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chr20:46,551,079-50,188,292

Best TWAS P=3.6e-43 · Best GWAS P=3.4e-42 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
25	METSIM	Adipose	ARFGEF2	0.04	0.03	lasso	12	0.02	9.8e-05	13.6	-13.8	3.6e-43	-0.98	0.02	0.98	TRUE
28	NTR	Blood	NCRNA00275	0.07	0.06	lasso	4	0.08	9.7e-25	-5.9	-10.5	5.6e-26	-0.53	1.00	0.00	TRUE
35	The Cancer Genome Atlas	Colon Adenocarcinoma	SNAI1	0.09	0.10	lasso	5	0.06	3.1e-04	-7.6	7.6	2.2e-14	-0.03	0.20	0.56	TRUE
24	GTEx	Whole Blood	ZFAS1	0.07	0.06	lasso	4	0.05	1.3e-05	-7.2	-7.3	2.5e-13	-0.20	1.00	0.00	TRUE
32	YFS	Blood	PTPN1	0.37	0.30	enet	21	0.30	1.1e-101	5.8	-6.8	1.2e-11	0.00	0.99	0.01	TRUE
13	GTEx	Esophagus Gastroesophageal Junction	CSE1L	0.17	0.07	lasso	5	0.07	1.6e-03	-4.4	-6.5	9.5e-11	-0.49	0.29	0.27	TRUE
3	CommonMind	Brain Pre-frontal Cortex	STAU1	0.09	0.00	bslmm	500	0.01	8.7e-03	-3.6	-5.3	1.0e-07	-0.30	0.26	0.06	TRUE
27	METSIM	Adipose	RP11-290F20.3	0.04	0.03	enet	13	0.02	1.1e-04	4.4	5.2	2.0e-07	0.05	0.66	0.18	TRUE
29	NTR	Blood	SNORD12B	0.03	0.05	lasso	8	0.05	1.9e-14	13.3	-13.7	1.2e-42	-0.96	0.02	0.98	FALSE
38	The Cancer Genome Atlas	Brain Lower Grade Glioma	ARFGEF2	0.05	0.04	lasso	5	0.05	3.2e-06	13.3	-13.6	4.4e-42	-0.94	0.00	1.00	FALSE
41	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	C20orf199	0.05	0.06	lasso	4	0.06	1.0e-04	13.4	13.4	9.3e-41	0.92	0.00	0.96	FALSE
1	CommonMind	Brain Pre-frontal Cortex	ARFGEF2	0.09	0.05	lasso	8	0.10	9.2e-13	13.3	-13.0	8.1e-39	-0.82	0.01	0.99	FALSE
23	GTEx	Testis	ARFGEF2	0.20	0.20	lasso	7	0.24	5.4e-11	10.9	-12.8	2.3e-37	-0.91	0.02	0.98	FALSE
7	GTEx	Cells Transformed fibroblasts	STAU1	0.08	0.03	lasso	6	0.02	2.3e-02	10.9	12.1	9.3e-34	0.85	0.03	0.91	FALSE
10	GTEx	Colon Sigmoid	CSE1L	0.18	0.12	lasso	11	0.09	4.4e-04	11.7	-11.9	1.3e-32	-0.80	0.10	0.86	FALSE
21	GTEx	Skin Sun Exposed Lower leg	CSE1L	0.08	0.03	lasso	2	0.03	9.5e-04	12.2	-11.6	3.0e-31	-0.81	0.47	0.16	FALSE
44	The Cancer Genome Atlas	Thyroid Carcinoma	DDX27	0.08	0.05	lasso	3	0.05	1.9e-05	13.3	11.6	7.1e-31	0.85	0.02	0.96	FALSE
37	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	CSE1L	0.05	0.07	blup	50	0.07	3.2e-08	11.6	-11.4	7.0e-30	-0.80	0.42	0.58	FALSE
14	GTEx	Esophagus Mucosa	CSE1L	0.09	0.06	lasso	4	0.06	6.9e-05	12.0	-11.1	8.1e-29	-0.80	0.18	0.77	FALSE
36	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	CSE1L	0.03	0.05	lasso	1	0.03	9.3e-05	10.9	-10.9	1.3e-27	-0.75	0.28	0.64	FALSE
17	GTEx	Lung	CSE1L	0.10	0.09	lasso	5	0.08	6.6e-07	10.9	-10.8	2.3e-27	-0.73	0.65	0.34	FALSE
30	ROSMAP	Brain Pre-frontal Cortex	CSE1L	0.04	0.02	enet	16	0.02	2.8e-03	9.4	-10.5	7.5e-26	-0.72	0.10	0.89	FALSE
22	GTEx	Skin Sun Exposed Lower leg	ZFAS1	0.07	0.03	enet	14	0.05	5.8e-05	13.3	10.1	6.6e-24	0.77	0.03	0.96	FALSE
42	The Cancer Genome Atlas	Testicular Germ Cell Tumors	CSE1L	0.13	0.03	blup	50	0.07	1.4e-03	10.9	-10.0	1.5e-23	-0.60	0.03	0.27	FALSE
11	GTEx	Colon Transverse	ARFGEF2	0.11	0.07	enet	12	0.09	2.9e-05	-4.5	-9.7	2.6e-22	-0.78	0.18	0.74	FALSE
9	GTEx	Colon Sigmoid	ARFGEF2	0.15	0.12	lasso	1	0.07	2.3e-03	9.4	-9.4	7.5e-21	-0.60	0.06	0.60	FALSE
31	YFS	Blood	CSE1L	0.06	0.05	enet	21	0.06	2.0e-19	-4.6	-9.0	2.2e-19	-0.60	1.00	0.00	FALSE
15	GTEx	Esophagus Mucosa	ZFAS1	0.15	0.01	enet	16	0.01	8.9e-02	13.3	8.9	5.4e-19	0.69	0.03	0.90	FALSE
40	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	C20orf199	0.04	0.00	enet	8	0.02	6.4e-03	5.4	8.6	9.2e-18	0.62	0.01	0.50	FALSE
2	CommonMind	Brain Pre-frontal Cortex	CSE1L	0.08	0.07	bslmm	503	0.05	1.7e-06	-4.7	-8.6	1.0e-17	-0.58	0.92	0.08	FALSE
20	GTEx	Skin Not Sun Exposed Suprapubic	ZFAS1	0.16	0.04	enet	19	0.07	1.0e-04	8.6	8.5	1.8e-17	0.69	0.05	0.89	FALSE
34	The Cancer Genome Atlas	Breast Invasive Carcinoma	STAU1	0.01	0.01	blup	54	0.01	6.1e-03	-7.2	-8.5	2.4e-17	-0.46	0.03	0.13	FALSE
18	GTEx	Muscle Skeletal	PREX1	0.14	0.09	enet	23	0.13	2.5e-12	10.3	8.2	1.6e-16	0.51	0.85	0.15	FALSE
4	GTEx	Artery Tibial	CSE1L	0.12	0.03	lasso	6	0.04	3.8e-04	-4.5	-8.2	1.8e-16	-0.68	0.32	0.66	FALSE
43	The Cancer Genome Atlas	Thyroid Carcinoma	ARFGEF2	0.06	0.01	blup	79	0.03	4.2e-04	-5.9	-8.1	5.8e-16	-0.42	0.75	0.05	FALSE
12	GTEx	Colon Transverse	CSE1L	0.17	0.01	enet	19	0.03	1.2e-02	5.0	-7.3	2.7e-13	-0.49	0.18	0.22	FALSE
8	GTEx	Cells Transformed fibroblasts	ZFAS1	0.06	0.05	enet	5	0.03	2.6e-03	-7.2	7.2	6.6e-13	0.29	0.40	0.28	FALSE
33	YFS	Blood	ZNFX1	0.06	0.05	lasso	3	0.05	1.4e-16	5.4	-7.1	1.0e-12	-0.55	1.00	0.00	FALSE
26	METSIM	Adipose	CSE1L	0.05	0.05	lasso	4	0.04	5.3e-07	-4.5	-6.7	2.9e-11	-0.58	0.91	0.09	FALSE
5	GTEx	Brain Nucleus accumbens basal ganglia	BCAS4	0.33	0.01	lasso	7	0.00	4.6e-01	5.8	-6.4	1.2e-10	-0.01	0.06	0.12	FALSE
39	The Cancer Genome Atlas	Brain Lower Grade Glioma	SLC9A8	0.07	0.02	blup	82	0.02	8.6e-04	-6.8	5.8	5.7e-09	-0.01	0.01	0.97	FALSE
19	GTEx	Nerve Tibial	CSE1L	0.12	0.01	lasso	10	0.03	5.7e-03	-4.6	-5.4	5.2e-08	-0.48	0.20	0.21	FALSE
16	GTEx	Esophagus Muscularis	CSE1L	0.16	0.14	enet	22	0.12	5.1e-08	-4.5	-5.4	6.5e-08	-0.44	0.97	0.03	FALSE
45	The Cancer Genome Atlas	Thyroid Carcinoma	SLC9A8	0.21	0.12	blup	83	0.13	5.7e-13	-3.0	5.3	9.5e-08	-0.03	0.25	0.75	FALSE
6	GTEx	Brain Nucleus accumbens basal ganglia	SLC9A8	0.42	0.09	lasso	7	0.08	3.8e-03	-5.9	5.3	1.2e-07	-0.06	0.07	0.11	FALSE