Hub : Genes

Spryd4

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	NAcc	gene expression	Spryd4	0.04	0.03	1.1e-06	0.04	0.04	0.04	0.04	1.0e-06	4.0e-07	7.7e-07	9.8e-07
2	IC	gene expression	Spryd4	0.1	0.07	6.7e-03	0.03	0.02	0	0.03	1.5e-02	5.5e-02	3.0e-01	3.2e-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	0.3	0.6	1.2	-0.2	1.1
Area under the delay curve	0.0	0.0	0.0	-0.0	0.1
BMI with tail	8.3	29.1	30.9	-5.6	5.2
BMI without tail	1.2	6.6	7.0	-2.6	2.5
Body weight	1.1	4.8	5.2	-2.3	2.1
Weight adjusted by age	0.0	0.1	0.1	0.2	-0.3
Bone surface	0.2	0.5	0.8	0.4	0.9
Bone volume	0.4	0.8	1.5	0.1	1.2
Breakpoint value in progressive ratio session	0.6	1.1	1.2	1.1	-1.0
Number of licking bursts	1.0	3.0	3.8	-1.9	1.5
Context. condit. distance diff. score	0.2	0.3	0.3	-0.6	0.4
Locomotion velocity, session 1	0.3	0.3	0.5	-0.2	0.7
Locomotion distance, session 1	0.1	0.1	0.2	0.4	0.2
Locomotion velocity, session 2	0.8	1.0	1.5	1.2	-0.7
Locomotion distance, session 2	2.2	3.2	4.3	2.1	-1.4
Locomotion velocity, session 3	5.2	5.9	6.1	2.5	-2.4
Locomotion distance, session 3	0.1	0.1	0.1	0.3	-0.3
Stereotopy head waving bouts, day 3	5.6	6.7	7.2	2.7	-2.5
Stereotopy head waving duration, day 3	3.7	4.6	4.7	2.1	-2.2
Locomotion velocity, session 7	0.0	0.0	0.0	0.2	-0.2
Locomotion distance, session 7	0.0	0.1	0.1	-0.3	-0.0
Stereotopy head waving bouts, day 7	0.5	0.6	1.1	1.0	-0.5
Stereotopy head waving duration, day 7	0.4	0.5	1.0	1.0	-0.3
Locomotion velocity, session 8	0.9	1.1	1.7	1.3	-0.7
Locomotion distance, session 8	0.4	0.6	0.7	0.8	-0.7
Degree of sensitization distance	0.6	0.7	0.8	-0.9	0.8
Degree of sensitization stereotypy	0.2	0.2	0.4	-0.2	0.6
Conditioned locomotion	0.5	0.6	0.9	-1.0	0.6
Cocaine response after cond. corrected	1.3	2.0	2.9	-1.7	1.0
Cocaine response after cond. not corrected	1.5	2.1	3.0	-1.7	1.1
Cocaine response before conditioning	0.3	0.4	0.6	0.8	-0.5
Saline control response	0.4	0.5	0.6	-0.8	0.7
Bone: connectivity density	0.2	0.3	0.5	-0.1	0.7
Bone: cortical apparent density	1.1	1.7	1.9	-1.4	1.2
Bone: cortical area	1.3	2.0	2.9	-1.1	1.7
Bone: cortical porosity	0.0	0.0	0.1	-0.1	0.3
Bone: cortical porosity	0.3	0.3	0.5	-0.4	0.7
Bone: cortical thickness	2.2	3.6	4.5	-1.6	2.1
Bone: cortical thickness	0.7	0.8	0.9	-1.0	0.8
Bone: cortical tissue density	0.7	1.1	1.3	-1.1	1.0
Condit. Reinf. active minus inactive responses	2.1	2.4	2.6	1.5	-1.6
Condit. Reinf. active-inactive response ratio	0.4	0.4	0.7	0.4	-0.8
Condit. Reinf. active responses	2.6	3.4	3.8	1.9	-1.7
Condit. Reinf. inactive responses	1.2	1.5	2.2	1.5	-0.9
Incentive salience index mean	1.2	1.5	1.7	1.3	-1.2
Condit. Reinf. lever presses	0.2	0.3	0.5	0.7	-0.2
Condit. Reinf. active minus inactive responses	2.3	3.6	4.1	1.7	-2.0
Condit. Reinf. active-inactive response ratio	0.8	1.3	2.0	0.8	-1.4
Condit. Reinf. active responses	1.7	2.4	2.4	1.6	-1.6
Condit. Reinf. inactive responses	0.2	0.3	0.4	0.7	-0.3
Condit. Reinf. lever presses	2.7	3.9	4.1	1.9	-2.0
Condit. Reinf. lever reinforcers received	1.4	1.9	2.0	1.3	-1.4
Conditioned reinforcement - actives	0.0	0.0	0.0	-0.2	0.1
Conditioned reinforcement - inactives	0.2	0.4	0.6	-0.8	0.5
Conditioned locomotion	1.4	2.0	2.2	1.5	-1.4
Patch foraging indifference point 0 sec	2.7	7.6	8.2	-2.7	2.9
Patch foraging indifference point AUC	0.6	1.4	1.8	1.0	-1.3
Delay disc. indifference point, 0s delay	1.5	1.7	2.2	-1.2	1.5
Delay disc. indifference point, 16s delay	0.1	0.2	0.2	0.5	-0.3
Delay disc. indifference point, 2s delay	0.2	0.2	0.2	-0.4	0.5
Delay disc. indifference point, 24s delay	0.1	0.2	0.2	-0.4	0.5
Delay disc. indifference point, 4s delay	0.2	0.2	0.3	0.6	-0.3
Delay disc. indifference point, 8s delay	0.0	0.0	0.1	-0.3	0.0
Indifference point function ln k	0.1	0.2	0.2	-0.4	0.5
Indifference point function log k	0.1	0.2	0.2	-0.4	0.5
Patch foraging total patch changes 0 sec	2.3	6.8	7.4	-2.5	2.7
Patch foraging total patch changes 12 sec	1.8	2.4	2.8	-1.7	1.4
Patch foraging total patch changes 18 sec	0.0	0.0	0.0	-0.1	0.2
Patch foraging total patch changes 24 sec	0.2	0.8	1.0	-0.8	1.0
Patch foraging total patch changes 6 sec	2.2	3.7	4.0	-1.8	2.0
Patch foraging time to switch 0 sec	0.1	0.6	0.8	-0.6	0.9
Patch foraging water rate 0 sec	0.1	0.5	0.8	-0.9	0.5
Patch foraging water rate 12 sec	0.2	0.9	1.3	-1.1	0.7
Patch foraging water rate 18 sec	0.1	0.3	0.5	-0.1	-0.7
Patch foraging water rate 24 sec	0.8	1.1	2.0	-1.4	0.6
Patch foraging water rate 6 sec	0.6	0.9	1.4	0.6	-1.2
Seeking ratio, delayed vs. immediate footshock	0.8	1.2	1.5	1.2	-0.9
Distance traveled before self-admin	0.7	1.6	2.0	1.4	-1.1
Distance traveled after self-admin	0.0	0.0	0.0	0.1	0.1
Extensor digitorum longus weight	4.9	19.6	22.6	-4.8	4.1
Bone: elastic displacement	0.0	0.0	0.0	-0.1	0.1
Bone: elastic work	1.1	1.5	1.9	-1.0	1.4
Bone: endosteal estimation	0.6	1.5	1.8	-1.1	1.3
Bone: endosteal perimeter	0.1	0.3	0.5	0.7	-0.3
Epididymis fat weight	0.1	0.5	0.9	0.4	-0.9
Delta time in closed arm before/after self-admin	0.9	0.9	1.5	-1.2	0.5
Delta time in open arm before/after self-admin	0.7	0.9	1.0	-0.8	1.0
Diff in mean of infusions in LGA sessions	1.4	2.5	2.5	1.6	-1.6
Delay discount exponential model param	0.0	0.0	0.0	-0.1	0.0
Extinction: sum of active levers before priming	1.5	2.3	2.9	1.3	-1.7
Active lever presses in extinction session 6	0.2	0.2	0.2	0.4	-0.4
Bone: final force	4.0	6.5	8.5	-2.1	2.9
Bone: final moment	3.9	6.4	8.3	-2.1	2.9
Food consumed during 24 hour testing period	0.2	0.5	0.6	-0.7	0.7
Glucose	1.3	2.1	2.2	-1.5	1.4
Heart weight	0.4	0.6	1.0	0.6	-1.0
Delay discount hyperbolic model param	0.1	0.1	0.1	0.2	-0.3
Intermittent access intake day 1-15 change	0.1	0.7	1.0	0.6	-1.0
Intermittent access intake escalation	0.1	0.6	0.9	0.6	-1.0
Intermittent access intake escalation 2	0.6	1.0	1.3	0.8	-1.2
Intermitt. access day 1 inactive lever presses	0.1	1.2	2.0	0.6	-1.4
Intermitt. access day 15 inactive lever presses	0.3	1.7	2.1	1.1	-1.4
Intermitt. access escalation Index	0.0	0.1	0.2	-0.2	0.5
Intermittent access day 1 total infusions	0.1	0.2	0.3	-0.6	0.2
Intermittent access day 15 total infusions	0.0	0.0	0.0	-0.2	-0.1
Intermittent access terminal intake (last 3 days)	0.0	0.0	0.0	0.1	0.0
Intermittent access total infusions	0.1	0.2	0.2	-0.4	0.4
Intermittent access day 1 locomotion	0.0	0.0	0.1	-0.3	-0.1
Intermittent access day 15 total locomotion	0.1	0.3	0.4	0.3	-0.7
Intermittent access total locomotion	0.1	0.1	0.2	0.2	-0.5
Intermittent access standard deviation	0.1	0.6	0.7	0.8	-0.7
Left kidney weight	0.0	0.0	0.0	0.1	-0.1
Right kidney weight	0.1	0.9	1.0	0.9	-1.0
Cocaine induced anxiety	0.5	1.5	2.1	1.4	-1.0
Post-drug Anxiety	0.4	0.4	0.8	0.9	-0.2
Baseline Anxiety	0.0	0.0	0.0	-0.2	0.1
Tail length	2.8	15.1	15.7	4.0	-3.8
Length with tail	1.6	7.2	7.3	2.7	-2.7
Length without tail	0.1	0.7	0.8	-0.9	0.7
Times rat made contact with spout	1.0	1.1	1.4	-1.2	0.9
Lifetime Intake	0.9	1.1	1.2	-1.0	1.1
Liver weight, left	0.3	0.6	0.6	-0.8	0.7
Liver weight, right	0.2	0.3	0.3	0.5	-0.6
Locomotor activity	3.0	4.6	5.9	2.4	-1.9
Locomotor testing distance	0.8	2.0	2.7	1.7	-1.2
Locomotor testing rearing	0.0	0.0	0.0	0.2	-0.1
Locomotion in novel chamber	0.1	0.1	0.1	-0.4	0.3
Locomotion in novel chamber post-restriction	2.3	6.8	6.9	2.6	-2.6
Fecal boli incidents, locomotor time 1	0.3	0.7	0.8	-0.9	0.8
Change in fecal boli incidents, locomotor task	0.3	0.3	0.5	0.7	-0.4
Time >=10cm from walls, locomotor time 1	0.7	0.9	1.3	-0.7	1.2
Bouts of movement, locomotor time 1	0.7	0.9	0.9	0.9	-1.0
Total resting periods, locomotor time 1	1.6	1.8	1.8	1.4	-1.3
Rest time, locomotor task time 1	0.4	0.6	0.8	0.9	-0.6
Distance moved, locomotor task time 1	0.5	1.3	1.7	-0.9	1.3
Vertical activity count, locomotor time 1	0.2	1.6	1.9	-1.4	1.1
Time >=10cm from walls, locomotor time 2	0.4	1.1	1.4	-1.2	0.9
Bouts of movement, locomotor time 2	0.0	0.1	0.2	0.4	0.1
Total resting periods, locomotor time 2	0.0	0.1	0.2	0.4	0.2
Rest time, locomotor task time 2	0.0	0.1	0.1	0.3	0.2
Distance moved, locomotor task time 2	0.0	0.0	0.0	-0.2	-0.1
Vertical activity count, locomotor time 2	0.4	0.9	1.4	-1.2	0.6
Light reinforcement 1	1.3	6.1	7.3	2.7	-2.2
Light reinforcement 2	0.6	1.4	1.7	1.3	-1.0
Bone: marrow area	0.5	1.3	1.5	-1.0	1.2
Bone: maximum diameter	0.2	0.3	0.6	0.8	-0.3
Bone: maximum force	3.3	6.6	8.3	-2.2	2.9
Bone: maximum moment	3.4	6.5	8.1	-2.2	2.9
Mean time between licks in bursts	0.2	1.2	1.5	1.0	-1.2
Mean num. licks in bursts	0.2	0.6	0.8	0.9	-0.6
Cd content in liver	0.4	0.4	0.6	0.5	-0.8
Co content in liver	3.4	4.0	4.5	1.9	-2.1
Cu content in liver	0.5	0.6	0.8	-0.7	0.9
Fe content in liver	0.2	0.2	0.3	-0.6	0.3
K content in liver	0.5	0.5	0.7	0.9	-0.5
Mg content in liver	1.1	1.2	1.4	1.2	-1.0
Mn content in liver	0.8	0.9	1.6	1.3	-0.5
Na content in liver	0.2	0.2	0.4	-0.3	0.6
Rb content in liver	0.3	0.4	0.6	-0.4	0.8
Se content in liver	0.0	0.0	0.0	0.1	-0.1
Sr content in liver	0.3	0.2	0.4	0.3	-0.6
Zn content in liver	3.7	4.3	5.4	1.8	-2.3
Bone: minimum diameter	0.3	0.5	0.8	-0.6	0.9
Time in familiar zone, hab. session 1	4.9	5.4	5.5	2.3	-2.3
Time in novel zone, hab. session 1	3.7	4.1	4.6	-1.9	2.2
Total zone transitions, hab. session 1	0.3	0.4	0.6	0.8	-0.3
Total locomotion distance, hab. session 1	1.1	1.6	2.5	1.6	-0.8
Locomotion velocity, hab. session 1	1.4	2.0	2.8	1.7	-1.1
Time in familiar zone, hab. session 2	5.7	6.4	7.2	2.4	-2.7
Time in novel zone, hab. session 2	6.3	6.8	7.6	-2.5	2.8
Total zone transitions, hab. session 2	0.9	1.2	1.9	-0.7	1.4
Total locomotion distance, hab. session 2	0.2	0.3	0.5	0.7	-0.2
Locomotion velocity, hab. session 2	0.2	0.3	0.6	0.8	-0.1
Novel to familiar place preference ratio	3.0	3.9	4.8	-1.7	2.2
Novelty place preference	2.0	2.6	3.2	-1.4	1.8
Time in novel zone, NPP test	2.8	3.4	4.0	-1.6	2.0
Total zone transitions, NPP test	0.5	0.7	1.1	-0.6	1.0
Total locomotion distance, NPP test	0.1	0.1	0.3	-0.1	0.5
Locomotion velocity, NPP test	0.0	0.1	0.1	0.3	0.2
Intraocular pressure	0.5	0.8	1.2	0.6	-1.1
Delta distance traveled before/after self-admin	0.5	0.6	0.7	-0.8	0.7
Delta ambulatory time before/after self-admin	0.4	0.7	0.7	-0.8	0.9
Parametrial fat weight	0.6	1.4	1.6	-1.1	1.3
Pavlov. Cond. lever latency	0.0	0.0	0.1	-0.3	0.0
Pavlov. Cond. magazine entry latency	2.0	2.5	2.8	1.5	-1.7
Pavlov. Cond. change in total contacts	0.1	0.1	0.2	-0.4	0.2
Pavlov. Cond. index score	0.5	0.6	0.7	0.8	-0.8
Pavlov. Cond. latency score	0.5	0.6	0.7	0.8	-0.7
Pavlov. Cond. lever contacts	0.0	0.0	0.0	0.1	0.1
Pavlov. Cond. magazine entry number	1.0	1.2	1.5	-1.0	1.2
Pavlov. Cond. intertrial magazine entries	0.1	0.1	0.2	0.2	-0.4
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.8	0.8	0.9	-0.9
Pavlov. Cond. response bias	0.8	1.0	1.2	0.9	-1.1
Pavlov. Cond. lever latency	1.7	2.4	2.7	-1.6	1.4
Pavlov. Cond. magazine entry latency	2.2	3.2	3.4	1.8	-1.7
Pavlov. Cond. change in total contacts	0.5	1.2	1.2	1.1	-1.1
Pavlov. Cond. index score	1.9	2.9	3.1	1.7	-1.7
Pavlov. Cond. latency score	1.9	3.1	3.4	1.9	-1.7
Pavlov. Cond. lever contacts	1.6	2.4	2.4	1.6	-1.5
Pavlov. Cond. magazine entry number	2.4	3.2	3.4	-1.8	1.7
Pavlov. Cond. intertrial magazine entries	0.7	1.4	1.6	-1.3	1.1
Pavlov. Cond. lever-magazine prob. diff.	2.1	3.2	3.3	1.8	-1.7
Pavlov. Cond. response bias	2.8	3.8	4.0	1.9	-2.0
Time in closed arm before self-admin	0.1	0.2	0.4	-0.2	0.6
Time in closed arm after self-admin	0.5	0.6	0.8	-0.9	0.7
Time in open arm before self-admin	0.0	0.0	0.0	-0.1	-0.1
Time in open arm after self-admin	1.6	1.8	1.9	-1.3	1.4
Bone: periosteal estimation	1.1	2.6	3.5	-1.3	1.9
Bone: periosteal perimeter	0.1	0.1	0.3	0.0	0.5
Bone: post-yield work	0.5	0.9	0.9	-0.9	1.0
Progressive ratio test 1 active lever presses	0.3	0.5	0.6	-0.8	0.5
Progressive ratio test 1 breakpoint	0.3	0.5	0.7	-0.8	0.5
Progressive ratio test 1 inactive lever presses	0.1	0.3	0.4	0.3	-0.7
Progressive ratio test 2 active lever presses	0.0	0.0	0.1	0.1	-0.3
Progressive ratio test 2 breakpoint	0.1	0.1	0.2	0.3	-0.4
Progressive ratio test 2 inactive lever presses	0.1	0.2	0.3	-0.4	0.6
Incentive Sensitization - Responses	0.2	0.5	0.6	0.7	-0.7
Incentive Sensitization - Breakpoint	0.3	0.7	0.7	0.8	-0.8
Sum of active levers in priming session hrs 5-6	0.2	0.2	0.2	0.4	-0.4
Progressive ratio	0.6	1.7	2.0	-1.4	1.2
Food seeking constrained by brief footshock	2.3	2.9	2.9	1.7	-1.7
Seeking ratio, punishment vs. effort	1.9	4.2	4.4	2.1	-2.0
Retroperitoneal fat weight	2.0	8.9	10.5	-3.2	2.7
Reaction time number correct	0.3	0.9	1.3	-1.1	0.8
Reaction time mean minus median	0.3	2.0	2.1	1.4	-1.5
Reaction time mean minus median AUC	0.2	1.6	2.1	1.4	-1.1
Reaction time num false alarms	0.6	1.0	1.2	-1.0	1.1
Reaction time num false alarms AUC	0.4	1.0	1.0	-1.0	1.0
Reaction time trials correct on left	0.3	0.9	1.3	-1.1	0.8
Reaction time trials on left	0.3	0.9	1.2	-1.1	0.7
Reaction time mean	0.8	1.7	1.8	1.3	-1.3
Reaction time mean AUC	0.3	0.7	0.7	0.8	-0.9
Median of all reaction times	0.6	1.0	1.0	1.0	-1.0
Reaction time omissions	0.0	0.0	0.0	-0.0	0.2
Reaction time false alarm rate	0.2	0.3	0.4	-0.4	0.7
Reaction time premature initiation rate	1.3	2.0	2.2	1.4	-1.5
Reaction time premature initiations	0.3	0.9	1.2	0.7	-1.1
Std. dev. reaction times	0.3	1.1	1.1	1.0	-1.1
Reaction time trials completed	0.3	0.9	1.2	-1.1	0.7
Reaction time trials AUC	0.3	1.0	1.5	-1.2	0.8
Run reversals in cocaine runway, females	2.4	2.7	3.1	1.8	-1.5
Run reversals in cocaine runway, males	1.9	2.1	2.6	1.6	-1.3
Latency to leave start box in cocaine runway	0.3	0.4	0.7	-0.2	0.9
Latency to leave start box in cocaine runway, F	0.5	0.6	1.1	-0.2	1.1
Latency to leave start box in cocaine runway, M	0.0	0.0	0.0	-0.1	0.0
Std. dev. time between licks in bursts	0.3	0.5	0.8	0.9	-0.5
Total sessions with >9 infusions	0.9	1.1	1.4	-1.0	1.2
Short access day 1 total inactive lever presses	0.3	0.5	0.7	0.6	-0.8
Short access day 10 total inactive lever presses	0.1	0.5	1.0	0.2	-1.0
Short access day 1 total infusions	0.6	1.2	1.4	-1.0	1.2
Short access day 10 total infusions	0.2	0.3	0.4	-0.6	0.5
Short access total infusions	1.3	1.8	2.2	-1.2	1.5
Short access day 1 locomotion	0.2	0.3	0.5	0.5	-0.7
Short access day 10 total locomotion	0.6	2.5	3.4	1.3	-1.9
Short access total locomotion	0.2	0.3	0.4	0.4	-0.6
One hour access (0.3 mA shock)	0.1	0.1	0.2	-0.4	0.2
Compulsive drug intake	0.0	0.0	0.0	0.2	0.1
One hour access (shock baseline)	0.0	0.1	0.1	0.0	-0.3
Social response proportion	0.7	0.9	1.4	1.2	-0.7
Social responses	8.6	11.3	13.7	3.7	-3.0
Social time	0.8	1.3	1.6	-1.3	1.0
Soleus weight	6.6	19.4	19.5	-4.4	4.4
Bone: stiffness	4.5	8.2	9.6	-2.6	3.1
Tibialis anterior weight	1.4	4.9	5.1	-2.3	2.2
Time to tail flick, vehicle, before self-admin	0.7	0.9	1.1	1.1	-0.8
Time to tail flick, vehicle, after self-admin	0.4	0.8	1.3	0.6	-1.1
Time to tail flick, test, before self-admin	0.4	0.5	0.6	0.8	-0.6
Time to tail flick, test, after self-admin	0.0	0.0	0.1	-0.1	0.3
Delta time to tail flick, vehicle, before/after SA	0.5	0.6	1.0	-1.0	0.4
Delta time to tail flick, test, before/after SA	0.0	0.0	0.0	-0.1	-0.2
Tibia length	1.2	3.3	3.5	1.8	-1.9
Ambulatory time before self-admin	0.1	0.4	0.6	0.8	-0.5
Ambulatory time after self-admin	0.0	0.0	0.0	0.0	0.2
Bone: tissue strength	6.6	6.9	7.6	-2.5	2.8
Total heroin consumption	2.3	2.7	3.1	1.8	-1.5
Bone: trabecular number	0.2	0.3	0.6	0.8	-0.1
Bone: trabecular spacing	0.2	0.3	0.3	-0.5	-0.5
Bone: trabecular thickness	0.8	1.0	2.1	-0.2	1.4
Bone: trabecular tissue density	4.1	7.2	8.1	-2.8	2.5
Water consumed over 24 hours	0.6	1.1	1.4	-0.9	1.2
Number of responses in last shaping day	1.8	2.3	2.9	1.3	-1.7