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chr10:58,773,413-61,792,475

Best TWAS P=1.540932e-10 · Best GWAS P=1.494947e-10 conditioned to 1

Associated models

#	Tissue	Gene	Modality	RNA phenotype	h2	eQTL R2	model	# weights	model R2	model R2 P	eQTL GWAS Z	TWAS Z	TWAS P	Top SNP corr	PP3	PP4	joint
1	Adipose	Scarf1	alternative polyA	ENSRNOT00000088722	0.04	0.01	blup	1018	0.03	8.2e-04	-2.8	5.1	3.1e-07	0.79	0.49	0.39	FALSE
2	Adipose	Scarf1	alternative polyA	ENSRNOT00000104013	0.04	0.01	blup	1018	0.02	8.8e-04	-2.8	-5.2	1.7e-07	-0.81	0.44	0.44	FALSE
3	Adipose	Sgsm2	gene expression	ENSRNOG00000027194	0.12	0.08	enet	37	0.11	7.4e-12	-3.9	-6.0	1.9e-09	-0.77	0.34	0.66	FALSE
4	Adipose	NA	gene expression	ENSRNOG00000064121	0.14	0.03	top1	1	0.03	5.4e-04	6.2	6.2	4.3e-10	0.84	0.06	0.11	FALSE
5	Adipose	Ccdc92b	gene expression	ENSRNOG00000069756	0.17	0.08	enet	52	0.12	8.4e-13	-3.2	5.6	1.8e-08	0.82	0.34	0.66	FALSE
6	Adipose	Scarf1	isoform ratio	ENSRNOT00000088722	0.04	0.03	top1	1	0.03	3.2e-04	6.2	6.2	5.0e-10	0.95	0.05	0.08	FALSE
7	Adipose	Scarf1	isoform ratio	ENSRNOT00000104013	0.04	0.02	top1	1	0.02	1.1e-03	6.2	-6.2	5.0e-10	-0.96	0.05	0.08	FALSE
8	Adipose	Myo1c	intron excision ratio	chr10:60499487:60505081	0.07	0.03	top1	1	0.03	7.3e-04	6.3	6.3	2.7e-10	0.91	0.06	0.21	FALSE
9	Adipose	Smyd4	intron excision ratio	chr10:60200371:60201453	0.09	0.04	enet	14	0.06	1.9e-07	-3.1	-5.1	2.7e-07	-0.69	0.98	0.01	FALSE
10	Adipose	Sgsm2	mRNA stability	ENSRNOG00000027194	0.03	0.01	blup	820	0.01	1.6e-02	6.3	-5.7	1.1e-08	-0.96	0.19	0.62	FALSE
11	Adipose	Ccdc92b	mRNA stability	ENSRNOG00000069756	0.09	0.05	top1	1	0.05	4.7e-06	5.8	5.8	4.9e-09	0.93	0.34	0.50	FALSE
12	BLA	Glod4	alternative TSS	ENSRNOT00000094200	0.13	0.00	top1	1	0.00	1.7e-01	5.8	5.8	6.0e-09	0.47	0.05	0.10	FALSE
13	BLA	Rap1gap2	gene expression	ENSRNOG00000002652	0.27	0.23	top1	1	0.23	1.2e-12	5.8	5.8	8.7e-09	0.93	0.52	0.48	FALSE
14	BLA	Rtn4rl1	gene expression	ENSRNOG00000003121	0.17	0.12	top1	1	0.12	4.0e-07	6.1	6.1	8.5e-10	0.98	0.30	0.46	FALSE
15	BLA	Crk	gene expression	ENSRNOG00000025792	0.12	0.03	blup	1167	0.06	2.8e-04	6.3	5.7	1.1e-08	0.86	0.21	0.74	FALSE
16	BLA	Inpp5k	gene expression	ENSRNOG00000056954	0.25	0.22	top1	1	0.22	3.5e-12	6.3	6.3	3.5e-10	0.94	0.21	0.79	FALSE
17	BLA	NA	gene expression	ENSRNOG00000068527	0.19	0.17	enet	10	0.20	3.9e-11	6.2	-5.3	1.5e-07	-0.81	0.32	0.68	FALSE
18	BLA	Ccdc92b	gene expression	ENSRNOG00000069756	0.07	0.04	top1	1	0.04	3.0e-03	5.7	-5.7	1.3e-08	-0.86	0.06	0.04	FALSE
19	BLA	Smyd4	intron excision ratio	chr10:60200371:60201453	0.08	0.07	top1	1	0.07	1.7e-04	6.3	-6.3	2.7e-10	-0.98	0.06	0.18	FALSE
20	Brain	Rap1gap2	gene expression	ENSRNOG00000002652	0.54	0.49	lasso	34	0.49	1.4e-51	5.9	5.9	3.8e-09	0.96	0.23	0.77	FALSE
21	Brain	Pafah1b1	gene expression	ENSRNOG00000002755	0.03	0.02	top1	1	0.03	2.2e-03	5.8	-5.8	6.2e-09	-0.89	0.03	0.04	FALSE
22	Brain	Mnt	gene expression	ENSRNOG00000002894	0.06	0.02	top1	1	0.02	4.7e-03	5.8	-5.8	6.2e-09	-0.97	0.03	0.04	FALSE
23	Brain	Rtn4rl1	gene expression	ENSRNOG00000003121	0.20	0.15	blup	755	0.15	3.4e-14	6.3	6.3	2.8e-10	0.97	0.22	0.78	FALSE
24	Brain	Wdr81	gene expression	ENSRNOG00000003243	0.06	0.03	blup	976	0.06	7.1e-06	-2.8	-5.1	3.3e-07	-0.70	0.65	0.34	FALSE
25	Brain	Slc43a2	gene expression	ENSRNOG00000003835	0.19	0.17	blup	1030	0.19	5.6e-17	5.2	5.9	4.3e-09	0.88	0.24	0.76	FALSE
26	Brain	Pitpna	gene expression	ENSRNOG00000003846	0.03	0.00	blup	1063	0.01	1.6e-02	-3.1	-5.1	2.7e-07	-0.70	0.28	0.30	FALSE
27	Brain	Crk	gene expression	ENSRNOG00000025792	0.33	0.23	lasso	30	0.23	4.9e-21	6.3	6.4	1.5e-10	0.99	0.17	0.83	TRUE
28	Brain	Doc2b	gene expression	ENSRNOG00000060054	0.80	0.51	enet	93	0.52	5.6e-56	6.4	5.8	5.1e-09	0.98	0.15	0.85	FALSE
29	Brain	NA	gene expression	ENSRNOG00000068527	0.18	0.13	enet	23	0.13	3.2e-12	6.1	-5.9	3.5e-09	-0.75	0.22	0.78	FALSE
30	Brain	Ccdc92b	gene expression	ENSRNOG00000069756	0.03	0.02	lasso	2	0.03	6.9e-04	5.5	-5.1	3.0e-07	-0.91	0.41	0.42	FALSE
31	Brain	Dph1	isoform ratio	ENSRNOT00000086378	0.06	0.02	blup	750	0.04	6.4e-05	5.9	5.5	4.7e-08	0.75	0.32	0.63	FALSE
32	Brain	Slc43a2	isoform ratio	ENSRNOT00000005100	0.05	0.02	blup	1030	0.05	3.7e-05	6.3	5.6	2.8e-08	0.80	0.29	0.69	FALSE
33	Brain	Slc43a2	isoform ratio	ENSRNOT00000099534	0.05	0.02	blup	1030	0.05	3.5e-05	6.3	-5.6	2.5e-08	-0.81	0.28	0.69	FALSE
34	Brain	Slc43a2	intron excision ratio	chr10:60406456:60409062	0.04	0.01	blup	1030	0.03	6.3e-04	-3.0	-5.2	1.9e-07	-0.73	0.48	0.41	FALSE
35	Brain	Smyd4	intron excision ratio	chr10:60200371:60201453	0.11	0.08	blup	812	0.09	6.1e-09	5.8	-5.7	1.1e-08	-0.80	0.22	0.78	FALSE
36	Brain	Doc2b	intron excision ratio	chr10:60633027:60636786	0.25	0.08	blup	1275	0.09	2.0e-08	6.3	-5.8	6.3e-09	-0.97	0.18	0.82	FALSE
37	Brain	Slc43a2	mRNA stability	ENSRNOG00000003835	0.11	0.09	enet	33	0.10	7.6e-10	6.2	-5.5	3.6e-08	-0.57	0.22	0.78	FALSE
38	Brain	Myo1c	mRNA stability	ENSRNOG00000004072	0.06	0.04	top1	1	0.04	1.6e-04	6.3	-6.3	2.8e-10	-0.96	0.07	0.23	FALSE
39	Brain	Ywhae	mRNA stability	ENSRNOG00000005290	0.31	0.12	top1	1	0.12	1.8e-11	5.1	-5.1	2.7e-07	-0.95	0.99	0.01	FALSE
40	Brain	Smyd4	mRNA stability	ENSRNOG00000026783	0.07	0.06	enet	7	0.07	4.3e-07	-3.2	-5.2	1.6e-07	-0.70	0.94	0.06	FALSE
41	Brain	Ccdc92b	mRNA stability	ENSRNOG00000069756	0.06	0.05	top1	1	0.05	1.6e-05	5.7	5.7	1.3e-08	0.93	0.22	0.13	FALSE
42	Eye	Rap1gap2	intron excision ratio	chr10:59460221:59480473	0.26	0.14	enet	12	0.19	7.1e-04	5.6	5.3	1.2e-07	0.84	0.20	0.43	FALSE
43	Eye	Slc43a2	intron excision ratio	chr10:60411108:60413539	0.37	0.04	enet	25	0.06	3.7e-02	6.3	-5.1	2.9e-07	-0.91	0.15	0.28	FALSE
44	Eye	Smyd4	intron excision ratio	chr10:60200371:60201453	0.20	0.01	blup	812	0.09	2.0e-02	-3.1	-5.4	8.8e-08	-0.72	0.21	0.30	FALSE
45	IL	Rap1gap2	gene expression	ENSRNOG00000002652	0.85	0.41	top1	1	0.41	7.1e-11	6.1	6.1	1.1e-09	0.96	0.13	0.85	FALSE
46	IL	Rtn4rl1	gene expression	ENSRNOG00000003121	0.32	0.12	enet	8	0.20	1.2e-05	6.3	6.0	2.2e-09	0.88	0.24	0.72	TRUE
47	IL	Doc2b	gene expression	ENSRNOG00000060054	0.28	0.03	blup	1272	0.12	9.5e-04	6.3	5.4	5.4e-08	0.77	0.29	0.61	FALSE
48	IL	Sgsm2	mRNA stability	ENSRNOG00000027194	0.38	0.17	lasso	6	0.23	3.0e-06	5.9	5.2	1.7e-07	0.91	0.39	0.60	FALSE
49	IL	Rph3al	mRNA stability	ENSRNOG00000061429	0.74	0.06	lasso	5	0.17	8.3e-05	6.3	5.2	2.2e-07	0.88	0.16	0.58	FALSE
50	LHb	Rap1gap2	gene expression	ENSRNOG00000002652	0.33	0.19	top1	1	0.19	2.5e-05	5.5	5.5	4.2e-08	0.94	0.07	0.05	FALSE
51	LHb	Crk	gene expression	ENSRNOG00000025792	0.25	0.17	top1	1	0.17	8.3e-05	6.3	6.3	2.8e-10	0.88	0.07	0.09	FALSE
52	Liver	Rpa1	gene expression	ENSRNOG00000003123	0.13	0.09	blup	812	0.10	1.1e-10	5.8	6.2	4.2e-10	0.99	0.21	0.79	FALSE
53	Liver	Crk	gene expression	ENSRNOG00000025792	0.05	0.03	top1	1	0.03	7.4e-04	6.3	6.3	2.7e-10	0.87	0.05	0.12	FALSE
54	Liver	Sgsm2	gene expression	ENSRNOG00000027194	0.05	0.00	blup	820	0.01	3.0e-02	6.2	-5.8	7.8e-09	-0.89	0.14	0.43	FALSE
55	Liver	Slc43a2	intron excision ratio	chr10:60411108:60413539	0.03	0.02	top1	1	0.02	6.0e-03	6.3	-6.3	3.4e-10	-0.93	0.03	0.04	FALSE
56	Liver	Slc43a2	intron excision ratio	chr10:60413612:60414748	0.03	0.00	blup	1030	0.01	2.5e-02	6.3	5.8	8.0e-09	0.90	0.26	0.52	FALSE
57	Liver	Smyd4	intron excision ratio	chr10:60200371:60201004	0.02	0.01	blup	812	0.01	7.4e-03	6.2	5.9	2.7e-09	0.90	0.16	0.34	FALSE
58	Liver	Serpinf1	mRNA stability	ENSRNOG00000003172	0.04	0.02	top1	1	0.02	2.2e-03	6.3	-6.3	2.6e-10	-0.98	0.04	0.07	FALSE
59	NAcc	Mnt	gene expression	ENSRNOG00000002894	0.34	0.18	blup	785	0.20	2.6e-05	6.1	-5.6	2.6e-08	-0.87	0.19	0.71	FALSE
60	NAcc	Crk	gene expression	ENSRNOG00000025792	0.33	0.19	enet	8	0.27	1.2e-06	-4.9	6.0	1.6e-09	0.98	0.19	0.79	FALSE
61	NAcc	Doc2b	gene expression	ENSRNOG00000060054	0.71	0.52	lasso	3	0.53	4.8e-14	6.3	6.3	3.4e-10	0.98	0.16	0.84	FALSE
62	NAcc	Rph3al	gene expression	ENSRNOG00000061429	0.34	0.16	top1	1	0.16	2.2e-04	5.2	5.2	2.1e-07	0.81	0.07	0.05	FALSE
63	NAcc	Ccdc92b	mRNA stability	ENSRNOG00000069756	0.23	0.15	top1	1	0.15	2.8e-04	6.2	6.2	4.8e-10	0.94	0.06	0.24	FALSE
64	NAcc2	Crk	gene expression	ENSRNOG00000025792	0.24	0.19	lasso	16	0.19	1.7e-10	5.2	5.7	1.1e-08	0.97	0.22	0.78	FALSE
65	NAcc2	Doc2b	gene expression	ENSRNOG00000060054	0.45	0.31	lasso	12	0.32	1.4e-17	6.3	6.3	2.9e-10	0.99	0.15	0.85	FALSE
66	NAcc2	NA	gene expression	ENSRNOG00000068527	0.12	0.05	top1	1	0.05	7.5e-04	6.1	-6.1	1.1e-09	-0.97	0.04	0.06	FALSE
67	NAcc2	Smyd4	intron excision ratio	chr10:60200371:60201453	0.15	0.05	enet	14	0.11	2.0e-06	6.4	-5.8	6.0e-09	-0.84	0.35	0.64	FALSE
68	OFC	Rap1gap2	gene expression	ENSRNOG00000002652	0.58	0.38	blup	1162	0.47	8.4e-13	5.8	5.8	8.2e-09	0.95	0.24	0.76	FALSE
69	OFC	Rtn4rl1	gene expression	ENSRNOG00000003121	0.15	0.03	blup	750	0.08	5.1e-03	6.2	6.0	1.7e-09	0.92	0.20	0.55	FALSE
70	OFC	Serpinf2	gene expression	ENSRNOG00000003233	0.21	0.07	lasso	3	0.08	5.7e-03	-5.1	-5.2	2.1e-07	-0.93	0.27	0.52	FALSE
71	OFC	Crk	gene expression	ENSRNOG00000025792	0.24	0.19	top1	1	0.19	2.2e-05	6.3	6.3	3.1e-10	0.89	0.07	0.11	FALSE
72	OFC	Doc2b	gene expression	ENSRNOG00000060054	0.46	0.10	enet	5	0.10	2.0e-03	6.3	6.3	3.8e-10	0.97	0.17	0.56	FALSE
73	OFC	Rph3al	gene expression	ENSRNOG00000061429	0.40	0.28	top1	1	0.28	2.7e-07	6.3	6.3	2.8e-10	0.62	0.09	0.64	FALSE
74	OFC	NA	gene expression	ENSRNOG00000068527	0.19	0.16	top1	1	0.16	1.1e-04	6.2	-6.2	4.8e-10	-0.96	0.05	0.13	FALSE
75	OFC	Rph3al	mRNA stability	ENSRNOG00000061429	0.27	0.18	top1	1	0.18	5.4e-05	6.3	6.3	2.8e-10	0.80	0.07	0.16	FALSE
76	PL	Rap1gap2	gene expression	ENSRNOG00000002652	0.75	0.33	top1	1	0.33	1.3e-08	6.0	6.0	1.6e-09	0.96	0.17	0.77	FALSE
77	PL	Crk	gene expression	ENSRNOG00000025792	0.28	0.14	enet	11	0.14	3.2e-04	6.3	6.3	2.8e-10	0.96	0.20	0.74	FALSE
78	PL	Doc2b	gene expression	ENSRNOG00000060054	0.23	0.03	enet	6	0.08	7.3e-03	6.3	6.2	6.4e-10	0.95	0.17	0.63	FALSE
79	PL	NA	gene expression	ENSRNOG00000068527	0.17	0.09	enet	4	0.10	2.0e-03	-4.0	-5.2	2.3e-07	-0.87	0.26	0.41	FALSE
80	PL	Rpa1	mRNA stability	ENSRNOG00000003123	0.18	0.10	enet	12	0.11	1.8e-03	-3.2	-5.5	4.6e-08	0.43	0.33	0.08	TRUE
81	PL2	Rap1gap2	gene expression	ENSRNOG00000002652	0.61	0.47	lasso	11	0.50	1.6e-30	5.8	5.6	1.7e-08	0.93	0.36	0.64	FALSE
82	PL2	Rtn4rl1	gene expression	ENSRNOG00000003121	0.12	0.11	top1	1	0.11	1.2e-06	6.3	6.3	2.8e-10	0.98	0.16	0.70	FALSE
83	PL2	Crk	gene expression	ENSRNOG00000025792	0.13	0.10	top1	1	0.10	5.6e-06	6.3	6.3	2.7e-10	0.87	0.12	0.53	FALSE
84	PL2	Doc2b	gene expression	ENSRNOG00000060054	0.21	0.12	top1	1	0.12	7.3e-07	6.3	6.3	2.8e-10	0.89	0.15	0.83	FALSE
85	PL2	NA	gene expression	ENSRNOG00000068527	0.10	0.05	enet	54	0.05	7.8e-04	6.2	-6.0	1.5e-09	-0.96	0.19	0.80	FALSE
86	PL2	Ccdc92b	gene expression	ENSRNOG00000069756	0.08	0.07	top1	1	0.07	8.1e-05	6.2	-6.2	4.5e-10	-0.89	0.05	0.44	TRUE
87	PL2	Rap1gap2	isoform ratio	ENSRNOT00000092203	0.08	0.06	top1	1	0.06	2.9e-04	5.5	-5.5	3.7e-08	-0.93	0.08	0.04	FALSE
88	PL2	Rap1gap2	intron excision ratio	chr10:59356749:59394399	0.14	0.10	top1	1	0.10	2.6e-06	5.5	5.5	3.7e-08	0.93	0.47	0.12	FALSE
89	PL2	Rap1gap2	intron excision ratio	chr10:59356749:59432200	0.09	0.07	top1	1	0.07	9.9e-05	5.5	-5.5	4.2e-08	-0.92	0.08	0.04	FALSE
90	PL2	Smyd4	intron excision ratio	chr10:60200371:60201453	0.08	0.06	top1	1	0.06	3.9e-04	6.2	-6.2	4.8e-10	-0.98	0.05	0.08	FALSE

h2: Heritability estimate for the given transcriptomic model. PP3: Posterior probability of two distinct causal variants. PP4: Posterior probability of a single shared causal variant. joint: Whether the RNA phenotype is in the joint model.