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chr19:46,923,752-49,829,825

Best TWAS P=4.48e-18 · Best GWAS P=1.31e-15 conditioned to 0.00413

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
20	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	CCDC9	0.09	0.00	enet	12	0.03	7.9e-03	5.31	-8.7	4.5e-18	-0.65	0.01	0.77	TRUE
23	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	SEC1	0.14	0.13	lasso	2	0.13	1.6e-14	-6.98	7.1	1.6e-12	-0.04	0.00	1.00	TRUE
26	The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	GRLF1	0.04	0.04	blup	51	0.03	7.0e-05	-5.00	-6.0	2.6e-09	-0.08	0.01	0.97	TRUE
27	The Cancer Genome Atlas	Prostate Adenocarcinoma	CCDC9	0.02	0.03	lasso	7	0.03	2.8e-04	7.97	-8.2	2.1e-16	-0.99	0.01	0.93	FALSE
2	GTEx	Adipose Subcutaneous	CCDC9	0.18	0.16	lasso	5	0.16	5.0e-13	7.96	-7.9	2.6e-15	-1.00	0.01	0.99	FALSE
9	GTEx	Esophagus Mucosa	CCDC9	0.18	0.13	lasso	3	0.12	2.7e-08	7.99	-7.9	3.1e-15	-1.00	0.01	0.99	FALSE
8	GTEx	Cells Transformed fibroblasts	CCDC9	0.16	0.13	lasso	3	0.14	2.0e-10	7.97	-7.6	2.2e-14	-0.96	0.01	0.99	FALSE
6	GTEx	Brain Frontal Cortex BA9	KPTN	0.26	0.01	lasso	4	0.00	4.1e-01	7.74	-7.5	9.6e-14	-0.95	0.01	0.81	FALSE
7	GTEx	Cells EBV-transformed lymphocytes	CCDC9	0.32	0.22	enet	15	0.15	1.2e-05	7.99	-7.4	1.4e-13	-0.91	0.01	0.99	FALSE
4	GTEx	Artery Tibial	CCDC9	0.09	0.03	lasso	5	0.03	3.7e-03	7.97	-7.4	1.5e-13	-0.95	0.01	0.97	FALSE
29	The Cancer Genome Atlas	Rectum Adenocarcinoma	CCDC9	0.12	0.12	lasso	4	0.10	1.9e-03	7.97	-7.1	1.2e-12	-0.94	0.01	0.73	FALSE
30	The Cancer Genome Atlas	Soft Tissue Sarcoma	SEC1	0.31	0.17	lasso	6	0.17	1.4e-10	-6.85	7.0	1.9e-12	-0.07	0.00	1.00	FALSE
28	The Cancer Genome Atlas	Prostate Adenocarcinoma	SEC1	0.06	0.05	enet	2	0.06	1.9e-06	-6.85	7.0	2.4e-12	-0.04	0.00	1.00	FALSE
5	GTEx	Brain Caudate basal ganglia	KPTN	0.24	-0.01	enet	14	-0.01	7.3e-01	3.46	-7.0	2.6e-12	-0.51	0.02	0.69	FALSE
33	The Cancer Genome Atlas	Thyroid Carcinoma	SPHK2	0.06	0.06	lasso	5	0.06	1.0e-06	-6.85	-6.9	6.6e-12	0.04	0.00	1.00	FALSE
3	GTEx	Adipose Visceral Omentum	CCDC9	0.19	0.10	enet	11	0.11	3.1e-06	7.97	-6.8	8.5e-12	-0.95	0.01	0.99	FALSE
12	GTEx	Nerve Tibial	CCDC9	0.28	0.17	enet	23	0.16	1.6e-11	7.99	-6.8	9.5e-12	-0.88	0.01	0.99	FALSE
25	The Cancer Genome Atlas	Brain Lower Grade Glioma	SEC1	0.16	0.11	lasso	4	0.11	2.1e-12	-6.85	6.7	1.9e-11	-0.04	0.00	1.00	FALSE
1	CommonMind	Brain Pre-frontal Cortex	NAPA	0.06	0.00	bslmm	381	0.01	7.2e-03	0.92	6.7	2.1e-11	0.47	0.03	0.52	FALSE
15	METSIM	Adipose	SAE1	0.12	0.04	lasso	5	0.07	1.7e-10	4.78	6.7	2.6e-11	0.38	0.99	0.01	FALSE
10	GTEx	Esophagus Muscularis	CCDC9	0.14	0.11	lasso	3	0.11	3.9e-07	7.99	-6.7	3.0e-11	-0.88	0.01	0.99	FALSE
32	The Cancer Genome Atlas	Thyroid Carcinoma	SEC1	0.23	0.15	blup	64	0.14	6.7e-14	-6.85	6.3	2.9e-10	-0.01	0.00	1.00	FALSE
18	The Cancer Genome Atlas	Breast Invasive Carcinoma	SEC1	0.05	0.05	enet	5	0.05	2.2e-11	-6.02	6.2	4.8e-10	0.00	0.01	0.99	FALSE
24	The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	SEC1	0.12	0.05	blup	61	0.07	1.1e-04	-6.85	6.1	1.2e-09	-0.04	0.00	0.98	FALSE
13	GTEx	Skin Sun Exposed Lower leg	CCDC9	0.13	0.00	lasso	5	0.00	2.2e-01	7.97	-6.0	1.7e-09	-0.89	0.01	0.93	FALSE
22	The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	CCDC9	0.04	0.01	blup	30	0.03	1.2e-04	7.99	-6.0	1.9e-09	-0.85	0.01	0.93	FALSE
21	The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	DBP	0.09	0.01	blup	50	0.03	1.1e-02	-6.02	5.9	3.8e-09	-0.04	0.01	0.81	FALSE
17	YFS	Blood	SPHK2	0.07	0.04	enet	6	0.06	4.4e-18	-6.85	-5.8	5.2e-09	0.06	0.00	1.00	FALSE
31	The Cancer Genome Atlas	Testicular Germ Cell Tumors	PRR24	0.08	-0.01	blup	31	0.02	8.8e-02	7.97	5.8	5.7e-09	0.93	0.01	0.59	FALSE
14	GTEx	Thyroid	CCDC9	0.22	0.09	lasso	4	0.16	3.6e-12	7.97	-5.7	1.5e-08	-0.78	0.01	0.99	FALSE
19	The Cancer Genome Atlas	Breast Invasive Carcinoma	SPACA4	0.02	0.01	blup	59	0.01	1.1e-02	-6.85	5.4	5.3e-08	-0.02	0.00	0.80	FALSE
11	GTEx	Heart Atrial Appendage	CCDC9	0.20	0.03	enet	21	0.05	2.2e-03	7.99	-5.3	9.1e-08	-0.71	0.01	0.88	FALSE
16	YFS	Blood	SAE1	0.07	0.02	enet	18	0.05	3.6e-16	6.89	5.2	2.6e-07	0.31	0.97	0.03	FALSE