Hub : Traits

Bone: periosteal perimeter

Tags: Physiology · Bone

Project: r01_doug_adams

2 loci · 2 genes with independent associations · 3 total associated genes

Significant Loci

#	Chr	Start pos	End pos	# assoc genes	# joint models	Best TWAS P	Best GWAS P	Cond GWAS P	Joint genes
1	1	254889979	256760534	2	1	1.20e-07	3.28e-07	1.00e+00	Afap1l2
2	5	59640609	61037099	1	1	6.01e-08	6.26e-06	1.18e-02	Tmod1

Pleiotropic Associations

Trait	Chi2 ratio	# genes+	# genes++	% genes++	Corr	Corr P	Genes
BMI with tail	10.33	2	2	100	0	1.00e+00	Afap1l2 Dclre1a
BMI without tail	4.33	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Body weight	11.16	2	2	100	0	1.00e+00	Afap1l2 Dclre1a
Epididymis fat weight	17.3	2	2	100	0	1.00e+00	Afap1l2 Dclre1a
Glucose	5.61	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Left kidney weight	3.82	1	0	0	0	1.00e+00	Dclre1a
Right kidney weight	5.46	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Length with tail	2.63	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Length without tail	6.58	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Liver weight, left	5.2	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Liver weight, right	8.92	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Parametrial fat weight	11.53	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Retroperitoneal fat weight	15.22	2	2	100	0	1.00e+00	Afap1l2 Dclre1a
Intraocular pressure	5.91	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Soleus weight	4.3	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Tibia length	2.31	1	0	0	0	1.00e+00	Dclre1a
Indifference point 0 sec	5.12	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Delay discounting total patch changes 0 sec	5.12	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Delay discounting total patch changes 18 sec	7.11	1	0	0	0	1.00e+00	Afap1l2
Delay discounting total patch changes 24 sec	5.12	1	0	0	0	1.00e+00	Afap1l2
Delay discounting total patch changes 6 sec	7.43	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Social responses	6.86	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Condit. Reinf. active responses	6.04	1	0	0	0	1.00e+00	Afap1l2
Cocaine induced anxiety	7.76	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Baseline Anxiety	8.56	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Total sessions with >9 infusions	7.76	1	0	0	0	1.00e+00	Dclre1a
Short access day 10 total locomotion	6.91	1	0	0	0	1.00e+00	Tmod1
Degree of sensitization stereotypy	6.26	1	0	0	0	1.00e+00	Tmod1
Condit. Reinf. active responses	5.78	1	0	0	0	1.00e+00	Tmod1
Incentive salience index mean	7.51	1	0	0	0	1.00e+00	Tmod1
Condit. Reinf. lever presses	5.37	1	0	0	0	1.00e+00	Tmod1
Bone volume	3.96	1	0	0	0	1.00e+00	Afap1l2
Bone: cortical area	11.6	3	0	0	0.99	7.31e-03	Tmod1 Afap1l2 Dclre1a
Bone: cortical porosity	8.57	1	0	0	0	1.00e+00	Tmod1
Bone: cortical thickness	6.63	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Bone: endosteal perimeter	7.34	3	0	0	1	2.25e-04	Tmod1 Afap1l2 Dclre1a
Bone: final force	4.98	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Bone: final moment	5.05	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Bone: maximum diameter	13.06	3	1	50	1	4.79e-04	Tmod1 Afap1l2 Dclre1a
Bone: maximum force	4.35	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Bone: maximum moment	4.34	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Bone: minimum diameter	5.67	3	0	0	1	4.39e-04	Tmod1 Afap1l2 Dclre1a
Bone: periosteal estimation	6.93	3	0	0	0.99	7.08e-03	Tmod1 Afap1l2 Dclre1a
Bone: trabecular thickness	7.19	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Delay disc. indifference point, 8s delay	6.79	1	0	0	0	1.00e+00	Afap1l2
Weight adjusted by age	8.69	2	0	0	0	1.00e+00	Afap1l2 Dclre1a
Zn content in liver	6.4	1	0	0	0	1.00e+00	Tmod1

Associations by panel

Tissue	RNA modality	# hits	% hits/tests	Avg chisq
Adipose	alternative polyA	0	0	1.74
Adipose	alternative TSS	0	0	1.51
Adipose	gene expression	0	0	1.64
Adipose	isoform ratio	0	0	1.59
Adipose	intron excision ratio	0	0	1.69
Adipose	mRNA stability	0	0	1.66
BLA	alternative polyA	0	0	1.57
BLA	alternative TSS	0	0	1.71
BLA	gene expression	0	0	1.72
BLA	isoform ratio	0	0	1.63
BLA	intron excision ratio	0	0	1.59
BLA	mRNA stability	0	0	1.69
Brain	alternative polyA	0	0	1.65
Brain	alternative TSS	0	0	1.69
Brain	gene expression	0	0	1.65
Brain	isoform ratio	0	0	1.61
Brain	intron excision ratio	0	0	1.65
Brain	mRNA stability	0	0	1.6
Eye	alternative polyA	0	0	1.71
Eye	alternative TSS	0	0	1.52
Eye	gene expression	0	0	1.85
Eye	isoform ratio	0	0	1.54
Eye	intron excision ratio	0	0	1.76
Eye	mRNA stability	0	0	1.58
IL	alternative polyA	0	0	1.83
IL	alternative TSS	0	0	1.45
IL	gene expression	0	0	1.7
IL	isoform ratio	0	0	1.69
IL	intron excision ratio	0	0	1.62
IL	mRNA stability	0	0	1.68
LHb	alternative polyA	0	0	1.76
LHb	alternative TSS	0	0	1.62
LHb	gene expression	0	0	1.7
LHb	isoform ratio	0	0	1.65
LHb	intron excision ratio	0	0	1.65
LHb	mRNA stability	0	0	1.72
Liver	alternative polyA	2	0.1	1.56
Liver	alternative TSS	0	0	1.71
Liver	gene expression	0	0	1.66
Liver	isoform ratio	0	0	1.56
Liver	intron excision ratio	0	0	1.71
Liver	mRNA stability	0	0	1.64
NAcc	alternative polyA	0	0	1.68
NAcc	alternative TSS	0	0	1.6
NAcc	gene expression	0	0	1.68
NAcc	isoform ratio	0	0	1.61
NAcc	intron excision ratio	0	0	1.62
NAcc	mRNA stability	0	0	1.73
OFC	alternative polyA	0	0	1.85
OFC	alternative TSS	0	0	1.66
OFC	gene expression	0	0	1.76
OFC	isoform ratio	0	0	1.6
OFC	intron excision ratio	0	0	1.6
OFC	mRNA stability	2	0.2	1.74
PL	alternative polyA	0	0	1.73
PL	alternative TSS	0	0	1.63
PL	gene expression	0	0	1.71
PL	isoform ratio	0	0	1.58
PL	intron excision ratio	0	0	1.61
PL	mRNA stability	0	0	1.69