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chr7:127,692,699-129,920,800

Best TWAS P=5.962016e-08 · Best GWAS P=1.115298e-07 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	Hdac7	mRNA stability	ENSRNOG00000055597	0.18	0.16	enet	238	0.17	5.4e-18	4.6	-5.4	7.9e-08	-0.87	0.65	0.35	FALSE
2	BLA	Pced1b	alternative TSS	ENSRNOT00000009199	0.06	0.07	top1	1	0.07	1.9e-04	5.2	5.2	2.3e-07	0.98	0.11	0.05	FALSE
3	BLA	Tmem106c	gene expression	ENSRNOG00000053269	0.24	0.30	lasso	22	0.30	1.3e-16	5.2	5.3	1.4e-07	0.99	0.61	0.39	FALSE
4	BLA	Rpap3	gene expression	ENSRNOG00000053405	0.57	0.35	enet	156	0.39	3.7e-22	5.2	-5.2	2.3e-07	-1.00	0.62	0.38	FALSE
5	BLA	Tmem106c	intron excision ratio	chr7:129089299:129091145	0.10	0.09	top1	1	0.09	1.9e-05	5.2	-5.2	2.3e-07	-0.99	0.15	0.10	FALSE
6	Brain	Slc48a1	gene expression	ENSRNOG00000053196	0.46	0.58	lasso	70	0.59	1.6e-67	5.1	5.1	2.8e-07	1.00	0.60	0.40	FALSE
7	Brain	Rpap3	gene expression	ENSRNOG00000053405	0.17	0.18	lasso	39	0.19	4.4e-17	5.2	-5.2	2.4e-07	-1.00	0.62	0.38	FALSE
8	Brain	Tmem106c	intron excision ratio	chr7:129089299:129091145	0.12	0.04	top1	1	0.04	1.9e-04	5.2	-5.2	2.2e-07	-1.00	0.10	0.06	FALSE
9	Brain	Tmem106c	intron excision ratio	chr7:129091535:129091915	0.03	0.03	top1	1	0.03	5.8e-04	5.2	5.2	2.2e-07	0.99	0.08	0.04	FALSE
10	IL	Slc48a1	gene expression	ENSRNOG00000053196	0.33	0.28	lasso	4	0.28	1.6e-07	5.0	5.1	3.0e-07	1.00	0.65	0.35	FALSE
11	LHb	Rapgef3	alternative TSS	ENSRNOT00000078644	0.35	0.25	top1	1	0.25	1.1e-06	5.2	-5.2	2.1e-07	-1.00	0.24	0.15	FALSE
12	LHb	Rapgef3	alternative TSS	ENSRNOT00000096691	0.53	0.20	blup	2378	0.25	1.3e-06	5.2	5.1	2.8e-07	0.99	0.65	0.34	FALSE
13	LHb	Slc48a1	gene expression	ENSRNOG00000053196	0.57	0.18	blup	2371	0.22	6.1e-06	5.2	5.4	7.5e-08	0.99	0.64	0.35	FALSE
14	LHb	Rapgef3	gene expression	ENSRNOG00000059961	0.33	0.11	blup	2378	0.14	2.7e-04	5.2	5.2	1.6e-07	0.99	0.62	0.32	FALSE
15	LHb	Rapgef3	isoform ratio	ENSRNOT00000096691	0.17	0.15	enet	73	0.16	1.5e-04	5.2	5.1	2.9e-07	-0.23	0.60	0.32	TRUE
16	LHb	Rapgef3	intron excision ratio	chr7:128879272:128880061	0.14	0.09	enet	14	0.13	7.1e-04	5.2	-5.2	2.1e-07	-1.00	0.58	0.29	FALSE
17	Liver	Rpap3	gene expression	ENSRNOG00000053405	0.49	0.43	blup	2213	0.45	2.6e-55	4.8	-5.1	2.8e-07	-1.00	0.63	0.37	FALSE
18	Liver	Rpap3	mRNA stability	ENSRNOG00000053405	0.08	0.05	blup	2213	0.06	1.5e-07	5.0	-5.1	3.3e-07	-1.00	0.66	0.34	FALSE
19	Liver	Pfkm	mRNA stability	ENSRNOG00000057988	0.15	0.13	top1	1	0.13	5.3e-14	5.2	-5.2	1.6e-07	-0.99	0.36	0.64	FALSE
20	NAcc	Rapgef3	alternative TSS	ENSRNOT00000078644	0.23	0.21	top1	1	0.21	1.9e-05	5.2	-5.2	1.8e-07	-1.00	0.14	0.07	FALSE
21	NAcc	Rapgef3	alternative TSS	ENSRNOT00000096691	0.24	0.13	top1	1	0.13	8.6e-04	5.2	5.2	1.8e-07	1.00	0.12	0.06	FALSE
22	NAcc	Slc48a1	gene expression	ENSRNOG00000053196	0.32	0.22	blup	2371	0.22	9.0e-06	5.2	5.1	3.0e-07	1.00	0.65	0.34	FALSE
23	NAcc	Tmem106c	gene expression	ENSRNOG00000053269	0.24	0.19	top1	1	0.19	4.3e-05	5.2	5.2	2.2e-07	1.00	0.13	0.06	FALSE
24	NAcc	Rapgef3	isoform ratio	ENSRNOT00000096691	0.20	0.16	blup	2378	0.18	8.1e-05	5.2	5.1	3.0e-07	1.00	0.63	0.33	FALSE
25	NAcc2	Tmem106c	gene expression	ENSRNOG00000053269	0.31	0.30	top1	1	0.30	1.4e-16	5.2	5.2	2.2e-07	0.99	0.52	0.48	FALSE
26	OFC	Rapgef3	alternative TSS	ENSRNOT00000096691	0.20	0.13	blup	2378	0.16	1.1e-04	5.3	5.1	2.8e-07	1.00	0.63	0.33	FALSE
27	OFC	Tmem106c	gene expression	ENSRNOG00000053269	0.22	0.18	top1	1	0.18	4.7e-05	5.2	5.2	2.2e-07	0.99	0.16	0.10	FALSE
28	OFC	Rpap3	gene expression	ENSRNOG00000053405	0.31	0.16	blup	2213	0.17	6.8e-05	5.0	-5.1	3.0e-07	-1.00	0.64	0.34	FALSE
29	OFC	Hdac7	isoform ratio	ENSRNOT00000118593	0.12	0.15	top1	1	0.15	1.7e-04	5.2	5.2	2.3e-07	1.00	0.12	0.05	FALSE
30	OFC	Tmem106c	intron excision ratio	chr7:129091964:129092334	0.33	0.12	top1	1	0.12	8.8e-04	5.2	-5.2	2.1e-07	-0.99	0.12	0.06	FALSE
31	PL	Tmem106c	intron excision ratio	chr7:129091964:129092334	0.36	0.22	blup	2279	0.30	8.0e-08	5.2	-5.2	2.4e-07	-0.98	0.58	0.41	FALSE
32	PL	Tmem106c	intron excision ratio	chr7:129091964:129092370	0.38	0.24	blup	2279	0.31	3.2e-08	5.2	5.2	2.5e-07	0.98	0.58	0.42	FALSE
33	PL	Tmem106c	mRNA stability	ENSRNOG00000053269	0.29	0.06	blup	2279	0.10	2.1e-03	5.2	5.4	6.0e-08	0.99	0.53	0.38	TRUE
34	PL2	Rpap3	alternative TSS	ENSRNOT00000083926	0.12	0.04	blup	2216	0.04	2.6e-03	4.9	5.1	3.1e-07	1.00	0.61	0.30	FALSE
35	PL2	Rpap3	alternative TSS	ENSRNOT00000106326	0.12	0.04	blup	2216	0.04	3.1e-03	4.9	-5.1	3.2e-07	-1.00	0.60	0.30	FALSE
36	PL2	Rpap3	alternative TSS	ENSRNOT00000083926	0.12	0.03	blup	2216	0.03	5.7e-03	4.9	5.1	3.1e-07	1.00	0.57	0.28	FALSE
37	PL2	Rpap3	alternative TSS	ENSRNOT00000106326	0.09	0.03	blup	2216	0.03	7.4e-03	4.9	-5.1	3.1e-07	-1.00	0.55	0.27	FALSE
38	PL2	Slc48a1	gene expression	ENSRNOG00000053196	0.29	0.35	top1	1	0.35	9.2e-20	5.2	5.2	2.2e-07	1.00	0.59	0.41	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.