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	BLA	gene expression	Ntn4	0.06	0.04	3.0e-03	0.01	0.04	0	0.01	1.3e-01	2.8e-03	2.6e-01	1.1e-01
2	Liver	gene expression	Ntn4	0.1	0.05	9.7e-11	0.05	0.07	0.06	0.06	1.1e-06	4.5e-08	9.0e-07	3.1e-07

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	0.0	0.1	0.1	-0.1	-0.4
Area under the delay curve	0.0	0.0	0.0	0.2	-0.1
BMI with tail	3.2	10.3	11.8	3.0	-3.4
BMI without tail	7.1	14.7	17.6	3.4	-4.2
Body weight	16.3	68.4	83.0	7.3	-9.1
Weight adjusted by age	1.2	1.3	2.3	1.5	-0.6
Bone surface	0.1	0.2	0.2	0.3	-0.5
Bone volume	0.4	0.7	1.0	0.6	-1.0
Breakpoint value in progressive ratio session	0.7	0.7	0.8	-0.8	0.9
Number of licking bursts	0.0	0.0	0.0	-0.2	0.2
Context. condit. distance diff. score	0.6	0.7	1.2	1.1	-0.4
Locomotion velocity, session 1	0.3	0.3	0.4	-0.4	0.7
Locomotion distance, session 1	0.1	0.2	0.3	0.6	-0.0
Locomotion velocity, session 2	0.1	0.1	0.2	-0.0	-0.5
Locomotion distance, session 2	1.3	1.9	2.1	1.4	-1.3
Locomotion velocity, session 3	0.8	1.0	1.6	1.3	-0.6
Locomotion distance, session 3	1.7	1.8	2.5	1.6	-1.0
Stereotopy head waving bouts, day 3	1.1	1.3	1.6	-1.3	1.0
Stereotopy head waving duration, day 3	0.4	0.5	0.7	-0.8	0.5
Locomotion velocity, session 7	1.8	2.0	2.4	1.5	-1.2
Locomotion distance, session 7	0.5	0.6	0.9	0.9	-0.6
Stereotopy head waving bouts, day 7	0.1	0.1	0.2	-0.4	-0.3
Stereotopy head waving duration, day 7	0.2	0.3	0.5	-0.7	0.0
Locomotion velocity, session 8	0.8	1.0	1.4	1.2	-0.7
Locomotion distance, session 8	4.9	7.3	10.5	3.2	-2.0
Degree of sensitization distance	0.4	0.4	0.6	-0.8	0.5
Degree of sensitization stereotypy	0.3	0.4	0.7	-0.8	0.1
Conditioned locomotion	0.3	0.3	0.6	0.2	-0.8
Cocaine response after cond. corrected	0.2	0.3	0.3	-0.5	-0.5
Cocaine response after cond. not corrected	0.1	0.1	0.1	-0.3	-0.2
Cocaine response before conditioning	0.7	0.8	1.5	0.2	1.2
Saline control response	0.4	0.5	0.8	0.4	-0.9
Bone: connectivity density	0.6	0.9	1.5	-1.2	0.6
Bone: cortical apparent density	1.4	1.9	2.3	1.5	-1.2
Bone: cortical area	1.6	2.4	3.1	1.3	-1.8
Bone: cortical porosity	0.5	0.5	1.0	-0.3	-1.0
Bone: cortical porosity	0.7	0.8	1.6	0.1	-1.2
Bone: cortical thickness	1.2	2.0	3.3	0.8	-1.8
Bone: cortical thickness	0.4	0.5	0.9	-0.9	-0.4
Bone: cortical tissue density	1.4	1.9	2.4	1.6	-1.2
Condit. Reinf. active minus inactive responses	2.1	2.4	4.3	-0.7	2.1
Condit. Reinf. active-inactive response ratio	1.8	2.0	2.9	-1.1	1.7
Condit. Reinf. active responses	3.3	4.0	5.9	-1.5	2.4
Condit. Reinf. inactive responses	1.6	1.9	2.0	-1.4	1.3
Incentive salience index mean	0.7	0.9	1.8	0.1	1.3
Condit. Reinf. lever presses	0.4	0.5	1.1	1.0	-0.1
Condit. Reinf. active minus inactive responses	0.0	0.0	0.1	-0.1	0.3
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	0.3	0.2
Condit. Reinf. inactive responses	0.1	0.2	0.3	-0.1	0.6
Condit. Reinf. lever presses	0.5	0.7	1.4	0.3	-1.2
Condit. Reinf. lever reinforcers received	0.1	0.1	0.2	0.5	0.2
Conditioned reinforcement - actives	0.0	0.0	0.0	0.2	0.1
Conditioned reinforcement - inactives	0.1	0.1	0.3	-0.5	0.1
Conditioned locomotion	0.2	0.3	0.4	0.6	-0.3
Patch foraging indifference point 0 sec	0.1	0.2	0.5	-0.7	0.0
Patch foraging indifference point AUC	0.1	0.1	0.2	-0.3	-0.4
Delay disc. indifference point, 0s delay	0.0	0.0	0.1	-0.3	0.0
Delay disc. indifference point, 16s delay	0.5	0.5	0.6	0.7	-0.8
Delay disc. indifference point, 2s delay	0.3	0.4	0.7	0.8	-0.0
Delay disc. indifference point, 24s delay	1.8	1.8	3.0	1.7	-0.7
Delay disc. indifference point, 4s delay	0.1	0.1	0.2	-0.4	-0.3
Delay disc. indifference point, 8s delay	0.1	0.1	0.1	-0.3	-0.2
Indifference point function ln k	0.1	0.1	0.1	0.4	0.1
Indifference point function log k	0.1	0.1	0.1	0.4	0.1
Patch foraging total patch changes 0 sec	0.1	0.2	0.4	-0.6	-0.1
Patch foraging total patch changes 12 sec	0.5	0.7	1.4	0.1	-1.2
Patch foraging total patch changes 18 sec	0.4	0.5	0.8	-0.9	0.4
Patch foraging total patch changes 24 sec	0.3	0.3	0.7	0.0	-0.8
Patch foraging total patch changes 6 sec	0.3	0.4	0.7	-0.8	0.3
Patch foraging time to switch 0 sec	0.1	0.2	0.2	-0.3	-0.4
Patch foraging water rate 0 sec	1.8	2.9	4.9	2.2	-1.0
Patch foraging water rate 12 sec	1.8	2.7	3.4	1.4	-1.8
Patch foraging water rate 18 sec	0.1	0.1	0.2	0.5	0.2
Patch foraging water rate 24 sec	4.0	5.5	8.3	2.9	-1.6
Patch foraging water rate 6 sec	7.9	11.6	14.2	3.8	-3.0
Seeking ratio, delayed vs. immediate footshock	0.3	0.4	0.7	-0.3	-0.8
Distance traveled before self-admin	0.2	0.2	0.3	0.6	0.2
Distance traveled after self-admin	1.2	1.4	1.8	1.4	-1.0
Extensor digitorum longus weight	0.2	1.0	1.8	0.3	-1.3
Bone: elastic displacement	2.6	3.0	3.6	-1.9	1.5
Bone: elastic work	1.4	1.8	2.4	-1.6	1.1
Bone: endosteal estimation	0.0	0.0	0.1	-0.0	0.3
Bone: endosteal perimeter	0.9	1.9	2.5	1.6	-1.1
Epididymis fat weight	3.3	7.7	8.5	2.9	-2.6
Delta time in closed arm before/after self-admin	0.1	0.1	0.2	0.1	-0.4
Delta time in open arm before/after self-admin	0.3	0.3	0.6	-0.8	-0.1
Diff in mean of infusions in LGA sessions	1.2	1.3	1.9	-1.4	0.9
Delay discount exponential model param	0.1	0.1	0.1	-0.4	0.3
Extinction: sum of active levers before priming	0.6	0.6	0.8	-0.6	0.9
Active lever presses in extinction session 6	0.5	0.5	0.6	0.6	-0.8
Bone: final force	0.4	0.7	1.3	0.3	-1.2
Bone: final moment	0.4	0.7	1.3	0.3	-1.1
Food consumed during 24 hour testing period	0.0	0.0	0.0	0.2	-0.2
Glucose	0.1	0.2	0.3	0.2	-0.6
Heart weight	0.2	0.3	0.4	0.4	-0.6
Delay discount hyperbolic model param	0.1	0.2	0.2	-0.4	0.4
Intermittent access intake day 1-15 change	0.0	0.0	0.0	-0.1	0.0
Intermittent access intake escalation	0.2	0.2	0.2	-0.5	0.4
Intermittent access intake escalation 2	0.3	0.3	0.4	-0.3	0.6
Intermitt. access day 1 inactive lever presses	5.7	6.2	9.1	-3.0	1.8
Intermitt. access day 15 inactive lever presses	0.7	0.8	1.2	-0.7	1.1
Intermitt. access escalation Index	1.2	1.1	1.5	-0.9	1.2
Intermittent access day 1 total infusions	1.0	1.2	1.9	1.4	-0.7
Intermittent access day 15 total infusions	1.1	1.3	2.0	1.4	-0.7
Intermittent access terminal intake (last 3 days)	2.1	2.3	3.7	1.9	-1.0
Intermittent access total infusions	1.6	1.8	3.0	1.7	-0.7
Intermittent access day 1 locomotion	0.6	0.7	0.8	0.7	-0.9
Intermittent access day 15 total locomotion	0.2	0.3	0.5	0.7	-0.2
Intermittent access total locomotion	0.5	0.6	0.8	0.9	-0.6
Intermittent access standard deviation	0.5	0.6	1.0	1.0	-0.4
Left kidney weight	3.9	11.1	12.0	3.2	-3.5
Right kidney weight	3.0	8.3	10.3	2.5	-3.2
Cocaine induced anxiety	0.4	0.4	0.6	-0.6	0.7
Post-drug Anxiety	0.2	0.2	0.3	-0.2	0.6
Baseline Anxiety	0.0	0.0	0.0	0.0	0.1
Tail length	11.5	34.8	42.3	5.2	-6.5
Length with tail	15.5	56.6	63.9	7.0	-8.0
Length without tail	7.6	16.7	17.8	3.9	-4.2
Times rat made contact with spout	0.0	0.1	0.1	0.3	0.0
Lifetime Intake	2.0	2.3	4.1	2.0	-0.7
Liver weight, left	0.9	1.4	1.8	1.3	-1.1
Liver weight, right	3.2	5.3	6.1	2.1	-2.5
Locomotor activity	6.0	9.5	9.8	3.0	-3.1
Locomotor testing distance	1.8	2.9	3.8	1.9	-1.5
Locomotor testing rearing	0.0	0.1	0.1	0.3	-0.1
Locomotion in novel chamber	0.9	1.1	2.2	1.5	-0.3
Locomotion in novel chamber post-restriction	0.0	0.0	0.1	-0.1	-0.3
Fecal boli incidents, locomotor time 1	1.5	1.7	3.1	0.5	-1.7
Change in fecal boli incidents, locomotor task	2.3	2.2	4.0	-0.6	2.0
Time >=10cm from walls, locomotor time 1	0.6	0.6	0.7	-0.8	0.8
Bouts of movement, locomotor time 1	0.1	0.1	0.1	-0.4	-0.2
Total resting periods, locomotor time 1	0.1	0.1	0.2	-0.5	0.2
Rest time, locomotor task time 1	0.7	0.7	1.2	-1.1	0.6
Distance moved, locomotor task time 1	0.1	0.1	0.3	0.5	0.1
Vertical activity count, locomotor time 1	2.6	2.8	4.0	2.0	-1.2
Time >=10cm from walls, locomotor time 2	1.4	1.4	2.0	-1.0	1.4
Bouts of movement, locomotor time 2	0.4	0.4	0.5	0.5	-0.7
Total resting periods, locomotor time 2	0.2	0.3	0.3	0.5	-0.5
Rest time, locomotor task time 2	0.5	0.5	0.7	-0.6	0.8
Distance moved, locomotor task time 2	0.1	0.1	0.2	0.1	-0.4
Vertical activity count, locomotor time 2	5.2	5.6	8.3	1.7	-2.9
Light reinforcement 1	0.4	0.7	1.3	1.1	-0.2
Light reinforcement 2	0.7	1.0	1.4	-1.2	0.7
Bone: marrow area	0.0	0.0	0.1	0.0	0.2
Bone: maximum diameter	1.4	2.6	2.8	1.7	-1.5
Bone: maximum force	0.1	0.1	0.3	0.0	-0.5
Bone: maximum moment	0.1	0.1	0.2	-0.0	-0.5
Mean time between licks in bursts	0.8	1.2	1.7	1.3	-0.8
Mean num. licks in bursts	0.1	0.1	0.2	-0.1	0.5
Cd content in liver	2.0	2.2	2.6	1.3	-1.6
Co content in liver	2.4	2.8	2.9	1.6	-1.7
Cu content in liver	2.6	3.2	5.7	0.8	-2.4
Fe content in liver	0.6	0.7	0.8	0.9	-0.8
K content in liver	0.7	0.7	1.2	-0.4	-1.1
Mg content in liver	0.1	0.1	0.2	-0.4	-0.3
Mn content in liver	0.2	0.3	0.5	0.1	-0.7
Na content in liver	0.2	0.2	0.2	-0.5	-0.4
Rb content in liver	0.7	0.9	1.7	-1.3	-0.2
Se content in liver	0.4	0.5	0.9	0.9	-0.3
Sr content in liver	0.1	0.1	0.1	-0.0	-0.4
Zn content in liver	1.2	1.4	1.4	1.2	-1.2
Bone: minimum diameter	3.4	6.4	7.4	2.7	-2.3
Time in familiar zone, hab. session 1	0.1	0.1	0.1	0.3	-0.3
Time in novel zone, hab. session 1	1.3	1.2	1.5	-1.2	1.0
Total zone transitions, hab. session 1	3.4	4.7	7.2	2.7	-1.5
Total locomotion distance, hab. session 1	3.1	4.4	7.8	2.8	-1.0
Locomotion velocity, hab. session 1	4.0	5.7	10.4	3.2	-0.9
Time in familiar zone, hab. session 2	0.1	0.1	0.2	0.3	-0.4
Time in novel zone, hab. session 2	0.8	0.8	0.9	-0.8	0.9
Total zone transitions, hab. session 2	0.8	1.0	2.0	1.4	-0.1
Total locomotion distance, hab. session 2	0.6	0.8	1.5	1.2	0.4
Locomotion velocity, hab. session 2	0.9	1.2	2.2	1.5	0.3
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	-0.3	0.3
Time in novel zone, NPP test	0.1	0.1	0.1	-0.3	0.1
Total zone transitions, NPP test	1.2	1.6	2.1	1.5	-1.1
Total locomotion distance, NPP test	0.8	1.1	2.2	1.5	-0.3
Locomotion velocity, NPP test	0.5	0.7	1.5	1.2	0.1
Intraocular pressure	3.7	5.1	6.4	-2.0	2.5
Delta distance traveled before/after self-admin	0.8	0.9	1.4	0.6	-1.2
Delta ambulatory time before/after self-admin	0.2	0.2	0.4	-0.1	-0.6
Parametrial fat weight	0.2	0.3	0.5	0.3	-0.7
Pavlov. Cond. lever latency	0.4	0.5	0.8	0.6	-0.9
Pavlov. Cond. magazine entry latency	0.4	0.5	1.0	0.1	1.0
Pavlov. Cond. change in total contacts	0.7	0.7	1.2	-0.5	1.1
Pavlov. Cond. index score	0.2	0.3	0.6	-0.0	0.8
Pavlov. Cond. latency score	0.3	0.4	0.7	-0.1	0.9
Pavlov. Cond. lever contacts	0.0	0.0	0.1	0.2	0.2
Pavlov. Cond. magazine entry number	0.2	0.3	0.4	-0.3	-0.7
Pavlov. Cond. intertrial magazine entries	0.0	0.0	0.0	-0.0	0.0
Pavlov. Cond. lever-magazine prob. diff.	0.1	0.2	0.3	0.2	0.6
Pavlov. Cond. response bias	0.2	0.2	0.4	0.3	0.6
Pavlov. Cond. lever latency	0.0	0.0	0.1	-0.3	0.1
Pavlov. Cond. magazine entry latency	0.3	0.4	0.6	0.8	0.3
Pavlov. Cond. change in total contacts	2.3	3.2	4.8	2.2	-1.2
Pavlov. Cond. index score	0.6	0.8	1.4	1.2	-0.4
Pavlov. Cond. latency score	0.4	0.5	1.0	1.0	-0.2
Pavlov. Cond. lever contacts	0.3	0.4	0.4	0.6	-0.7
Pavlov. Cond. magazine entry number	0.8	0.9	1.9	-1.4	0.0
Pavlov. Cond. intertrial magazine entries	0.1	0.2	0.4	-0.0	-0.6
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.7	1.3	1.1	-0.4
Pavlov. Cond. response bias	0.6	0.8	1.0	1.0	-0.7
Time in closed arm before self-admin	0.3	0.3	0.6	0.8	0.1
Time in closed arm after self-admin	0.5	0.5	0.5	0.7	-0.7
Time in open arm before self-admin	0.3	0.4	0.6	-0.3	0.8
Time in open arm after self-admin	0.5	0.5	0.8	-0.9	0.5
Bone: periosteal estimation	0.5	1.0	1.2	1.1	-0.9
Bone: periosteal perimeter	1.0	1.7	1.7	1.3	-1.3
Bone: post-yield work	0.1	0.2	0.3	-0.5	0.4
Progressive ratio test 1 active lever presses	3.6	3.8	3.8	1.9	-1.9
Progressive ratio test 1 breakpoint	3.9	4.1	4.5	2.1	-1.9
Progressive ratio test 1 inactive lever presses	0.1	0.1	0.2	-0.4	0.2
Progressive ratio test 2 active lever presses	1.6	1.8	2.8	1.7	-0.8
Progressive ratio test 2 breakpoint	1.6	1.8	2.7	1.7	-0.9
Progressive ratio test 2 inactive lever presses	0.1	0.1	0.1	0.4	0.2
Incentive Sensitization - Responses	0.5	0.5	0.8	0.9	-0.5
Incentive Sensitization - Breakpoint	0.4	0.4	0.6	0.8	-0.5
Sum of active levers in priming session hrs 5-6	0.1	0.1	0.1	0.4	-0.3
Progressive ratio	3.0	3.4	5.9	-1.0	2.4
Food seeking constrained by brief footshock	0.6	0.8	1.1	0.7	-1.1
Seeking ratio, punishment vs. effort	2.4	2.9	4.9	1.0	-2.2
Retroperitoneal fat weight	3.8	12.5	15.4	3.9	-3.1
Reaction time number correct	0.0	0.0	0.1	0.3	0.1
Reaction time mean minus median	0.9	1.2	1.3	-1.0	1.1
Reaction time mean minus median AUC	1.1	1.4	1.9	-1.0	1.4
Reaction time num false alarms	1.3	1.8	3.3	-1.8	0.6
Reaction time num false alarms AUC	1.9	2.6	4.5	-2.1	0.8
Reaction time trials correct on left	0.0	0.0	0.1	0.3	0.1
Reaction time trials on left	0.0	0.0	0.0	0.2	0.1
Reaction time mean	0.1	0.1	0.2	-0.2	0.5
Reaction time mean AUC	0.1	0.1	0.1	-0.3	0.3
Median of all reaction times	0.0	0.0	0.1	0.3	-0.1
Reaction time omissions	3.1	4.2	4.4	-2.0	2.1
Reaction time false alarm rate	1.7	2.4	4.0	-2.0	0.8
Reaction time premature initiation rate	0.2	0.2	0.4	0.6	0.0
Reaction time premature initiations	0.2	0.3	0.5	0.7	0.0
Std. dev. reaction times	1.0	1.4	1.5	-1.2	1.2
Reaction time trials completed	0.0	0.0	0.0	0.2	0.1
Reaction time trials AUC	0.1	0.1	0.2	0.4	-0.1
Run reversals in cocaine runway, females	2.3	2.2	2.9	1.7	-1.2
Run reversals in cocaine runway, males	0.4	0.4	0.5	-0.5	0.7
Latency to leave start box in cocaine runway	0.7	0.7	1.1	1.0	-0.6
Latency to leave start box in cocaine runway, F	0.1	0.2	0.3	0.0	0.5
Latency to leave start box in cocaine runway, M	3.8	3.6	4.3	1.7	-2.1
Std. dev. time between licks in bursts	0.1	0.1	0.2	0.4	0.2
Total sessions with >9 infusions	2.4	2.7	4.1	2.0	-1.1
Short access day 1 total inactive lever presses	0.9	1.0	1.2	-1.1	0.9
Short access day 10 total inactive lever presses	1.0	1.1	1.1	-1.1	1.0
Short access day 1 total infusions	2.5	2.7	4.3	2.1	-1.0
Short access day 10 total infusions	3.1	3.4	3.8	2.0	-1.7
Short access total infusions	4.1	4.6	6.9	2.6	-1.5
Short access day 1 locomotion	2.7	2.9	3.1	1.6	-1.8
Short access day 10 total locomotion	0.1	0.1	0.3	-0.5	-0.0
Short access total locomotion	1.0	1.0	1.5	0.7	-1.2
One hour access (0.3 mA shock)	1.7	2.0	4.0	2.0	0.2
Compulsive drug intake	0.2	0.2	0.4	0.1	0.7
One hour access (shock baseline)	0.8	0.9	1.7	1.3	-0.2
Social response proportion	7.9	8.6	10.0	2.7	-3.2
Social responses	4.4	5.6	7.1	2.7	-2.0
Social time	0.3	0.5	0.9	0.2	-0.9
Soleus weight	0.4	1.3	2.0	0.8	-1.4
Bone: stiffness	2.5	3.9	6.0	1.3	-2.5
Tibialis anterior weight	0.1	0.2	0.3	-0.6	-0.3
Time to tail flick, vehicle, before self-admin	0.5	0.5	1.0	1.0	-0.4
Time to tail flick, vehicle, after self-admin	0.7	0.7	1.4	-1.2	0.3
Time to tail flick, test, before self-admin	0.7	0.7	0.8	0.8	-0.9
Time to tail flick, test, after self-admin	0.1	0.1	0.3	0.5	0.2
Delta time to tail flick, vehicle, before/after SA	1.0	1.0	1.9	-1.4	0.3
Delta time to tail flick, test, before/after SA	0.5	0.4	0.8	-0.3	0.9
Tibia length	10.4	29.4	34.5	5.9	-4.9
Ambulatory time before self-admin	0.1	0.1	0.2	0.5	-0.1
Ambulatory time after self-admin	2.2	2.4	3.2	1.8	-1.3
Bone: tissue strength	0.3	0.3	0.6	-0.1	-0.8
Total heroin consumption	0.1	0.1	0.2	0.1	0.4
Bone: trabecular number	0.6	1.0	1.3	-1.1	0.8
Bone: trabecular spacing	0.3	0.3	0.6	0.1	0.8
Bone: trabecular thickness	1.3	1.5	2.4	0.8	-1.6
Bone: trabecular tissue density	0.3	0.4	0.6	0.8	-0.4
Water consumed over 24 hours	0.3	0.4	0.8	-0.0	-0.9
Number of responses in last shaping day	0.2	0.2	0.3	0.6	-0.0