Hub : Genes

Fxr1

Models

All models for this gene with cis-heritability P-value <0.01 were tested and are shown here. In each tissue, a gene can have zero, one, or multiple RNA phenotypes for each RNA modality. After the heritability statistics, subsequent columns show cross-validation performance (R² and P-value) of each modeling method. The best-performing method for each models is used for TWAS.

#	Tissue	Modality	RNA phenotype	h2	h2 SE	h2 P	xQTL R2	BLUP R2	ENET R2	LASSO R2	xQTL P	BLUP P	ENET P	LASSO P
1	Brain	mRNA stability	Fxr1	0.09	0.05	5.8e-07	0.05	0.05	0.04	0.04	2.3e-05	1.7e-05	1.2e-04	4.4e-05
2	Brain	gene expression	Fxr1	0.03	0.02	8.2e-03	0.02	0.01	0	0.01	8.0e-03	3.4e-02	1.6e-01	5.0e-02

Trait associations

The numbered columns correspond to the numbered models in the table above. They contain the TWAS Z-score for each trait-model pair. Colors indicate strength of Z-scores: cells with lower negative Z-scores are darker blue, cells with higher positive Z-scores are darker red. Significant associations have white and bolded text.

Trait	Avg chi2 ratio	Avg chi2	Max chi2	1	2
Bone: apparent density	4.4	7.6	7.8	2.7	-2.8
Area under the delay curve	0.6	0.7	0.9	1.0	-0.8
BMI with tail	0.4	1.3	2.0	0.8	-1.4
BMI without tail	0.9	2.6	3.3	1.4	-1.8
Body weight	0.3	1.1	1.9	0.5	-1.4
Weight adjusted by age	0.8	1.2	1.4	-1.0	1.2
Bone surface	0.2	0.3	0.3	0.5	-0.6
Bone volume	0.9	1.6	1.9	1.1	-1.4
Breakpoint value in progressive ratio session	3.1	3.8	4.6	1.7	-2.2
Number of licking bursts	1.5	2.4	3.1	1.3	-1.8
Context. condit. distance diff. score	7.0	8.5	8.8	2.9	-3.0
Locomotion velocity, session 1	1.3	1.4	1.5	-1.2	1.1
Locomotion distance, session 1	0.6	0.8	0.8	-0.9	0.9
Locomotion velocity, session 2	1.6	1.9	2.9	-1.7	1.0
Locomotion distance, session 2	0.7	1.0	1.5	-1.2	0.7
Locomotion velocity, session 3	0.0	0.0	0.0	-0.0	-0.1
Locomotion distance, session 3	0.2	0.3	0.4	-0.6	0.4
Stereotopy head waving bouts, day 3	0.2	0.2	0.3	-0.4	0.5
Stereotopy head waving duration, day 3	0.2	0.3	0.5	0.7	-0.4
Locomotion velocity, session 7	0.5	0.5	0.8	-0.9	0.5
Locomotion distance, session 7	0.2	0.3	0.5	-0.7	0.3
Stereotopy head waving bouts, day 7	0.9	1.0	1.5	0.7	-1.2
Stereotopy head waving duration, day 7	1.4	1.7	2.1	1.2	-1.4
Locomotion velocity, session 8	2.6	3.1	3.3	1.7	-1.8
Locomotion distance, session 8	1.8	2.6	3.2	1.4	-1.8
Degree of sensitization distance	0.2	0.2	0.4	-0.6	0.3
Degree of sensitization stereotypy	2.3	2.5	3.0	1.4	-1.7
Conditioned locomotion	0.1	0.2	0.2	0.5	-0.3
Cocaine response after cond. corrected	0.0	0.0	0.0	0.2	-0.0
Cocaine response after cond. not corrected	0.5	0.6	1.0	-0.5	1.0
Cocaine response before conditioning	0.8	1.0	1.6	-0.6	1.3
Saline control response	0.5	0.7	0.9	-0.7	1.0
Bone: connectivity density	1.7	2.7	2.8	1.7	-1.6
Bone: cortical apparent density	0.7	1.0	1.4	0.8	-1.2
Bone: cortical area	0.2	0.3	0.6	0.4	-0.8
Bone: cortical porosity	0.9	0.9	1.7	-0.3	1.3
Bone: cortical porosity	0.8	0.9	1.7	-0.3	1.3
Bone: cortical thickness	0.1	0.2	0.2	0.5	-0.3
Bone: cortical thickness	0.1	0.1	0.2	-0.4	-0.1
Bone: cortical tissue density	0.7	1.0	1.4	0.8	-1.2
Condit. Reinf. active minus inactive responses	2.6	2.9	2.9	-1.7	1.7
Condit. Reinf. active-inactive response ratio	2.2	2.3	2.5	-1.5	1.6
Condit. Reinf. active responses	1.7	2.1	2.4	-1.5	1.4
Condit. Reinf. inactive responses	0.0	0.0	0.0	-0.2	0.1
Incentive salience index mean	2.6	3.2	3.3	-1.8	1.7
Condit. Reinf. lever presses	1.1	1.6	1.6	-1.3	1.2
Condit. Reinf. active minus inactive responses	2.1	2.8	2.8	-1.7	1.7
Condit. Reinf. active-inactive response ratio	1.4	1.6	1.6	-1.3	1.3
Condit. Reinf. active responses	4.0	5.6	5.9	-2.4	2.3
Condit. Reinf. inactive responses	2.3	3.0	3.3	-1.8	1.7
Condit. Reinf. lever presses	0.3	0.4	0.5	-0.7	0.6
Condit. Reinf. lever reinforcers received	3.3	4.7	5.1	-2.2	2.1
Conditioned reinforcement - actives	0.6	1.0	1.1	-1.0	1.0
Conditioned reinforcement - inactives	0.0	0.0	0.0	-0.2	0.2
Conditioned locomotion	0.9	1.2	1.6	-1.3	0.9
Patch foraging indifference point 0 sec	2.1	3.9	4.9	1.7	-2.2
Patch foraging indifference point AUC	0.3	0.4	0.6	0.8	-0.5
Delay disc. indifference point, 0s delay	0.4	0.5	0.6	-0.8	0.6
Delay disc. indifference point, 16s delay	1.3	1.4	1.6	1.3	-1.1
Delay disc. indifference point, 2s delay	0.4	0.5	0.6	0.8	-0.6
Delay disc. indifference point, 24s delay	1.4	1.5	1.8	1.3	-1.1
Delay disc. indifference point, 4s delay	0.1	0.1	0.1	0.2	-0.4
Delay disc. indifference point, 8s delay	0.1	0.1	0.2	0.4	-0.2
Indifference point function ln k	0.2	0.3	0.5	-0.7	0.4
Indifference point function log k	0.2	0.3	0.5	-0.7	0.4
Patch foraging total patch changes 0 sec	1.7	3.2	3.9	1.6	-2.0
Patch foraging total patch changes 12 sec	1.3	1.7	2.0	1.4	-1.2
Patch foraging total patch changes 18 sec	0.7	1.1	1.2	1.0	-1.1
Patch foraging total patch changes 24 sec	3.8	6.6	7.5	2.4	-2.7
Patch foraging total patch changes 6 sec	3.7	5.6	6.2	2.5	-2.3
Patch foraging time to switch 0 sec	0.0	0.0	0.0	0.0	-0.2
Patch foraging water rate 0 sec	0.4	0.9	1.1	1.1	-0.8
Patch foraging water rate 12 sec	0.0	0.0	0.0	-0.1	0.2
Patch foraging water rate 18 sec	0.1	0.1	0.1	-0.4	0.2
Patch foraging water rate 24 sec	2.4	3.4	3.6	1.8	-1.9
Patch foraging water rate 6 sec	0.0	0.0	0.0	0.2	-0.1
Seeking ratio, delayed vs. immediate footshock	0.2	0.3	0.3	0.5	-0.6
Distance traveled before self-admin	2.0	2.6	2.7	1.6	-1.6
Distance traveled after self-admin	0.4	0.4	0.7	0.5	-0.8
Extensor digitorum longus weight	0.1	0.3	0.6	0.3	-0.7
Bone: elastic displacement	0.0	0.0	0.1	0.2	-0.2
Bone: elastic work	0.1	0.1	0.2	-0.3	0.4
Bone: endosteal estimation	0.1	0.3	0.6	-0.8	-0.1
Bone: endosteal perimeter	0.3	0.7	1.1	-1.0	0.6
Epididymis fat weight	0.0	0.1	0.1	-0.4	-0.1
Delta time in closed arm before/after self-admin	0.9	0.8	0.9	1.0	-0.9
Delta time in open arm before/after self-admin	0.6	0.6	0.6	-0.7	0.8
Diff in mean of infusions in LGA sessions	0.4	0.5	0.7	0.5	-0.9
Delay discount exponential model param	0.8	0.8	1.1	-1.0	0.8
Extinction: sum of active levers before priming	1.2	1.3	1.6	-1.3	1.0
Active lever presses in extinction session 6	0.3	0.3	0.4	0.4	-0.6
Bone: final force	0.1	0.2	0.3	-0.5	0.4
Bone: final moment	0.0	0.0	0.0	-0.2	-0.0
Food consumed during 24 hour testing period	0.2	0.3	0.7	0.1	-0.8
Glucose	0.9	1.4	1.5	-1.2	1.2
Heart weight	0.0	0.0	0.1	-0.1	-0.3
Delay discount hyperbolic model param	0.7	0.8	0.9	-1.0	0.8
Intermittent access intake day 1-15 change	0.3	0.7	0.8	0.9	-0.8
Intermittent access intake escalation	0.4	0.9	0.9	1.0	-0.9
Intermittent access intake escalation 2	0.0	0.0	0.0	0.1	-0.1
Intermitt. access day 1 inactive lever presses	0.0	0.0	0.0	0.2	-0.1
Intermitt. access day 15 inactive lever presses	0.3	0.7	0.8	-0.8	0.9
Intermitt. access escalation Index	0.0	0.0	0.0	0.2	-0.1
Intermittent access day 1 total infusions	4.8	7.7	8.2	-2.9	2.7
Intermittent access day 15 total infusions	0.3	0.4	0.5	-0.7	0.5
Intermittent access terminal intake (last 3 days)	1.6	2.0	2.2	-1.5	1.4
Intermittent access total infusions	2.1	2.4	2.8	-1.7	1.4
Intermittent access day 1 locomotion	3.1	3.9	4.4	-2.1	1.9
Intermittent access day 15 total locomotion	0.0	0.0	0.0	-0.2	-0.2
Intermittent access total locomotion	0.4	0.4	0.7	-0.8	0.5
Intermittent access standard deviation	0.1	0.2	0.2	0.5	-0.4
Left kidney weight	0.6	2.9	3.8	1.4	-1.9
Right kidney weight	1.1	4.8	5.9	2.0	-2.4
Cocaine induced anxiety	0.6	0.8	1.1	-1.0	0.8
Post-drug Anxiety	0.6	0.7	0.8	-0.9	0.7
Baseline Anxiety	0.0	0.0	0.1	0.2	-0.1
Tail length	0.0	0.1	0.1	0.2	-0.3
Length with tail	0.1	0.3	0.5	-0.7	0.3
Length without tail	0.1	0.3	0.6	-0.8	0.2
Times rat made contact with spout	0.4	0.5	0.9	-0.9	0.3
Lifetime Intake	2.4	3.0	3.3	-1.8	1.6
Liver weight, left	1.6	2.6	3.6	-1.9	1.3
Liver weight, right	0.0	0.0	0.0	-0.1	0.2
Locomotor activity	4.1	6.4	7.4	-2.3	2.7
Locomotor testing distance	3.2	5.7	5.9	-2.4	2.4
Locomotor testing rearing	0.3	0.6	0.8	-0.7	0.9
Locomotion in novel chamber	0.3	0.4	0.6	-0.8	0.5
Locomotion in novel chamber post-restriction	0.0	0.0	0.1	0.3	-0.1
Fecal boli incidents, locomotor time 1	0.7	1.0	1.1	-1.0	1.1
Change in fecal boli incidents, locomotor task	0.3	0.3	0.3	0.5	-0.6
Time >=10cm from walls, locomotor time 1	0.1	0.1	0.2	-0.2	0.4
Bouts of movement, locomotor time 1	0.0	0.0	0.0	-0.1	0.2
Total resting periods, locomotor time 1	0.1	0.1	0.1	-0.1	0.3
Rest time, locomotor task time 1	1.2	1.5	1.7	-1.2	1.3
Distance moved, locomotor task time 1	1.0	1.5	2.0	1.0	-1.4
Vertical activity count, locomotor time 1	0.9	2.2	2.5	1.4	-1.6
Time >=10cm from walls, locomotor time 2	0.1	0.1	0.1	-0.2	0.3
Bouts of movement, locomotor time 2	0.3	0.4	0.7	0.8	-0.4
Total resting periods, locomotor time 2	0.1	0.2	0.3	0.6	-0.1
Rest time, locomotor task time 2	0.0	0.0	0.0	0.1	0.2
Distance moved, locomotor task time 2	0.2	0.2	0.4	-0.6	0.1
Vertical activity count, locomotor time 2	0.6	0.9	1.1	-1.0	0.8
Light reinforcement 1	0.3	0.8	1.0	-0.7	1.0
Light reinforcement 2	0.0	0.0	0.0	-0.2	0.0
Bone: marrow area	0.1	0.2	0.4	-0.6	-0.3
Bone: maximum diameter	0.2	0.4	0.6	0.4	-0.8
Bone: maximum force	0.1	0.2	0.4	-0.6	0.3
Bone: maximum moment	0.0	0.1	0.1	-0.3	0.0
Mean time between licks in bursts	0.2	0.4	0.4	-0.7	0.6
Mean num. licks in bursts	1.9	2.9	3.2	-1.6	1.8
Cd content in liver	2.0	2.2	2.2	-1.5	1.5
Co content in liver	0.2	0.2	0.3	-0.6	0.4
Cu content in liver	0.0	0.0	0.1	-0.2	-0.2
Fe content in liver	0.6	0.7	0.9	-0.7	0.9
K content in liver	1.6	1.6	1.6	1.2	-1.3
Mg content in liver	1.4	1.4	1.5	1.2	-1.2
Mn content in liver	0.3	0.4	0.6	0.8	-0.4
Na content in liver	0.6	0.6	0.7	0.7	-0.8
Rb content in liver	0.0	0.0	0.1	0.3	-0.0
Se content in liver	0.8	0.9	1.0	-1.0	0.9
Sr content in liver	0.1	0.1	0.2	-0.3	0.4
Zn content in liver	0.3	0.3	0.5	0.2	-0.7
Bone: minimum diameter	0.1	0.2	0.4	-0.6	0.2
Time in familiar zone, hab. session 1	0.3	0.3	0.3	-0.6	0.5
Time in novel zone, hab. session 1	2.0	2.0	2.7	1.6	-1.1
Total zone transitions, hab. session 1	0.0	0.1	0.1	0.3	-0.2
Total locomotion distance, hab. session 1	1.1	1.5	2.1	1.5	-1.0
Locomotion velocity, hab. session 1	0.8	1.2	1.7	1.3	-0.8
Time in familiar zone, hab. session 2	0.4	0.4	0.8	-0.2	0.9
Time in novel zone, hab. session 2	1.6	1.6	2.1	1.1	-1.5
Total zone transitions, hab. session 2	0.1	0.1	0.2	-0.4	0.4
Total locomotion distance, hab. session 2	0.1	0.1	0.2	-0.2	0.5
Locomotion velocity, hab. session 2	0.2	0.3	0.5	-0.4	0.7
Novel to familiar place preference ratio	7.1	7.7	8.6	2.9	-2.6
Novelty place preference	9.1	9.7	11.0	3.3	-2.9
Time in novel zone, NPP test	10.5	11.2	12.4	3.5	-3.2
Total zone transitions, NPP test	1.6	2.3	2.6	-1.6	1.4
Total locomotion distance, NPP test	0.9	1.3	1.3	-1.1	1.1
Locomotion velocity, NPP test	1.7	2.4	2.5	-1.5	1.6
Intraocular pressure	1.2	1.7	1.8	-1.3	1.3
Delta distance traveled before/after self-admin	1.3	1.4	1.6	-1.3	1.1
Delta ambulatory time before/after self-admin	0.7	0.9	1.1	-1.1	0.8
Parametrial fat weight	0.7	1.7	2.2	-1.5	1.1
Pavlov. Cond. lever latency	1.0	1.2	1.7	1.3	-0.9
Pavlov. Cond. magazine entry latency	0.2	0.2	0.4	0.1	-0.6
Pavlov. Cond. change in total contacts	0.2	0.3	0.4	-0.6	0.4
Pavlov. Cond. index score	0.2	0.2	0.5	-0.7	-0.0
Pavlov. Cond. latency score	0.4	0.5	0.9	-1.0	0.3
Pavlov. Cond. lever contacts	0.9	1.1	1.7	-1.3	0.7
Pavlov. Cond. magazine entry number	0.9	1.2	2.1	-0.6	1.4
Pavlov. Cond. intertrial magazine entries	0.6	0.7	0.9	-0.7	0.9
Pavlov. Cond. lever-magazine prob. diff.	0.1	0.2	0.3	-0.6	-0.1
Pavlov. Cond. response bias	0.4	0.5	0.9	0.1	-1.0
Pavlov. Cond. lever latency	0.0	0.1	0.1	-0.3	0.2
Pavlov. Cond. magazine entry latency	0.5	0.7	1.0	0.6	-1.0
Pavlov. Cond. change in total contacts	0.9	1.5	1.6	-1.3	1.2
Pavlov. Cond. index score	0.0	0.1	0.1	0.1	-0.3
Pavlov. Cond. latency score	0.0	0.1	0.1	-0.0	-0.3
Pavlov. Cond. lever contacts	0.2	0.2	0.3	0.5	-0.5
Pavlov. Cond. magazine entry number	0.7	0.8	1.2	-0.6	1.1
Pavlov. Cond. intertrial magazine entries	0.3	0.4	0.5	-0.6	0.7
Pavlov. Cond. lever-magazine prob. diff.	0.0	0.1	0.1	-0.0	-0.3
Pavlov. Cond. response bias	0.1	0.1	0.1	0.4	-0.4
Time in closed arm before self-admin	0.8	1.0	1.1	0.9	-1.1
Time in closed arm after self-admin	0.9	0.9	1.0	0.9	-1.0
Time in open arm before self-admin	0.1	0.1	0.1	0.3	-0.2
Time in open arm after self-admin	0.1	0.1	0.2	-0.3	0.4
Bone: periosteal estimation	0.1	0.2	0.3	-0.3	-0.5
Bone: periosteal perimeter	0.1	0.1	0.2	-0.4	0.4
Bone: post-yield work	0.4	0.6	1.1	-1.1	0.3
Progressive ratio test 1 active lever presses	2.9	3.6	4.2	-2.0	1.7
Progressive ratio test 1 breakpoint	3.1	3.8	4.5	-2.1	1.8
Progressive ratio test 1 inactive lever presses	1.7	2.5	2.5	-1.6	1.6
Progressive ratio test 2 active lever presses	1.1	1.3	1.7	-1.3	1.0
Progressive ratio test 2 breakpoint	0.9	1.1	1.4	-1.2	0.9
Progressive ratio test 2 inactive lever presses	0.2	0.4	0.4	-0.7	0.5
Incentive Sensitization - Responses	0.4	0.5	0.7	-0.8	0.6
Incentive Sensitization - Breakpoint	0.4	0.5	0.7	-0.8	0.5
Sum of active levers in priming session hrs 5-6	3.5	3.3	4.0	-2.0	1.6
Progressive ratio	0.0	0.0	0.0	0.2	-0.1
Food seeking constrained by brief footshock	0.2	0.3	0.3	0.5	-0.6
Seeking ratio, punishment vs. effort	0.5	0.7	0.8	0.8	-0.9
Retroperitoneal fat weight	0.3	1.1	1.5	-1.2	0.8
Reaction time number correct	2.9	5.6	5.7	-2.4	2.3
Reaction time mean minus median	0.0	0.0	0.1	-0.2	0.1
Reaction time mean minus median AUC	0.1	0.2	0.2	0.3	-0.5
Reaction time num false alarms	0.1	0.1	0.1	-0.2	0.4
Reaction time num false alarms AUC	0.1	0.2	0.2	-0.4	0.4
Reaction time trials correct on left	2.9	5.6	5.7	-2.4	2.3
Reaction time trials on left	3.1	5.9	5.9	-2.4	2.4
Reaction time mean	2.1	3.3	3.5	-1.9	1.7
Reaction time mean AUC	1.8	2.9	2.9	-1.7	1.7
Median of all reaction times	2.6	3.7	3.8	-1.9	1.9
Reaction time omissions	1.4	2.0	2.2	-1.3	1.5
Reaction time false alarm rate	0.5	0.7	0.8	0.9	-0.8
Reaction time premature initiation rate	1.1	1.5	2.4	1.5	-0.8
Reaction time premature initiations	0.1	0.2	0.3	0.1	0.6
Std. dev. reaction times	0.1	0.2	0.3	-0.6	0.2
Reaction time trials completed	3.1	5.9	5.9	-2.4	2.4
Reaction time trials AUC	2.9	5.6	5.6	-2.4	2.4
Run reversals in cocaine runway, females	0.1	0.1	0.1	0.2	-0.3
Run reversals in cocaine runway, males	0.6	0.6	0.7	-0.8	0.7
Latency to leave start box in cocaine runway	0.1	0.1	0.2	-0.2	0.4
Latency to leave start box in cocaine runway, F	0.0	0.0	0.0	0.1	0.1
Latency to leave start box in cocaine runway, M	0.1	0.1	0.2	-0.2	0.4
Std. dev. time between licks in bursts	0.0	0.0	0.1	-0.3	0.1
Total sessions with >9 infusions	4.6	5.6	5.8	-2.4	2.3
Short access day 1 total inactive lever presses	0.9	1.1	1.2	1.0	-1.1
Short access day 10 total inactive lever presses	2.4	5.9	6.1	2.5	-2.4
Short access day 1 total infusions	1.0	1.3	1.4	-1.2	1.1
Short access day 10 total infusions	4.1	5.3	5.7	-2.4	2.2
Short access total infusions	4.3	5.5	5.7	-2.4	2.3
Short access day 1 locomotion	0.0	0.1	0.1	-0.3	0.1
Short access day 10 total locomotion	0.0	0.0	0.0	-0.2	0.1
Short access total locomotion	2.3	2.8	3.1	-1.8	1.5
One hour access (0.3 mA shock)	0.3	0.3	0.5	-0.7	0.4
Compulsive drug intake	0.3	0.4	0.5	-0.7	0.5
One hour access (shock baseline)	0.3	0.5	0.6	-0.7	0.6
Social response proportion	1.5	1.7	1.9	-1.4	1.2
Social responses	0.1	0.1	0.1	0.3	-0.3
Social time	2.8	3.8	4.4	-1.8	2.1
Soleus weight	12.2	35.9	38.5	6.2	-5.8
Bone: stiffness	0.0	0.0	0.0	-0.2	0.1
Tibialis anterior weight	0.3	1.2	1.9	0.6	-1.4
Time to tail flick, vehicle, before self-admin	1.0	1.1	1.3	-0.9	1.1
Time to tail flick, vehicle, after self-admin	1.6	2.2	2.2	-1.5	1.5
Time to tail flick, test, before self-admin	2.1	2.2	2.2	1.5	-1.5
Time to tail flick, test, after self-admin	4.0	4.2	4.3	2.0	-2.1
Delta time to tail flick, vehicle, before/after SA	0.8	0.8	0.8	-0.9	0.8
Delta time to tail flick, test, before/after SA	1.1	1.1	1.1	1.0	-1.1
Tibia length	2.6	7.2	9.0	-3.0	2.3
Ambulatory time before self-admin	1.1	1.7	1.8	1.3	-1.3
Ambulatory time after self-admin	0.1	0.2	0.2	0.3	-0.5
Bone: tissue strength	0.4	0.4	0.8	-0.3	0.9
Total heroin consumption	5.5	6.5	7.1	2.4	-2.7
Bone: trabecular number	5.1	8.5	9.8	3.1	-2.7
Bone: trabecular spacing	2.5	3.3	4.2	-2.1	1.6
Bone: trabecular thickness	2.5	3.1	4.3	1.4	-2.1
Bone: trabecular tissue density	0.1	0.2	0.2	-0.5	0.4
Water consumed over 24 hours	0.2	0.2	0.4	-0.2	-0.6
Number of responses in last shaping day	0.2	0.2	0.3	0.4	-0.5