	GTEx	Muscle Skeletal	CTD-2303H24.2	0.23	0.11	enet	23	0.17	5.2e-16	-3.59	5.5	4.4e-08	0.03	0.82	0.17	FALSE
11	GTEx	Artery Coronary	CTD-2303H24.2	0.38	0.04	lasso	7	0.20	3.8e-07	2.29	5.5	4.5e-08	0.03	0.12	0.70	FALSE
96	The Cancer Genome Atlas	Stomach Adenocarcinoma	SREBF1	0.04	0.03	blup	32	0.02	7.8e-03	5.24	5.5	5.1e-08	-0.03	0.04	0.35	FALSE
95	The Cancer Genome Atlas	Stomach Adenocarcinoma	SMCR7	0.06	0.02	enet	7	0.04	9.1e-04	-1.65	-5.4	5.4e-08	0.01	0.01	0.74	FALSE
20	GTEx	Cells Transformed fibroblasts	SREBF1	0.09	0.01	lasso	11	0.01	3.2e-02	4.93	5.4	5.9e-08	-0.04	0.20	0.11	FALSE
24	GTEx	Esophagus Gastroesophageal Junction	CTD-2303H24.2	0.33	0.20	lasso	3	0.34	6.0e-13	-3.59	5.4	7.7e-08	0.00	0.16	0.83	FALSE
43	GTEx	Spleen	CTD-2303H24.2	0.32	0.02	enet	15	0.12	5.2e-04	5.91	5.4	7.7e-08	0.00	0.07	0.52	FALSE
56	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	FLII	0.04	0.02	blup	48	0.03	2.2e-03	5.91	-5.4	7.8e-08	0.00	0.01	0.82	FALSE
10	GTEx	Artery Aorta	CTD-2303H24.2	0.39	0.12	enet	37	0.27	3.7e-15	-3.59	5.3	8.8e-08	0.02	0.15	0.85	FALSE
6	CommonMind	Brain Pre-frontal Cortex	TOM1L2	0.19	0.24	bslmm	425	0.24	2.4e-29	4.95	-5.3	1.1e-07	0.04	0.98	0.02	FALSE
15	GTEx	Brain Cerebellum	TOM1L2	0.10	0.06	lasso	5	0.02	6.6e-02	5.33	-5.3	1.2e-07	0.03	0.21	0.10	FALSE
81	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	SMCR8	0.04	0.00	blup	33	0.00	2.0e-01	1.93	-5.3	1.3e-07	-0.03	0.01	0.05	FALSE
29	GTEx	Heart Atrial Appendage	AC122129.1	0.15	0.02	enet	9	0.08	1.4e-04	5.92	-5.3	1.4e-07	0.02	0.03	0.91	FALSE
45	GTEx	Testis	CTD-2303H24.2	0.50	0.26	lasso	17	0.36	1.1e-16	-3.59	5.3	1.4e-07	0.02	0.92	0.08	FALSE
39	GTEx	Skin Sun Exposed Lower leg	DRG2	0.06	0.07	lasso	4	0.08	6.5e-07	4.70	-5.2	1.5e-07	0.10	0.69	0.27	FALSE
74	The Cancer Genome Atlas	Lung Adenocarcinoma	DRG2	0.09	0.02	blup	54	0.03	3.8e-04	-4.15	-5.2	1.5e-07	-0.04	0.01	0.77	FALSE
47	GTEx	Whole Blood	SREBF1	0.04	0.06	lasso	5	0.05	2.4e-05	5.24	-5.2	1.8e-07	0.07	0.85	0.13	FALSE
3	CommonMind	Brain Pre-frontal Cortex	FAM106A	0.05	0.01	bslmm	278	0.02	8.6e-04	5.84	5.2	2.0e-07	-0.01	0.07	0.36	FALSE
28	GTEx	Esophagus Muscularis	CTD-2303H24.2	0.25	0.09	lasso	5	0.16	8.4e-10	-3.59	5.2	2.0e-07	0.01	0.16	0.83	FALSE
33	GTEx	Lung	TOM1L2	0.07	0.02	lasso	6	0.03	1.4e-03	4.88	-5.2	2.2e-07	0.02	0.67	0.23	FALSE
34	GTEx	Lung	RP11-258F1.1	0.05	0.00	lasso	5	0.00	4.1e-01	4.37	-5.2	2.2e-07	0.08	0.15	0.30	FALSE
90	The Cancer Genome Atlas	Prostate Adenocarcinoma	FLII	0.08	0.02	enet	6	0.04	1.9e-05	-4.25	-5.2	2.2e-07	-0.06	0.04	0.69	FALSE
58	The Cancer Genome Atlas	Breast Invasive Carcinoma	ALKBH5	0.06	0.02	blup	63	0.02	7.2e-06	4.56	-5.2	2.3e-07	0.01	0.11	0.56	FALSE
87	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	SMCR8	0.12	0.00	blup	43	0.06	2.0e-03	1.92	-5.2	2.4e-07	0.00	0.01	0.11	FALSE
35	GTEx	Muscle Skeletal	TOM1L2	0.08	0.11	lasso	6	0.10	5.3e-10	4.93	-5.2	2.6e-07	0.04	0.92	0.08	FALSE
48	GTEx	Whole Blood	CTD-2303H24.2	0.04	0.02	lasso	4	0.04	8.4e-05	5.91	5.2	2.6e-07	0.01	0.08	0.78	FALSE
37	GTEx	Muscle Skeletal	AC122129.1	0.13	0.14	lasso	4	0.13	7.3e-13	4.88	-5.1	2.7e-07	0.06	0.91	0.09	FALSE
100	The Cancer Genome Atlas	Uterine Corpus Endometrial Carcinoma	SMCR8	0.60	0.03	blup	43	0.02	9.3e-02	6.04	-5.1	3.0e-07	-0.04	0.00	0.45	FALSE