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chr19:43,298,356-48,717,332

Best TWAS P=4.4e-21 · Best GWAS P=9.81e-22 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	Muscle Skeletal	SMG9	0.13	0.10	enet	8	0.10	1.1e-09	9.32	9.4	4.4e-21	0.97	0.02	0.98	TRUE
6	GTEx	Cells EBV-transformed lymphocytes	SAE1	0.21	0.09	lasso	3	0.07	2.0e-03	6.81	8.0	1.6e-15	0.06	0.14	0.19	TRUE
42	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	CKM	0.06	0.03	blup	39	0.06	5.2e-07	4.39	-7.5	8.2e-14	-0.02	0.04	0.96	TRUE
36	The Cancer Genome Atlas	Breast Invasive Carcinoma	TMEM160	0.04	0.00	blup	26	0.01	2.3e-03	0.28	6.9	4.0e-12	0.01	0.00	0.24	TRUE
4	GTEx	Artery Tibial	SNRPD2	0.11	0.01	enet	31	0.02	8.3e-03	4.86	6.9	5.6e-12	0.00	0.06	0.05	TRUE
22	GTEx	Thyroid	CCDC9	0.22	0.09	lasso	4	0.16	3.6e-12	3.92	-5.8	8.0e-09	-0.04	0.98	0.00	TRUE
44	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	BLOC1S3	0.10	0.06	lasso	4	0.03	1.1e-02	-4.24	-5.6	1.7e-08	-0.02	0.01	0.48	TRUE
18	GTEx	Spleen	PPP5C	0.33	0.44	lasso	1	0.43	1.8e-12	-5.54	5.5	2.9e-08	-0.10	0.00	1.00	TRUE
32	The Cancer Genome Atlas	Breast Invasive Carcinoma	CALM3	0.08	0.04	blup	49	0.05	4.8e-10	5.43	-5.3	1.2e-07	0.04	0.00	1.00	TRUE
19	GTEx	Testis	SMG9	0.34	0.26	enet	8	0.26	4.0e-12	9.36	-9.4	4.5e-21	-0.96	0.02	0.98	FALSE
7	GTEx	Cells Transformed fibroblasts	SMG9	0.33	0.26	lasso	6	0.29	1.2e-21	9.28	9.4	5.8e-21	0.96	0.03	0.97	FALSE
39	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	C19orf61	0.04	0.04	blup	62	0.04	7.9e-06	9.38	9.4	7.8e-21	0.88	0.01	0.99	FALSE
41	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	C19orf61	0.06	0.06	lasso	4	0.05	9.3e-07	9.32	9.3	1.6e-20	0.96	0.02	0.98	FALSE
54	The Cancer Genome Atlas	Thyroid Carcinoma	C19orf61	0.07	0.10	lasso	3	0.09	6.1e-09	9.23	9.2	2.2e-20	0.96	0.02	0.98	FALSE
31	The Cancer Genome Atlas	Breast Invasive Carcinoma	C19orf61	0.02	0.02	enet	5	0.02	1.3e-04	9.34	9.2	2.3e-20	0.94	0.01	0.97	FALSE
51	The Cancer Genome Atlas	Prostate Adenocarcinoma	C19orf61	0.06	0.06	lasso	3	0.05	9.0e-06	9.34	9.2	5.4e-20	0.96	0.01	0.99	FALSE
12	GTEx	Lung	SMG9	0.18	0.07	lasso	9	0.05	1.6e-04	9.34	8.2	1.9e-16	0.88	0.02	0.98	FALSE
14	GTEx	Nerve Tibial	SMG9	0.14	0.03	lasso	3	0.08	2.0e-06	9.32	7.8	7.1e-15	0.74	0.02	0.96	FALSE
46	The Cancer Genome Atlas	Brain Lower Grade Glioma	C19orf61	0.04	0.01	blup	62	0.02	3.8e-03	9.32	7.0	1.8e-12	0.78	0.02	0.88	FALSE
38	The Cancer Genome Atlas	Colon Adenocarcinoma	CKM	0.11	0.08	blup	38	0.07	1.1e-04	6.37	-7.0	2.0e-12	-0.01	0.02	0.95	FALSE
48	The Cancer Genome Atlas	Lung Adenocarcinoma	CKM	0.06	0.02	blup	38	0.04	9.1e-06	6.53	-7.0	3.2e-12	-0.01	0.02	0.97	FALSE
5	GTEx	Breast Mammary Tissue (Female)	PHLDB3	0.05	-0.01	lasso	2	-0.01	5.6e-01	-2.36	6.9	5.8e-12	0.65	0.02	0.37	FALSE
49	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	C19orf61	0.08	0.01	blup	62	0.05	1.3e-06	9.38	6.9	5.9e-12	0.70	0.01	0.92	FALSE
30	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	C19orf61	0.10	0.01	blup	62	0.05	3.5e-05	6.74	6.8	9.8e-12	0.53	0.01	0.81	FALSE
27	METSIM	Adipose	SAE1	0.12	0.04	lasso	5	0.07	1.7e-10	7.40	6.8	1.0e-11	0.07	0.89	0.11	FALSE
47	The Cancer Genome Atlas	Brain Lower Grade Glioma	CKM	0.05	0.04	blup	38	0.06	2.1e-07	6.64	-6.7	1.7e-11	0.00	0.01	0.98	FALSE
33	The Cancer Genome Atlas	Breast Invasive Carcinoma	CKM	0.03	0.03	lasso	2	0.03	2.1e-06	6.53	-6.7	2.3e-11	0.02	0.02	0.98	FALSE
24	GTEx	Whole Blood	PPM1N	0.06	0.00	enet	24	0.03	5.2e-04	2.23	6.5	8.3e-11	0.00	0.11	0.22	FALSE
52	The Cancer Genome Atlas	Prostate Adenocarcinoma	CKM	0.03	0.01	blup	38	0.02	3.3e-03	6.64	-6.4	1.2e-10	0.00	0.02	0.74	FALSE
3	GTEx	Artery Aorta	RP11-15A1.7	0.14	0.01	enet	27	0.01	6.8e-02	3.98	-6.2	4.6e-10	-0.47	0.07	0.45	FALSE
17	GTEx	Skin Sun Exposed Lower leg	DMWD	0.10	0.07	lasso	4	0.07	4.1e-06	-5.42	-6.1	8.1e-10	0.07	0.81	0.06	FALSE
9	GTEx	Esophagus Gastroesophageal Junction	ZNF224	0.28	0.00	enet	13	0.02	7.8e-02	-2.68	-6.0	2.5e-09	-0.45	0.04	0.33	FALSE
34	The Cancer Genome Atlas	Breast Invasive Carcinoma	MARK4	0.03	0.01	lasso	2	0.03	2.0e-06	5.61	-5.9	2.9e-09	-0.01	0.51	0.04	FALSE
29	YFS	Blood	DMWD	0.06	0.04	enet	19	0.05	3.8e-15	-5.22	-5.9	3.4e-09	0.03	0.95	0.05	FALSE
43	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	DMPK	0.06	0.00	blup	39	0.03	6.7e-04	5.82	-5.9	3.7e-09	0.06	0.01	0.67	FALSE
20	GTEx	Testis	SYMPK	0.22	0.21	lasso	1	0.20	2.9e-09	5.82	5.8	5.7e-09	-0.02	0.17	0.82	FALSE
50	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	CKM	0.10	0.02	blup	39	0.07	3.1e-05	5.64	-5.8	5.9e-09	-0.04	0.03	0.57	FALSE
53	The Cancer Genome Atlas	Prostate Adenocarcinoma	SYMPK	0.09	0.06	lasso	3	0.05	8.7e-06	5.82	-5.7	1.0e-08	0.01	0.00	1.00	FALSE
28	METSIM	Adipose	SYMPK	0.05	0.03	lasso	3	0.01	2.9e-03	5.58	-5.7	1.3e-08	0.01	0.42	0.56	FALSE
23	GTEx	Whole Blood	DMPK	0.07	0.04	lasso	5	0.02	2.2e-03	-5.37	-5.7	1.6e-08	0.07	0.52	0.07	FALSE
8	GTEx	Esophagus Gastroesophageal Junction	AC084219.4	0.28	0.00	enet	16	0.04	1.4e-02	-2.68	-5.6	1.7e-08	-0.45	0.05	0.36	FALSE
10	GTEx	Esophagus Mucosa	ERCC2	0.10	0.07	lasso	1	0.07	2.8e-05	5.64	-5.6	1.7e-08	-0.03	0.61	0.02	FALSE
37	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	CKM	0.13	0.00	blup	38	0.05	2.2e-03	-3.85	-5.6	1.8e-08	-0.02	0.01	0.37	FALSE
11	GTEx	Esophagus Muscularis	SMG9	0.15	0.00	enet	19	0.05	4.6e-04	9.38	5.5	3.1e-08	0.63	0.04	0.90	FALSE
55	The Cancer Genome Atlas	Thyroid Carcinoma	CKM	0.08	0.07	blup	38	0.09	1.2e-08	6.37	-5.5	3.5e-08	-0.02	0.08	0.92	FALSE
45	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	CKM	0.07	0.04	blup	38	0.04	3.9e-03	5.64	-5.5	4.4e-08	-0.03	0.03	0.45	FALSE
35	The Cancer Genome Atlas	Breast Invasive Carcinoma	SYMPK	0.03	0.02	lasso	2	0.02	3.5e-05	-4.20	-5.5	4.8e-08	-0.03	0.03	0.73	FALSE
25	GTEx	Whole Blood	AC074212.6	0.07	0.04	lasso	3	0.02	4.2e-03	-5.37	-5.5	4.9e-08	0.06	0.47	0.12	FALSE
21	GTEx	Testis	DMWD	0.19	0.15	lasso	3	0.13	2.7e-06	-5.37	-5.4	5.8e-08	0.06	0.72	0.08	FALSE
56	The Cancer Genome Atlas	Thyroid Carcinoma	KLC3	0.06	0.05	enet	7	0.03	2.8e-04	-3.27	5.4	7.1e-08	0.00	0.23	0.35	FALSE
16	GTEx	Skin Sun Exposed Lower leg	DMPK	0.13	0.08	lasso	3	0.07	2.5e-06	-5.42	-5.4	7.2e-08	0.06	0.93	0.06	FALSE
40	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	SYMPK	0.07	0.04	lasso	2	0.03	9.4e-05	5.55	-5.4	7.6e-08	0.04	0.00	0.99	FALSE
1	CommonMind	Brain Pre-frontal Cortex	KLC3	0.21	0.12	enet	9	0.22	1.1e-26	5.61	5.3	1.0e-07	0.01	1.00	0.00	FALSE
26	METSIM	Adipose	PPP5C	0.23	0.18	lasso	8	0.18	3.8e-26	-5.54	5.3	1.3e-07	-0.10	0.00	1.00	FALSE
15	GTEx	Nerve Tibial	SYMPK	0.15	0.05	enet	21	0.08	1.8e-06	4.96	-5.3	1.4e-07	-0.01	0.51	0.41	FALSE
2	CommonMind	Brain Pre-frontal Cortex	NAPA	0.06	0.00	bslmm	381	0.01	7.2e-03	-1.01	5.1	2.9e-07	-0.01	0.06	0.04	FALSE