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chr3:51,616,334-53,985,919

Best TWAS P=2.22e-10 · Best GWAS P=2.3e-10 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
42	GTEx	Thyroid	NT5DC2	0.20	0.13	lasso	3	0.13	4.0e-10	-6.2	-6.3	2.2e-10	0.97	0.01	0.99	TRUE
71	The Cancer Genome Atlas	Thyroid Carcinoma	NT5DC2	0.19	0.19	lasso	1	0.18	1.1e-17	-6.3	-6.3	2.3e-10	1.00	0.00	1.00	FALSE
24	GTEx	Colon Transverse	NT5DC2	0.12	0.18	lasso	12	0.17	1.6e-08	-6.2	-6.3	2.6e-10	0.97	0.02	0.98	FALSE
4	GTEx	Artery Aorta	NT5DC2	0.08	0.10	lasso	2	0.06	3.4e-04	-6.2	6.2	4.5e-10	-0.97	0.01	0.98	FALSE
16	GTEx	Cells EBV-transformed lymphocytes	NT5DC2	0.18	0.29	lasso	1	0.28	6.6e-10	-6.2	-6.2	5.4e-10	0.98	0.01	0.99	FALSE
39	GTEx	Testis	NT5DC2	0.11	0.16	enet	8	0.11	1.0e-05	-6.2	-6.1	8.7e-10	0.96	0.01	0.99	FALSE
10	GTEx	Brain Cerebellum	GNL3	0.14	0.07	enet	43	0.09	1.3e-03	5.0	-6.1	1.2e-09	0.81	0.18	0.73	FALSE
53	ROSMAP	Brain Pre-frontal Cortex	TMEM110	0.02	0.01	blup	321	0.02	9.7e-04	4.6	6.0	1.8e-09	-0.79	0.29	0.23	FALSE
47	METSIM	Adipose	ITIH4	0.35	0.24	bslmm	389	0.27	4.2e-41	4.8	6.0	1.9e-09	-0.50	0.94	0.06	FALSE
28	GTEx	Heart Atrial Appendage	NT5DC2	0.07	0.09	lasso	1	0.06	1.2e-03	-6.0	6.0	2.1e-09	-0.99	0.04	0.93	FALSE
18	GTEx	Cells Transformed fibroblasts	NEK4	0.07	0.11	lasso	5	0.08	7.2e-07	-6.0	-5.9	2.7e-09	0.94	0.04	0.96	FALSE
23	GTEx	Colon Sigmoid	NT5DC2	0.08	0.07	enet	8	0.06	4.5e-03	-6.3	-5.9	3.1e-09	0.96	0.02	0.93	FALSE
14	GTEx	Breast Mammary Tissue	NT5DC2	0.13	0.12	enet	11	0.08	9.9e-05	-5.3	-5.9	3.4e-09	0.84	0.07	0.91	FALSE
51	ROSMAP	Brain Pre-frontal Cortex	NEK4	0.04	0.05	blup	359	0.05	1.1e-06	-5.4	-5.9	3.5e-09	0.86	0.06	0.94	FALSE
66	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	LOC440957	0.04	0.02	blup	45	0.01	8.8e-02	-6.1	5.8	5.5e-09	-0.97	0.01	0.85	FALSE
61	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	ITIH4	0.04	0.02	blup	53	0.03	3.0e-04	4.9	5.8	5.6e-09	-0.75	0.03	0.90	FALSE
72	The Cancer Genome Atlas	Thyroid Carcinoma	PBRM1	0.15	0.14	enet	9	0.16	7.0e-15	-5.3	5.8	5.7e-09	-0.86	0.08	0.92	FALSE
54	YFS	Blood	GNL3	0.02	0.03	enet	11	0.03	2.9e-09	5.0	-5.8	6.3e-09	0.80	0.68	0.32	FALSE
1	CommonMind	Brain Pre-frontal Cortex	NEK4	0.07	0.11	enet	69	0.11	1.0e-13	5.0	-5.8	8.0e-09	0.81	0.54	0.46	FALSE
3	GTEx	Artery Aorta	GNL3	0.12	0.15	lasso	5	0.14	4.7e-08	5.0	-5.8	8.1e-09	0.72	0.37	0.63	FALSE
48	METSIM	Adipose	NT5DC2	0.27	0.13	enet	34	0.14	2.2e-20	-6.2	-5.7	1.0e-08	0.90	0.01	0.99	FALSE
8	GTEx	Artery Tibial	PBRM1	0.16	0.20	enet	35	0.21	4.8e-16	5.3	5.7	1.1e-08	-0.71	0.64	0.36	FALSE
55	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	ITIH4	0.04	0.03	blup	53	0.03	7.4e-04	4.8	5.7	1.4e-08	-0.72	0.04	0.81	FALSE
68	The Cancer Genome Atlas	Rectum Adenocarcinoma	ITIH4	0.12	0.09	blup	53	0.06	1.4e-02	4.9	5.7	1.5e-08	-0.77	0.02	0.68	FALSE
6	GTEx	Artery Coronary	TMEM110	0.17	0.05	lasso	8	0.07	3.1e-03	-4.0	5.6	1.6e-08	-0.61	0.18	0.27	FALSE
11	GTEx	Brain Frontal Cortex BA9	GNL3	0.14	0.15	enet	10	0.13	2.3e-04	-5.9	-5.6	2.5e-08	0.96	0.02	0.90	FALSE
34	GTEx	Skin Not Sun Exposed Suprapubic	NT5DC2	0.23	0.10	lasso	4	0.09	8.3e-06	5.8	-5.6	2.7e-08	0.77	0.05	0.95	FALSE
52	ROSMAP	Brain Pre-frontal Cortex	GNL3	0.15	0.23	enet	16	0.22	2.0e-28	-5.4	-5.5	2.9e-08	0.87	0.46	0.54	FALSE
5	GTEx	Artery Aorta	TMEM110	0.19	0.08	enet	16	0.10	6.0e-06	4.8	5.5	3.1e-08	-0.61	0.79	0.19	FALSE
30	GTEx	Lung	TMEM110	0.13	0.10	lasso	7	0.07	8.4e-06	4.7	5.5	3.7e-08	-0.52	0.96	0.04	FALSE
38	GTEx	Testis	GNL3	0.12	0.18	lasso	7	0.18	2.4e-08	5.3	-5.5	3.8e-08	0.72	0.61	0.38	FALSE
70	The Cancer Genome Atlas	Thyroid Carcinoma	NEK4	0.07	0.12	blup	69	0.12	6.3e-12	5.4	-5.5	3.9e-08	0.74	0.05	0.95	FALSE
25	GTEx	Esophagus Mucosa	NEK4	0.05	0.03	lasso	8	0.02	2.4e-02	-4.0	-5.5	4.1e-08	0.80	0.12	0.84	FALSE
49	METSIM	Adipose	PPM1M	0.08	0.08	enet	17	0.08	1.4e-12	5.0	-5.5	4.5e-08	0.69	0.90	0.10	FALSE
36	GTEx	Skin Sun Exposed Lower leg	NT5DC2	0.21	0.19	enet	12	0.18	2.0e-14	5.8	-5.5	5.0e-08	0.78	0.05	0.95	FALSE
31	GTEx	Muscle Skeletal	ITIH4-AS1	0.06	0.03	lasso	4	0.06	2.3e-06	4.2	5.4	5.2e-08	-0.73	0.50	0.50	FALSE
7	GTEx	Artery Tibial	GNL3	0.08	0.06	lasso	3	0.06	3.0e-05	-5.4	-5.4	5.4e-08	0.85	0.05	0.95	FALSE
27	GTEx	Esophagus Muscularis	GNL3	0.06	0.12	lasso	1	0.10	1.5e-06	-5.4	-5.4	5.5e-08	0.89	0.11	0.88	FALSE
50	NTR	Blood	WDR82	0.02	0.03	blup	325	0.03	4.9e-09	-4.0	5.4	5.5e-08	-0.81	0.26	0.74	FALSE
64	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	SPCS1	0.04	0.03	enet	1	0.03	2.9e-04	-5.4	5.4	5.5e-08	-0.89	0.01	0.72	FALSE
13	GTEx	Breast Mammary Tissue	NEK4	0.06	0.03	enet	7	0.06	7.8e-04	-6.2	-5.4	5.6e-08	0.75	0.03	0.87	FALSE
17	GTEx	Cells EBV-transformed lymphocytes	RP5-966M1.6	0.16	0.07	enet	19	0.11	1.8e-04	4.7	5.4	5.6e-08	-0.78	0.34	0.59	FALSE
9	GTEx	Brain Cerebellar Hemisphere	GNL3	0.13	0.19	enet	16	0.10	1.6e-03	5.1	-5.4	5.9e-08	0.82	0.28	0.61	FALSE
40	GTEx	Thyroid	NEK4	0.09	0.09	lasso	4	0.10	4.1e-08	5.1	-5.4	6.7e-08	0.80	0.66	0.34	FALSE
32	GTEx	Nerve Tibial	NEK4	0.06	0.06	enet	8	0.06	2.2e-05	5.4	-5.4	7.4e-08	0.73	0.43	0.56	FALSE
45	GTEx	Whole Blood	ITIH4-AS1	0.33	0.24	lasso	7	0.25	9.7e-23	4.8	5.4	7.4e-08	-0.53	0.94	0.06	FALSE
33	GTEx	Pituitary	SFMBT1	0.16	0.01	enet	9	0.02	1.2e-01	5.0	5.3	9.2e-08	-0.68	0.17	0.27	FALSE
58	The Cancer Genome Atlas	Colon Adenocarcinoma	NT5DC2	0.04	0.02	blup	50	0.03	9.7e-03	5.5	-5.3	1.0e-07	0.75	0.03	0.50	FALSE
29	GTEx	Lung	GNL3	0.05	0.03	lasso	6	0.03	3.0e-03	5.3	-5.3	1.1e-07	0.65	0.43	0.41	FALSE
37	GTEx	Small Intestine Terminal Ileum	RP5-966M1.6	0.14	0.03	lasso	7	0.00	2.5e-01	5.1	5.3	1.1e-07	-0.67	0.08	0.24	FALSE
43	GTEx	Whole Blood	SPCS1	0.03	0.02	lasso	3	0.02	4.6e-03	5.2	5.3	1.1e-07	-0.65	0.26	0.65	FALSE
44	GTEx	Whole Blood	TMEM110	0.15	0.08	lasso	7	0.07	5.7e-07	4.7	5.3	1.1e-07	-0.53	0.96	0.04	FALSE
46	METSIM	Adipose	GNL3	0.04	0.06	enet	25	0.05	4.5e-08	5.1	-5.3	1.2e-07	0.81	0.56	0.44	FALSE
15	GTEx	Breast Mammary Tissue (Female)	NT5DC2	0.09	0.08	lasso	1	0.06	5.9e-03	-5.3	-5.3	1.4e-07	0.82	0.04	0.48	FALSE
19	GTEx	Cells Transformed fibroblasts	GNL3	0.10	0.12	lasso	8	0.10	3.0e-08	5.3	-5.3	1.4e-07	0.73	0.63	0.36	FALSE
22	GTEx	Colon Sigmoid	GNL3	0.08	0.04	lasso	5	0.04	1.8e-02	5.3	-5.3	1.4e-07	0.73	0.18	0.22	FALSE
60	The Cancer Genome Atlas	Glioblastoma Multiforme	ITIH4	0.10	0.02	blup	53	0.05	1.2e-02	4.8	5.3	1.5e-07	-0.61	0.03	0.34	FALSE
26	GTEx	Esophagus Mucosa	TKT	0.07	0.02	enet	12	0.02	2.1e-02	-3.6	-5.2	1.6e-07	0.43	0.17	0.46	FALSE
57	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	NEK4	0.07	0.01	blup	69	0.04	5.8e-03	5.0	-5.2	1.6e-07	0.74	0.04	0.63	FALSE
65	The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	ITIH4	0.05	0.02	blup	53	0.02	1.1e-02	4.8	5.2	1.6e-07	-0.65	0.05	0.51	FALSE
2	GTEx	Adipose Subcutaneous	NEK4	0.04	0.01	lasso	3	0.00	1.2e-01	5.3	-5.2	1.9e-07	0.73	0.39	0.42	FALSE
56	The Cancer Genome Atlas	Breast Invasive Carcinoma	SPCS1	0.08	0.04	lasso	2	0.04	4.7e-08	-5.4	5.2	1.9e-07	-0.88	0.01	0.99	FALSE
35	GTEx	Skin Sun Exposed Lower leg	NEK4	0.06	0.12	lasso	3	0.10	2.2e-08	5.1	-5.2	2.2e-07	0.73	0.57	0.42	FALSE
67	The Cancer Genome Atlas	Prostate Adenocarcinoma	GNL3	0.04	0.05	lasso	12	0.05	9.0e-06	5.2	-5.2	2.3e-07	0.72	0.04	0.95	FALSE
41	GTEx	Thyroid	PBRM1	0.19	0.33	lasso	7	0.31	2.7e-24	5.0	5.2	2.4e-07	-0.72	0.69	0.31	FALSE
63	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	NEK4	0.06	0.09	lasso	3	0.08	1.1e-09	5.1	-5.2	2.4e-07	0.72	0.07	0.93	FALSE
20	GTEx	Cells Transformed fibroblasts	WDR82	0.05	0.02	lasso	5	0.02	1.8e-02	4.7	5.1	2.7e-07	-0.66	0.25	0.37	FALSE
62	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	GNL3	0.03	0.03	enet	6	0.04	3.6e-05	5.3	-5.1	2.8e-07	0.68	0.03	0.96	FALSE
69	The Cancer Genome Atlas	Thyroid Carcinoma	GNL3	0.03	0.03	blup	47	0.03	3.3e-04	5.1	-5.1	2.8e-07	0.73	0.04	0.95	FALSE
59	The Cancer Genome Atlas	Glioblastoma Multiforme	GNL3	0.17	0.06	blup	47	0.06	9.0e-03	5.0	-5.1	2.9e-07	0.59	0.03	0.82	FALSE
12	GTEx	Brain Hippocampus	GLYCTK-AS1	0.17	0.25	lasso	6	0.15	1.9e-04	5.0	-5.1	3.1e-07	0.67	0.26	0.48	FALSE
21	GTEx	Cells Transformed fibroblasts	NT5DC2	0.30	0.17	enet	23	0.18	1.3e-13	-6.2	-5.1	3.1e-07	0.89	0.00	1.00	FALSE