Hub : Traits

Rb content in liver

Tags: Physiology · Liver

Project: vulpe_liver_2014

3 loci · 3 genes with independent associations · 18 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	chr8	29620582	31650241	15	1	2.85e-08	1.39e-08	1e+00	Arhgap32
2	chr8	108585012	109845634	1	1	1.04e-15	8.18e-02	1e+00	Klhdc8b
3	chr20	53722628	54429288	2	1	9.72e-24	2.86e-01	1e+00	LOC103694460

Pleiotropic Associations

Trait	Chi2 ratio	# genes+	# genes++	% genes++	Corr	Corr P	Genes
BMI with tail	17.81	3	3	100	0	1.0e+00	Cd99 Klhdc8b LOC103694460
BMI without tail	16.74	2	1	33.3	0	1.0e+00	Klhdc8b LOC103694460
Body weight	14.22	3	3	100	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Heart weight	17.24	1	0	0	0	1.0e+00	Klhdc8b
Left kidney weight	16.86	3	2	66.7	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Right kidney weight	9.7	3	2	66.7	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Tail length	8.12	1	0	0	0	1.0e+00	Klhdc8b
Length with tail	9.26	1	1	33.3	0	1.0e+00	Klhdc8b
Liver weight, left	12.03	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Liver weight, right	18.05	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Parametrial fat weight	6.96	1	0	0	0	1.0e+00	LOC103694460
Retroperitoneal fat weight	16.75	3	2	66.7	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Intraocular pressure	17.99	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Extensor digitorum longus weight	5.18	1	0	0	0	1.0e+00	LOC103694460
Soleus weight	8.84	1	0	0	0	1.0e+00	Klhdc8b
Tibialis anterior weight	8.29	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Tibia length	7.79	2	1	33.3	0	1.0e+00	Klhdc8b LOC103694460
Number of licking bursts	24.53	1	1	33.3	0	1.0e+00	Klhdc8b
Food consumed during 24 hour testing period	9.01	1	0	0	0	1.0e+00	Klhdc8b
Mean num. licks in bursts	11.71	1	0	0	0	1.0e+00	Klhdc8b
Patch foraging indifference point 0 sec	10.57	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Patch foraging indifference point AUC	12.1	1	0	0	0	1.0e+00	LOC103694460
Indifference point function ln k	36.38	1	1	33.3	0	1.0e+00	Klhdc8b
Indifference point function log k	36.38	1	1	33.3	0	1.0e+00	Klhdc8b
Patch foraging total patch changes 0 sec	10.76	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Patch foraging total patch changes 12 sec	10.05	1	0	0	0	1.0e+00	LOC103694460
Patch foraging total patch changes 18 sec	11.62	1	0	0	0	1.0e+00	LOC103694460
Patch foraging total patch changes 24 sec	9.3	1	0	0	0	1.0e+00	LOC103694460
Locomotor activity	57.78	1	1	33.3	0	1.0e+00	Klhdc8b
Locomotor testing distance	64.52	1	1	33.3	0	1.0e+00	Klhdc8b
Light reinforcement 1	8.24	1	0	0	0	1.0e+00	LOC103694460
Reaction time number correct	18.64	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time trials correct on left	18.64	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time trials on left	19.51	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time mean AUC	9.44	1	0	0	0	1.0e+00	Klhdc8b
Median of all reaction times	10.54	1	0	0	0	1.0e+00	Klhdc8b
Reaction time omissions	23.75	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time false alarm rate	20.24	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time trials completed	19.51	1	1	33.3	0	1.0e+00	Klhdc8b
Reaction time trials AUC	20.65	1	1	33.3	0	1.0e+00	Klhdc8b
Conditioned locomotion	28.4	1	1	33.3	0	1.0e+00	Klhdc8b
Cocaine response after cond. not corrected	16.6	1	0	0	0	1.0e+00	Klhdc8b
Cocaine response before conditioning	38.66	1	1	33.3	0	1.0e+00	Klhdc8b
Pavlov. Cond. lever latency	8.58	2	0	0	0	1.0e+00	Barx2 LOC103694460
Pavlov. Cond. index score	15.43	1	0	0	0	1.0e+00	LOC103694460
Pavlov. Cond. latency score	10.76	1	0	0	0	1.0e+00	LOC103694460
Pavlov. Cond. lever contacts	8.82	1	0	0	0	1.0e+00	LOC103694460
Pavlov. Cond. magazine entry number	20.23	3	1	33.3	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Pavlov. Cond. lever-magazine prob. diff.	10.41	1	0	0	0	1.0e+00	LOC103694460
Pavlov. Cond. response bias	13.13	1	0	0	0	1.0e+00	LOC103694460
Conditioned reinforcement - inactives	16.77	1	0	0	0	1.0e+00	Klhdc8b
Intermitt. access day 1 inactive lever presses	13.69	1	0	0	0	1.0e+00	Klhdc8b
Intermitt. access day 15 inactive lever presses	30.78	1	1	33.3	0	1.0e+00	Klhdc8b
Intermittent access day 15 total infusions	14.21	1	0	0	0	1.0e+00	Klhdc8b
Intermittent access terminal intake (last 3 days)	24.03	1	0	0	0	1.0e+00	Klhdc8b
Intermittent access total infusions	15.45	1	0	0	0	1.0e+00	Klhdc8b
Intermittent access day 1 locomotion	11.5	1	0	0	0	1.0e+00	Klhdc8b
Intermittent access standard deviation	16.8	1	0	0	0	1.0e+00	Klhdc8b
Cocaine induced anxiety	13.65	1	0	0	0	1.0e+00	Klhdc8b
Lifetime Intake	9.49	1	0	0	0	1.0e+00	Klhdc8b
Progressive ratio test 1 inactive lever presses	16.55	1	0	0	0	1.0e+00	Klhdc8b
Progressive ratio test 2 inactive lever presses	10.83	1	0	0	0	1.0e+00	Klhdc8b
Total sessions with >9 infusions	16	1	0	0	0	1.0e+00	Klhdc8b
Short access day 1 total inactive lever presses	13.04	1	0	0	0	1.0e+00	Klhdc8b
Short access day 10 total inactive lever presses	101.65	1	1	33.3	0	1.0e+00	Klhdc8b
Short access day 10 total infusions	13.17	1	0	0	0	1.0e+00	Klhdc8b
Short access day 1 locomotion	11.78	1	0	0	0	1.0e+00	Klhdc8b
One hour access (0.3 mA shock)	13.43	1	0	0	0	1.0e+00	Klhdc8b
Locomotion distance, session 1	23.98	1	1	33.3	0	1.0e+00	Klhdc8b
Locomotion velocity, session 2	11.67	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Locomotion distance, session 2	15.14	3	1	33.3	-0.95	5.5e-02	Arhgap32 Klhdc8b LOC103694460
Locomotion velocity, session 3	17.14	1	0	0	0	1.0e+00	Klhdc8b
Locomotion distance, session 3	14.51	1	0	0	0	1.0e+00	Klhdc8b
Locomotion distance, session 7	9.27	1	0	0	0	1.0e+00	LOC103694460
Stereotopy head waving duration, day 7	11.78	1	0	0	0	1.0e+00	LOC103694460
Locomotion velocity, session 8	9.36	1	0	0	0	1.0e+00	Klhdc8b
Locomotion distance, session 8	30.57	2	1	33.3	0	1.0e+00	Klhdc8b LOC103694460
Degree of sensitization distance	24.75	1	0	0	0	1.0e+00	Klhdc8b
Condit. Reinf. active minus inactive responses	35.59	1	1	33.3	0	1.0e+00	Klhdc8b
Condit. Reinf. active-inactive response ratio	25.6	1	1	33.3	0	1.0e+00	Klhdc8b
Condit. Reinf. active responses	18.23	1	0	0	0	1.0e+00	Klhdc8b
Incentive salience index mean	26.23	1	1	33.3	0	1.0e+00	Klhdc8b
Condit. Reinf. lever presses	10.81	1	0	0	0	1.0e+00	Klhdc8b
Time in familiar zone, hab. session 1	63.49	1	1	33.3	0	1.0e+00	Klhdc8b
Time in novel zone, hab. session 1	13.1	1	0	0	0	1.0e+00	Klhdc8b
Total zone transitions, hab. session 1	37.38	1	1	33.3	0	1.0e+00	Klhdc8b
Total locomotion distance, hab. session 1	10.76	1	0	0	0	1.0e+00	Klhdc8b
Locomotion velocity, hab. session 1	10.22	1	0	0	0	1.0e+00	Klhdc8b
Time in familiar zone, hab. session 2	27.1	1	1	33.3	0	1.0e+00	Klhdc8b
Total zone transitions, hab. session 2	69.58	1	1	33.3	0	1.0e+00	Klhdc8b
Total locomotion distance, hab. session 2	19.2	1	0	0	0	1.0e+00	Klhdc8b
Locomotion velocity, hab. session 2	21.15	1	1	33.3	0	1.0e+00	Klhdc8b
Novel to familiar place preference ratio	22.33	1	0	0	0	1.0e+00	Klhdc8b
Novelty place preference	20.99	1	0	0	0	1.0e+00	Klhdc8b
Time in novel zone, NPP test	17.06	1	0	0	0	1.0e+00	Klhdc8b
Total zone transitions, NPP test	106.24	1	1	33.3	0	1.0e+00	Klhdc8b
Total locomotion distance, NPP test	47.64	1	1	33.3	0	1.0e+00	Klhdc8b
Locomotion velocity, NPP test	51.12	1	1	33.3	0	1.0e+00	Klhdc8b
Pavlov. Cond. change in total contacts	69.48	1	1	33.3	0	1.0e+00	Klhdc8b
Pavlov. Cond. index score	14.07	1	0	0	0	1.0e+00	Klhdc8b
Pavlov. Cond. latency score	8.82	1	0	0	0	1.0e+00	Klhdc8b
Pavlov. Cond. magazine entry number	12.23	1	0	0	0	1.0e+00	Klhdc8b
Pavlov. Cond. lever-magazine prob. diff.	14.82	1	0	0	0	1.0e+00	Klhdc8b
Pavlov. Cond. response bias	10.49	1	0	0	0	1.0e+00	Klhdc8b
Bone: cortical area	7.41	1	0	0	0	1.0e+00	LOC103694460
Bone: cortical porosity	16.96	1	0	0	0	1.0e+00	LOC103694460
Bone: elastic work	11.21	1	0	0	0	1.0e+00	LOC103694460
Bone: endosteal perimeter	18.12	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Bone: maximum diameter	17.39	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Bone: maximum force	7.19	1	0	0	0	1.0e+00	Klhdc8b
Bone: minimum diameter	9.46	1	0	0	0	1.0e+00	LOC103694460
Bone: periosteal perimeter	11.58	1	0	0	0	1.0e+00	LOC103694460
Bone: stiffness	13.41	1	0	0	0	1.0e+00	Klhdc8b
Bone: trabecular spacing	8.2	1	0	0	0	1.0e+00	LOC103694460
Bone: trabecular tissue density	10.67	1	0	0	0	1.0e+00	LOC103694460
Delta time in closed arm before/after self-admin	12.84	1	0	0	0	1.0e+00	Klhdc8b
Time to tail flick, vehicle, after self-admin	37.57	1	1	33.3	0	1.0e+00	Klhdc8b
Delta time to tail flick, vehicle, before/after SA	14.47	1	0	0	0	1.0e+00	Klhdc8b
Total heroin consumption	18.89	1	0	0	0	1.0e+00	Klhdc8b
Delay disc. indifference point, 0s delay	28.7	1	1	33.3	0	1.0e+00	Klhdc8b
Delay disc. indifference point, 16s delay	13.12	1	0	0	0	1.0e+00	Klhdc8b
Delay disc. indifference point, 4s delay	41.82	1	1	33.3	0	1.0e+00	Klhdc8b
Fecal boli incidents, locomotor time 1	16.98	1	0	0	0	1.0e+00	Klhdc8b
Rest time, locomotor task time 1	22.55	1	0	0	0	1.0e+00	Klhdc8b
Distance moved, locomotor task time 1	31.01	1	1	33.3	0	1.0e+00	Klhdc8b
Vertical activity count, locomotor time 1	49.01	1	1	33.3	0	1.0e+00	Klhdc8b
Bouts of movement, locomotor time 2	19.85	1	0	0	0	1.0e+00	Klhdc8b
Total resting periods, locomotor time 2	20.22	1	0	0	0	1.0e+00	Klhdc8b
Rest time, locomotor task time 2	25.34	1	1	33.3	0	1.0e+00	Klhdc8b
Distance moved, locomotor task time 2	42.39	1	1	33.3	0	1.0e+00	Klhdc8b
Vertical activity count, locomotor time 2	54.92	1	1	33.3	0	1.0e+00	Klhdc8b
Weight adjusted by age	30.32	1	1	33.3	0	1.0e+00	Klhdc8b
Food seeking constrained by brief footshock	12.71	1	0	0	0	1.0e+00	Klhdc8b
Cd content in liver	20.17	1	0	0	0	1.0e+00	Klhdc8b
Cu content in liver	31.36	2	1	33.3	0	1.0e+00	Cd99 LOC103694460
Fe content in liver	26.16	3	2	66.7	0	1.0e+00	Cd99 Klhdc8b LOC103694460
K content in liver	27.16	3	1	33.3	0	1.0e+00	Cd99 Klhdc8b LOC103694460
Mg content in liver	14.59	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Na content in liver	14.85	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Se content in liver	9.04	1	0	0	0	1.0e+00	LOC103694460
Sr content in liver	22.32	2	0	0	0	1.0e+00	Klhdc8b LOC103694460
Zn content in liver	9.95	1	0	0	0	1.0e+00	Klhdc8b

Associations by panel

Tissue	RNA modality	# hits	% hits/tests	Avg chisq
Adipose	alternative polyA	0	0	1.26
Adipose	alternative TSS	1	0	1.23
Adipose	gene expression	2	0	1.23
Adipose	isoform ratio	0	0	1.26
Adipose	intron excision ratio	0	0	1.1
Adipose	mRNA stability	0	0	1.24
BLA	alternative polyA	0	0	1.19
BLA	alternative TSS	0	0	1.32
BLA	gene expression	2	0	1.25
BLA	isoform ratio	0	0	1.26
BLA	intron excision ratio	0	0	1.21
BLA	mRNA stability	0	0	1.29
Brain	alternative polyA	0	0	1.16
Brain	alternative TSS	1	0	1.3
Brain	gene expression	2	0	1.24
Brain	isoform ratio	3	0.1	1.27
Brain	intron excision ratio	1	0	1.21
Brain	mRNA stability	1	0	1.25
Eye	alternative polyA	0	0	1.33
Eye	alternative TSS	0	0	1.25
Eye	gene expression	0	0	1.29
Eye	isoform ratio	0	0	1.34
Eye	intron excision ratio	0	0	1.31
Eye	mRNA stability	0	0	1.32
IL	alternative polyA	0	0	1.22
IL	alternative TSS	0	0	1.29
IL	gene expression	1	0	1.22
IL	isoform ratio	0	0	1.23
IL	intron excision ratio	0	0	1.16
IL	mRNA stability	0	0	1.31
LHb	alternative polyA	0	0	1.26
LHb	alternative TSS	0	0	1.23
LHb	gene expression	1	0	1.2
LHb	isoform ratio	2	0.2	1.29
LHb	intron excision ratio	0	0	1.27
LHb	mRNA stability	0	0	1.21
Liver	alternative polyA	0	0	1.23
Liver	alternative TSS	1	0	1.28
Liver	gene expression	2	0	1.24
Liver	isoform ratio	0	0	1.22
Liver	intron excision ratio	0	0	1.18
Liver	mRNA stability	1	0	1.23
NAcc	alternative polyA	0	0	1.18
NAcc	alternative TSS	1	0	1.32
NAcc	gene expression	2	0	1.26
NAcc	isoform ratio	3	0.1	1.27
NAcc	intron excision ratio	3	0.1	1.23
NAcc	mRNA stability	1	0	1.32
OFC	alternative polyA	0	0	1.29
OFC	alternative TSS	0	0	1.3
OFC	gene expression	0	0	1.23
OFC	isoform ratio	0	0	1.24
OFC	intron excision ratio	0	0	1.21
OFC	mRNA stability	0	0	1.26
PL	alternative polyA	0	0	1.18
PL	alternative TSS	1	0	1.3
PL	gene expression	2	0	1.26
PL	isoform ratio	2	0	1.26
PL	intron excision ratio	0	0	1.24
PL	mRNA stability	0	0	1.27
pVTA	alternative polyA	0	0	1.24
pVTA	alternative TSS	0	0	1.32
pVTA	gene expression	1	0	1.24
pVTA	isoform ratio	2	0.1	1.27
pVTA	intron excision ratio	0	0	1.27
pVTA	mRNA stability	0	0	1.19
RMTg	alternative polyA	0	0	1.14
RMTg	alternative TSS	0	0	1.14
RMTg	gene expression	1	0.1	1.3
RMTg	isoform ratio	2	0.3	1.25
RMTg	intron excision ratio	0	0	1.23
RMTg	mRNA stability	0	0	1.27