Hub : Genes

Elf5

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	LHb	gene expression	Elf5	0.34	0.23	6.0e-06	0.14	0.18	0.2	0.21	2.9e-04	5.8e-05	1.7e-05	1.2e-05
2	PL	gene expression	Elf5	0.04	0.04	1.6e-04	0.03	0.03	0.02	0.03	2.1e-04	3.1e-04	2.3e-03	3.6e-04

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	0.7	1.2	1.2	-1.1	1.1
Area under the delay curve	0.2	0.2	0.3	0.5	-0.2
BMI with tail	0.1	0.3	0.4	-0.6	0.5
BMI without tail	0.4	0.8	0.9	-1.0	0.8
Body weight	0.6	2.6	3.1	-1.8	1.4
Weight adjusted by age	2.9	3.3	4.2	2.1	-1.5
Bone surface	0.8	1.3	1.5	-1.2	1.1
Bone volume	1.7	2.9	3.1	-1.8	1.6
Breakpoint value in progressive ratio session	1.7	1.8	2.0	1.4	-1.3
Number of licking bursts	0.4	0.4	0.5	-0.6	0.7
Context. condit. distance diff. score	3.6	4.4	4.6	-2.2	2.0
Locomotion velocity, session 1	0.1	0.1	0.2	0.4	-0.2
Locomotion distance, session 1	0.0	0.0	0.0	0.0	0.0
Locomotion velocity, session 2	0.0	0.0	0.0	0.1	0.0
Locomotion distance, session 2	0.2	0.3	0.4	-0.6	0.4
Locomotion velocity, session 3	0.1	0.1	0.1	-0.3	0.2
Locomotion distance, session 3	0.2	0.2	0.2	-0.5	0.4
Stereotopy head waving bouts, day 3	0.0	0.0	0.1	0.2	-0.3
Stereotopy head waving duration, day 3	0.5	0.6	0.6	-0.8	0.7
Locomotion velocity, session 7	0.0	0.0	0.0	-0.2	-0.0
Locomotion distance, session 7	0.5	0.6	0.6	0.8	-0.8
Stereotopy head waving bouts, day 7	0.1	0.1	0.1	-0.3	0.3
Stereotopy head waving duration, day 7	0.0	0.0	0.0	-0.2	0.2
Locomotion velocity, session 8	0.4	0.5	0.6	-0.8	0.7
Locomotion distance, session 8	3.6	5.3	6.1	-2.5	2.1
Degree of sensitization distance	0.4	0.4	0.5	0.7	-0.6
Degree of sensitization stereotypy	0.0	0.0	0.0	-0.0	0.1
Conditioned locomotion	4.0	4.7	5.5	2.3	-2.0
Cocaine response after cond. corrected	2.8	3.1	3.2	1.8	-1.8
Cocaine response after cond. not corrected	0.4	0.5	0.5	0.7	-0.7
Cocaine response before conditioning	7.0	8.4	8.9	-3.0	2.8
Saline control response	0.8	1.1	1.1	-1.0	1.1
Bone: connectivity density	0.7	1.1	1.2	-1.1	1.0
Bone: cortical apparent density	0.1	0.2	0.3	0.2	-0.6
Bone: cortical area	0.2	0.2	0.4	-0.6	0.4
Bone: cortical porosity	0.6	0.6	0.8	0.9	-0.7
Bone: cortical porosity	0.3	0.3	0.4	0.6	-0.4
Bone: cortical thickness	0.0	0.0	0.0	-0.1	-0.1
Bone: cortical thickness	3.8	4.4	4.8	2.2	-2.0
Bone: cortical tissue density	0.1	0.1	0.2	0.0	-0.5
Condit. Reinf. active minus inactive responses	1.8	2.0	2.0	-1.4	1.4
Condit. Reinf. active-inactive response ratio	3.5	3.8	3.9	-2.0	1.9
Condit. Reinf. active responses	0.6	0.8	0.8	-0.9	0.9
Condit. Reinf. inactive responses	0.4	0.5	0.6	0.7	-0.7
Incentive salience index mean	1.6	2.0	2.0	-1.4	1.4
Condit. Reinf. lever presses	1.2	1.6	1.7	-1.3	1.2
Condit. Reinf. active minus inactive responses	1.7	2.1	2.1	-1.4	1.4
Condit. Reinf. active-inactive response ratio	4.6	4.8	4.9	-2.2	2.2
Condit. Reinf. active responses	1.1	1.5	1.6	-1.3	1.2
Condit. Reinf. inactive responses	0.0	0.0	0.0	0.0	-0.1
Condit. Reinf. lever presses	0.7	1.0	1.1	-1.0	1.1
Condit. Reinf. lever reinforcers received	1.0	1.5	1.5	-1.2	1.2
Conditioned reinforcement - actives	3.7	3.7	4.4	-2.1	1.7
Conditioned reinforcement - inactives	10.3	11.6	12.9	-3.6	3.2
Conditioned locomotion	2.3	2.8	3.5	-1.9	1.4
Patch foraging indifference point 0 sec	0.3	0.5	0.8	0.9	-0.5
Patch foraging indifference point AUC	1.8	2.1	2.4	1.4	-1.6
Delay disc. indifference point, 0s delay	0.0	0.0	0.0	-0.1	0.1
Delay disc. indifference point, 16s delay	1.9	1.9	2.3	1.5	-1.2
Delay disc. indifference point, 2s delay	0.2	0.2	0.3	0.6	-0.4
Delay disc. indifference point, 24s delay	0.2	0.2	0.3	0.6	-0.4
Delay disc. indifference point, 4s delay	0.1	0.1	0.2	0.5	-0.3
Delay disc. indifference point, 8s delay	0.4	0.4	0.5	-0.5	0.7
Indifference point function ln k	1.2	1.7	1.9	-1.2	1.4
Indifference point function log k	1.2	1.7	1.9	-1.2	1.4
Patch foraging total patch changes 0 sec	0.3	0.4	0.6	0.8	-0.4
Patch foraging total patch changes 12 sec	0.0	0.0	0.0	-0.1	0.1
Patch foraging total patch changes 18 sec	0.6	0.7	0.8	0.8	-0.9
Patch foraging total patch changes 24 sec	1.4	1.7	1.8	1.4	-1.2
Patch foraging total patch changes 6 sec	0.4	0.6	0.6	0.8	-0.7
Patch foraging time to switch 0 sec	0.0	0.0	0.1	0.2	-0.2
Patch foraging water rate 0 sec	0.0	0.0	0.0	-0.1	0.2
Patch foraging water rate 12 sec	0.0	0.1	0.1	0.3	-0.3
Patch foraging water rate 18 sec	1.1	1.5	1.6	-1.2	1.2
Patch foraging water rate 24 sec	0.0	0.0	0.1	0.3	0.1
Patch foraging water rate 6 sec	0.0	0.0	0.0	0.0	0.1
Seeking ratio, delayed vs. immediate footshock	0.3	0.3	0.4	-0.6	0.5
Distance traveled before self-admin	0.4	0.5	0.5	-0.6	0.7
Distance traveled after self-admin	0.6	0.6	0.7	-0.9	0.7
Extensor digitorum longus weight	0.3	1.3	1.5	1.2	-1.1
Bone: elastic displacement	1.9	2.1	2.5	1.6	-1.3
Bone: elastic work	1.7	2.1	2.5	1.6	-1.3
Bone: endosteal estimation	0.2	0.4	0.5	0.7	-0.5
Bone: endosteal perimeter	0.3	0.7	0.7	-0.8	0.8
Epididymis fat weight	0.9	2.2	2.5	-1.6	1.4
Delta time in closed arm before/after self-admin	0.0	0.0	0.1	0.0	-0.3
Delta time in open arm before/after self-admin	0.1	0.1	0.1	0.4	-0.2
Diff in mean of infusions in LGA sessions	0.3	0.3	0.4	0.7	-0.4
Delay discount exponential model param	0.2	0.3	0.4	-0.6	0.3
Extinction: sum of active levers before priming	0.1	0.1	0.1	-0.3	0.0
Active lever presses in extinction session 6	0.1	0.1	0.1	-0.2	0.3
Bone: final force	0.0	0.0	0.0	0.0	-0.1
Bone: final moment	0.1	0.2	0.2	0.4	-0.4
Food consumed during 24 hour testing period	8.0	9.7	10.8	-3.3	2.9
Glucose	2.3	3.5	4.0	-2.0	1.7
Heart weight	0.4	0.6	1.0	1.0	-0.4
Delay discount hyperbolic model param	0.2	0.2	0.3	-0.5	0.3
Intermittent access intake day 1-15 change	0.2	0.2	0.3	-0.6	0.4
Intermittent access intake escalation	0.6	0.6	0.7	-0.8	0.7
Intermittent access intake escalation 2	3.5	3.5	4.0	-2.0	1.7
Intermitt. access day 1 inactive lever presses	0.0	0.0	0.0	0.1	-0.1
Intermitt. access day 15 inactive lever presses	3.4	3.7	4.6	-2.1	1.7
Intermitt. access escalation Index	0.4	0.4	0.4	-0.6	0.6
Intermittent access day 1 total infusions	3.8	4.4	5.1	-2.3	1.9
Intermittent access day 15 total infusions	5.5	6.2	7.0	-2.7	2.3
Intermittent access terminal intake (last 3 days)	7.7	8.4	9.5	-3.1	2.7
Intermittent access total infusions	7.5	8.4	9.2	-3.0	2.7
Intermittent access day 1 locomotion	1.6	1.7	2.0	-1.4	1.2
Intermittent access day 15 total locomotion	2.1	2.3	2.9	-1.7	1.3
Intermittent access total locomotion	2.5	2.9	3.2	-1.8	1.6
Intermittent access standard deviation	6.7	7.1	7.8	-2.8	2.5
Left kidney weight	0.5	1.5	2.1	-1.4	1.0
Right kidney weight	0.4	1.1	1.5	-1.2	0.8
Cocaine induced anxiety	0.3	0.3	0.4	-0.6	0.6
Post-drug Anxiety	0.0	0.0	0.0	-0.1	-0.0
Baseline Anxiety	2.8	3.0	3.1	1.8	-1.7
Tail length	0.4	1.2	1.4	-1.2	0.9
Length with tail	0.5	1.9	2.2	-1.5	1.3
Length without tail	0.3	0.8	0.9	-0.9	0.8
Times rat made contact with spout	0.1	0.2	0.2	-0.4	0.4
Lifetime Intake	7.9	8.9	9.8	-3.1	2.8
Liver weight, left	0.2	0.3	0.4	-0.6	0.5
Liver weight, right	1.3	2.1	2.4	-1.6	1.4
Locomotor activity	0.1	0.1	0.1	-0.2	0.4
Locomotor testing distance	1.3	2.2	2.3	-1.5	1.5
Locomotor testing rearing	0.1	0.2	0.3	-0.3	0.6
Locomotion in novel chamber	0.7	0.9	1.0	-0.9	1.0
Locomotion in novel chamber post-restriction	1.0	1.1	1.6	1.3	-0.9
Fecal boli incidents, locomotor time 1	8.8	9.6	10.9	3.3	-2.9
Change in fecal boli incidents, locomotor task	7.1	6.7	8.0	-2.8	2.3
Time >=10cm from walls, locomotor time 1	0.1	0.1	0.1	0.3	-0.2
Bouts of movement, locomotor time 1	0.8	0.9	1.1	1.1	-0.8
Total resting periods, locomotor time 1	0.7	0.7	0.9	1.0	-0.7
Rest time, locomotor task time 1	0.3	0.3	0.5	0.7	-0.4
Distance moved, locomotor task time 1	2.3	2.5	3.1	-1.8	1.4
Vertical activity count, locomotor time 1	0.1	0.1	0.2	-0.4	0.2
Time >=10cm from walls, locomotor time 2	7.5	7.9	9.1	-3.0	2.6
Bouts of movement, locomotor time 2	0.2	0.2	0.2	0.5	-0.5
Total resting periods, locomotor time 2	0.1	0.1	0.1	0.4	-0.3
Rest time, locomotor task time 2	2.2	2.5	2.9	1.7	-1.4
Distance moved, locomotor task time 2	4.9	5.7	6.5	-2.5	2.2
Vertical activity count, locomotor time 2	2.6	2.9	3.4	-1.8	1.5
Light reinforcement 1	0.1	0.2	0.4	-0.6	0.2
Light reinforcement 2	0.0	0.0	0.0	-0.2	0.0
Bone: marrow area	0.2	0.4	0.5	0.7	-0.5
Bone: maximum diameter	0.2	0.4	0.4	-0.6	0.6
Bone: maximum force	0.0	0.0	0.1	-0.2	0.2
Bone: maximum moment	0.0	0.1	0.1	0.3	-0.3
Mean time between licks in bursts	1.0	1.4	1.5	1.2	-1.1
Mean num. licks in bursts	0.0	0.0	0.0	0.1	-0.2
Cd content in liver	1.4	1.5	1.7	-1.3	1.2
Co content in liver	1.4	1.6	1.9	1.4	-1.1
Cu content in liver	0.3	0.4	0.5	0.7	-0.5
Fe content in liver	0.6	0.8	1.1	1.0	-0.7
K content in liver	2.9	2.9	3.0	1.7	-1.7
Mg content in liver	2.2	2.2	2.4	1.6	-1.4
Mn content in liver	2.2	2.5	2.9	1.7	-1.5
Na content in liver	0.0	0.1	0.1	0.2	-0.2
Rb content in liver	1.4	1.8	1.9	1.4	-1.3
Se content in liver	3.8	4.7	5.8	2.4	-1.9
Sr content in liver	0.1	0.1	0.1	0.3	-0.3
Zn content in liver	0.1	0.2	0.2	0.4	-0.4
Bone: minimum diameter	0.8	1.4	1.6	-1.3	1.1
Time in familiar zone, hab. session 1	0.9	0.8	0.8	0.9	-0.9
Time in novel zone, hab. session 1	1.5	1.5	1.6	-1.2	1.3
Total zone transitions, hab. session 1	2.4	3.4	3.8	-2.0	1.7
Total locomotion distance, hab. session 1	0.9	1.2	1.5	-1.2	1.0
Locomotion velocity, hab. session 1	0.5	0.7	0.9	-1.0	0.7
Time in familiar zone, hab. session 2	0.0	0.0	0.0	-0.0	-0.1
Time in novel zone, hab. session 2	0.1	0.1	0.1	-0.2	0.3
Total zone transitions, hab. session 2	1.9	2.4	3.1	-1.8	1.3
Total locomotion distance, hab. session 2	0.0	0.0	0.0	-0.1	-0.1
Locomotion velocity, hab. session 2	0.0	0.0	0.0	-0.0	-0.2
Novel to familiar place preference ratio	0.8	0.9	1.0	-1.0	0.8
Novelty place preference	0.8	0.8	1.0	-1.0	0.8
Time in novel zone, NPP test	0.6	0.6	0.7	-0.8	0.7
Total zone transitions, NPP test	0.5	0.7	0.8	0.9	-0.8
Total locomotion distance, NPP test	0.5	0.6	0.7	0.8	-0.8
Locomotion velocity, NPP test	0.4	0.5	0.6	0.7	-0.7
Intraocular pressure	0.0	0.0	0.0	0.2	0.1
Delta distance traveled before/after self-admin	0.2	0.2	0.3	0.2	-0.5
Delta ambulatory time before/after self-admin	0.0	0.0	0.1	0.0	-0.3
Parametrial fat weight	0.9	1.7	1.9	-1.4	1.2
Pavlov. Cond. lever latency	0.5	0.6	0.7	0.8	-0.8
Pavlov. Cond. magazine entry latency	0.9	1.1	1.5	-1.2	0.9
Pavlov. Cond. change in total contacts	0.3	0.3	0.3	0.6	-0.5
Pavlov. Cond. index score	0.2	0.3	0.4	-0.6	0.4
Pavlov. Cond. latency score	0.2	0.3	0.4	-0.6	0.4
Pavlov. Cond. lever contacts	0.3	0.4	0.5	-0.7	0.6
Pavlov. Cond. magazine entry number	0.8	1.0	1.3	1.1	-0.9
Pavlov. Cond. intertrial magazine entries	0.0	0.0	0.0	0.2	0.1
Pavlov. Cond. lever-magazine prob. diff.	0.2	0.2	0.3	-0.5	0.4
Pavlov. Cond. response bias	0.8	1.0	1.2	-1.1	0.9
Pavlov. Cond. lever latency	2.5	3.4	3.5	1.8	-1.9
Pavlov. Cond. magazine entry latency	0.9	1.1	1.1	-1.0	1.0
Pavlov. Cond. change in total contacts	1.2	1.7	1.8	-1.3	1.4
Pavlov. Cond. index score	2.3	2.9	3.0	-1.7	1.7
Pavlov. Cond. latency score	2.8	3.5	3.6	-1.9	1.9
Pavlov. Cond. lever contacts	3.0	4.1	4.3	-2.0	2.1
Pavlov. Cond. magazine entry number	0.5	0.6	0.7	0.7	-0.8
Pavlov. Cond. intertrial magazine entries	0.0	0.1	0.1	0.2	-0.3
Pavlov. Cond. lever-magazine prob. diff.	2.0	2.5	2.6	-1.6	1.6
Pavlov. Cond. response bias	2.1	2.9	3.0	-1.7	1.7
Time in closed arm before self-admin	1.9	2.2	2.5	-1.3	1.6
Time in closed arm after self-admin	0.7	0.7	0.7	-0.8	0.8
Time in open arm before self-admin	1.8	1.9	1.9	1.4	-1.4
Time in open arm after self-admin	2.2	2.4	2.8	1.7	-1.4
Bone: periosteal estimation	0.0	0.0	0.0	0.1	-0.2
Bone: periosteal perimeter	1.2	1.9	2.3	-1.5	1.2
Bone: post-yield work	0.0	0.0	0.0	0.1	0.0
Progressive ratio test 1 active lever presses	4.1	4.2	4.7	-2.2	1.9
Progressive ratio test 1 breakpoint	3.8	4.0	4.4	-2.1	1.9
Progressive ratio test 1 inactive lever presses	2.0	2.2	2.5	-1.6	1.4
Progressive ratio test 2 active lever presses	3.0	3.2	3.7	-1.9	1.6
Progressive ratio test 2 breakpoint	3.8	4.2	4.9	-2.2	1.9
Progressive ratio test 2 inactive lever presses	4.3	5.0	5.9	-2.4	2.0
Incentive Sensitization - Responses	1.3	1.3	1.6	-1.3	1.0
Incentive Sensitization - Breakpoint	1.0	1.1	1.3	-1.1	0.9
Sum of active levers in priming session hrs 5-6	1.1	1.0	1.2	0.9	-1.1
Progressive ratio	0.3	0.4	0.5	-0.7	0.5
Food seeking constrained by brief footshock	1.0	1.3	1.5	-1.2	1.0
Seeking ratio, punishment vs. effort	0.2	0.2	0.2	0.5	-0.4
Retroperitoneal fat weight	10.7	35.1	37.8	-6.1	5.7
Reaction time number correct	0.0	0.0	0.0	0.0	0.1
Reaction time mean minus median	0.1	0.2	0.2	-0.5	0.4
Reaction time mean minus median AUC	0.1	0.2	0.2	-0.4	0.4
Reaction time num false alarms	1.5	2.1	2.7	1.6	-1.2
Reaction time num false alarms AUC	2.2	3.0	3.8	1.9	-1.5
Reaction time trials correct on left	0.0	0.0	0.0	0.0	0.1
Reaction time trials on left	0.0	0.0	0.0	0.1	0.0
Reaction time mean	0.3	0.4	0.6	-0.8	0.4
Reaction time mean AUC	0.5	0.6	0.9	-1.0	0.6
Median of all reaction times	0.5	0.7	1.1	-1.1	0.6
Reaction time omissions	1.3	1.7	1.9	1.2	-1.4
Reaction time false alarm rate	2.7	3.8	4.5	2.1	-1.8
Reaction time premature initiation rate	0.2	0.3	0.4	0.6	-0.5
Reaction time premature initiations	0.2	0.3	0.4	0.6	-0.4
Std. dev. reaction times	0.0	0.0	0.1	-0.2	0.1
Reaction time trials completed	0.0	0.0	0.0	0.1	0.0
Reaction time trials AUC	0.0	0.0	0.0	-0.1	0.2
Run reversals in cocaine runway, females	0.1	0.1	0.1	-0.3	0.2
Run reversals in cocaine runway, males	5.8	5.6	6.0	2.4	-2.3
Latency to leave start box in cocaine runway	0.3	0.3	0.3	0.5	-0.5
Latency to leave start box in cocaine runway, F	0.2	0.2	0.2	0.5	-0.4
Latency to leave start box in cocaine runway, M	0.2	0.2	0.2	0.3	-0.5
Std. dev. time between licks in bursts	0.4	0.4	0.6	0.8	-0.5
Total sessions with >9 infusions	2.4	2.6	2.8	-1.7	1.6
Short access day 1 total inactive lever presses	1.0	1.1	1.1	-1.0	1.1
Short access day 10 total inactive lever presses	0.1	0.1	0.2	-0.4	0.3
Short access day 1 total infusions	10.2	10.9	11.5	-3.4	3.2
Short access day 10 total infusions	4.2	4.7	5.0	-2.2	2.1
Short access total infusions	6.2	6.9	7.4	-2.7	2.5
Short access day 1 locomotion	4.6	4.9	5.2	-2.3	2.2
Short access day 10 total locomotion	3.5	3.9	4.5	-2.1	1.8
Short access total locomotion	3.9	4.1	4.3	-2.1	1.9
One hour access (0.3 mA shock)	3.6	4.3	5.5	-2.3	1.7
Compulsive drug intake	2.3	2.3	2.5	1.6	-1.4
One hour access (shock baseline)	7.6	8.8	10.0	-3.2	2.7
Social response proportion	5.5	6.0	6.3	2.5	-2.4
Social responses	0.0	0.0	0.1	-0.3	0.2
Social time	2.9	3.8	4.1	2.0	-1.9
Soleus weight	1.9	5.5	5.7	2.4	-2.3
Bone: stiffness	0.4	0.7	0.8	-0.9	0.8
Tibialis anterior weight	3.2	10.8	11.8	3.4	-3.1
Time to tail flick, vehicle, before self-admin	4.7	4.8	6.0	-2.4	1.9
Time to tail flick, vehicle, after self-admin	5.8	6.3	6.9	-2.6	2.4
Time to tail flick, test, before self-admin	2.1	2.1	2.1	-1.4	1.4
Time to tail flick, test, after self-admin	3.3	3.4	3.7	-1.9	1.8
Delta time to tail flick, vehicle, before/after SA	0.1	0.1	0.1	-0.1	0.3
Delta time to tail flick, test, before/after SA	0.0	0.0	0.1	-0.3	0.0
Tibia length	0.1	0.4	0.4	0.7	-0.6
Ambulatory time before self-admin	0.2	0.2	0.3	-0.5	0.5
Ambulatory time after self-admin	0.8	0.9	1.0	-1.0	0.8
Bone: tissue strength	0.1	0.1	0.1	0.3	-0.2
Total heroin consumption	1.7	1.9	2.1	1.3	-1.4
Bone: trabecular number	0.6	1.0	1.0	-1.0	1.0
Bone: trabecular spacing	0.2	0.2	0.3	-0.6	0.3
Bone: trabecular thickness	0.2	0.2	0.3	-0.5	0.5
Bone: trabecular tissue density	1.5	2.1	2.1	1.4	-1.4
Water consumed over 24 hours	0.2	0.2	0.3	-0.4	0.5
Number of responses in last shaping day	1.7	1.8	1.9	-1.4	1.3