Hub : Genes

LOC120100058

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	Eye	gene expression	LOC120100058	0.34	0.16	8.9e-03	-0.01	0.03	0.05	0.07	5.3e-01	1.0e-01	5.6e-02	3.6e-02
2	Adipose	gene expression	LOC120100058	0.1	0.05	1.3e-12	0.09	0.1	0.09	0.09	4.8e-10	1.1e-10	2.2e-10	3.8e-10

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	1.2	2.0	3.1	-1.8	0.9
Area under the delay curve	1.3	1.4	2.3	-1.5	0.7
BMI with tail	2.1	6.8	8.1	-2.8	2.4
BMI without tail	2.9	5.9	7.2	-2.7	2.1
Body weight	3.5	14.6	18.4	-4.3	3.3
Weight adjusted by age	0.5	0.5	0.8	-0.5	0.9
Bone surface	0.2	0.4	0.5	-0.7	0.5
Bone volume	1.1	2.0	2.9	-1.7	1.0
Breakpoint value in progressive ratio session	1.1	1.2	2.4	-1.5	0.2
Number of licking bursts	0.2	0.2	0.2	-0.4	-0.5
Context. condit. distance diff. score	1.2	1.4	1.8	1.3	-1.0
Locomotion velocity, session 1	2.3	2.4	2.8	1.4	-1.7
Locomotion distance, session 1	0.5	0.6	0.9	0.9	-0.6
Locomotion velocity, session 2	0.2	0.2	0.4	0.6	0.1
Locomotion distance, session 2	0.3	0.4	0.5	0.5	-0.7
Locomotion velocity, session 3	1.7	2.0	2.1	1.4	-1.4
Locomotion distance, session 3	2.8	3.0	3.0	1.7	-1.7
Stereotopy head waving bouts, day 3	0.0	0.0	0.0	-0.1	0.1
Stereotopy head waving duration, day 3	0.1	0.1	0.1	0.3	-0.3
Locomotion velocity, session 7	1.1	1.2	1.6	0.9	-1.3
Locomotion distance, session 7	1.7	2.1	2.3	1.5	-1.4
Stereotopy head waving bouts, day 7	0.7	0.8	0.9	0.8	-1.0
Stereotopy head waving duration, day 7	0.4	0.5	0.7	0.6	-0.8
Locomotion velocity, session 8	0.2	0.2	0.4	0.6	-0.3
Locomotion distance, session 8	0.9	1.3	1.6	1.3	-1.0
Degree of sensitization distance	0.1	0.1	0.1	-0.3	0.3
Degree of sensitization stereotypy	1.9	2.1	2.3	1.4	-1.5
Conditioned locomotion	1.3	1.6	1.8	1.3	-1.2
Cocaine response after cond. corrected	0.6	0.7	1.1	1.1	-0.5
Cocaine response after cond. not corrected	1.6	1.8	2.8	1.7	-0.9
Cocaine response before conditioning	0.5	0.6	0.6	0.8	-0.7
Saline control response	0.7	0.9	1.4	1.2	-0.6
Bone: connectivity density	0.5	0.7	0.8	-0.9	0.8
Bone: cortical apparent density	0.7	1.0	1.8	1.3	-0.5
Bone: cortical area	0.7	1.1	1.7	0.6	-1.3
Bone: cortical porosity	0.1	0.1	0.2	-0.4	-0.1
Bone: cortical porosity	0.1	0.1	0.2	-0.5	-0.2
Bone: cortical thickness	1.7	2.8	3.0	1.6	-1.7
Bone: cortical thickness	1.1	1.3	1.3	1.1	-1.1
Bone: cortical tissue density	0.7	0.9	1.6	1.3	-0.4
Condit. Reinf. active minus inactive responses	1.8	2.0	2.5	1.2	-1.6
Condit. Reinf. active-inactive response ratio	0.7	0.8	0.9	0.8	-1.0
Condit. Reinf. active responses	2.6	3.1	4.3	1.4	-2.1
Condit. Reinf. inactive responses	0.7	0.9	1.4	0.6	-1.2
Incentive salience index mean	2.0	2.5	3.1	1.4	-1.8
Condit. Reinf. lever presses	0.4	0.5	0.9	0.4	-0.9
Condit. Reinf. active minus inactive responses	4.1	5.0	7.9	1.4	-2.8
Condit. Reinf. active-inactive response ratio	4.6	4.8	6.8	1.7	-2.6
Condit. Reinf. active responses	2.7	3.7	6.1	1.1	-2.5
Condit. Reinf. inactive responses	0.1	0.2	0.4	0.0	-0.6
Condit. Reinf. lever presses	4.2	5.7	7.7	1.9	-2.8
Condit. Reinf. lever reinforcers received	3.1	4.4	6.9	1.4	-2.6
Conditioned reinforcement - actives	1.3	1.3	1.6	-1.3	1.0
Conditioned reinforcement - inactives	0.0	0.0	0.0	-0.1	0.0
Conditioned locomotion	4.1	4.9	5.4	-2.1	2.3
Patch foraging indifference point 0 sec	0.3	0.5	0.7	0.8	-0.5
Patch foraging indifference point AUC	0.9	1.0	1.8	0.4	-1.4
Delay disc. indifference point, 0s delay	1.1	1.2	1.9	-1.4	0.7
Delay disc. indifference point, 16s delay	0.1	0.1	0.1	-0.3	0.3
Delay disc. indifference point, 2s delay	0.4	0.4	0.6	-0.8	0.5
Delay disc. indifference point, 24s delay	0.4	0.4	0.4	-0.7	0.6
Delay disc. indifference point, 4s delay	0.1	0.2	0.3	-0.6	-0.0
Delay disc. indifference point, 8s delay	2.3	2.3	3.9	-2.0	0.9
Indifference point function ln k	0.2	0.2	0.5	-0.2	0.7
Indifference point function log k	0.2	0.2	0.5	-0.2	0.7
Patch foraging total patch changes 0 sec	0.4	0.6	0.6	0.8	-0.7
Patch foraging total patch changes 12 sec	0.7	0.8	1.4	0.5	-1.2
Patch foraging total patch changes 18 sec	1.3	1.6	2.7	0.8	-1.6
Patch foraging total patch changes 24 sec	0.6	0.7	1.3	0.2	-1.2
Patch foraging total patch changes 6 sec	0.3	0.4	0.5	0.6	-0.7
Patch foraging time to switch 0 sec	0.6	1.0	1.4	-0.8	1.2
Patch foraging water rate 0 sec	0.2	0.3	0.5	0.4	-0.7
Patch foraging water rate 12 sec	0.3	0.4	0.6	-0.8	0.5
Patch foraging water rate 18 sec	0.2	0.2	0.4	-0.3	0.6
Patch foraging water rate 24 sec	0.4	0.6	0.8	-0.9	0.6
Patch foraging water rate 6 sec	0.2	0.3	0.4	-0.5	0.6
Seeking ratio, delayed vs. immediate footshock	0.4	0.5	0.7	-0.5	0.8
Distance traveled before self-admin	0.6	0.7	1.3	1.1	-0.2
Distance traveled after self-admin	1.2	1.3	2.4	-0.5	1.5
Extensor digitorum longus weight	0.1	0.4	0.5	-0.4	-0.7
Bone: elastic displacement	0.0	0.0	0.1	-0.3	0.2
Bone: elastic work	0.5	0.6	0.7	-0.8	0.8
Bone: endosteal estimation	1.5	3.3	4.5	-2.1	1.5
Bone: endosteal perimeter	0.5	1.0	1.7	-1.3	0.6
Epididymis fat weight	2.2	5.1	8.6	-2.9	1.3
Delta time in closed arm before/after self-admin	0.4	0.4	0.8	0.9	-0.1
Delta time in open arm before/after self-admin	0.5	0.4	0.8	-0.9	0.3
Diff in mean of infusions in LGA sessions	1.1	1.2	2.1	0.5	-1.4
Delay discount exponential model param	1.2	1.2	2.0	1.4	-0.7
Extinction: sum of active levers before priming	0.0	0.0	0.0	-0.2	-0.1
Active lever presses in extinction session 6	0.8	0.8	0.9	0.8	-1.0
Bone: final force	0.2	0.3	0.4	-0.7	0.5
Bone: final moment	0.4	0.6	0.8	-0.9	0.6
Food consumed during 24 hour testing period	0.6	0.7	0.8	-0.9	0.8
Glucose	1.5	2.3	2.9	-1.7	1.3
Heart weight	6.7	9.4	10.9	3.3	-2.8
Delay discount hyperbolic model param	1.2	1.3	2.0	1.4	-0.7
Intermittent access intake day 1-15 change	3.1	3.0	4.6	-2.1	1.2
Intermittent access intake escalation	2.8	2.7	3.6	-1.9	1.4
Intermittent access intake escalation 2	5.1	5.1	6.5	-2.6	1.9
Intermitt. access day 1 inactive lever presses	0.2	0.2	0.3	0.2	-0.6
Intermitt. access day 15 inactive lever presses	0.2	0.3	0.4	0.7	-0.3
Intermitt. access escalation Index	0.8	0.7	0.8	-0.8	0.9
Intermittent access day 1 total infusions	0.2	0.2	0.3	-0.5	-0.4
Intermittent access day 15 total infusions	1.5	1.7	3.0	-1.7	0.6
Intermittent access terminal intake (last 3 days)	3.1	3.3	5.6	-2.4	1.0
Intermittent access total infusions	1.4	1.6	2.8	-1.7	0.6
Intermittent access day 1 locomotion	0.1	0.1	0.2	-0.4	0.3
Intermittent access day 15 total locomotion	0.3	0.3	0.3	-0.6	0.6
Intermittent access total locomotion	1.2	1.3	1.5	-1.1	1.2
Intermittent access standard deviation	4.7	5.0	7.6	-2.8	1.5
Left kidney weight	2.6	7.4	9.7	-2.3	3.1
Right kidney weight	1.9	5.2	5.8	-2.2	2.4
Cocaine induced anxiety	0.6	0.7	1.4	1.2	0.0
Post-drug Anxiety	0.2	0.2	0.4	0.6	-0.2
Baseline Anxiety	0.4	0.5	0.7	-0.4	-0.9
Tail length	0.2	0.7	1.3	-1.1	0.4
Length with tail	1.2	4.3	5.9	-2.4	1.6
Length without tail	0.4	0.9	1.3	-1.1	0.8
Times rat made contact with spout	0.0	0.0	0.0	-0.2	-0.2
Lifetime Intake	1.3	1.4	2.5	-1.6	0.6
Liver weight, left	0.2	0.4	0.7	0.0	-0.8
Liver weight, right	4.9	8.1	10.4	-3.2	2.4
Locomotor activity	0.4	0.6	1.1	1.1	-0.3
Locomotor testing distance	0.3	0.5	1.1	1.0	0.1
Locomotor testing rearing	0.2	0.3	0.5	0.2	0.7
Locomotion in novel chamber	1.0	1.3	2.0	1.4	-0.7
Locomotion in novel chamber post-restriction	0.2	0.2	0.3	-0.6	0.2
Fecal boli incidents, locomotor time 1	0.7	0.7	0.9	-0.9	0.8
Change in fecal boli incidents, locomotor task	0.4	0.4	0.6	0.5	-0.7
Time >=10cm from walls, locomotor time 1	0.2	0.2	0.4	-0.0	0.6
Bouts of movement, locomotor time 1	1.9	2.1	3.8	-1.9	0.6
Total resting periods, locomotor time 1	1.5	1.7	2.9	-1.7	0.6
Rest time, locomotor task time 1	0.8	0.9	1.5	1.2	-0.5
Distance moved, locomotor task time 1	0.6	0.7	0.8	-0.9	0.8
Vertical activity count, locomotor time 1	0.2	0.2	0.3	0.4	-0.6
Time >=10cm from walls, locomotor time 2	0.7	0.7	0.8	0.9	-0.8
Bouts of movement, locomotor time 2	0.2	0.2	0.3	-0.4	0.5
Total resting periods, locomotor time 2	0.4	0.4	0.6	-0.5	0.8
Rest time, locomotor task time 2	1.1	1.3	2.0	-0.7	1.4
Distance moved, locomotor task time 2	0.6	0.7	1.3	0.3	-1.1
Vertical activity count, locomotor time 2	1.7	1.9	2.7	1.0	-1.6
Light reinforcement 1	1.0	1.8	1.9	1.4	-1.3
Light reinforcement 2	0.7	0.9	0.9	0.9	-1.0
Bone: marrow area	1.5	3.3	4.4	-2.1	1.5
Bone: maximum diameter	0.3	0.6	1.1	0.0	-1.0
Bone: maximum force	0.0	0.1	0.1	-0.3	0.1
Bone: maximum moment	0.1	0.2	0.4	-0.6	0.3
Mean time between licks in bursts	0.1	0.1	0.2	-0.5	0.0
Mean num. licks in bursts	0.2	0.2	0.4	0.1	0.6
Cd content in liver	5.2	5.7	7.4	2.7	-2.0
Co content in liver	0.3	0.4	0.8	0.9	-0.0
Cu content in liver	0.9	1.1	1.3	-1.0	1.1
Fe content in liver	1.3	1.6	1.9	1.4	-1.1
K content in liver	2.0	2.0	2.8	-1.7	1.1
Mg content in liver	1.4	1.4	2.5	-1.6	0.6
Mn content in liver	1.0	1.2	1.4	1.0	-1.2
Na content in liver	0.4	0.4	0.8	0.3	-0.9
Rb content in liver	0.0	0.0	0.0	-0.2	-0.2
Se content in liver	0.3	0.3	0.4	-0.5	0.6
Sr content in liver	2.3	2.1	2.7	-1.3	1.6
Zn content in liver	0.2	0.2	0.4	0.6	-0.3
Bone: minimum diameter	0.2	0.4	0.7	-0.9	-0.1
Time in familiar zone, hab. session 1	1.1	1.1	1.8	-0.6	1.3
Time in novel zone, hab. session 1	0.6	0.6	1.1	0.0	-1.1
Total zone transitions, hab. session 1	1.1	1.6	1.6	1.3	-1.3
Total locomotion distance, hab. session 1	0.5	0.7	1.0	0.7	-1.0
Locomotion velocity, hab. session 1	1.0	1.4	1.6	1.1	-1.2
Time in familiar zone, hab. session 2	0.6	0.7	1.3	-1.1	0.1
Time in novel zone, hab. session 2	0.3	0.3	0.7	0.8	-0.0
Total zone transitions, hab. session 2	0.1	0.2	0.4	0.2	-0.6
Total locomotion distance, hab. session 2	0.2	0.3	0.6	0.2	-0.8
Locomotion velocity, hab. session 2	0.3	0.4	0.7	0.4	-0.8
Novel to familiar place preference ratio	0.2	0.2	0.3	-0.6	0.3
Novelty place preference	0.8	0.8	1.2	-1.1	0.7
Time in novel zone, NPP test	1.0	1.0	1.7	-1.3	0.6
Total zone transitions, NPP test	0.8	1.1	1.6	0.8	-1.3
Total locomotion distance, NPP test	0.6	0.9	1.3	0.6	-1.2
Locomotion velocity, NPP test	0.6	0.8	1.0	0.8	-1.0
Intraocular pressure	0.1	0.2	0.3	-0.3	-0.5
Delta distance traveled before/after self-admin	2.9	3.2	4.2	-1.5	2.0
Delta ambulatory time before/after self-admin	2.2	2.4	2.6	-1.5	1.6
Parametrial fat weight	1.0	1.9	3.1	-1.8	0.8
Pavlov. Cond. lever latency	0.0	0.0	0.1	0.2	-0.2
Pavlov. Cond. magazine entry latency	0.2	0.2	0.4	-0.6	0.2
Pavlov. Cond. change in total contacts	0.3	0.3	0.5	-0.7	0.3
Pavlov. Cond. index score	0.2	0.2	0.3	-0.6	0.2
Pavlov. Cond. latency score	0.3	0.3	0.5	-0.7	0.4
Pavlov. Cond. lever contacts	0.2	0.2	0.3	-0.6	0.2
Pavlov. Cond. magazine entry number	0.5	0.6	0.9	1.0	-0.5
Pavlov. Cond. intertrial magazine entries	0.8	1.0	1.2	1.1	-0.9
Pavlov. Cond. lever-magazine prob. diff.	0.1	0.1	0.3	-0.5	0.1
Pavlov. Cond. response bias	0.3	0.4	0.6	-0.8	0.4
Pavlov. Cond. lever latency	3.1	4.1	6.3	-1.4	2.5
Pavlov. Cond. magazine entry latency	0.3	0.3	0.6	-0.8	-0.0
Pavlov. Cond. change in total contacts	1.0	1.4	2.6	0.4	-1.6
Pavlov. Cond. index score	0.7	0.9	1.8	0.3	-1.3
Pavlov. Cond. latency score	0.4	0.5	1.1	-0.0	-1.0
Pavlov. Cond. lever contacts	3.4	4.7	6.4	1.7	-2.5
Pavlov. Cond. magazine entry number	0.4	0.5	0.9	1.0	-0.0
Pavlov. Cond. intertrial magazine entries	0.8	1.1	1.4	1.2	-0.9
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.8	1.5	0.2	-1.2
Pavlov. Cond. response bias	2.5	3.4	5.0	1.3	-2.2
Time in closed arm before self-admin	0.2	0.3	0.4	-0.7	0.3
Time in closed arm after self-admin	0.0	0.0	0.0	-0.1	-0.1
Time in open arm before self-admin	0.5	0.6	0.9	0.9	-0.6
Time in open arm after self-admin	0.0	0.0	0.0	0.0	-0.1
Bone: periosteal estimation	0.4	0.8	1.5	-1.2	0.4
Bone: periosteal perimeter	0.2	0.3	0.7	-0.8	0.1
Bone: post-yield work	0.2	0.3	0.6	-0.0	-0.8
Progressive ratio test 1 active lever presses	0.8	0.8	1.0	-1.0	0.8
Progressive ratio test 1 breakpoint	0.5	0.5	0.9	-0.9	0.4
Progressive ratio test 1 inactive lever presses	0.1	0.1	0.1	-0.2	-0.3
Progressive ratio test 2 active lever presses	3.7	4.0	5.4	-2.3	1.6
Progressive ratio test 2 breakpoint	3.4	3.8	5.3	-2.3	1.5
Progressive ratio test 2 inactive lever presses	2.5	2.8	4.3	-2.1	1.2
Incentive Sensitization - Responses	2.9	3.0	4.3	-2.1	1.2
Incentive Sensitization - Breakpoint	2.7	2.7	4.1	-2.0	1.2
Sum of active levers in priming session hrs 5-6	0.3	0.3	0.4	0.4	-0.6
Progressive ratio	1.1	1.3	2.0	1.4	-0.8
Food seeking constrained by brief footshock	0.7	0.8	1.3	0.6	-1.1
Seeking ratio, punishment vs. effort	0.3	0.4	0.8	-0.9	0.0
Retroperitoneal fat weight	6.3	20.8	27.3	-5.2	3.8
Reaction time number correct	2.1	3.0	3.4	-1.8	1.6
Reaction time mean minus median	0.2	0.3	0.4	-0.5	0.6
Reaction time mean minus median AUC	1.2	1.6	2.0	-1.1	1.4
Reaction time num false alarms	0.8	1.0	1.6	0.7	-1.3
Reaction time num false alarms AUC	1.5	2.1	2.5	1.3	-1.6
Reaction time trials correct on left	2.1	3.0	3.4	-1.8	1.6
Reaction time trials on left	2.2	3.1	3.5	-1.9	1.6
Reaction time mean	0.5	0.6	1.0	-0.5	1.0
Reaction time mean AUC	0.3	0.4	0.7	-0.3	0.8
Median of all reaction times	0.6	0.8	1.4	-0.5	1.2
Reaction time omissions	1.1	1.4	1.6	-1.1	1.2
Reaction time false alarm rate	3.1	4.3	5.0	1.9	-2.2
Reaction time premature initiation rate	0.4	0.5	0.8	0.9	-0.4
Reaction time premature initiations	0.1	0.1	0.3	-0.1	0.5
Std. dev. reaction times	0.6	0.9	0.9	-0.9	1.0
Reaction time trials completed	2.2	3.1	3.5	-1.9	1.6
Reaction time trials AUC	2.1	3.1	3.5	-1.9	1.6
Run reversals in cocaine runway, females	1.7	1.6	2.2	-1.0	1.5
Run reversals in cocaine runway, males	1.2	1.1	2.2	1.5	-0.3
Latency to leave start box in cocaine runway	0.3	0.3	0.4	0.6	-0.5
Latency to leave start box in cocaine runway, F	1.1	1.2	1.9	1.4	-0.7
Latency to leave start box in cocaine runway, M	0.6	0.5	1.1	-1.0	0.0
Std. dev. time between licks in bursts	0.2	0.2	0.3	-0.3	-0.5
Total sessions with >9 infusions	2.5	2.8	3.0	-1.7	1.6
Short access day 1 total inactive lever presses	1.1	1.3	1.8	-1.3	0.8
Short access day 10 total inactive lever presses	0.0	0.0	0.0	0.1	0.1
Short access day 1 total infusions	3.3	3.5	4.1	-2.0	1.7
Short access day 10 total infusions	0.2	0.2	0.4	-0.6	-0.0
Short access total infusions	1.1	1.2	1.9	-1.4	0.7
Short access day 1 locomotion	3.6	3.8	4.4	-2.1	1.8
Short access day 10 total locomotion	2.8	3.2	3.2	-1.8	1.8
Short access total locomotion	1.7	1.8	1.8	-1.3	1.4
One hour access (0.3 mA shock)	5.7	6.6	10.1	-3.2	1.8
Compulsive drug intake	0.8	0.8	1.2	1.1	-0.6
One hour access (shock baseline)	4.0	4.7	7.1	-2.7	1.5
Social response proportion	10.4	11.3	12.8	-3.1	3.6
Social responses	2.5	3.2	3.6	-1.9	1.7
Social time	4.4	5.8	6.5	-2.2	2.6
Soleus weight	2.2	6.3	7.1	-2.7	2.3
Bone: stiffness	0.0	0.0	0.0	0.2	-0.2
Tibialis anterior weight	0.2	0.5	1.0	0.2	-1.0
Time to tail flick, vehicle, before self-admin	0.8	0.8	1.2	-1.1	0.7
Time to tail flick, vehicle, after self-admin	0.0	0.0	0.1	0.1	0.2
Time to tail flick, test, before self-admin	0.1	0.1	0.1	-0.2	0.4
Time to tail flick, test, after self-admin	0.1	0.1	0.1	0.4	-0.1
Delta time to tail flick, vehicle, before/after SA	0.3	0.3	0.7	0.8	-0.2
Delta time to tail flick, test, before/after SA	0.1	0.1	0.2	0.5	-0.1
Tibia length	0.1	0.3	0.5	0.2	0.7
Ambulatory time before self-admin	0.4	0.4	0.9	0.9	0.0
Ambulatory time after self-admin	3.2	3.5	5.3	-1.3	2.3
Bone: tissue strength	0.1	0.1	0.2	-0.4	0.2
Total heroin consumption	0.3	0.3	0.3	-0.6	-0.6
Bone: trabecular number	1.7	2.7	3.9	-2.0	1.2
Bone: trabecular spacing	1.6	2.1	2.2	1.4	-1.5
Bone: trabecular thickness	3.3	3.9	6.1	-2.5	1.3
Bone: trabecular tissue density	0.1	0.1	0.1	0.4	-0.1
Water consumed over 24 hours	1.5	1.8	2.1	-1.2	1.4
Number of responses in last shaping day	0.1	0.1	0.2	-0.1	0.4