Hub : Genes

LOC102556644

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	Adipose	alternative TSS	XR_590754.4	0.04	0.02	3.2e-03	0.01	0	0.01	0	5.8e-02	7.4e-02	2.0e-02	8.3e-02
2	Adipose	alternative TSS	XR_010063321.1	0.03	0.02	3.7e-03	0.01	0	0.01	0	6.2e-02	1.1e-01	3.5e-02	9.8e-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	2.2	3.7	3.8	-2.0	1.9
Area under the delay curve	0.8	0.9	1.0	-0.9	1.0
BMI with tail	8.8	30.5	30.5	-5.5	5.5
BMI without tail	4.9	15.1	15.3	-3.9	3.9
Body weight	7.8	34.0	34.3	-5.9	5.8
Weight adjusted by age	4.7	7.2	7.5	-2.7	2.6
Bone surface	1.3	2.4	2.5	-1.6	1.5
Bone volume	3.2	5.8	5.9	-2.4	2.4
Breakpoint value in progressive ratio session	2.3	2.8	2.9	-1.6	1.7
Number of licking bursts	0.1	0.2	0.3	-0.6	0.4
Context. condit. distance diff. score	0.7	0.8	0.8	0.9	-0.9
Locomotion velocity, session 1	0.1	0.1	0.2	0.4	-0.4
Locomotion distance, session 1	0.5	0.7	0.7	0.8	-0.8
Locomotion velocity, session 2	2.5	2.9	3.1	1.7	-1.8
Locomotion distance, session 2	0.1	0.2	0.2	0.4	-0.4
Locomotion velocity, session 3	0.9	1.0	1.0	1.0	-1.0
Locomotion distance, session 3	2.5	2.7	2.7	1.6	-1.6
Stereotopy head waving bouts, day 3	0.0	0.0	0.0	0.2	-0.1
Stereotopy head waving duration, day 3	0.1	0.1	0.1	-0.3	0.3
Locomotion velocity, session 7	0.4	0.5	0.5	-0.7	0.6
Locomotion distance, session 7	0.0	0.0	0.0	-0.0	-0.0
Stereotopy head waving bouts, day 7	0.1	0.1	0.1	-0.3	0.3
Stereotopy head waving duration, day 7	1.1	1.3	1.3	-1.1	1.2
Locomotion velocity, session 8	2.3	2.8	2.9	1.6	-1.7
Locomotion distance, session 8	2.6	3.7	3.9	1.9	-2.0
Degree of sensitization distance	1.7	1.7	1.8	-1.3	1.3
Degree of sensitization stereotypy	0.6	0.6	0.6	-0.8	0.8
Conditioned locomotion	0.2	0.2	0.2	-0.4	0.5
Cocaine response after cond. corrected	4.2	5.0	5.1	2.3	-2.2
Cocaine response after cond. not corrected	4.6	5.4	5.4	2.3	-2.3
Cocaine response before conditioning	0.0	0.0	0.0	-0.2	0.1
Saline control response	0.3	0.4	0.4	0.7	-0.6
Bone: connectivity density	0.3	0.5	0.6	-0.7	0.7
Bone: cortical apparent density	3.1	4.2	4.2	2.0	-2.0
Bone: cortical area	9.1	13.9	14.6	-3.8	3.6
Bone: cortical porosity	0.0	0.0	0.0	0.2	-0.1
Bone: cortical porosity	0.2	0.2	0.2	-0.4	0.5
Bone: cortical thickness	2.5	4.1	4.5	-2.1	1.9
Bone: cortical thickness	1.2	1.4	1.4	-1.2	1.2
Bone: cortical tissue density	3.5	4.8	4.8	2.2	-2.2
Condit. Reinf. active minus inactive responses	2.1	2.4	2.5	1.5	-1.6
Condit. Reinf. active-inactive response ratio	0.9	1.0	1.0	1.0	-1.0
Condit. Reinf. active responses	0.4	0.5	0.6	0.7	-0.8
Condit. Reinf. inactive responses	0.1	0.2	0.2	-0.5	0.4
Incentive salience index mean	3.2	4.0	4.1	2.0	-2.0
Condit. Reinf. lever presses	1.9	2.7	2.8	1.6	-1.7
Condit. Reinf. active minus inactive responses	3.1	4.0	4.0	-2.0	2.0
Condit. Reinf. active-inactive response ratio	2.5	2.9	2.9	-1.7	1.7
Condit. Reinf. active responses	4.6	6.3	6.4	-2.5	2.5
Condit. Reinf. inactive responses	0.9	1.2	1.2	-1.1	1.1
Condit. Reinf. lever presses	2.1	2.8	2.8	-1.7	1.7
Condit. Reinf. lever reinforcers received	3.4	4.7	4.8	-2.2	2.1
Conditioned reinforcement - actives	0.2	0.4	0.4	0.6	-0.6
Conditioned reinforcement - inactives	0.9	1.3	1.3	-1.1	1.1
Conditioned locomotion	0.7	1.0	1.0	1.0	-1.0
Patch foraging indifference point 0 sec	2.4	4.4	4.7	-2.2	2.0
Patch foraging indifference point AUC	2.3	3.3	3.3	-1.8	1.8
Delay disc. indifference point, 0s delay	0.3	0.3	0.3	-0.5	0.5
Delay disc. indifference point, 16s delay	0.2	0.2	0.2	-0.4	0.5
Delay disc. indifference point, 2s delay	0.3	0.3	0.4	0.7	-0.5
Delay disc. indifference point, 24s delay	0.5	0.6	0.6	-0.8	0.8
Delay disc. indifference point, 4s delay	0.0	0.0	0.1	0.2	-0.1
Delay disc. indifference point, 8s delay	3.9	4.6	4.6	-2.2	2.1
Indifference point function ln k	0.6	1.0	1.0	1.0	-1.0
Indifference point function log k	0.6	1.0	1.0	1.0	-1.0
Patch foraging total patch changes 0 sec	3.0	5.7	6.0	-2.4	2.3
Patch foraging total patch changes 12 sec	3.7	4.8	5.0	-2.2	2.2
Patch foraging total patch changes 18 sec	7.9	12.1	12.3	-3.5	3.4
Patch foraging total patch changes 24 sec	4.7	8.0	8.3	-2.9	2.8
Patch foraging total patch changes 6 sec	7.2	10.9	11.3	-3.4	3.2
Patch foraging time to switch 0 sec	0.5	1.1	1.1	1.1	-1.0
Patch foraging water rate 0 sec	0.5	1.1	1.1	-1.1	1.0
Patch foraging water rate 12 sec	2.6	5.4	5.5	-2.3	2.3
Patch foraging water rate 18 sec	0.1	0.1	0.1	-0.3	0.3
Patch foraging water rate 24 sec	0.4	0.5	0.5	-0.7	0.7
Patch foraging water rate 6 sec	0.6	0.9	0.9	-1.0	1.0
Seeking ratio, delayed vs. immediate footshock	5.2	6.3	6.3	2.5	-2.5
Distance traveled before self-admin	2.4	3.1	3.4	1.8	-1.7
Distance traveled after self-admin	2.4	3.0	3.2	1.8	-1.7
Extensor digitorum longus weight	1.1	4.2	4.5	-2.0	2.1
Bone: elastic displacement	0.0	0.0	0.0	0.0	0.0
Bone: elastic work	0.0	0.0	0.0	0.1	-0.0
Bone: endosteal estimation	2.0	4.3	4.3	-2.1	2.1
Bone: endosteal perimeter	5.5	11.6	11.6	-3.4	3.4
Epididymis fat weight	13.9	47.4	47.6	-6.9	6.9
Delta time in closed arm before/after self-admin	1.7	1.6	1.7	1.3	-1.2
Delta time in open arm before/after self-admin	5.9	5.9	6.2	-2.5	2.4
Diff in mean of infusions in LGA sessions	0.0	0.0	0.0	0.0	0.1
Delay discount exponential model param	0.6	0.7	0.8	0.8	-0.9
Extinction: sum of active levers before priming	0.1	0.1	0.2	-0.3	0.4
Active lever presses in extinction session 6	0.0	0.0	0.0	0.1	-0.1
Bone: final force	2.6	4.2	4.3	-2.1	2.0
Bone: final moment	2.6	4.2	4.3	-2.1	2.0
Food consumed during 24 hour testing period	1.2	1.6	1.7	1.2	-1.3
Glucose	2.2	3.4	3.6	-1.8	1.9
Heart weight	2.3	3.5	3.7	-1.9	1.8
Delay discount hyperbolic model param	0.4	0.4	0.5	0.6	-0.7
Intermittent access intake day 1-15 change	0.4	0.9	0.9	-0.9	1.0
Intermittent access intake escalation	0.6	1.2	1.2	-1.1	1.1
Intermittent access intake escalation 2	0.2	0.3	0.3	-0.5	0.5
Intermitt. access day 1 inactive lever presses	2.0	7.5	7.7	-2.8	2.7
Intermitt. access day 15 inactive lever presses	1.7	3.5	3.5	-1.9	1.9
Intermitt. access escalation Index	0.2	0.3	0.4	0.6	-0.6
Intermittent access day 1 total infusions	0.0	0.0	0.0	-0.2	0.2
Intermittent access day 15 total infusions	0.3	0.5	0.5	-0.7	0.7
Intermittent access terminal intake (last 3 days)	0.2	0.3	0.3	-0.5	0.6
Intermittent access total infusions	0.6	0.8	0.8	-0.9	0.9
Intermittent access day 1 locomotion	0.0	0.0	0.0	-0.1	0.2
Intermittent access day 15 total locomotion	3.0	5.5	5.6	-2.3	2.4
Intermittent access total locomotion	0.4	0.4	0.5	-0.6	0.7
Intermittent access standard deviation	1.4	2.9	3.0	-1.7	1.7
Left kidney weight	0.6	2.6	2.8	-1.7	1.5
Right kidney weight	1.4	6.3	6.6	-2.6	2.4
Cocaine induced anxiety	4.5	6.4	6.4	2.5	-2.5
Post-drug Anxiety	0.2	0.2	0.3	0.4	-0.5
Baseline Anxiety	4.4	5.0	5.2	-2.3	2.2
Tail length	0.0	0.1	0.2	-0.4	0.4
Length with tail	0.7	3.1	3.2	-1.8	1.7
Length without tail	3.1	10.0	10.2	-3.2	3.1
Times rat made contact with spout	0.1	0.1	0.1	0.2	-0.2
Lifetime Intake	0.5	0.6	0.7	-0.8	0.8
Liver weight, left	5.5	9.0	9.1	-3.0	3.0
Liver weight, right	0.8	1.4	1.5	-1.2	1.2
Locomotor activity	0.1	0.2	0.2	-0.5	0.4
Locomotor testing distance	0.0	0.0	0.0	-0.1	0.0
Locomotor testing rearing	0.2	0.5	0.5	-0.7	0.7
Locomotion in novel chamber	4.0	5.1	5.2	2.3	-2.3
Locomotion in novel chamber post-restriction	3.5	5.8	6.0	2.5	-2.3
Fecal boli incidents, locomotor time 1	1.1	1.6	1.8	-1.3	1.2
Change in fecal boli incidents, locomotor task	3.2	3.1	3.2	1.8	-1.8
Time >=10cm from walls, locomotor time 1	2.8	3.0	3.0	1.7	-1.7
Bouts of movement, locomotor time 1	2.2	2.5	2.6	-1.6	1.5
Total resting periods, locomotor time 1	1.1	1.3	1.4	-1.2	1.1
Rest time, locomotor task time 1	0.1	0.1	0.2	-0.4	0.2
Distance moved, locomotor task time 1	0.0	0.1	0.1	0.3	-0.1
Vertical activity count, locomotor time 1	0.8	1.8	2.2	1.5	-1.2
Time >=10cm from walls, locomotor time 2	0.3	0.5	0.6	0.6	-0.8
Bouts of movement, locomotor time 2	0.1	0.2	0.3	0.5	-0.4
Total resting periods, locomotor time 2	0.0	0.0	0.0	0.1	-0.0
Rest time, locomotor task time 2	0.4	0.5	0.5	-0.7	0.7
Distance moved, locomotor task time 2	0.0	0.0	0.0	-0.2	0.2
Vertical activity count, locomotor time 2	0.0	0.0	0.0	0.1	-0.1
Light reinforcement 1	0.7	1.8	1.9	1.4	-1.3
Light reinforcement 2	2.6	4.1	4.1	2.0	-2.0
Bone: marrow area	1.9	4.2	4.2	-2.1	2.1
Bone: maximum diameter	9.1	17.1	17.3	-4.2	4.1
Bone: maximum force	1.3	2.4	2.5	-1.6	1.5
Bone: maximum moment	1.4	2.4	2.5	-1.6	1.5
Mean time between licks in bursts	0.0	0.0	0.0	0.1	-0.1
Mean num. licks in bursts	0.4	0.6	0.7	0.8	-0.7
Cd content in liver	3.6	4.0	4.2	2.0	-2.0
Co content in liver	0.3	0.4	0.4	0.6	-0.7
Cu content in liver	0.3	0.3	0.3	0.5	-0.6
Fe content in liver	1.3	1.5	1.5	-1.2	1.2
K content in liver	0.0	0.0	0.0	-0.0	0.1
Mg content in liver	0.1	0.1	0.1	-0.2	0.3
Mn content in liver	0.0	0.0	0.0	0.2	-0.1
Na content in liver	0.0	0.0	0.0	0.1	0.1
Rb content in liver	0.1	0.1	0.1	0.3	-0.2
Se content in liver	0.5	0.6	0.6	0.7	-0.8
Sr content in liver	5.7	4.9	5.0	2.2	-2.2
Zn content in liver	1.8	2.1	2.2	1.5	-1.4
Bone: minimum diameter	4.7	8.6	8.8	-3.0	2.9
Time in familiar zone, hab. session 1	0.4	0.3	0.4	0.6	-0.5
Time in novel zone, hab. session 1	2.0	2.0	2.1	-1.5	1.4
Total zone transitions, hab. session 1	0.3	0.5	0.5	-0.7	0.7
Total locomotion distance, hab. session 1	0.0	0.0	0.0	0.1	-0.2
Locomotion velocity, hab. session 1	0.2	0.2	0.2	0.5	-0.5
Time in familiar zone, hab. session 2	1.4	1.4	1.5	-1.2	1.2
Time in novel zone, hab. session 2	1.0	1.0	1.1	1.0	-0.9
Total zone transitions, hab. session 2	0.6	0.8	0.8	-0.8	0.9
Total locomotion distance, hab. session 2	0.0	0.0	0.0	-0.1	0.2
Locomotion velocity, hab. session 2	0.0	0.0	0.0	-0.1	0.2
Novel to familiar place preference ratio	0.2	0.2	0.2	-0.5	0.4
Novelty place preference	0.2	0.2	0.2	-0.4	0.4
Time in novel zone, NPP test	0.8	0.9	0.9	-0.9	0.9
Total zone transitions, NPP test	0.1	0.1	0.1	-0.3	0.3
Total locomotion distance, NPP test	0.2	0.2	0.2	0.4	-0.5
Locomotion velocity, NPP test	0.8	1.1	1.2	1.0	-1.1
Intraocular pressure	4.2	6.0	6.1	-2.5	2.4
Delta distance traveled before/after self-admin	0.0	0.0	0.0	0.2	-0.1
Delta ambulatory time before/after self-admin	0.0	0.0	0.0	-0.2	0.2
Parametrial fat weight	21.5	50.5	51.4	-7.2	7.0
Pavlov. Cond. lever latency	1.0	1.2	1.2	-1.1	1.1
Pavlov. Cond. magazine entry latency	0.3	0.4	0.4	0.6	-0.6
Pavlov. Cond. change in total contacts	0.4	0.4	0.4	0.6	-0.6
Pavlov. Cond. index score	0.2	0.3	0.3	0.5	-0.5
Pavlov. Cond. latency score	0.2	0.2	0.3	0.5	-0.5
Pavlov. Cond. lever contacts	0.4	0.5	0.5	0.7	-0.7
Pavlov. Cond. magazine entry number	0.0	0.0	0.0	-0.1	0.1
Pavlov. Cond. intertrial magazine entries	0.5	0.6	0.7	0.7	-0.8
Pavlov. Cond. lever-magazine prob. diff.	0.3	0.4	0.4	0.6	-0.6
Pavlov. Cond. response bias	0.6	0.7	0.7	0.8	-0.8
Pavlov. Cond. lever latency	1.5	2.1	2.1	1.5	-1.4
Pavlov. Cond. magazine entry latency	1.2	1.4	1.5	-1.2	1.2
Pavlov. Cond. change in total contacts	2.0	3.2	3.2	-1.8	1.8
Pavlov. Cond. index score	2.3	3.0	3.0	-1.7	1.7
Pavlov. Cond. latency score	2.2	2.9	2.9	-1.7	1.7
Pavlov. Cond. lever contacts	1.1	1.5	1.5	-1.2	1.2
Pavlov. Cond. magazine entry number	1.5	1.8	1.8	1.3	-1.4
Pavlov. Cond. intertrial magazine entries	0.1	0.1	0.1	-0.4	0.3
Pavlov. Cond. lever-magazine prob. diff.	2.0	2.7	2.7	-1.6	1.6
Pavlov. Cond. response bias	1.9	2.6	2.6	-1.6	1.6
Time in closed arm before self-admin	0.0	0.1	0.1	0.2	-0.3
Time in closed arm after self-admin	2.4	2.5	2.6	1.6	-1.6
Time in open arm before self-admin	2.7	3.0	3.1	1.8	-1.7
Time in open arm after self-admin	1.4	1.6	1.7	-1.3	1.2
Bone: periosteal estimation	5.1	10.7	11.0	-3.3	3.2
Bone: periosteal perimeter	13.2	22.7	22.9	-4.8	4.7
Bone: post-yield work	0.0	0.0	0.0	-0.2	0.1
Progressive ratio test 1 active lever presses	0.1	0.2	0.2	-0.4	0.4
Progressive ratio test 1 breakpoint	0.1	0.1	0.1	-0.3	0.3
Progressive ratio test 1 inactive lever presses	0.2	0.4	0.4	-0.6	0.6
Progressive ratio test 2 active lever presses	1.9	2.2	2.2	-1.5	1.5
Progressive ratio test 2 breakpoint	2.0	2.3	2.3	-1.5	1.5
Progressive ratio test 2 inactive lever presses	2.5	4.1	4.2	-2.1	2.0
Incentive Sensitization - Responses	1.6	2.3	2.3	-1.5	1.5
Incentive Sensitization - Breakpoint	1.8	2.3	2.3	-1.5	1.5
Sum of active levers in priming session hrs 5-6	0.1	0.1	0.1	-0.3	0.3
Progressive ratio	0.6	0.9	1.0	0.9	-1.0
Food seeking constrained by brief footshock	0.3	0.4	0.4	0.6	-0.7
Seeking ratio, punishment vs. effort	0.2	0.2	0.3	-0.4	0.5
Retroperitoneal fat weight	16.3	69.5	70.0	-8.4	8.3
Reaction time number correct	1.9	3.7	3.9	-1.9	2.0
Reaction time mean minus median	0.5	1.3	1.4	-1.1	1.2
Reaction time mean minus median AUC	0.2	0.4	0.5	-0.6	0.7
Reaction time num false alarms	0.5	0.7	0.7	0.8	-0.8
Reaction time num false alarms AUC	0.4	0.6	0.6	0.8	-0.8
Reaction time trials correct on left	1.9	3.7	3.9	-1.9	2.0
Reaction time trials on left	2.1	4.0	4.3	-1.9	2.1
Reaction time mean	0.1	0.1	0.2	-0.2	0.4
Reaction time mean AUC	0.0	0.0	0.1	-0.0	0.2
Median of all reaction times	0.0	0.0	0.1	0.2	-0.1
Reaction time omissions	1.6	2.3	2.5	-1.4	1.6
Reaction time false alarm rate	2.1	2.9	3.1	1.7	-1.7
Reaction time premature initiation rate	0.0	0.1	0.1	0.2	-0.3
Reaction time premature initiations	0.5	0.9	0.9	-0.9	1.0
Std. dev. reaction times	1.5	2.7	2.9	-1.6	1.7
Reaction time trials completed	2.1	4.0	4.3	-1.9	2.1
Reaction time trials AUC	2.0	3.9	4.1	-1.9	2.0
Run reversals in cocaine runway, females	0.1	0.1	0.1	-0.3	0.2
Run reversals in cocaine runway, males	0.7	0.7	0.8	0.9	-0.8
Latency to leave start box in cocaine runway	0.1	0.1	0.1	-0.2	0.4
Latency to leave start box in cocaine runway, F	0.0	0.0	0.0	0.1	0.1
Latency to leave start box in cocaine runway, M	0.4	0.4	0.4	-0.6	0.7
Std. dev. time between licks in bursts	0.4	0.5	0.6	0.6	-0.8
Total sessions with >9 infusions	0.8	1.0	1.1	-1.0	1.0
Short access day 1 total inactive lever presses	0.0	0.0	0.0	0.1	-0.1
Short access day 10 total inactive lever presses	0.3	0.8	0.8	-0.9	0.9
Short access day 1 total infusions	0.0	0.0	0.0	-0.1	0.2
Short access day 10 total infusions	0.4	0.5	0.5	0.7	-0.7
Short access total infusions	0.0	0.0	0.0	-0.0	-0.0
Short access day 1 locomotion	0.2	0.2	0.2	-0.4	0.5
Short access day 10 total locomotion	0.7	1.3	1.4	-1.1	1.2
Short access total locomotion	0.3	0.4	0.4	-0.6	0.7
One hour access (0.3 mA shock)	2.1	2.4	2.4	-1.6	1.6
Compulsive drug intake	0.0	0.1	0.1	-0.2	0.3
One hour access (shock baseline)	0.5	0.8	0.9	-0.9	0.9
Social response proportion	0.1	0.1	0.1	0.3	-0.3
Social responses	4.6	5.9	6.2	-2.5	2.4
Social time	0.3	0.4	0.5	-0.6	0.7
Soleus weight	1.6	4.7	5.2	-2.1	2.3
Bone: stiffness	1.4	2.3	2.5	-1.6	1.4
Tibialis anterior weight	0.9	2.9	3.3	-1.6	1.8
Time to tail flick, vehicle, before self-admin	0.5	0.5	0.6	-0.8	0.6
Time to tail flick, vehicle, after self-admin	0.0	0.0	0.0	-0.1	0.2
Time to tail flick, test, before self-admin	1.4	1.5	1.5	1.2	-1.2
Time to tail flick, test, after self-admin	1.8	1.9	2.0	-1.4	1.3
Delta time to tail flick, vehicle, before/after SA	0.7	0.7	0.8	-0.8	0.9
Delta time to tail flick, test, before/after SA	2.3	2.3	2.5	-1.6	1.5
Tibia length	0.3	0.9	1.0	-1.0	0.9
Ambulatory time before self-admin	0.7	1.1	1.1	1.1	-1.0
Ambulatory time after self-admin	1.1	1.3	1.4	1.2	-1.1
Bone: tissue strength	0.1	0.1	0.1	0.3	-0.4
Total heroin consumption	3.1	3.7	3.7	-1.9	1.9
Bone: trabecular number	1.3	2.1	2.2	-1.5	1.4
Bone: trabecular spacing	0.1	0.1	0.1	0.3	-0.4
Bone: trabecular thickness	6.1	7.7	7.7	-2.8	2.8
Bone: trabecular tissue density	0.2	0.3	0.4	0.6	-0.5
Water consumed over 24 hours	0.1	0.1	0.1	0.3	-0.3
Number of responses in last shaping day	0.0	0.0	0.0	0.1	-0.1