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chr9:138,525,778-140,321,666

Best TWAS P=1.23e-28 · Best GWAS P=3.14e-30 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
46	GTEx	Whole Blood	CARD9	0.08	0.07	lasso	1	0.05	4.2e-05	11.10	11.1	1.2e-28	0.98	0.02	0.98	TRUE
25	GTEx	Muscle Skeletal	CARD9	0.16	0.12	enet	28	0.11	9.0e-11	-5.73	-7.2	7.7e-13	-0.27	1.00	0.00	TRUE
34	GTEx	Skin Sun Exposed Lower leg	RP11-611D20.2	0.21	0.16	enet	16	0.17	3.3e-14	2.23	5.3	1.3e-07	0.18	1.00	0.00	TRUE
49	YFS	Blood	CARD9	0.22	0.37	lasso	5	0.39	1.3e-137	11.33	11.0	2.2e-28	0.97	0.00	1.00	FALSE
15	GTEx	Colon Sigmoid	INPP5E	0.22	0.10	lasso	3	0.01	1.6e-01	10.22	-10.5	8.7e-26	-0.94	0.02	0.96	FALSE
61	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	INPP5E	0.07	0.04	blup	54	0.07	6.0e-05	7.52	-10.3	7.7e-25	-0.82	0.04	0.87	FALSE
55	The Cancer Genome Atlas	Breast Invasive Carcinoma	SEC16A	0.02	0.00	blup	69	0.01	1.0e-03	8.35	-10.2	1.7e-24	-0.66	0.11	0.40	FALSE
47	METSIM	Adipose	CARD9	0.04	0.05	enet	6	0.06	5.9e-09	-8.32	9.9	3.0e-23	0.78	0.16	0.84	FALSE
70	The Cancer Genome Atlas	Testicular Germ Cell Tumors	INPP5E	0.10	0.06	blup	54	0.08	8.1e-04	8.40	-9.9	4.0e-23	-0.83	0.03	0.73	FALSE
27	GTEx	Ovary	INPP5E	0.24	0.13	enet	11	0.15	1.9e-04	9.40	-9.8	1.2e-22	-0.80	0.09	0.49	FALSE
62	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	SDCCAG3	0.05	0.01	blup	61	0.01	5.9e-02	8.13	-9.8	1.7e-22	-0.85	0.03	0.56	FALSE
43	GTEx	Uterus	INPP5E	0.60	0.04	enet	10	0.22	3.4e-05	9.53	-9.7	2.5e-22	-0.73	0.06	0.43	FALSE
56	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	INPP5E	0.25	0.10	lasso	3	0.09	4.9e-05	9.53	-9.6	8.2e-22	-0.70	0.26	0.31	FALSE
45	GTEx	Whole Blood	SDCCAG3	0.07	0.03	enet	6	0.02	3.4e-03	7.77	-9.6	8.5e-22	-0.83	0.02	0.98	FALSE
57	The Cancer Genome Atlas	Colon Adenocarcinoma	INPP5E	0.11	0.08	lasso	2	0.08	3.4e-05	9.53	-9.5	1.6e-21	-0.71	0.14	0.16	FALSE
71	The Cancer Genome Atlas	Thyroid Carcinoma	INPP5E	0.11	0.16	lasso	3	0.16	2.4e-15	9.45	-9.5	1.7e-21	-0.82	0.87	0.13	FALSE
11	GTEx	Brain Putamen basal ganglia	INPP5E	0.28	0.20	enet	6	0.01	2.2e-01	8.51	-9.5	2.2e-21	-0.80	0.12	0.64	FALSE
40	GTEx	Thyroid	INPP5E	0.23	0.35	enet	16	0.37	8.2e-30	8.55	-9.5	2.4e-21	-0.81	0.94	0.06	FALSE
2	CommonMind	Brain Pre-frontal Cortex	SNAPC4	0.06	0.04	lasso	2	0.05	9.0e-07	10.32	-9.2	2.5e-20	-0.86	0.81	0.16	FALSE
50	YFS	Blood	INPP5E	0.33	0.55	lasso	6	0.57	2.9e-235	9.53	-9.2	3.5e-20	-0.71	1.00	0.00	FALSE
8	GTEx	Brain Cerebellar Hemisphere	INPP5E	0.25	0.23	enet	6	0.17	3.4e-05	8.40	-9.2	4.2e-20	-0.76	0.30	0.56	FALSE
5	GTEx	Artery Tibial	SDCCAG3	0.05	0.00	lasso	4	0.00	2.2e-01	-8.32	-9.2	4.8e-20	-0.75	0.02	0.93	FALSE
59	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	INPP5E	0.03	0.01	blup	54	0.01	1.1e-02	9.45	-9.2	4.8e-20	-0.81	0.01	0.73	FALSE
14	GTEx	Cells Transformed fibroblasts	CARD9	0.10	0.01	enet	15	0.02	8.0e-03	-5.73	-9.2	5.3e-20	-0.56	0.06	0.84	FALSE
10	GTEx	Brain Cerebellum	INPP5E	0.40	0.30	enet	20	0.29	3.6e-09	8.35	-9.0	2.0e-19	-0.72	0.88	0.12	FALSE
41	GTEx	Thyroid	PMPCA	0.10	0.05	enet	11	0.10	8.7e-08	7.81	-9.0	2.8e-19	-0.57	0.33	0.65	FALSE
6	GTEx	Brain Caudate basal ganglia	INPP5E	0.23	0.20	enet	8	0.22	7.2e-07	8.35	-8.9	3.8e-19	-0.73	0.41	0.34	FALSE
1	CommonMind	Brain Pre-frontal Cortex	INPP5E	0.18	0.14	enet	21	0.21	1.6e-24	8.13	-8.9	5.8e-19	-0.66	1.00	0.00	FALSE
24	GTEx	Lung	CARD9	0.08	0.04	enet	6	0.04	2.5e-04	6.83	8.8	9.3e-19	0.88	0.01	0.99	FALSE
29	GTEx	Pancreas	SEC16A	0.28	0.10	enet	16	0.16	4.1e-07	7.86	-8.8	1.3e-18	-0.50	0.50	0.44	FALSE
22	GTEx	Lung	INPP5E	0.10	0.05	enet	13	0.04	6.1e-04	8.35	-8.8	1.9e-18	-0.72	0.61	0.21	FALSE
26	GTEx	Nerve Tibial	INPP5E	0.13	0.17	enet	10	0.14	3.7e-10	8.70	-8.8	2.0e-18	-0.65	1.00	0.00	FALSE
33	GTEx	Skin Sun Exposed Lower leg	INPP5E	0.10	0.10	lasso	2	0.09	5.2e-08	8.40	-8.7	2.3e-18	-0.72	0.95	0.05	FALSE
38	GTEx	Testis	INPP5E	0.24	0.32	enet	10	0.30	5.4e-14	8.70	-8.7	2.6e-18	-0.69	1.00	0.00	FALSE
51	YFS	Blood	PMPCA	0.03	0.01	lasso	5	0.02	2.7e-07	8.55	8.6	1.2e-17	0.79	0.08	0.92	FALSE
19	GTEx	Esophagus Mucosa	INPP5E	0.11	0.12	lasso	3	0.12	1.0e-08	8.40	-8.5	1.6e-17	-0.65	0.97	0.03	FALSE
39	GTEx	Testis	SDCCAG3	0.15	0.09	lasso	4	0.13	3.3e-06	6.56	-8.4	3.8e-17	-0.65	0.51	0.34	FALSE
64	The Cancer Genome Atlas	Brain Lower Grade Glioma	INPP5E	0.04	0.02	blup	54	0.03	4.4e-04	8.35	-8.3	8.6e-17	-0.67	0.22	0.36	FALSE
44	GTEx	Whole Blood	SEC16A	0.07	0.05	lasso	5	0.04	1.3e-04	7.86	-8.1	4.3e-16	-0.62	0.69	0.27	FALSE
37	GTEx	Stomach	SEC16A	0.15	0.09	lasso	4	0.10	1.8e-05	7.95	-8.1	5.2e-16	-0.60	0.62	0.28	FALSE
31	GTEx	Pituitary	INPP5E	0.21	0.24	lasso	3	0.14	1.8e-04	8.35	8.0	1.0e-15	0.60	0.14	0.51	FALSE
4	GTEx	Adrenal Gland	INPP5E	0.18	0.02	enet	23	0.10	2.2e-04	7.69	-8.0	1.1e-15	-0.63	0.16	0.33	FALSE
21	GTEx	Heart Atrial Appendage	INPP5E	0.13	0.12	lasso	2	0.10	3.5e-05	7.94	-8.0	1.9e-15	-0.61	0.24	0.26	FALSE
58	The Cancer Genome Atlas	Colon Adenocarcinoma	SDCCAG3	0.08	0.01	lasso	4	0.02	3.1e-02	5.45	-7.9	3.7e-15	-0.69	0.04	0.19	FALSE
67	The Cancer Genome Atlas	Prostate Adenocarcinoma	SDCCAG3	0.08	0.05	lasso	2	0.05	3.3e-06	5.45	-7.7	1.1e-14	-0.75	0.60	0.32	FALSE
68	The Cancer Genome Atlas	Prostate Adenocarcinoma	SEC16A	0.08	0.10	lasso	4	0.08	1.9e-08	7.48	-7.7	1.2e-14	-0.58	1.00	0.00	FALSE
60	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	SDCCAG3	0.04	0.05	enet	6	0.04	5.1e-05	5.45	-7.6	3.3e-14	-0.73	0.54	0.41	FALSE
12	GTEx	Cells EBV-transformed lymphocytes	INPP5E	0.27	0.05	enet	21	0.14	2.0e-05	8.40	-7.4	9.8e-14	-0.50	0.09	0.42	FALSE
13	GTEx	Cells Transformed fibroblasts	SDCCAG3	0.12	0.03	enet	21	0.06	5.4e-05	6.56	-7.2	4.8e-13	-0.71	0.79	0.20	FALSE
48	NTR	Blood	SNAPC4	0.02	0.01	lasso	5	0.02	6.3e-07	8.55	-7.1	9.2e-13	-0.67	0.21	0.77	FALSE
36	GTEx	Stomach	INPP5E	0.13	0.00	enet	27	0.00	2.0e-01	8.55	-7.0	3.3e-12	-0.43	0.05	0.23	FALSE
20	GTEx	Esophagus Muscularis	SDCCAG3	0.10	0.02	enet	5	0.02	3.6e-02	4.58	-7.0	3.4e-12	-0.46	0.22	0.19	FALSE
35	GTEx	Spleen	PMPCA	0.24	0.15	lasso	2	0.10	1.7e-03	7.30	7.0	3.4e-12	0.65	0.03	0.61	FALSE
69	The Cancer Genome Atlas	Rectum Adenocarcinoma	DNLZ	0.75	0.03	enet	20	0.22	7.0e-06	0.56	-6.9	7.0e-12	-0.42	0.00	0.11	FALSE
17	GTEx	Colon Transverse	SDCCAG3	0.11	0.01	lasso	8	0.02	5.5e-02	6.56	-6.7	1.7e-11	-0.58	0.18	0.27	FALSE
28	GTEx	Ovary	SEC16A	0.33	0.06	enet	10	0.14	3.4e-04	8.51	-6.7	2.7e-11	-0.64	0.04	0.44	FALSE
16	GTEx	Colon Transverse	SEC16A	0.13	0.04	lasso	4	0.05	2.5e-03	7.86	-6.5	5.9e-11	-0.49	0.14	0.17	FALSE
54	The Cancer Genome Atlas	Breast Invasive Carcinoma	SDCCAG3	0.05	0.01	blup	61	0.01	7.9e-04	7.95	-6.5	8.8e-11	-0.47	0.07	0.14	FALSE
42	GTEx	Thyroid	SDCCAG3	0.16	0.11	lasso	3	0.12	9.4e-10	6.56	-6.4	1.9e-10	-0.61	1.00	0.00	FALSE
3	GTEx	Adipose Subcutaneous	SDCCAG3	0.13	0.00	enet	21	0.04	4.8e-04	6.56	-6.3	2.5e-10	-0.38	0.20	0.07	FALSE
9	GTEx	Brain Cerebellar Hemisphere	GPSM1	0.26	0.07	lasso	4	0.11	9.6e-04	2.82	-6.3	3.5e-10	-0.53	0.08	0.45	FALSE
18	GTEx	Esophagus Gastroesophageal Junction	SEC16A	0.14	0.00	enet	12	0.02	5.1e-02	2.85	-6.1	9.6e-10	-0.37	0.14	0.07	FALSE
65	The Cancer Genome Atlas	Brain Lower Grade Glioma	SNAPC4	0.13	0.05	enet	7	0.06	1.7e-07	6.45	-6.1	1.0e-09	-0.66	0.77	0.09	FALSE
7	GTEx	Brain Caudate basal ganglia	SNHG7	0.37	0.10	lasso	6	0.27	2.5e-08	-0.23	6.0	2.5e-09	0.34	0.10	0.43	FALSE
23	GTEx	Lung	SEC16A	0.14	0.11	enet	23	0.10	2.5e-08	2.86	-5.8	8.1e-09	-0.42	1.00	0.00	FALSE
72	The Cancer Genome Atlas	Thyroid Carcinoma	SDCCAG3	0.16	0.14	lasso	4	0.12	8.2e-12	5.45	-5.6	2.6e-08	-0.57	1.00	0.00	FALSE
66	The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	SNAPC4	0.40	0.12	lasso	2	0.11	4.0e-05	3.95	-5.5	4.7e-08	-0.52	0.08	0.05	FALSE
53	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	SEC16A	0.12	0.02	enet	10	0.03	2.2e-03	-0.13	-5.4	7.7e-08	-0.30	0.06	0.07	FALSE
32	GTEx	Pituitary	SEC16A	0.37	0.07	lasso	8	0.11	9.1e-04	1.55	-5.3	9.8e-08	-0.38	0.13	0.08	FALSE
63	The Cancer Genome Atlas	Brain Lower Grade Glioma	GPSM1	0.06	0.01	enet	11	0.02	1.0e-03	8.62	-5.3	1.2e-07	-0.67	0.01	0.90	FALSE
30	GTEx	Pancreas	SDCCAG3	0.21	0.03	lasso	4	0.01	9.5e-02	5.45	-5.2	1.6e-07	-0.55	0.10	0.05	FALSE
52	YFS	Blood	SDCCAG3	0.14	0.11	bslmm	310	0.14	1.6e-44	6.62	-5.1	3.1e-07	-0.54	1.00	0.00	FALSE