Hub : Genes

Pold4

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	isoform ratio	XM_006230841.4	0.62	0	0.0e+00	0.02	0.16	0.16	0.16	4.1e-03	1.6e-17	9.5e-18	6.1e-17
2	Liver	isoform ratio	NM_001013195.1	0.6	0.01	0.0e+00	0.01	0.19	0.2	0.19	1.9e-02	6.8e-21	3.6e-21	2.5e-20

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	2.2	3.7	4.2	-1.8	2.0
Area under the delay curve	0.0	0.0	0.0	0.1	0.2
BMI with tail	0.7	2.4	3.4	1.8	-1.2
BMI without tail	0.1	0.1	0.2	0.5	-0.1
Body weight	0.3	1.1	1.3	1.1	-0.9
Weight adjusted by age	0.4	0.4	0.5	0.7	-0.6
Bone surface	0.1	0.1	0.3	0.5	-0.1
Bone volume	0.4	0.7	0.9	-0.7	1.0
Breakpoint value in progressive ratio session	0.0	0.0	0.0	0.1	-0.0
Number of licking bursts	0.0	0.0	0.0	-0.2	0.2
Context. condit. distance diff. score	0.8	0.9	0.9	-0.9	1.0
Locomotion velocity, session 1	0.0	0.0	0.0	-0.2	0.2
Locomotion distance, session 1	0.3	0.4	0.6	0.8	-0.4
Locomotion velocity, session 2	1.9	2.2	2.2	1.5	-1.5
Locomotion distance, session 2	1.8	2.5	2.9	1.7	-1.5
Locomotion velocity, session 3	0.6	0.7	0.9	-0.7	1.0
Locomotion distance, session 3	0.0	0.0	0.0	-0.1	0.1
Stereotopy head waving bouts, day 3	1.7	2.0	2.4	-1.2	1.5
Stereotopy head waving duration, day 3	1.3	1.6	1.9	-1.2	1.4
Locomotion velocity, session 7	0.1	0.1	0.1	0.3	-0.0
Locomotion distance, session 7	0.5	0.6	0.7	0.9	-0.7
Stereotopy head waving bouts, day 7	0.4	0.5	0.6	-0.5	0.8
Stereotopy head waving duration, day 7	0.1	0.1	0.1	0.4	-0.0
Locomotion velocity, session 8	0.0	0.0	0.0	0.1	-0.1
Locomotion distance, session 8	0.0	0.0	0.0	0.1	0.1
Degree of sensitization distance	0.5	0.5	0.6	0.8	-0.6
Degree of sensitization stereotypy	0.0	0.0	0.1	0.2	-0.1
Conditioned locomotion	1.6	1.9	2.4	1.2	-1.5
Cocaine response after cond. corrected	0.4	0.4	0.5	-0.6	0.7
Cocaine response after cond. not corrected	0.4	0.4	0.5	-0.5	0.7
Cocaine response before conditioning	0.1	0.1	0.2	0.4	-0.3
Saline control response	0.6	0.8	0.9	0.9	-0.9
Bone: connectivity density	0.5	0.7	1.0	-0.7	1.0
Bone: cortical apparent density	0.5	0.6	0.6	0.8	-0.8
Bone: cortical area	0.1	0.1	0.2	0.2	-0.4
Bone: cortical porosity	0.0	0.0	0.0	0.0	-0.0
Bone: cortical porosity	0.1	0.1	0.1	0.3	-0.4
Bone: cortical thickness	1.8	2.9	3.6	1.5	-1.9
Bone: cortical thickness	0.3	0.3	0.4	0.4	-0.6
Bone: cortical tissue density	0.6	0.8	0.8	0.9	-0.9
Condit. Reinf. active minus inactive responses	0.1	0.1	0.2	0.5	-0.3
Condit. Reinf. active-inactive response ratio	0.0	0.0	0.0	0.2	-0.1
Condit. Reinf. active responses	0.2	0.3	0.3	0.6	-0.5
Condit. Reinf. inactive responses	0.3	0.3	0.3	0.5	-0.6
Incentive salience index mean	0.6	0.8	0.9	0.9	-0.8
Condit. Reinf. lever presses	1.2	1.6	1.6	1.2	-1.3
Condit. Reinf. active minus inactive responses	0.7	0.8	1.1	-0.8	1.0
Condit. Reinf. active-inactive response ratio	1.0	1.1	1.2	-0.9	1.1
Condit. Reinf. active responses	0.3	0.4	0.5	-0.4	0.7
Condit. Reinf. inactive responses	0.1	0.2	0.3	0.5	-0.3
Condit. Reinf. lever presses	0.0	0.0	0.1	0.3	-0.1
Condit. Reinf. lever reinforcers received	0.3	0.4	0.7	-0.5	0.8
Conditioned reinforcement - actives	0.0	0.0	0.0	-0.0	-0.1
Conditioned reinforcement - inactives	0.2	0.2	0.2	-0.4	0.5
Conditioned locomotion	0.5	0.7	0.9	-0.9	0.7
Patch foraging indifference point 0 sec	0.8	1.3	1.4	-1.1	1.2
Patch foraging indifference point AUC	2.7	3.1	3.3	1.7	-1.8
Delay disc. indifference point, 0s delay	0.2	0.2	0.3	0.6	-0.2
Delay disc. indifference point, 16s delay	0.1	0.1	0.1	0.4	-0.3
Delay disc. indifference point, 2s delay	0.0	0.0	0.0	0.1	0.1
Delay disc. indifference point, 24s delay	0.2	0.2	0.2	-0.5	0.3
Delay disc. indifference point, 4s delay	0.1	0.1	0.1	-0.2	0.3
Delay disc. indifference point, 8s delay	0.4	0.5	0.6	-0.6	0.7
Indifference point function ln k	3.0	4.2	4.3	-2.1	2.0
Indifference point function log k	3.0	4.2	4.3	-2.1	2.0
Patch foraging total patch changes 0 sec	0.7	1.2	1.3	-1.1	1.0
Patch foraging total patch changes 12 sec	0.9	1.1	1.1	1.0	-1.1
Patch foraging total patch changes 18 sec	0.2	0.3	0.3	0.5	-0.5
Patch foraging total patch changes 24 sec	0.1	0.1	0.1	0.2	-0.4
Patch foraging total patch changes 6 sec	0.0	0.0	0.0	0.0	0.2
Patch foraging time to switch 0 sec	0.5	0.8	1.1	1.0	-0.7
Patch foraging water rate 0 sec	1.2	1.9	2.6	-1.6	1.1
Patch foraging water rate 12 sec	2.4	3.7	4.6	-2.2	1.6
Patch foraging water rate 18 sec	0.8	1.1	1.3	-1.1	1.0
Patch foraging water rate 24 sec	0.6	0.9	1.3	-1.1	0.7
Patch foraging water rate 6 sec	1.1	1.6	2.1	-1.4	1.1
Seeking ratio, delayed vs. immediate footshock	0.2	0.3	0.3	-0.4	0.6
Distance traveled before self-admin	0.0	0.0	0.0	-0.2	0.2
Distance traveled after self-admin	0.0	0.0	0.0	-0.1	0.1
Extensor digitorum longus weight	3.9	15.5	15.8	3.9	-4.0
Bone: elastic displacement	0.0	0.1	0.1	-0.1	-0.3
Bone: elastic work	0.3	0.4	0.6	0.5	-0.8
Bone: endosteal estimation	0.3	0.7	0.9	-0.7	0.9
Bone: endosteal perimeter	1.2	2.4	2.9	-1.4	1.7
Epididymis fat weight	0.7	1.7	1.7	-1.3	1.3
Delta time in closed arm before/after self-admin	0.2	0.2	0.2	0.4	-0.5
Delta time in open arm before/after self-admin	0.0	0.0	0.0	-0.2	0.2
Diff in mean of infusions in LGA sessions	0.1	0.2	0.2	-0.5	0.3
Delay discount exponential model param	0.0	0.0	0.0	-0.0	-0.1
Extinction: sum of active levers before priming	0.0	0.0	0.0	0.1	0.0
Active lever presses in extinction session 6	1.3	1.2	1.5	1.0	-1.2
Bone: final force	0.1	0.1	0.1	0.4	-0.3
Bone: final moment	0.0	0.1	0.1	0.2	-0.2
Food consumed during 24 hour testing period	0.2	0.3	0.4	-0.6	0.5
Glucose	0.2	0.3	0.5	-0.3	0.7
Heart weight	0.2	0.3	0.4	-0.5	0.6
Delay discount hyperbolic model param	0.0	0.0	0.0	0.0	-0.2
Intermittent access intake day 1-15 change	0.2	0.2	0.2	-0.5	0.3
Intermittent access intake escalation	0.1	0.1	0.1	-0.4	0.3
Intermittent access intake escalation 2	0.6	0.5	0.6	-0.8	0.7
Intermitt. access day 1 inactive lever presses	0.1	0.1	0.2	0.4	-0.2
Intermitt. access day 15 inactive lever presses	0.1	0.1	0.1	-0.2	0.4
Intermitt. access escalation Index	0.9	0.8	0.8	0.9	-0.9
Intermittent access day 1 total infusions	0.3	0.3	0.6	-0.3	0.8
Intermittent access day 15 total infusions	0.7	0.8	1.0	-0.8	1.0
Intermittent access terminal intake (last 3 days)	0.3	0.3	0.5	-0.4	0.7
Intermittent access total infusions	0.1	0.1	0.1	0.3	0.0
Intermittent access day 1 locomotion	1.3	1.4	2.0	1.4	-0.9
Intermittent access day 15 total locomotion	0.0	0.0	0.1	0.3	-0.1
Intermittent access total locomotion	0.9	1.0	1.5	1.2	-0.7
Intermittent access standard deviation	0.2	0.2	0.3	-0.5	0.5
Left kidney weight	1.2	3.3	3.8	-1.9	1.7
Right kidney weight	0.6	1.8	2.2	-1.5	1.1
Cocaine induced anxiety	1.0	1.1	1.2	-1.1	1.0
Post-drug Anxiety	0.4	0.5	0.6	-0.8	0.6
Baseline Anxiety	0.1	0.1	0.1	0.1	-0.3
Tail length	0.2	0.7	1.0	-1.0	0.6
Length with tail	0.0	0.0	0.1	-0.1	-0.2
Length without tail	0.3	0.8	0.8	0.8	-0.9
Times rat made contact with spout	0.4	0.5	0.5	-0.6	0.7
Lifetime Intake	0.0	0.0	0.1	0.2	0.1
Liver weight, left	0.7	1.0	1.1	-1.0	1.0
Liver weight, right	0.2	0.4	0.5	-0.7	0.5
Locomotor activity	1.8	2.8	3.2	-1.8	1.6
Locomotor testing distance	2.2	3.6	4.0	-2.0	1.8
Locomotor testing rearing	0.7	1.1	1.2	-1.0	1.1
Locomotion in novel chamber	0.6	0.8	0.9	-0.8	0.9
Locomotion in novel chamber post-restriction	0.3	0.4	0.4	-0.7	0.6
Fecal boli incidents, locomotor time 1	0.1	0.1	0.1	0.3	-0.2
Change in fecal boli incidents, locomotor task	0.1	0.1	0.1	-0.2	0.3
Time >=10cm from walls, locomotor time 1	0.1	0.1	0.1	0.3	0.1
Bouts of movement, locomotor time 1	0.1	0.1	0.1	0.1	-0.4
Total resting periods, locomotor time 1	0.0	0.0	0.0	-0.1	-0.2
Rest time, locomotor task time 1	2.2	2.4	3.0	-1.7	1.3
Distance moved, locomotor task time 1	0.7	0.7	1.1	1.0	-0.7
Vertical activity count, locomotor time 1	0.1	0.1	0.2	-0.1	0.4
Time >=10cm from walls, locomotor time 2	0.1	0.1	0.1	0.3	-0.3
Bouts of movement, locomotor time 2	0.6	0.6	0.7	0.8	-0.8
Total resting periods, locomotor time 2	0.2	0.3	0.3	0.5	-0.5
Rest time, locomotor task time 2	2.2	2.6	2.7	-1.6	1.7
Distance moved, locomotor task time 2	0.3	0.3	0.4	0.5	-0.6
Vertical activity count, locomotor time 2	0.0	0.0	0.0	-0.1	-0.2
Light reinforcement 1	0.0	0.0	0.1	-0.3	0.1
Light reinforcement 2	0.2	0.3	0.4	-0.7	0.4
Bone: marrow area	0.3	0.7	0.9	-0.7	0.9
Bone: maximum diameter	0.0	0.0	0.1	0.1	-0.2
Bone: maximum force	0.1	0.2	0.3	0.6	-0.2
Bone: maximum moment	0.1	0.1	0.2	0.4	-0.1
Mean time between licks in bursts	0.0	0.0	0.0	0.1	-0.1
Mean num. licks in bursts	0.2	0.3	0.3	-0.5	0.5
Cd content in liver	0.3	0.3	0.4	-0.6	0.5
Co content in liver	0.0	0.1	0.1	0.0	-0.3
Cu content in liver	0.5	0.6	0.6	0.8	-0.8
Fe content in liver	0.0	0.0	0.0	0.1	-0.0
K content in liver	0.6	0.6	0.8	0.9	-0.6
Mg content in liver	0.1	0.1	0.2	0.4	-0.0
Mn content in liver	3.5	4.0	4.2	2.1	-1.9
Na content in liver	0.1	0.1	0.1	-0.4	0.2
Rb content in liver	1.3	1.6	2.0	-1.1	1.4
Se content in liver	0.3	0.4	0.5	-0.5	0.7
Sr content in liver	1.5	1.3	1.6	1.1	-1.2
Zn content in liver	0.7	0.8	0.9	0.9	-0.9
Bone: minimum diameter	0.7	1.4	1.7	-1.0	1.3
Time in familiar zone, hab. session 1	0.1	0.1	0.1	0.3	-0.2
Time in novel zone, hab. session 1	0.4	0.4	0.4	-0.6	0.6
Total zone transitions, hab. session 1	0.6	0.8	0.9	0.9	-0.8
Total locomotion distance, hab. session 1	0.0	0.1	0.1	0.3	-0.2
Locomotion velocity, hab. session 1	0.3	0.4	0.5	0.7	-0.6
Time in familiar zone, hab. session 2	0.7	0.7	0.9	0.8	-1.0
Time in novel zone, hab. session 2	0.7	0.6	0.9	-0.7	0.9
Total zone transitions, hab. session 2	0.6	0.8	1.2	1.1	-0.6
Total locomotion distance, hab. session 2	0.1	0.1	0.3	0.5	-0.2
Locomotion velocity, hab. session 2	0.1	0.1	0.1	0.4	-0.0
Novel to familiar place preference ratio	0.0	0.0	0.0	0.2	-0.0
Novelty place preference	0.0	0.0	0.0	0.0	0.1
Time in novel zone, NPP test	0.0	0.0	0.0	-0.0	0.2
Total zone transitions, NPP test	1.5	2.1	2.5	1.6	-1.3
Total locomotion distance, NPP test	0.3	0.4	0.5	0.7	-0.5
Locomotion velocity, NPP test	0.3	0.5	0.6	0.8	-0.6
Intraocular pressure	0.0	0.0	0.1	-0.3	0.0
Delta distance traveled before/after self-admin	0.1	0.1	0.1	-0.3	0.3
Delta ambulatory time before/after self-admin	0.0	0.0	0.0	-0.0	0.0
Parametrial fat weight	0.9	1.8	2.1	-1.2	1.4
Pavlov. Cond. lever latency	0.7	0.8	0.9	-0.9	0.9
Pavlov. Cond. magazine entry latency	0.1	0.1	0.2	0.4	-0.1
Pavlov. Cond. change in total contacts	0.1	0.1	0.2	0.4	-0.3
Pavlov. Cond. index score	0.4	0.5	0.5	0.7	-0.7
Pavlov. Cond. latency score	0.2	0.3	0.3	0.6	-0.5
Pavlov. Cond. lever contacts	0.6	0.7	0.7	0.8	-0.8
Pavlov. Cond. magazine entry number	0.5	0.7	0.7	-0.8	0.9
Pavlov. Cond. intertrial magazine entries	0.3	0.4	0.5	-0.7	0.5
Pavlov. Cond. lever-magazine prob. diff.	0.5	0.7	0.7	0.8	-0.8
Pavlov. Cond. response bias	0.5	0.6	0.6	0.8	-0.8
Pavlov. Cond. lever latency	0.1	0.2	0.2	0.4	-0.4
Pavlov. Cond. magazine entry latency	0.2	0.2	0.3	0.6	-0.3
Pavlov. Cond. change in total contacts	0.0	0.0	0.0	-0.0	0.2
Pavlov. Cond. index score	0.0	0.0	0.1	0.3	-0.1
Pavlov. Cond. latency score	0.0	0.0	0.0	0.2	-0.0
Pavlov. Cond. lever contacts	0.0	0.0	0.1	-0.2	0.2
Pavlov. Cond. magazine entry number	0.5	0.6	0.8	-0.9	0.6
Pavlov. Cond. intertrial magazine entries	0.4	0.5	0.6	-0.7	0.6
Pavlov. Cond. lever-magazine prob. diff.	0.1	0.1	0.1	0.4	-0.2
Pavlov. Cond. response bias	0.0	0.0	0.0	0.2	-0.1
Time in closed arm before self-admin	0.1	0.1	0.1	0.3	-0.2
Time in closed arm after self-admin	1.2	1.2	1.3	1.1	-1.1
Time in open arm before self-admin	0.4	0.4	0.5	-0.7	0.6
Time in open arm after self-admin	0.8	0.9	1.1	-1.0	0.9
Bone: periosteal estimation	0.0	0.0	0.0	-0.2	0.2
Bone: periosteal perimeter	0.1	0.1	0.2	-0.3	0.4
Bone: post-yield work	0.3	0.5	0.9	-0.3	0.9
Progressive ratio test 1 active lever presses	0.1	0.1	0.1	0.3	-0.2
Progressive ratio test 1 breakpoint	0.2	0.2	0.2	0.4	-0.4
Progressive ratio test 1 inactive lever presses	0.5	0.5	0.6	0.8	-0.6
Progressive ratio test 2 active lever presses	0.6	0.7	0.8	0.9	-0.7
Progressive ratio test 2 breakpoint	0.3	0.3	0.4	0.6	-0.5
Progressive ratio test 2 inactive lever presses	0.5	0.5	0.8	0.9	-0.5
Incentive Sensitization - Responses	0.4	0.4	0.5	0.7	-0.5
Incentive Sensitization - Breakpoint	0.3	0.3	0.4	0.6	-0.4
Sum of active levers in priming session hrs 5-6	0.8	0.8	1.0	0.7	-1.0
Progressive ratio	1.5	1.8	2.1	-1.2	1.5
Food seeking constrained by brief footshock	0.4	0.5	0.5	0.7	-0.6
Seeking ratio, punishment vs. effort	1.9	2.4	2.6	1.5	-1.6
Retroperitoneal fat weight	1.9	6.3	6.4	-2.5	2.5
Reaction time number correct	0.2	0.2	0.3	0.4	-0.6
Reaction time mean minus median	0.3	0.5	0.6	0.8	-0.6
Reaction time mean minus median AUC	0.1	0.2	0.2	0.4	-0.4
Reaction time num false alarms	0.4	0.5	0.7	-0.8	0.6
Reaction time num false alarms AUC	0.1	0.1	0.1	-0.4	0.2
Reaction time trials correct on left	0.2	0.2	0.3	0.4	-0.6
Reaction time trials on left	0.2	0.3	0.4	0.4	-0.6
Reaction time mean	0.0	0.0	0.0	0.1	0.1
Reaction time mean AUC	0.0	0.0	0.1	-0.0	0.2
Median of all reaction times	0.0	0.0	0.0	0.1	0.1
Reaction time omissions	0.4	0.6	0.6	0.8	-0.8
Reaction time false alarm rate	0.2	0.3	0.3	-0.6	0.4
Reaction time premature initiation rate	0.3	0.4	0.4	0.6	-0.6
Reaction time premature initiations	0.8	1.2	1.3	1.0	-1.1
Std. dev. reaction times	0.0	0.0	0.0	0.1	0.1
Reaction time trials completed	0.2	0.3	0.4	0.4	-0.6
Reaction time trials AUC	0.1	0.2	0.3	0.3	-0.5
Run reversals in cocaine runway, females	0.1	0.1	0.2	0.4	-0.2
Run reversals in cocaine runway, males	0.9	0.9	1.2	-1.1	0.8
Latency to leave start box in cocaine runway	0.2	0.2	0.3	0.5	-0.3
Latency to leave start box in cocaine runway, F	0.0	0.0	0.0	0.2	0.0
Latency to leave start box in cocaine runway, M	0.3	0.3	0.3	0.6	-0.5
Std. dev. time between licks in bursts	0.3	0.3	0.5	0.4	-0.7
Total sessions with >9 infusions	0.2	0.2	0.3	0.5	-0.3
Short access day 1 total inactive lever presses	0.0	0.0	0.0	0.0	0.2
Short access day 10 total inactive lever presses	0.2	0.2	0.2	-0.3	0.5
Short access day 1 total infusions	0.0	0.0	0.1	0.3	0.1
Short access day 10 total infusions	0.2	0.2	0.4	0.6	-0.1
Short access total infusions	0.2	0.2	0.3	0.6	-0.2
Short access day 1 locomotion	1.3	1.4	1.9	1.4	-1.0
Short access day 10 total locomotion	2.9	3.3	3.9	2.0	-1.6
Short access total locomotion	4.1	4.3	5.0	2.2	-1.9
One hour access (0.3 mA shock)	0.3	0.3	0.4	-0.5	0.6
Compulsive drug intake	0.2	0.2	0.3	0.3	-0.5
One hour access (shock baseline)	0.0	0.0	0.0	-0.1	0.2
Social response proportion	0.6	0.6	0.8	0.9	-0.7
Social responses	0.6	0.7	0.8	0.8	-0.9
Social time	0.0	0.0	0.0	0.1	-0.1
Soleus weight	0.6	1.8	2.1	-1.5	1.2
Bone: stiffness	0.3	0.5	0.8	0.9	-0.5
Tibialis anterior weight	7.4	25.2	27.1	4.8	-5.2
Time to tail flick, vehicle, before self-admin	0.6	0.7	0.8	-0.7	0.9
Time to tail flick, vehicle, after self-admin	0.4	0.4	0.6	0.7	-0.6
Time to tail flick, test, before self-admin	0.2	0.2	0.4	0.6	-0.2
Time to tail flick, test, after self-admin	0.1	0.1	0.1	-0.3	0.1
Delta time to tail flick, vehicle, before/after SA	3.2	3.1	3.4	1.8	-1.7
Delta time to tail flick, test, before/after SA	0.3	0.3	0.5	-0.7	0.1
Tibia length	0.2	0.5	0.7	0.5	-0.9
Ambulatory time before self-admin	0.0	0.0	0.1	0.3	-0.2
Ambulatory time after self-admin	0.4	0.4	0.5	-0.5	0.7
Bone: tissue strength	0.1	0.1	0.1	0.3	-0.2
Total heroin consumption	0.2	0.2	0.3	0.3	-0.5
Bone: trabecular number	1.1	1.7	2.1	-1.2	1.4
Bone: trabecular spacing	2.2	2.8	2.9	1.7	-1.7
Bone: trabecular thickness	6.9	8.2	8.4	-2.8	2.9
Bone: trabecular tissue density	0.0	0.0	0.0	-0.1	-0.2
Water consumed over 24 hours	0.2	0.2	0.2	-0.4	0.5
Number of responses in last shaping day	0.4	0.4	0.5	0.7	-0.6