Hub : Genes

Ntn4

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	Liver	gene expression	Ntn4	0.1	0.05	6.4e-11	0.06	0.07	0.06	0.06	5.8e-07	2.9e-08	1.7e-07	1.5e-07
2	BLA	gene expression	Ntn4	0.06	0.04	3.2e-03	0	0.05	0.02	0.01	2.6e-01	1.7e-03	1.9e-02	7.0e-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	0.1	0.2	0.3	-0.5	-0.2
Area under the delay curve	0.0	0.0	0.1	-0.3	0.1
BMI with tail	3.7	12.9	14.6	-3.8	3.4
BMI without tail	6.4	19.5	27.4	-5.2	3.4
Body weight	16.7	73.1	89.8	-9.5	7.5
Weight adjusted by age	0.4	0.7	1.3	-0.2	1.2
Bone surface	0.2	0.3	0.5	-0.7	0.3
Bone volume	0.5	0.9	1.4	-1.2	0.6
Breakpoint value in progressive ratio session	0.6	0.7	1.2	1.1	-0.5
Number of licking bursts	0.0	0.0	0.0	-0.0	-0.1
Context. condit. distance diff. score	0.6	0.7	1.3	-0.3	1.1
Locomotion velocity, session 1	0.3	0.3	0.5	0.7	-0.3
Locomotion distance, session 1	0.2	0.2	0.4	-0.1	0.7
Locomotion velocity, session 2	0.1	0.1	0.2	-0.5	0.1
Locomotion distance, session 2	1.3	1.9	2.1	-1.3	1.5
Locomotion velocity, session 3	0.9	1.0	1.7	-0.6	1.3
Locomotion distance, session 3	1.6	1.7	2.3	-1.0	1.5
Stereotopy head waving bouts, day 3	1.3	1.5	1.8	1.1	-1.3
Stereotopy head waving duration, day 3	0.5	0.5	0.8	0.5	-0.9
Locomotion velocity, session 7	1.9	2.1	2.6	-1.3	1.6
Locomotion distance, session 7	0.5	0.6	0.9	-0.6	0.9
Stereotopy head waving bouts, day 7	0.2	0.2	0.5	-0.1	-0.7
Stereotopy head waving duration, day 7	0.2	0.3	0.6	-0.1	-0.7
Locomotion velocity, session 8	0.9	1.1	1.7	-0.8	1.3
Locomotion distance, session 8	4.9	7.1	10.6	-1.9	3.3
Degree of sensitization distance	0.4	0.4	0.6	0.5	-0.8
Degree of sensitization stereotypy	0.3	0.3	0.7	0.0	-0.8
Conditioned locomotion	0.3	0.3	0.7	-0.8	0.0
Cocaine response after cond. corrected	0.3	0.3	0.3	-0.5	-0.6
Cocaine response after cond. not corrected	0.1	0.1	0.1	-0.2	-0.3
Cocaine response before conditioning	0.7	0.8	1.5	1.2	0.3
Saline control response	0.3	0.4	0.5	-0.7	0.4
Bone: connectivity density	0.5	0.8	1.4	0.5	-1.2
Bone: cortical apparent density	0.8	1.0	1.6	-0.7	1.3
Bone: cortical area	1.4	2.2	2.8	-1.7	1.2
Bone: cortical porosity	0.6	0.7	1.3	-1.1	-0.3
Bone: cortical porosity	0.6	0.7	1.3	-1.1	-0.1
Bone: cortical thickness	1.0	1.6	2.6	-1.6	0.8
Bone: cortical thickness	0.4	0.4	0.7	-0.4	-0.8
Bone: cortical tissue density	0.8	1.2	1.8	-0.7	1.3
Condit. Reinf. active minus inactive responses	2.2	2.5	4.7	2.2	-0.6
Condit. Reinf. active-inactive response ratio	2.0	2.1	3.1	1.8	-1.0
Condit. Reinf. active responses	3.3	4.1	6.3	2.5	-1.4
Condit. Reinf. inactive responses	1.5	1.9	1.9	1.4	-1.3
Incentive salience index mean	0.8	1.0	2.0	1.4	0.2
Condit. Reinf. lever presses	0.4	0.6	1.2	0.0	1.1
Condit. Reinf. active minus inactive responses	0.0	0.0	0.0	0.2	-0.0
Condit. Reinf. active-inactive response ratio	0.0	0.0	0.0	0.0	0.1
Condit. Reinf. active responses	0.0	0.1	0.1	0.1	0.3
Condit. Reinf. inactive responses	0.1	0.2	0.4	0.6	-0.1
Condit. Reinf. lever presses	0.5	0.7	1.2	-1.1	0.3
Condit. Reinf. lever reinforcers received	0.1	0.1	0.3	0.1	0.5
Conditioned reinforcement - actives	0.0	0.0	0.1	0.3	0.1
Conditioned reinforcement - inactives	0.5	0.8	1.1	0.7	-1.0
Conditioned locomotion	0.1	0.1	0.1	0.3	0.3
Patch foraging indifference point 0 sec	0.1	0.2	0.5	0.1	-0.7
Patch foraging indifference point AUC	0.0	0.1	0.1	-0.3	-0.1
Delay disc. indifference point, 0s delay	0.0	0.0	0.1	0.1	-0.3
Delay disc. indifference point, 16s delay	0.4	0.4	0.5	-0.7	0.6
Delay disc. indifference point, 2s delay	0.4	0.5	1.0	-0.1	1.0
Delay disc. indifference point, 24s delay	1.7	1.9	3.1	-0.9	1.8
Delay disc. indifference point, 4s delay	0.1	0.1	0.3	-0.1	-0.5
Delay disc. indifference point, 8s delay	0.1	0.1	0.2	-0.3	-0.4
Indifference point function ln k	0.1	0.1	0.2	-0.0	0.4
Indifference point function log k	0.1	0.1	0.2	-0.0	0.4
Patch foraging total patch changes 0 sec	0.1	0.2	0.4	-0.1	-0.6
Patch foraging total patch changes 12 sec	0.5	0.7	1.4	-1.2	0.1
Patch foraging total patch changes 18 sec	0.3	0.4	0.7	0.4	-0.8
Patch foraging total patch changes 24 sec	0.2	0.4	0.7	-0.9	0.1
Patch foraging total patch changes 6 sec	0.2	0.4	0.6	0.4	-0.8
Patch foraging time to switch 0 sec	0.1	0.2	0.2	-0.3	-0.5
Patch foraging water rate 0 sec	1.4	2.9	4.7	-1.1	2.2
Patch foraging water rate 12 sec	1.4	2.9	3.7	-1.9	1.5
Patch foraging water rate 18 sec	0.1	0.1	0.3	0.1	0.5
Patch foraging water rate 24 sec	4.1	5.8	8.4	-1.8	2.9
Patch foraging water rate 6 sec	7.9	11.6	13.9	-3.0	3.7
Seeking ratio, delayed vs. immediate footshock	0.4	0.5	0.9	-0.9	-0.4
Distance traveled before self-admin	0.4	0.6	1.0	-0.3	1.0
Distance traveled after self-admin	0.5	0.6	0.8	-0.5	0.9
Extensor digitorum longus weight	0.3	1.1	2.1	-1.4	0.4
Bone: elastic displacement	2.6	3.0	3.4	1.6	-1.8
Bone: elastic work	1.3	1.7	2.2	1.0	-1.5
Bone: endosteal estimation	0.0	0.0	0.0	-0.1	0.2
Bone: endosteal perimeter	1.0	2.2	2.6	-1.3	1.6
Epididymis fat weight	2.3	7.8	9.8	-2.4	3.1
Delta time in closed arm before/after self-admin	0.1	0.1	0.1	-0.2	0.3
Delta time in open arm before/after self-admin	0.9	0.9	1.7	0.3	-1.3
Diff in mean of infusions in LGA sessions	0.2	0.2	0.4	0.1	-0.7
Delay discount exponential model param	0.1	0.1	0.2	0.5	-0.2
Extinction: sum of active levers before priming	0.0	0.0	0.0	0.2	-0.2
Active lever presses in extinction session 6	1.0	1.0	1.2	-1.0	1.1
Bone: final force	0.2	0.3	0.6	-0.8	0.1
Bone: final moment	0.2	0.4	0.7	-0.8	0.1
Food consumed during 24 hour testing period	0.1	0.1	0.1	-0.4	0.3
Glucose	0.0	0.0	0.0	-0.2	-0.0
Heart weight	1.7	2.6	2.8	-1.6	1.7
Delay discount hyperbolic model param	0.2	0.2	0.2	0.5	-0.4
Intermittent access intake day 1-15 change	0.1	0.3	0.6	-0.1	0.7
Intermittent access intake escalation	0.1	0.3	0.5	-0.1	0.7
Intermittent access intake escalation 2	0.4	0.5	0.9	-0.2	0.9
Intermitt. access day 1 inactive lever presses	2.2	8.3	12.0	2.1	-3.5
Intermitt. access day 15 inactive lever presses	0.2	0.4	0.7	0.9	-0.4
Intermitt. access escalation Index	0.1	0.1	0.2	0.5	-0.0
Intermittent access day 1 total infusions	0.2	0.3	0.5	-0.4	0.7
Intermittent access day 15 total infusions	0.7	1.0	1.7	-0.6	1.3
Intermittent access terminal intake (last 3 days)	1.2	1.6	2.7	-0.7	1.7
Intermittent access total infusions	0.7	0.9	1.6	-0.4	1.3
Intermittent access day 1 locomotion	0.2	0.3	0.5	-0.7	-0.0
Intermittent access day 15 total locomotion	0.1	0.2	0.3	0.5	0.2
Intermittent access total locomotion	0.2	0.3	0.3	-0.5	0.6
Intermittent access standard deviation	0.0	0.1	0.1	0.2	0.4
Left kidney weight	5.3	24.7	25.3	-4.9	5.0
Right kidney weight	4.1	18.5	18.9	-4.3	4.3
Cocaine induced anxiety	0.2	0.2	0.3	0.6	-0.3
Post-drug Anxiety	0.1	0.1	0.2	0.4	0.2
Baseline Anxiety	0.4	0.5	0.7	-0.6	0.8
Tail length	10.4	40.7	52.2	-7.2	5.4
Length with tail	15.0	65.2	78.7	-8.9	7.2
Length without tail	8.7	27.9	30.6	-5.5	5.0
Times rat made contact with spout	0.1	0.1	0.2	-0.1	0.4
Lifetime Intake	1.0	1.2	2.2	-0.5	1.5
Liver weight, left	4.4	7.3	11.0	-3.3	1.9
Liver weight, right	5.7	10.0	13.8	-3.7	2.5
Locomotor activity	6.0	9.4	10.0	-3.2	3.0
Locomotor testing distance	2.2	4.0	4.7	-1.8	2.2
Locomotor testing rearing	0.1	0.2	0.2	-0.3	0.5
Locomotion in novel chamber	1.1	1.4	2.7	-0.3	1.6
Locomotion in novel chamber post-restriction	0.0	0.0	0.1	-0.3	-0.2
Fecal boli incidents, locomotor time 1	1.2	1.7	3.3	-1.8	0.3
Change in fecal boli incidents, locomotor task	2.8	2.8	5.2	2.3	-0.7
Time >=10cm from walls, locomotor time 1	0.5	0.5	0.6	0.8	-0.7
Bouts of movement, locomotor time 1	0.1	0.1	0.2	-0.2	-0.4
Total resting periods, locomotor time 1	0.2	0.2	0.3	0.2	-0.6
Rest time, locomotor task time 1	0.7	0.9	1.0	0.9	-1.0
Distance moved, locomotor task time 1	0.2	0.4	0.7	-0.2	0.8
Vertical activity count, locomotor time 1	1.6	3.8	5.4	-1.5	2.3
Time >=10cm from walls, locomotor time 2	0.9	1.4	2.1	1.4	-0.8
Bouts of movement, locomotor time 2	0.2	0.3	0.3	-0.5	0.5
Total resting periods, locomotor time 2	0.1	0.1	0.2	-0.3	0.4
Rest time, locomotor task time 2	0.5	0.7	0.9	1.0	-0.6
Distance moved, locomotor task time 2	0.2	0.3	0.4	-0.7	0.3
Vertical activity count, locomotor time 2	4.5	6.1	8.9	-3.0	1.8
Light reinforcement 1	0.4	0.9	1.7	-0.3	1.3
Light reinforcement 2	0.6	0.9	1.2	0.7	-1.1
Bone: marrow area	0.0	0.0	0.0	-0.0	0.2
Bone: maximum diameter	1.6	3.0	3.3	-1.7	1.8
Bone: maximum force	0.0	0.1	0.2	-0.4	0.0
Bone: maximum moment	0.1	0.1	0.2	-0.4	-0.0
Mean time between licks in bursts	0.2	0.4	0.8	-0.2	0.9
Mean num. licks in bursts	0.1	0.2	0.3	0.6	-0.1
Cd content in liver	0.2	0.2	0.4	-0.6	0.1
Co content in liver	0.2	0.3	0.5	0.2	0.7
Cu content in liver	1.5	1.8	3.6	-1.9	-0.2
Fe content in liver	0.7	0.9	1.2	-1.1	0.7
K content in liver	1.0	0.9	1.6	-1.3	-0.5
Mg content in liver	0.3	0.3	0.6	0.1	-0.8
Mn content in liver	0.1	0.1	0.2	-0.5	0.2
Na content in liver	0.3	0.4	0.6	-0.7	-0.4
Rb content in liver	1.0	1.2	2.3	0.1	-1.5
Se content in liver	0.1	0.1	0.1	-0.3	0.3
Sr content in liver	0.0	0.0	0.0	0.2	-0.1
Zn content in liver	3.8	4.2	4.7	-1.9	2.2
Bone: minimum diameter	3.9	7.0	7.9	-2.5	2.8
Time in familiar zone, hab. session 1	0.1	0.1	0.1	-0.2	0.3
Time in novel zone, hab. session 1	1.2	1.2	1.4	1.0	-1.2
Total zone transitions, hab. session 1	3.4	4.8	7.6	-1.4	2.8
Total locomotion distance, hab. session 1	3.3	4.6	8.3	-0.9	2.9
Locomotion velocity, hab. session 1	4.3	6.0	11.2	-0.9	3.3
Time in familiar zone, hab. session 2	0.1	0.1	0.2	-0.4	0.2
Time in novel zone, hab. session 2	0.8	0.8	0.9	1.0	-0.8
Total zone transitions, hab. session 2	0.9	1.2	2.4	-0.0	1.5
Total locomotion distance, hab. session 2	0.7	1.0	1.8	0.4	1.3
Locomotion velocity, hab. session 2	1.0	1.3	2.5	0.4	1.6
Novel to familiar place preference ratio	0.0	0.0	0.0	0.1	-0.1
Novelty place preference	0.1	0.1	0.1	0.2	-0.3
Time in novel zone, NPP test	0.0	0.0	0.1	0.1	-0.3
Total zone transitions, NPP test	1.2	1.7	2.4	-1.0	1.5
Total locomotion distance, NPP test	0.9	1.3	2.5	-0.3	1.6
Locomotion velocity, NPP test	0.7	0.9	1.8	0.1	1.4
Intraocular pressure	4.0	5.7	7.3	2.7	-2.0
Delta distance traveled before/after self-admin	0.2	0.2	0.3	-0.6	-0.1
Delta ambulatory time before/after self-admin	0.1	0.1	0.2	-0.1	-0.4
Parametrial fat weight	1.2	2.9	4.0	-2.0	1.4
Pavlov. Cond. lever latency	0.3	0.4	0.7	-0.8	0.4
Pavlov. Cond. magazine entry latency	0.5	0.7	1.3	1.1	0.3
Pavlov. Cond. change in total contacts	0.7	0.7	1.3	1.1	-0.4
Pavlov. Cond. index score	0.3	0.4	0.7	0.9	0.0
Pavlov. Cond. latency score	0.4	0.4	0.9	0.9	-0.1
Pavlov. Cond. lever contacts	0.0	0.1	0.1	0.3	0.0
Pavlov. Cond. magazine entry number	0.2	0.3	0.5	-0.7	-0.4
Pavlov. Cond. intertrial magazine entries	0.0	0.0	0.0	-0.0	0.0
Pavlov. Cond. lever-magazine prob. diff.	0.2	0.2	0.5	0.7	0.1
Pavlov. Cond. response bias	0.4	0.5	0.9	1.0	-0.1
Pavlov. Cond. lever latency	0.1	0.2	0.2	0.4	-0.4
Pavlov. Cond. magazine entry latency	0.4	0.5	0.8	0.4	0.9
Pavlov. Cond. change in total contacts	2.1	3.4	5.1	-1.3	2.2
Pavlov. Cond. index score	0.7	1.0	1.7	-0.5	1.3
Pavlov. Cond. latency score	0.5	0.7	1.3	-0.3	1.1
Pavlov. Cond. lever contacts	0.3	0.4	0.5	-0.6	0.7
Pavlov. Cond. magazine entry number	1.0	1.2	2.4	0.2	-1.5
Pavlov. Cond. intertrial magazine entries	0.1	0.1	0.2	-0.5	-0.2
Pavlov. Cond. lever-magazine prob. diff.	0.7	1.0	1.7	-0.4	1.3
Pavlov. Cond. response bias	0.7	0.9	1.4	-0.7	1.2
Time in closed arm before self-admin	0.3	0.4	0.9	0.1	0.9
Time in closed arm after self-admin	0.5	0.6	0.8	-0.6	0.9
Time in open arm before self-admin	0.1	0.1	0.1	0.3	-0.1
Time in open arm after self-admin	0.9	1.0	1.7	0.5	-1.3
Bone: periosteal estimation	0.7	1.4	1.6	-1.1	1.3
Bone: periosteal perimeter	1.1	1.9	1.9	-1.4	1.4
Bone: post-yield work	0.0	0.1	0.1	0.1	-0.3
Progressive ratio test 1 active lever presses	3.1	3.8	4.2	-1.9	2.1
Progressive ratio test 1 breakpoint	3.0	3.7	4.2	-1.8	2.0
Progressive ratio test 1 inactive lever presses	0.2	0.3	0.5	0.3	-0.7
Progressive ratio test 2 active lever presses	0.7	0.9	1.5	-0.5	1.2
Progressive ratio test 2 breakpoint	0.7	0.9	1.5	-0.4	1.2
Progressive ratio test 2 inactive lever presses	0.1	0.2	0.3	0.0	0.6
Incentive Sensitization - Responses	0.4	0.5	0.9	-0.3	1.0
Incentive Sensitization - Breakpoint	0.3	0.4	0.7	-0.2	0.9
Sum of active levers in priming session hrs 5-6	0.3	0.3	0.3	-0.6	0.5
Progressive ratio	1.5	2.3	4.4	2.1	-0.4
Food seeking constrained by brief footshock	0.8	1.0	1.4	-1.2	0.8
Seeking ratio, punishment vs. effort	1.9	2.7	4.9	-2.2	0.8
Retroperitoneal fat weight	2.8	12.0	12.4	-3.4	3.5
Reaction time number correct	0.0	0.0	0.1	0.2	0.3
Reaction time mean minus median	0.4	1.1	1.4	1.2	-0.9
Reaction time mean minus median AUC	0.5	1.3	1.9	1.4	-0.9
Reaction time num false alarms	1.3	1.9	3.5	0.6	-1.9
Reaction time num false alarms AUC	1.8	2.8	4.8	0.9	-2.2
Reaction time trials correct on left	0.0	0.0	0.1	0.2	0.3
Reaction time trials on left	0.0	0.0	0.1	0.2	0.2
Reaction time mean	0.1	0.2	0.3	0.6	-0.2
Reaction time mean AUC	0.1	0.1	0.2	0.4	-0.3
Median of all reaction times	0.0	0.0	0.0	0.1	0.2
Reaction time omissions	2.9	4.3	5.1	2.3	-1.9
Reaction time false alarm rate	1.7	2.4	4.1	0.8	-2.0
Reaction time premature initiation rate	0.2	0.2	0.5	0.1	0.7
Reaction time premature initiations	0.1	0.2	0.5	0.1	0.7
Std. dev. reaction times	0.8	1.5	1.7	1.3	-1.1
Reaction time trials completed	0.0	0.0	0.1	0.2	0.2
Reaction time trials AUC	0.0	0.1	0.1	0.0	0.3
Run reversals in cocaine runway, females	2.4	2.4	2.9	-1.4	1.7
Run reversals in cocaine runway, males	0.3	0.3	0.4	0.7	-0.5
Latency to leave start box in cocaine runway	0.4	0.5	0.5	-0.7	0.7
Latency to leave start box in cocaine runway, F	0.2	0.3	0.4	0.7	-0.3
Latency to leave start box in cocaine runway, M	3.6	3.4	4.6	-2.1	1.5
Std. dev. time between licks in bursts	0.1	0.1	0.3	0.1	0.5
Total sessions with >9 infusions	1.6	1.9	2.0	-1.4	1.4
Short access day 1 total inactive lever presses	0.7	1.0	1.7	0.5	-1.3
Short access day 10 total inactive lever presses	1.2	3.0	3.5	1.6	-1.9
Short access day 1 total infusions	0.3	0.4	0.9	-0.1	0.9
Short access day 10 total infusions	1.5	1.9	2.3	-1.5	1.3
Short access total infusions	1.4	1.7	2.6	-0.9	1.6
Short access day 1 locomotion	0.5	0.6	1.1	-1.0	0.3
Short access day 10 total locomotion	1.3	2.4	3.9	1.0	-2.0
Short access total locomotion	0.2	0.3	0.4	-0.7	-0.4
One hour access (0.3 mA shock)	3.4	3.9	7.3	-0.7	2.7
Compulsive drug intake	0.0	0.0	0.1	-0.0	0.2
One hour access (shock baseline)	1.0	1.5	2.6	-0.5	1.6
Social response proportion	7.2	8.2	9.8	-3.1	2.6
Social responses	4.5	5.8	7.3	-2.1	2.7
Social time	0.3	0.5	0.9	-0.9	0.1
Soleus weight	0.5	1.3	2.0	-1.4	0.8
Bone: stiffness	2.1	3.4	5.4	-2.3	1.2
Tibialis anterior weight	0.0	0.2	0.3	-0.3	-0.5
Time to tail flick, vehicle, before self-admin	0.5	0.6	0.8	-0.6	0.9
Time to tail flick, vehicle, after self-admin	0.7	1.0	1.8	0.4	-1.3
Time to tail flick, test, before self-admin	1.1	1.2	1.5	-1.2	0.9
Time to tail flick, test, after self-admin	0.5	0.6	0.8	-0.6	0.9
Delta time to tail flick, vehicle, before/after SA	1.4	1.4	2.5	0.5	-1.6
Delta time to tail flick, test, before/after SA	0.2	0.2	0.3	0.6	-0.2
Tibia length	10.3	28.3	33.2	-4.8	5.8
Ambulatory time before self-admin	0.5	0.7	0.8	-0.8	0.9
Ambulatory time after self-admin	1.6	1.9	2.5	-1.1	1.6
Bone: tissue strength	0.4	0.4	0.8	-0.9	-0.1
Total heroin consumption	0.2	0.2	0.5	0.7	0.1
Bone: trabecular number	0.4	0.6	0.9	0.5	-1.0
Bone: trabecular spacing	0.2	0.3	0.6	0.8	0.2
Bone: trabecular thickness	1.2	1.5	2.6	-1.6	0.7
Bone: trabecular tissue density	0.2	0.3	0.5	-0.4	0.7
Water consumed over 24 hours	1.0	1.4	2.6	-1.6	0.4
Number of responses in last shaping day	0.3	0.3	0.7	0.8	0.0