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chr2:134,513,621-137,435,625

Best TWAS P=1.66e-24 · Best GWAS P=6.72e-23 conditioned to 0.045

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
23	GTEx	Testis	AC016725.4	0.18	0.09	lasso	6	0.09	6.3e-05	9.8	-10.2	1.7e-24	-0.87	0.03	0.97	TRUE
2	CommonMind	Brain Pre-frontal Cortex	LOC100129961	0.17	0.14	enet	9	0.14	2.6e-17	9.8	9.6	6.8e-22	0.82	0.01	0.99	FALSE
12	GTEx	Esophagus Muscularis	TMEM163	0.09	0.05	lasso	6	0.05	4.8e-04	-7.9	9.6	1.0e-21	0.73	0.09	0.89	FALSE
27	GTEx	Whole Blood	TMEM163	0.11	0.06	lasso	7	0.06	5.0e-06	-7.9	9.4	7.9e-21	0.72	0.31	0.66	FALSE
28	NTR	Blood	CCNT2	0.01	0.00	blup	370	0.00	6.7e-02	-6.8	-9.3	1.1e-20	-0.70	0.10	0.61	FALSE
42	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	ACMSD	0.04	0.01	blup	46	0.02	2.2e-03	-6.8	-8.8	1.7e-18	-0.79	0.02	0.86	FALSE
53	The Cancer Genome Atlas	Prostate Adenocarcinoma	TMEM163	0.07	0.07	enet	8	0.07	2.3e-07	8.7	8.8	2.0e-18	0.77	0.00	1.00	FALSE
35	The Cancer Genome Atlas	Bladder Urothelial Carcinoma	TMEM163	0.03	0.02	blup	195	0.01	2.9e-02	-8.1	8.6	6.4e-18	0.69	0.02	0.92	FALSE
22	GTEx	Testis	TMEM163	0.29	0.18	lasso	6	0.24	4.5e-11	7.1	-8.5	1.4e-17	-0.67	0.96	0.04	FALSE
32	YFS	Blood	CCNT2	0.01	0.01	blup	363	0.01	6.3e-05	-6.1	-8.5	1.6e-17	-0.77	0.42	0.41	FALSE
46	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	TMEM163	0.33	0.36	enet	18	0.37	4.7e-22	-8.1	8.5	1.8e-17	0.66	0.12	0.88	FALSE
31	ROSMAP	Brain Pre-frontal Cortex	TMEM163	0.19	0.16	lasso	14	0.23	6.2e-29	-5.0	8.4	5.8e-17	0.69	0.98	0.02	FALSE
37	The Cancer Genome Atlas	Breast Invasive Carcinoma	TMEM163	0.06	0.09	lasso	7	0.08	1.6e-16	-8.1	8.4	6.3e-17	0.70	0.12	0.88	FALSE
18	GTEx	Prostate	AC016725.4	0.27	0.03	enet	23	0.13	4.6e-04	9.3	8.4	6.4e-17	0.72	0.04	0.88	FALSE
48	The Cancer Genome Atlas	Lung Adenocarcinoma	TMEM163	0.06	0.01	blup	191	0.04	2.6e-05	-5.4	8.3	8.2e-17	0.63	0.03	0.97	FALSE
38	The Cancer Genome Atlas	Colon Adenocarcinoma	TMEM163	0.08	0.02	blup	192	0.01	8.9e-02	-8.1	8.3	1.0e-16	0.57	0.07	0.36	FALSE
13	GTEx	Heart Atrial Appendage	TMEM163	0.31	0.10	lasso	6	0.03	1.8e-02	-7.9	8.2	2.0e-16	0.50	0.38	0.03	FALSE
17	GTEx	Pituitary	TMEM163	0.37	0.39	lasso	5	0.38	1.9e-10	8.0	8.2	2.5e-16	0.65	0.90	0.06	FALSE
30	ROSMAP	Brain Pre-frontal Cortex	CCNT2	0.06	0.03	enet	27	0.05	1.6e-06	-6.1	-8.0	8.3e-16	-0.80	0.38	0.61	FALSE
50	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	TMEM163	0.04	0.00	blup	190	0.02	6.1e-03	-8.0	8.0	9.4e-16	0.65	0.07	0.90	FALSE
9	GTEx	Cells EBV-transformed lymphocytes	AC016725.4	0.35	0.02	lasso	14	0.03	4.7e-02	-1.8	7.7	1.7e-14	0.69	0.07	0.16	FALSE
56	The Cancer Genome Atlas	Thyroid Carcinoma	TMEM163	0.14	0.14	lasso	8	0.18	2.4e-17	-8.1	7.7	1.8e-14	0.65	0.13	0.87	FALSE
45	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	TMEM163	0.17	0.21	lasso	5	0.20	1.6e-22	-8.1	7.5	7.9e-14	0.67	0.12	0.88	FALSE
41	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	TMEM163	0.06	0.04	lasso	8	0.05	8.4e-07	-8.1	7.4	1.1e-13	0.65	0.16	0.84	FALSE
16	GTEx	Nerve Tibial	AC016725.4	0.15	0.06	lasso	6	0.02	8.1e-03	-6.8	7.2	8.1e-13	0.63	0.67	0.27	FALSE
47	The Cancer Genome Atlas	Liver Hepatocellular Carcinoma	TMEM163	0.09	0.06	enet	8	0.08	9.0e-05	-3.5	7.0	3.5e-12	0.66	0.01	0.97	FALSE
25	GTEx	Thyroid	CCNT2	0.09	0.10	lasso	2	0.09	1.8e-07	-6.8	-6.8	1.0e-11	-0.59	0.97	0.01	FALSE
6	GTEx	Brain Cerebellar Hemisphere	AC016725.4	0.27	0.18	lasso	4	0.24	8.3e-07	-6.8	6.8	1.1e-11	0.60	0.20	0.55	FALSE
3	CommonMind	Brain Pre-frontal Cortex	TMEM163	0.05	0.02	lasso	7	0.01	5.9e-03	-3.1	6.8	1.2e-11	0.63	0.29	0.15	FALSE
21	GTEx	Testis	CCNT2	0.31	0.26	lasso	6	0.26	9.3e-12	-6.7	-6.6	3.2e-11	-0.55	1.00	0.00	FALSE
24	GTEx	Thyroid	MCM6	0.06	0.01	lasso	3	0.02	4.9e-03	-4.3	-6.3	3.6e-10	-0.48	0.13	0.44	FALSE
4	GTEx	Adipose Subcutaneous	DARS	0.08	0.01	lasso	6	0.01	6.8e-02	-5.8	-6.2	5.8e-10	-0.53	0.03	0.76	FALSE
29	NTR	Blood	MCM6	0.02	0.02	lasso	2	0.03	1.2e-08	-5.4	-6.1	9.1e-10	-0.59	0.02	0.98	FALSE
33	YFS	Blood	DARS	0.17	0.19	enet	36	0.19	8.2e-60	-5.9	-6.1	1.0e-09	-0.47	0.00	1.00	FALSE
5	GTEx	Artery Aorta	CCNT2	0.12	0.12	lasso	3	0.11	1.9e-06	-6.1	-6.1	1.2e-09	-0.62	0.43	0.46	FALSE
1	CommonMind	Brain Pre-frontal Cortex	CCNT2	0.12	0.11	lasso	2	0.10	9.8e-13	-6.1	-6.0	1.6e-09	-0.62	1.00	0.00	FALSE
44	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	LCT	0.04	0.02	blup	36	0.02	1.9e-03	-5.4	6.0	1.6e-09	0.63	0.02	0.92	FALSE
54	The Cancer Genome Atlas	Soft Tissue Sarcoma	DARS	0.04	0.04	blup	40	0.04	1.6e-03	-5.5	-5.9	2.9e-09	-0.52	0.02	0.93	FALSE
36	The Cancer Genome Atlas	Breast Invasive Carcinoma	LCT	0.02	0.02	enet	3	0.03	7.6e-07	-5.6	5.9	3.1e-09	0.58	0.02	0.98	FALSE
52	The Cancer Genome Atlas	Prostate Adenocarcinoma	DARS	0.04	0.02	blup	40	0.01	2.1e-02	-5.3	-5.8	7.6e-09	-0.50	0.02	0.93	FALSE
7	GTEx	Brain Cerebellum	TMEM163	0.44	0.13	enet	22	0.28	5.0e-09	-4.3	5.7	9.2e-09	0.45	0.28	0.17	FALSE
26	GTEx	Thyroid	DARS	0.20	0.13	lasso	3	0.15	1.3e-11	-5.3	-5.7	1.5e-08	-0.47	0.06	0.94	FALSE
34	YFS	Blood	MCM6	0.18	0.15	enet	20	0.20	8.5e-64	-5.6	-5.6	1.7e-08	-0.63	0.03	0.97	FALSE
43	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	DARS	0.10	0.08	enet	14	0.11	5.5e-12	-5.5	-5.6	1.7e-08	-0.43	0.01	0.99	FALSE
51	The Cancer Genome Atlas	Pancreatic Adenocarcinoma	DARS	0.08	0.10	lasso	4	0.09	8.8e-05	-5.6	-5.6	1.8e-08	-0.46	0.02	0.95	FALSE
55	The Cancer Genome Atlas	Soft Tissue Sarcoma	MCM6	0.10	0.04	enet	5	0.04	1.5e-03	-3.1	-5.6	1.9e-08	-0.53	0.04	0.29	FALSE
49	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	DARS	0.02	0.02	lasso	2	0.02	3.9e-03	-5.6	-5.6	2.0e-08	-0.47	0.01	0.93	FALSE
8	GTEx	Brain Cerebellum	AC016725.4	0.50	0.18	enet	37	0.24	1.4e-07	-6.8	5.6	2.2e-08	0.51	0.28	0.55	FALSE
15	GTEx	Nerve Tibial	DARS	0.13	0.06	lasso	5	0.05	3.2e-04	-5.6	-5.5	3.1e-08	-0.47	0.03	0.95	FALSE
10	GTEx	Esophagus Mucosa	DARS	0.12	0.05	lasso	4	0.04	9.0e-04	-5.3	-5.5	3.5e-08	-0.46	0.04	0.92	FALSE
19	GTEx	Skin Not Sun Exposed Suprapubic	DARS	0.15	0.11	enet	4	0.10	3.0e-06	-5.3	-5.5	3.9e-08	-0.46	0.07	0.93	FALSE
14	GTEx	Lung	DARS	0.07	0.05	lasso	4	0.05	5.8e-05	-5.3	-5.5	4.0e-08	-0.46	0.04	0.95	FALSE
11	GTEx	Esophagus Muscularis	DARS	0.12	0.11	lasso	3	0.09	3.5e-06	-5.3	-5.5	4.9e-08	-0.45	0.04	0.96	FALSE
39	The Cancer Genome Atlas	Glioblastoma Multiforme	LCT	0.16	0.08	blup	36	0.10	5.3e-04	-5.4	5.4	5.6e-08	0.58	0.02	0.65	FALSE
40	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	DARS	0.04	0.05	lasso	2	0.05	3.5e-06	-5.3	-5.4	6.5e-08	-0.45	0.02	0.98	FALSE
20	GTEx	Skin Sun Exposed Lower leg	DARS	0.10	0.12	lasso	1	0.11	1.7e-09	-5.3	-5.3	1.0e-07	-0.45	0.09	0.91	FALSE