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chr1:10,435,170-12,600,396

Best TWAS P=5.18e-28 · Best GWAS P=9.53e-31 conditioned to 0.00726

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
19	The Cancer Genome Atlas	Breast Invasive Carcinoma	CLCN6	0.06	0.06	blup	104	0.06	5.0e-12	-8.17	-11.0	5.2e-28	-0.09	0.22	0.78	TRUE
6	GTEx	Cells Transformed fibroblasts	MTHFR	0.13	0.03	enet	30	0.05	6.8e-05	-7.86	-8.4	6.1e-17	-0.05	0.04	0.93	TRUE
15	NTR	Blood	MTHFR	0.09	0.07	enet	17	0.10	4.4e-31	-4.18	-7.4	1.5e-13	-0.07	1.00	0.00	TRUE
24	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	CLCN6	0.05	0.05	lasso	6	0.05	9.2e-07	-4.26	-7.2	6.9e-13	-0.07	0.50	0.47	TRUE
10	GTEx	Stomach	RP4-635E18.7	0.13	0.06	enet	25	0.03	8.8e-03	-0.88	-5.5	3.9e-08	-0.44	0.12	0.58	TRUE
17	ROSMAP	Brain Pre-frontal Cortex	NPPA-AS1	0.38	0.41	lasso	12	0.50	4.6e-73	-3.23	5.3	1.1e-07	0.06	1.00	0.00	TRUE
3	GTEx	Breast Mammary Tissue (Female)	NPPA-AS1	0.16	0.01	lasso	3	0.00	3.4e-01	4.28	5.2	1.6e-07	0.08	0.07	0.11	TRUE
26	The Cancer Genome Atlas	Lung Adenocarcinoma	CLCN6	0.06	0.04	blup	104	0.04	5.2e-06	-10.90	-10.6	2.9e-26	-0.07	0.01	0.99	FALSE
27	The Cancer Genome Atlas	Prostate Adenocarcinoma	CLCN6	0.10	0.07	blup	104	0.07	3.9e-08	-8.17	-10.4	3.2e-25	-0.06	0.20	0.80	FALSE
28	The Cancer Genome Atlas	Stomach Adenocarcinoma	CLCN6	0.07	0.04	blup	104	0.05	2.4e-04	-10.70	-10.0	1.8e-23	-0.09	0.01	0.98	FALSE
23	The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	CLCN6	0.04	0.06	lasso	2	0.05	1.1e-06	-8.17	-9.2	3.3e-20	-0.08	0.10	0.89	FALSE
7	GTEx	Skin Not Sun Exposed Suprapubic	CLCN6	0.12	0.03	lasso	3	0.04	3.3e-03	-5.33	-8.9	6.6e-19	-0.05	0.02	0.94	FALSE
5	GTEx	Cells Transformed fibroblasts	CLCN6	0.08	0.02	enet	17	0.05	1.6e-04	-10.90	-8.4	4.6e-17	-0.12	0.01	0.99	FALSE
9	GTEx	Spleen	CLCN6	0.21	0.10	lasso	3	0.06	1.3e-02	-6.90	-8.2	3.0e-16	-0.07	0.04	0.72	FALSE
30	The Cancer Genome Atlas	Thyroid Carcinoma	CLCN6	0.08	0.02	blup	104	0.05	2.5e-05	-6.14	-8.0	1.6e-15	-0.06	0.14	0.84	FALSE
12	METSIM	Adipose	CLCN6	0.09	0.04	blup	480	0.06	1.6e-09	-5.99	-7.4	1.6e-13	-0.10	0.06	0.94	FALSE
20	The Cancer Genome Atlas	Colon Adenocarcinoma	CLCN6	0.14	0.05	blup	104	0.09	1.2e-05	-10.70	-7.3	2.6e-13	-0.04	0.01	0.98	FALSE
25	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	CLCN6	0.07	0.00	blup	104	0.03	7.9e-03	3.44	-7.0	1.8e-12	-0.09	0.06	0.28	FALSE
21	The Cancer Genome Atlas	Colon Adenocarcinoma	MTHFR	0.07	0.01	blup	92	0.04	2.9e-03	-0.17	-7.0	2.1e-12	-0.07	0.04	0.47	FALSE
4	GTEx	Cells EBV-transformed lymphocytes	MTHFR	0.33	0.12	lasso	6	0.09	7.9e-04	-6.80	-6.8	1.1e-11	-0.07	0.33	0.29	FALSE
29	The Cancer Genome Atlas	Stomach Adenocarcinoma	NPPA	0.06	0.03	enet	4	0.04	7.6e-04	-8.17	6.7	2.0e-11	0.05	0.11	0.15	FALSE
8	GTEx	Skin Sun Exposed Lower leg	CLCN6	0.08	0.00	lasso	3	0.01	7.9e-02	-4.26	-6.6	3.5e-11	-0.08	0.03	0.72	FALSE
22	The Cancer Genome Atlas	Colon Adenocarcinoma	NPPA	0.06	0.01	lasso	5	0.01	1.3e-01	-3.64	6.1	1.2e-09	0.06	0.04	0.24	FALSE
18	YFS	Blood	MTHFR	0.50	0.49	enet	40	0.62	5.5e-264	-4.18	-6.0	1.6e-09	-0.06	1.00	0.00	FALSE
13	NTR	Blood	AGTRAP	0.02	0.00	bslmm	484	0.00	5.2e-02	0.43	5.9	4.6e-09	0.08	0.05	0.06	FALSE
16	ROSMAP	Brain Pre-frontal Cortex	C1orf167	0.07	0.01	blup	475	0.03	1.4e-04	-6.14	-5.8	5.6e-09	-0.03	0.36	0.04	FALSE
14	NTR	Blood	CLCN6	0.01	0.01	lasso	2	0.01	3.0e-04	-6.99	-5.5	3.6e-08	-0.05	0.38	0.53	FALSE
1	GTEx	Artery Tibial	CLCN6	0.14	0.04	lasso	6	0.04	5.0e-04	-6.99	-5.3	1.0e-07	-0.06	0.10	0.89	FALSE
2	GTEx	Breast Mammary Tissue	NPPA-AS1	0.25	0.01	lasso	4	0.02	3.0e-02	4.28	5.2	1.6e-07	0.08	0.46	0.05	FALSE
11	GTEx	Testis	NPPA	0.36	0.23	lasso	9	0.24	5.0e-11	-3.24	5.2	2.4e-07	0.05	1.00	0.00	FALSE