Hub : Genes

Hic1

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	PL	gene expression	Hic1	0.03	0.02	1.6e-03	0.01	0.02	0.02	0.01	4.4e-02	1.2e-03	4.7e-03	9.4e-03
2	pVTA	gene expression	Hic1	0.08	0.06	6.5e-03	0.06	0.05	0.04	0.05	1.1e-03	3.2e-03	9.7e-03	3.4e-03

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	3.4	5.7	7.9	-2.8	1.9
Area under the delay curve	1.6	1.7	1.9	1.4	-1.3
BMI with tail	0.7	2.2	3.5	-1.9	0.9
BMI without tail	0.4	0.8	0.9	-0.9	0.9
Body weight	2.1	8.7	9.1	-2.9	3.0
Weight adjusted by age	0.5	0.6	1.0	-1.0	0.4
Bone surface	2.1	3.7	6.5	-2.5	1.0
Bone volume	2.4	4.0	6.8	-2.6	1.1
Breakpoint value in progressive ratio session	1.3	1.5	1.5	-1.2	1.2
Number of licking bursts	0.5	0.5	0.6	0.7	-0.7
Context. condit. distance diff. score	1.2	1.4	2.1	-1.4	0.9
Locomotion velocity, session 1	5.5	5.9	7.0	-2.2	2.6
Locomotion distance, session 1	0.5	0.7	0.9	-1.0	0.7
Locomotion velocity, session 2	1.5	1.8	2.3	-1.1	1.5
Locomotion distance, session 2	1.3	1.8	2.6	-1.6	1.0
Locomotion velocity, session 3	3.0	3.5	5.8	2.4	-1.1
Locomotion distance, session 3	0.1	0.1	0.3	0.2	-0.5
Stereotopy head waving bouts, day 3	0.1	0.1	0.3	-0.1	0.5
Stereotopy head waving duration, day 3	0.2	0.2	0.4	0.6	-0.1
Locomotion velocity, session 7	0.6	0.7	1.0	-1.0	0.6
Locomotion distance, session 7	1.0	1.3	2.1	-1.4	0.7
Stereotopy head waving bouts, day 7	1.1	1.3	1.3	-1.2	1.1
Stereotopy head waving duration, day 7	1.6	2.0	2.0	-1.4	1.4
Locomotion velocity, session 8	0.6	0.7	0.8	-0.8	0.9
Locomotion distance, session 8	2.7	4.0	4.6	-2.1	1.8
Degree of sensitization distance	1.7	1.7	1.8	-1.3	1.3
Degree of sensitization stereotypy	2.0	2.2	2.4	-1.4	1.5
Conditioned locomotion	0.9	1.1	1.2	1.0	-1.1
Cocaine response after cond. corrected	0.1	0.1	0.1	-0.3	0.4
Cocaine response after cond. not corrected	0.3	0.4	0.6	-0.8	0.5
Cocaine response before conditioning	0.9	1.1	1.7	-1.3	0.7
Saline control response	0.3	0.4	0.7	-0.8	0.2
Bone: connectivity density	4.3	6.7	10.1	-3.2	1.8
Bone: cortical apparent density	0.7	0.9	1.3	0.7	-1.1
Bone: cortical area	1.5	2.3	3.2	1.8	-1.1
Bone: cortical porosity	0.3	0.4	0.5	-0.5	0.7
Bone: cortical porosity	0.1	0.1	0.3	-0.1	0.5
Bone: cortical thickness	3.3	5.4	9.2	3.0	-1.3
Bone: cortical thickness	0.4	0.4	0.8	0.9	0.2
Bone: cortical tissue density	0.5	0.7	1.0	0.6	-1.0
Condit. Reinf. active minus inactive responses	0.1	0.1	0.2	0.3	0.4
Condit. Reinf. active-inactive response ratio	0.7	0.7	1.3	1.1	0.4
Condit. Reinf. active responses	0.1	0.2	0.3	-0.5	0.2
Condit. Reinf. inactive responses	1.0	1.2	2.0	-1.4	-0.5
Incentive salience index mean	0.3	0.4	0.8	-0.0	0.9
Condit. Reinf. lever presses	1.4	1.9	2.8	-1.0	1.7
Condit. Reinf. active minus inactive responses	0.3	0.3	0.6	-0.7	0.3
Condit. Reinf. active-inactive response ratio	0.1	0.1	0.2	0.0	0.5
Condit. Reinf. active responses	0.4	0.6	1.1	-1.1	-0.1
Condit. Reinf. inactive responses	0.9	1.1	1.4	-1.2	-0.9
Condit. Reinf. lever presses	0.7	1.0	1.6	0.6	-1.3
Condit. Reinf. lever reinforcers received	0.3	0.5	0.9	-0.9	-0.3
Conditioned reinforcement - actives	0.9	0.9	1.9	-1.4	0.2
Conditioned reinforcement - inactives	0.2	0.2	0.4	-0.7	0.1
Conditioned locomotion	0.2	0.3	0.4	0.4	-0.6
Patch foraging indifference point 0 sec	0.1	0.1	0.2	-0.5	0.1
Patch foraging indifference point AUC	1.3	1.5	2.6	0.6	-1.6
Delay disc. indifference point, 0s delay	0.0	0.0	0.1	-0.2	-0.1
Delay disc. indifference point, 16s delay	0.8	0.8	1.0	1.0	-0.8
Delay disc. indifference point, 2s delay	1.3	1.4	1.5	1.2	-1.1
Delay disc. indifference point, 24s delay	0.3	0.3	0.3	0.5	-0.5
Delay disc. indifference point, 4s delay	0.6	0.6	0.7	0.8	-0.7
Delay disc. indifference point, 8s delay	0.8	0.8	0.9	0.9	-0.9
Indifference point function ln k	0.9	1.3	1.4	-1.1	1.2
Indifference point function log k	0.9	1.3	1.4	-1.1	1.2
Patch foraging total patch changes 0 sec	0.1	0.1	0.2	-0.5	-0.0
Patch foraging total patch changes 12 sec	0.6	0.8	0.8	0.9	-0.9
Patch foraging total patch changes 18 sec	0.5	0.6	0.7	0.9	-0.8
Patch foraging total patch changes 24 sec	0.9	1.1	1.2	1.1	-0.9
Patch foraging total patch changes 6 sec	0.7	1.1	1.9	0.5	-1.4
Patch foraging time to switch 0 sec	0.3	0.4	0.6	0.8	0.4
Patch foraging water rate 0 sec	0.1	0.2	0.2	-0.3	-0.5
Patch foraging water rate 12 sec	0.0	0.1	0.1	-0.2	0.3
Patch foraging water rate 18 sec	2.2	3.0	4.0	-2.0	1.4
Patch foraging water rate 24 sec	0.1	0.2	0.3	-0.4	-0.5
Patch foraging water rate 6 sec	0.2	0.3	0.3	0.6	-0.5
Seeking ratio, delayed vs. immediate footshock	2.2	2.6	2.8	1.5	-1.7
Distance traveled before self-admin	1.3	1.4	2.8	1.7	-0.3
Distance traveled after self-admin	0.1	0.1	0.3	0.1	0.5
Extensor digitorum longus weight	2.9	11.4	19.4	-4.4	1.8
Bone: elastic displacement	0.5	0.6	0.7	0.8	-0.7
Bone: elastic work	2.8	3.6	6.0	2.5	-1.1
Bone: endosteal estimation	0.1	0.2	0.3	-0.3	-0.6
Bone: endosteal perimeter	0.3	0.6	0.7	-0.8	-0.6
Epididymis fat weight	3.9	9.2	11.1	-3.3	2.7
Delta time in closed arm before/after self-admin	0.6	0.6	0.8	0.6	-0.9
Delta time in open arm before/after self-admin	2.0	1.9	2.5	-1.2	1.6
Diff in mean of infusions in LGA sessions	0.7	0.8	0.9	-0.8	1.0
Delay discount exponential model param	1.5	1.6	1.7	-1.3	1.2
Extinction: sum of active levers before priming	2.2	2.2	2.8	-1.7	1.2
Active lever presses in extinction session 6	1.5	1.4	1.7	-1.3	1.1
Bone: final force	0.1	0.2	0.4	0.6	-0.0
Bone: final moment	0.1	0.2	0.4	0.7	-0.1
Food consumed during 24 hour testing period	0.6	0.7	0.9	-0.7	1.0
Glucose	3.1	4.6	6.2	2.5	-1.7
Heart weight	0.2	0.2	0.3	-0.4	0.5
Delay discount hyperbolic model param	1.6	1.7	1.7	-1.3	1.3
Intermittent access intake day 1-15 change	0.8	0.8	1.3	0.5	-1.1
Intermittent access intake escalation	1.4	1.4	1.6	1.1	-1.3
Intermittent access intake escalation 2	2.6	2.6	2.9	1.5	-1.7
Intermitt. access day 1 inactive lever presses	3.3	3.5	3.9	2.0	-1.8
Intermitt. access day 15 inactive lever presses	1.6	1.7	2.4	1.0	-1.5
Intermitt. access escalation Index	3.3	2.9	4.0	-1.3	2.0
Intermittent access day 1 total infusions	0.5	0.5	0.8	-0.9	0.5
Intermittent access day 15 total infusions	0.2	0.2	0.3	-0.3	-0.5
Intermittent access terminal intake (last 3 days)	0.7	0.7	1.4	-1.2	0.4
Intermittent access total infusions	0.1	0.1	0.2	-0.4	0.1
Intermittent access day 1 locomotion	0.1	0.1	0.2	0.5	0.2
Intermittent access day 15 total locomotion	0.3	0.4	0.4	0.6	-0.6
Intermittent access total locomotion	0.0	0.0	0.1	0.3	0.0
Intermittent access standard deviation	2.7	2.9	4.8	1.0	-2.2
Left kidney weight	1.0	2.7	5.4	2.3	-0.3
Right kidney weight	0.7	1.9	3.8	2.0	-0.0
Cocaine induced anxiety	0.4	0.5	0.8	0.3	-0.9
Post-drug Anxiety	0.1	0.1	0.1	-0.2	0.4
Baseline Anxiety	0.2	0.2	0.4	-0.2	0.6
Tail length	1.9	5.8	10.0	-1.3	3.2
Length with tail	1.3	4.9	7.6	-1.5	2.8
Length without tail	1.5	3.3	3.4	-1.8	1.8
Times rat made contact with spout	0.5	0.6	0.8	0.9	0.7
Lifetime Intake	0.1	0.1	0.1	-0.3	-0.2
Liver weight, left	1.0	1.5	2.8	-0.5	1.7
Liver weight, right	0.9	1.5	2.3	-0.9	1.5
Locomotor activity	0.0	0.1	0.1	-0.3	-0.2
Locomotor testing distance	0.1	0.1	0.1	-0.2	0.4
Locomotor testing rearing	0.1	0.2	0.3	-0.5	-0.3
Locomotion in novel chamber	2.8	3.5	3.8	1.9	-1.8
Locomotion in novel chamber post-restriction	0.0	0.0	0.0	-0.2	0.1
Fecal boli incidents, locomotor time 1	0.2	0.2	0.3	-0.3	0.6
Change in fecal boli incidents, locomotor task	0.2	0.2	0.3	0.5	-0.3
Time >=10cm from walls, locomotor time 1	0.1	0.1	0.2	-0.2	-0.4
Bouts of movement, locomotor time 1	0.1	0.1	0.1	-0.4	0.1
Total resting periods, locomotor time 1	0.1	0.1	0.1	-0.3	-0.2
Rest time, locomotor task time 1	0.3	0.3	0.6	0.3	-0.8
Distance moved, locomotor task time 1	0.0	0.0	0.1	-0.2	-0.0
Vertical activity count, locomotor time 1	0.5	0.5	0.7	-0.9	0.6
Time >=10cm from walls, locomotor time 2	1.0	1.1	1.2	1.0	-1.1
Bouts of movement, locomotor time 2	0.1	0.1	0.1	0.4	-0.3
Total resting periods, locomotor time 2	0.0	0.0	0.0	-0.0	-0.0
Rest time, locomotor task time 2	0.1	0.1	0.1	-0.3	-0.2
Distance moved, locomotor task time 2	0.4	0.5	0.7	0.4	-0.8
Vertical activity count, locomotor time 2	0.2	0.2	0.4	0.6	-0.1
Light reinforcement 1	0.1	0.1	0.2	-0.2	0.4
Light reinforcement 2	1.1	1.4	2.9	1.7	-0.0
Bone: marrow area	0.1	0.2	0.4	-0.3	-0.6
Bone: maximum diameter	0.2	0.4	0.8	0.3	-0.9
Bone: maximum force	0.2	0.4	0.8	0.9	-0.1
Bone: maximum moment	0.3	0.5	0.9	0.9	-0.2
Mean time between licks in bursts	0.2	0.3	0.5	-0.4	0.7
Mean num. licks in bursts	0.6	0.8	1.5	-0.1	1.2
Cd content in liver	0.5	0.6	1.1	-1.1	-0.2
Co content in liver	0.3	0.4	0.5	0.4	-0.7
Cu content in liver	0.3	0.4	0.8	0.9	-0.2
Fe content in liver	0.4	0.5	0.8	-0.4	0.9
K content in liver	0.4	0.4	0.7	0.0	0.8
Mg content in liver	0.2	0.2	0.3	0.2	-0.6
Mn content in liver	0.1	0.2	0.3	-0.6	-0.1
Na content in liver	1.4	1.5	2.9	1.7	-0.4
Rb content in liver	0.5	0.6	1.1	-1.1	0.3
Se content in liver	1.1	1.3	1.4	1.1	-1.2
Sr content in liver	0.7	0.6	0.8	-0.9	0.7
Zn content in liver	0.2	0.2	0.2	-0.5	-0.4
Bone: minimum diameter	0.3	0.6	1.2	1.1	-0.3
Time in familiar zone, hab. session 1	0.3	0.3	0.3	-0.5	-0.5
Time in novel zone, hab. session 1	0.2	0.2	0.3	0.6	0.4
Total zone transitions, hab. session 1	0.6	0.8	1.5	-1.2	0.1
Total locomotion distance, hab. session 1	0.3	0.4	0.7	-0.8	0.1
Locomotion velocity, hab. session 1	0.2	0.3	0.7	-0.8	0.0
Time in familiar zone, hab. session 2	0.8	0.8	1.6	-1.3	0.2
Time in novel zone, hab. session 2	2.1	2.1	3.9	2.0	-0.5
Total zone transitions, hab. session 2	0.8	1.0	1.6	-1.3	0.7
Total locomotion distance, hab. session 2	0.1	0.1	0.2	-0.4	0.1
Locomotion velocity, hab. session 2	0.0	0.1	0.1	-0.3	0.1
Novel to familiar place preference ratio	0.4	0.4	0.6	0.5	-0.8
Novelty place preference	0.1	0.1	0.1	0.3	-0.3
Time in novel zone, NPP test	0.0	0.0	0.0	0.0	-0.1
Total zone transitions, NPP test	0.4	0.6	1.2	-1.1	0.3
Total locomotion distance, NPP test	0.1	0.1	0.2	-0.2	-0.5
Locomotion velocity, NPP test	0.3	0.4	0.8	0.3	-0.9
Intraocular pressure	0.5	0.7	1.3	0.3	-1.2
Delta distance traveled before/after self-admin	2.0	2.1	2.7	-1.6	1.2
Delta ambulatory time before/after self-admin	1.6	1.8	2.1	-1.5	1.2
Parametrial fat weight	10.2	19.9	21.6	-4.7	4.3
Pavlov. Cond. lever latency	0.4	0.5	1.0	-0.1	-1.0
Pavlov. Cond. magazine entry latency	0.4	0.6	0.6	-0.8	0.8
Pavlov. Cond. change in total contacts	0.3	0.3	0.5	0.7	-0.3
Pavlov. Cond. index score	0.8	1.0	1.6	-0.6	1.3
Pavlov. Cond. latency score	0.9	1.2	2.0	-0.6	1.4
Pavlov. Cond. lever contacts	0.4	0.5	0.9	-0.0	1.0
Pavlov. Cond. magazine entry number	0.1	0.1	0.2	0.4	-0.3
Pavlov. Cond. intertrial magazine entries	0.3	0.3	0.6	-0.2	-0.8
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.8	1.1	-0.6	1.1
Pavlov. Cond. response bias	0.3	0.3	0.4	-0.5	0.6
Pavlov. Cond. lever latency	1.1	1.5	2.1	-1.4	1.0
Pavlov. Cond. magazine entry latency	0.5	0.5	1.1	1.0	-0.1
Pavlov. Cond. change in total contacts	0.6	0.8	1.3	1.1	-0.6
Pavlov. Cond. index score	1.5	1.9	2.6	1.6	-1.1
Pavlov. Cond. latency score	1.8	2.3	3.1	1.8	-1.2
Pavlov. Cond. lever contacts	0.5	0.7	1.2	1.1	-0.5
Pavlov. Cond. magazine entry number	0.8	1.0	1.6	-1.3	0.6
Pavlov. Cond. intertrial magazine entries	1.2	1.6	2.9	-1.7	0.5
Pavlov. Cond. lever-magazine prob. diff.	1.3	1.7	2.3	1.5	-1.0
Pavlov. Cond. response bias	0.8	1.1	1.7	1.3	-0.7
Time in closed arm before self-admin	3.7	4.2	5.1	-1.8	2.3
Time in closed arm after self-admin	0.1	0.1	0.2	0.3	0.4
Time in open arm before self-admin	6.6	7.1	7.8	2.8	-2.5
Time in open arm after self-admin	1.1	1.2	1.3	1.1	-1.1
Bone: periosteal estimation	0.4	0.8	0.8	0.9	-0.9
Bone: periosteal perimeter	0.3	0.6	0.9	0.5	-1.0
Bone: post-yield work	0.5	0.6	0.8	-0.7	0.9
Progressive ratio test 1 active lever presses	0.5	0.5	0.6	-0.6	0.8
Progressive ratio test 1 breakpoint	0.7	0.7	1.0	-1.0	0.7
Progressive ratio test 1 inactive lever presses	0.9	1.0	1.3	0.9	-1.1
Progressive ratio test 2 active lever presses	0.0	0.0	0.1	-0.3	-0.0
Progressive ratio test 2 breakpoint	0.1	0.1	0.1	-0.2	-0.3
Progressive ratio test 2 inactive lever presses	0.0	0.0	0.1	0.2	-0.2
Incentive Sensitization - Responses	0.1	0.1	0.2	-0.0	-0.5
Incentive Sensitization - Breakpoint	0.1	0.1	0.3	0.1	-0.5
Sum of active levers in priming session hrs 5-6	3.4	3.3	3.8	-1.7	1.9
Progressive ratio	0.2	0.2	0.4	-0.2	-0.6
Food seeking constrained by brief footshock	0.1	0.1	0.2	0.4	-0.0
Seeking ratio, punishment vs. effort	0.3	0.3	0.5	0.7	0.4
Retroperitoneal fat weight	0.0	0.0	0.0	0.0	-0.0
Reaction time number correct	0.1	0.1	0.1	-0.4	-0.2
Reaction time mean minus median	0.6	0.8	1.5	0.4	-1.2
Reaction time mean minus median AUC	0.3	0.3	0.4	-0.6	-0.5
Reaction time num false alarms	0.4	0.5	1.0	0.2	-1.0
Reaction time num false alarms AUC	0.4	0.5	1.0	0.3	-1.0
Reaction time trials correct on left	0.1	0.1	0.1	-0.4	-0.2
Reaction time trials on left	0.1	0.1	0.1	-0.4	-0.3
Reaction time mean	0.3	0.5	0.7	0.5	-0.8
Reaction time mean AUC	0.7	1.0	1.3	0.8	-1.2
Median of all reaction times	0.3	0.4	0.4	0.6	-0.6
Reaction time omissions	0.1	0.1	0.2	0.1	-0.5
Reaction time false alarm rate	0.1	0.2	0.3	0.2	-0.6
Reaction time premature initiation rate	0.5	0.7	0.8	-0.7	0.9
Reaction time premature initiations	0.4	0.6	0.8	-0.9	0.7
Std. dev. reaction times	0.6	0.9	1.6	0.4	-1.3
Reaction time trials completed	0.1	0.1	0.1	-0.4	-0.3
Reaction time trials AUC	0.1	0.1	0.1	-0.3	-0.3
Run reversals in cocaine runway, females	1.8	1.7	3.1	0.6	-1.8
Run reversals in cocaine runway, males	0.0	0.0	0.0	-0.0	0.1
Latency to leave start box in cocaine runway	0.1	0.1	0.1	0.3	-0.3
Latency to leave start box in cocaine runway, F	0.0	0.0	0.0	0.1	-0.0
Latency to leave start box in cocaine runway, M	0.2	0.1	0.3	-0.1	0.5
Std. dev. time between licks in bursts	0.2	0.2	0.3	-0.6	0.3
Total sessions with >9 infusions	0.1	0.1	0.1	-0.4	0.2
Short access day 1 total inactive lever presses	0.2	0.2	0.3	-0.6	0.1
Short access day 10 total inactive lever presses	0.2	0.3	0.4	0.4	-0.6
Short access day 1 total infusions	0.9	1.0	1.7	0.5	-1.3
Short access day 10 total infusions	0.2	0.2	0.5	-0.7	-0.2
Short access total infusions	0.4	0.5	1.0	-0.1	-1.0
Short access day 1 locomotion	0.6	0.6	0.9	0.5	-1.0
Short access day 10 total locomotion	0.6	0.6	0.8	0.9	-0.7
Short access total locomotion	0.7	0.7	1.1	0.6	-1.1
One hour access (0.3 mA shock)	0.3	0.4	0.7	-0.9	-0.0
Compulsive drug intake	1.6	1.6	3.1	-0.2	1.8
One hour access (shock baseline)	0.4	0.5	0.8	-0.5	-0.9
Social response proportion	3.8	4.1	5.1	-1.8	2.2
Social responses	2.4	3.1	3.1	-1.8	1.8
Social time	3.0	4.0	5.0	-2.2	1.7
Soleus weight	5.1	14.8	15.5	-3.8	3.9
Bone: stiffness	1.0	1.6	1.7	-1.3	1.3
Tibialis anterior weight	6.0	20.4	32.7	-5.7	2.8
Time to tail flick, vehicle, before self-admin	5.0	5.1	8.1	-2.8	1.5
Time to tail flick, vehicle, after self-admin	0.3	0.3	0.5	-0.7	-0.3
Time to tail flick, test, before self-admin	0.4	0.4	0.6	-0.8	0.4
Time to tail flick, test, after self-admin	0.8	0.8	1.3	-0.5	1.2
Delta time to tail flick, vehicle, before/after SA	1.3	1.3	1.3	1.2	-1.1
Delta time to tail flick, test, before/after SA	0.0	0.0	0.0	-0.0	0.1
Tibia length	0.0	0.1	0.2	0.1	0.5
Ambulatory time before self-admin	1.5	1.5	2.9	1.7	-0.4
Ambulatory time after self-admin	1.3	1.4	2.8	-0.4	1.7
Bone: tissue strength	1.7	1.7	2.1	1.5	-1.1
Total heroin consumption	4.9	5.7	6.2	-2.5	2.3
Bone: trabecular number	3.2	5.0	7.6	-2.8	1.5
Bone: trabecular spacing	0.6	0.8	1.0	1.0	-0.7
Bone: trabecular thickness	0.2	0.3	0.4	-0.6	0.4
Bone: trabecular tissue density	2.4	3.3	4.0	2.0	-1.6
Water consumed over 24 hours	0.6	0.7	1.3	0.1	1.2
Number of responses in last shaping day	1.4	1.5	1.6	1.1	-1.3