Hub : Genes

Sltm

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	intron excision ratio	chr8_71216999_71230867	0.02	0.02	8.6e-03	0.01	0.01	0.01	0	3.2e-02	4.6e-02	4.0e-02	8.2e-02
2	OFC	intron excision ratio	chr8_71233761_71234549	0.32	0.3	9.1e-04	0.1	0.09	0.04	0.09	2.4e-03	4.2e-03	3.9e-02	4.0e-03

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	0.5	0.8	0.9	-0.8	0.9
Area under the delay curve	0.0	0.0	0.0	-0.2	0.1
BMI with tail	4.5	14.7	15.7	4.0	-3.7
BMI without tail	2.4	4.9	6.1	2.5	-1.9
Body weight	4.3	18.1	18.4	4.3	-4.2
Weight adjusted by age	6.3	7.1	7.5	2.7	-2.6
Bone surface	0.1	0.1	0.1	0.4	-0.2
Bone volume	0.0	0.0	0.0	0.1	0.1
Breakpoint value in progressive ratio session	0.4	0.5	0.5	0.7	-0.7
Number of licking bursts	2.0	2.3	2.6	-1.4	1.6
Context. condit. distance diff. score	1.0	1.3	1.5	-1.2	1.0
Locomotion velocity, session 1	2.1	2.3	2.4	1.5	-1.5
Locomotion distance, session 1	0.1	0.1	0.1	-0.3	0.3
Locomotion velocity, session 2	0.5	0.6	0.6	0.8	-0.7
Locomotion distance, session 2	0.4	0.5	0.6	0.7	-0.7
Locomotion velocity, session 3	0.0	0.0	0.0	0.1	-0.0
Locomotion distance, session 3	1.6	1.8	1.9	-1.4	1.3
Stereotopy head waving bouts, day 3	0.4	0.4	0.5	0.7	-0.6
Stereotopy head waving duration, day 3	0.5	0.6	0.7	0.8	-0.7
Locomotion velocity, session 7	1.4	1.5	1.7	-1.2	1.3
Locomotion distance, session 7	1.5	1.9	2.0	-1.4	1.3
Stereotopy head waving bouts, day 7	0.7	0.8	0.9	1.0	-0.9
Stereotopy head waving duration, day 7	0.8	0.9	1.1	1.1	-0.8
Locomotion velocity, session 8	0.6	0.8	0.8	0.8	-0.9
Locomotion distance, session 8	0.3	0.5	0.6	-0.8	0.6
Degree of sensitization distance	0.2	0.2	0.2	-0.5	0.5
Degree of sensitization stereotypy	0.6	0.6	0.7	0.9	-0.7
Conditioned locomotion	0.1	0.1	0.1	-0.4	0.3
Cocaine response after cond. corrected	3.3	3.7	3.8	1.9	-1.9
Cocaine response after cond. not corrected	1.9	2.1	2.1	1.4	-1.4
Cocaine response before conditioning	1.0	1.3	1.4	-1.2	1.1
Saline control response	0.2	0.2	0.2	-0.5	0.5
Bone: connectivity density	0.9	1.4	1.5	-1.2	1.2
Bone: cortical apparent density	0.5	0.7	0.8	-0.7	0.9
Bone: cortical area	0.0	0.0	0.0	0.0	-0.0
Bone: cortical porosity	0.6	0.6	0.7	-0.7	0.8
Bone: cortical porosity	1.5	1.6	1.9	-1.1	1.4
Bone: cortical thickness	1.1	1.7	1.8	-1.3	1.3
Bone: cortical thickness	0.4	0.5	0.6	-0.7	0.7
Bone: cortical tissue density	0.5	0.7	0.8	-0.7	0.9
Condit. Reinf. active minus inactive responses	0.0	0.0	0.0	-0.0	-0.1
Condit. Reinf. active-inactive response ratio	0.4	0.5	0.5	-0.7	0.7
Condit. Reinf. active responses	0.5	0.6	0.7	0.8	-0.9
Condit. Reinf. inactive responses	1.5	1.8	2.1	1.4	-1.3
Incentive salience index mean	0.0	0.1	0.1	0.2	-0.3
Condit. Reinf. lever presses	0.0	0.0	0.0	0.1	-0.1
Condit. Reinf. active minus inactive responses	2.9	3.6	3.9	2.0	-1.8
Condit. Reinf. active-inactive response ratio	0.9	1.0	1.2	1.1	-0.9
Condit. Reinf. active responses	1.6	2.2	2.2	1.5	-1.4
Condit. Reinf. inactive responses	0.0	0.0	0.0	0.1	-0.2
Condit. Reinf. lever presses	0.4	0.5	0.6	-0.8	0.7
Condit. Reinf. lever reinforcers received	0.9	1.2	1.3	1.1	-1.1
Conditioned reinforcement - actives	0.1	0.1	0.1	-0.3	0.3
Conditioned reinforcement - inactives	0.0	0.0	0.0	-0.2	0.1
Conditioned locomotion	0.5	0.6	0.7	-0.8	0.8
Patch foraging indifference point 0 sec	0.4	0.6	0.7	0.7	-0.9
Patch foraging indifference point AUC	0.2	0.3	0.3	0.6	-0.5
Delay disc. indifference point, 0s delay	0.3	0.3	0.3	-0.5	0.6
Delay disc. indifference point, 16s delay	0.3	0.3	0.4	-0.6	0.6
Delay disc. indifference point, 2s delay	0.1	0.1	0.2	-0.4	0.3
Delay disc. indifference point, 24s delay	0.3	0.3	0.3	-0.6	0.4
Delay disc. indifference point, 4s delay	0.2	0.2	0.2	-0.4	0.4
Delay disc. indifference point, 8s delay	0.0	0.0	0.0	0.1	-0.2
Indifference point function ln k	0.1	0.2	0.2	0.5	-0.5
Indifference point function log k	0.1	0.2	0.2	0.5	-0.5
Patch foraging total patch changes 0 sec	0.5	0.8	0.9	0.8	-1.0
Patch foraging total patch changes 12 sec	0.0	0.0	0.0	0.2	-0.2
Patch foraging total patch changes 18 sec	0.3	0.4	0.4	0.6	-0.6
Patch foraging total patch changes 24 sec	0.5	0.6	0.6	0.8	-0.7
Patch foraging total patch changes 6 sec	0.7	1.0	1.0	1.0	-1.0
Patch foraging time to switch 0 sec	2.0	3.0	3.1	-1.8	1.7
Patch foraging water rate 0 sec	3.1	4.9	5.3	2.3	-2.1
Patch foraging water rate 12 sec	4.9	7.5	7.7	2.8	-2.7
Patch foraging water rate 18 sec	0.6	0.8	0.9	0.9	-0.9
Patch foraging water rate 24 sec	0.4	0.5	0.6	0.7	-0.7
Patch foraging water rate 6 sec	1.6	2.3	2.4	1.5	-1.5
Seeking ratio, delayed vs. immediate footshock	0.7	0.8	0.8	0.9	-0.9
Distance traveled before self-admin	0.3	0.3	0.4	-0.5	0.6
Distance traveled after self-admin	0.9	1.0	1.1	1.0	-1.0
Extensor digitorum longus weight	7.6	30.0	30.7	5.5	-5.4
Bone: elastic displacement	0.3	0.3	0.4	0.7	-0.5
Bone: elastic work	0.0	0.0	0.1	0.2	-0.0
Bone: endosteal estimation	2.2	4.8	5.0	2.1	-2.2
Bone: endosteal perimeter	3.5	7.2	7.5	2.6	-2.7
Epididymis fat weight	0.0	0.1	0.1	0.3	-0.1
Delta time in closed arm before/after self-admin	0.1	0.1	0.2	-0.3	0.4
Delta time in open arm before/after self-admin	0.5	0.5	0.6	-0.7	0.7
Diff in mean of infusions in LGA sessions	0.9	1.0	1.1	0.9	-1.1
Delay discount exponential model param	0.0	0.0	0.0	0.1	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	0.2	0.1	0.1	-0.4	0.4
Bone: final force	0.5	0.9	0.9	1.0	-0.9
Bone: final moment	0.2	0.3	0.3	0.5	-0.5
Food consumed during 24 hour testing period	0.6	0.7	0.8	0.9	-0.8
Glucose	0.8	1.2	1.3	1.1	-1.1
Heart weight	0.2	0.2	0.2	0.5	-0.5
Delay discount hyperbolic model param	0.0	0.0	0.0	0.2	-0.1
Intermittent access intake day 1-15 change	1.4	1.3	1.5	-1.1	1.2
Intermittent access intake escalation	1.9	1.9	2.0	-1.3	1.4
Intermittent access intake escalation 2	0.1	0.1	0.1	-0.3	0.4
Intermitt. access day 1 inactive lever presses	1.6	1.7	1.7	-1.3	1.3
Intermitt. access day 15 inactive lever presses	0.5	0.5	0.5	-0.7	0.7
Intermitt. access escalation Index	1.1	1.0	1.0	1.0	-1.0
Intermittent access day 1 total infusions	0.5	0.6	0.7	-0.8	0.8
Intermittent access day 15 total infusions	2.3	2.6	2.6	-1.6	1.6
Intermittent access terminal intake (last 3 days)	1.0	1.1	1.3	-1.0	1.1
Intermittent access total infusions	0.6	0.6	0.6	-0.8	0.8
Intermittent access day 1 locomotion	2.5	2.6	2.7	-1.7	1.6
Intermittent access day 15 total locomotion	2.2	2.3	2.4	-1.5	1.6
Intermittent access total locomotion	0.2	0.2	0.2	-0.4	0.5
Intermittent access standard deviation	2.2	2.4	2.4	-1.5	1.6
Left kidney weight	2.0	5.6	5.9	2.4	-2.3
Right kidney weight	2.6	7.3	7.9	2.6	-2.8
Cocaine induced anxiety	0.1	0.1	0.1	-0.4	0.4
Post-drug Anxiety	1.6	1.7	1.7	-1.3	1.3
Baseline Anxiety	0.3	0.3	0.3	-0.5	0.5
Tail length	0.2	0.6	0.8	0.9	-0.6
Length with tail	1.1	4.2	4.7	1.9	-2.2
Length without tail	2.1	4.6	5.8	1.8	-2.4
Times rat made contact with spout	0.6	0.6	0.8	-0.7	0.9
Lifetime Intake	0.6	0.7	0.7	-0.8	0.8
Liver weight, left	1.1	1.8	1.9	1.4	-1.3
Liver weight, right	2.8	4.6	4.9	2.1	-2.2
Locomotor activity	5.6	8.9	9.2	3.0	-2.9
Locomotor testing distance	2.9	4.8	5.1	2.3	-2.1
Locomotor testing rearing	1.6	2.5	2.6	1.6	-1.6
Locomotion in novel chamber	0.8	1.0	1.2	-1.1	0.9
Locomotion in novel chamber post-restriction	0.5	0.6	0.7	-0.8	0.7
Fecal boli incidents, locomotor time 1	0.1	0.1	0.1	-0.3	-0.1
Change in fecal boli incidents, locomotor task	0.2	0.2	0.3	0.5	-0.3
Time >=10cm from walls, locomotor time 1	0.1	0.2	0.2	0.4	-0.4
Bouts of movement, locomotor time 1	0.1	0.1	0.2	0.4	-0.3
Total resting periods, locomotor time 1	0.1	0.1	0.1	0.4	-0.3
Rest time, locomotor task time 1	0.0	0.0	0.0	0.1	0.1
Distance moved, locomotor task time 1	0.1	0.1	0.1	-0.2	0.3
Vertical activity count, locomotor time 1	0.2	0.2	0.3	-0.5	0.5
Time >=10cm from walls, locomotor time 2	0.1	0.1	0.1	0.2	-0.3
Bouts of movement, locomotor time 2	1.3	1.4	1.6	1.3	-1.1
Total resting periods, locomotor time 2	1.5	1.5	1.8	1.3	-1.1
Rest time, locomotor task time 2	0.2	0.2	0.2	-0.5	0.4
Distance moved, locomotor task time 2	0.0	0.0	0.0	0.0	-0.0
Vertical activity count, locomotor time 2	0.7	0.8	0.9	-0.9	0.9
Light reinforcement 1	3.1	5.7	5.7	2.4	-2.4
Light reinforcement 2	0.1	0.1	0.1	-0.3	0.3
Bone: marrow area	2.2	4.9	5.1	2.2	-2.3
Bone: maximum diameter	2.2	4.1	4.2	2.0	-2.0
Bone: maximum force	0.6	1.0	1.1	1.0	-0.9
Bone: maximum moment	0.2	0.3	0.4	0.6	-0.5
Mean time between licks in bursts	0.3	0.5	0.5	-0.7	0.7
Mean num. licks in bursts	0.7	0.9	0.9	0.9	-1.0
Cd content in liver	0.1	0.1	0.2	-0.3	0.4
Co content in liver	0.0	0.0	0.0	-0.2	0.1
Cu content in liver	0.4	0.5	0.6	0.8	-0.7
Fe content in liver	0.4	0.5	0.6	-0.6	0.8
K content in liver	2.4	2.4	2.6	1.6	-1.5
Mg content in liver	4.0	4.1	4.2	2.0	-2.0
Mn content in liver	0.0	0.0	0.0	0.0	0.0
Na content in liver	3.1	3.3	3.5	1.9	-1.8
Rb content in liver	1.5	1.8	2.1	1.4	-1.3
Se content in liver	0.3	0.4	0.5	-0.6	0.7
Sr content in liver	0.0	0.0	0.0	-0.1	0.1
Zn content in liver	0.3	0.3	0.3	-0.6	0.5
Bone: minimum diameter	0.0	0.0	0.0	-0.2	0.0
Time in familiar zone, hab. session 1	0.0	0.0	0.0	0.1	0.1
Time in novel zone, hab. session 1	0.1	0.1	0.1	-0.3	0.1
Total zone transitions, hab. session 1	0.3	0.4	0.5	-0.6	0.7
Total locomotion distance, hab. session 1	0.0	0.0	0.0	-0.2	0.1
Locomotion velocity, hab. session 1	0.0	0.0	0.0	0.1	-0.1
Time in familiar zone, hab. session 2	0.0	0.0	0.1	-0.2	0.1
Time in novel zone, hab. session 2	0.0	0.0	0.1	-0.2	0.2
Total zone transitions, hab. session 2	0.4	0.5	0.6	0.7	-0.7
Total locomotion distance, hab. session 2	0.9	1.2	1.4	1.0	-1.2
Locomotion velocity, hab. session 2	0.5	0.7	0.7	0.8	-0.9
Novel to familiar place preference ratio	0.9	0.9	0.9	0.9	-1.0
Novelty place preference	1.0	1.0	1.0	1.0	-1.0
Time in novel zone, NPP test	1.2	1.2	1.2	1.1	-1.1
Total zone transitions, NPP test	0.4	0.6	0.6	0.8	-0.7
Total locomotion distance, NPP test	0.8	1.1	1.1	1.0	-1.1
Locomotion velocity, NPP test	0.3	0.5	0.5	0.7	-0.7
Intraocular pressure	0.0	0.0	0.0	0.1	-0.0
Delta distance traveled before/after self-admin	2.1	2.2	2.5	1.4	-1.6
Delta ambulatory time before/after self-admin	1.0	1.1	1.3	1.0	-1.1
Parametrial fat weight	0.1	0.1	0.1	0.3	-0.3
Pavlov. Cond. lever latency	0.1	0.1	0.1	-0.4	0.4
Pavlov. Cond. magazine entry latency	0.5	0.6	0.7	-0.8	0.7
Pavlov. Cond. change in total contacts	0.0	0.0	0.0	0.0	0.0
Pavlov. Cond. index score	0.4	0.5	0.5	-0.7	0.7
Pavlov. Cond. latency score	0.1	0.1	0.1	-0.4	0.3
Pavlov. Cond. lever contacts	0.0	0.0	0.0	0.0	0.0
Pavlov. Cond. magazine entry number	0.9	1.1	1.2	1.1	-1.0
Pavlov. Cond. intertrial magazine entries	0.2	0.2	0.3	0.5	-0.4
Pavlov. Cond. lever-magazine prob. diff.	0.2	0.3	0.3	-0.5	0.5
Pavlov. Cond. response bias	0.3	0.3	0.4	-0.6	0.6
Pavlov. Cond. lever latency	0.3	0.5	0.5	0.6	-0.7
Pavlov. Cond. magazine entry latency	2.9	3.3	3.4	-1.8	1.8
Pavlov. Cond. change in total contacts	0.3	0.4	0.4	-0.6	0.6
Pavlov. Cond. index score	0.7	0.8	0.9	-0.9	0.9
Pavlov. Cond. latency score	0.4	0.5	0.5	-0.7	0.7
Pavlov. Cond. lever contacts	0.1	0.1	0.1	-0.3	0.3
Pavlov. Cond. magazine entry number	2.5	3.1	3.1	1.8	-1.7
Pavlov. Cond. intertrial magazine entries	0.6	0.8	0.8	0.9	-0.9
Pavlov. Cond. lever-magazine prob. diff.	0.8	1.0	1.0	-1.0	1.0
Pavlov. Cond. response bias	0.8	1.1	1.1	-1.0	1.1
Time in closed arm before self-admin	0.2	0.2	0.2	-0.5	0.3
Time in closed arm after self-admin	0.2	0.2	0.2	-0.5	0.4
Time in open arm before self-admin	0.6	0.7	0.7	0.8	-0.8
Time in open arm after self-admin	0.0	0.0	0.0	0.2	-0.1
Bone: periosteal estimation	1.4	2.9	3.0	1.7	-1.7
Bone: periosteal perimeter	2.1	3.6	3.7	1.8	-1.9
Bone: post-yield work	0.1	0.1	0.1	0.4	-0.3
Progressive ratio test 1 active lever presses	0.1	0.1	0.1	0.2	-0.3
Progressive ratio test 1 breakpoint	0.0	0.0	0.0	-0.1	0.1
Progressive ratio test 1 inactive lever presses	0.8	0.8	0.9	-0.9	0.9
Progressive ratio test 2 active lever presses	0.0	0.0	0.0	0.2	-0.2
Progressive ratio test 2 breakpoint	0.2	0.2	0.2	0.5	-0.4
Progressive ratio test 2 inactive lever presses	0.8	1.0	1.0	-1.0	1.0
Incentive Sensitization - Responses	0.2	0.2	0.2	0.4	-0.4
Incentive Sensitization - Breakpoint	0.0	0.0	0.1	0.2	-0.2
Sum of active levers in priming session hrs 5-6	0.0	0.0	0.1	0.1	-0.2
Progressive ratio	1.4	1.6	1.8	-1.1	1.4
Food seeking constrained by brief footshock	0.7	0.8	1.0	1.0	-0.8
Seeking ratio, punishment vs. effort	5.0	6.2	6.3	2.5	-2.5
Retroperitoneal fat weight	0.1	0.3	0.3	0.6	-0.4
Reaction time number correct	1.8	2.5	2.8	1.7	-1.5
Reaction time mean minus median	0.1	0.1	0.1	-0.3	0.3
Reaction time mean minus median AUC	0.4	0.5	0.6	-0.8	0.6
Reaction time num false alarms	0.5	0.6	0.7	-0.9	0.7
Reaction time num false alarms AUC	0.1	0.1	0.2	-0.4	0.2
Reaction time trials correct on left	1.8	2.5	2.8	1.7	-1.5
Reaction time trials on left	1.9	2.8	3.0	1.7	-1.6
Reaction time mean	2.0	2.8	2.9	-1.6	1.7
Reaction time mean AUC	1.4	1.9	2.0	-1.4	1.4
Median of all reaction times	3.1	4.3	4.5	-2.0	2.1
Reaction time omissions	0.3	0.4	0.5	0.7	-0.5
Reaction time false alarm rate	1.2	1.7	1.9	-1.4	1.2
Reaction time premature initiation rate	1.8	2.4	2.5	1.6	-1.5
Reaction time premature initiations	3.2	4.5	4.7	2.2	-2.1
Std. dev. reaction times	0.7	0.9	1.0	-0.9	1.0
Reaction time trials completed	1.9	2.8	3.0	1.7	-1.6
Reaction time trials AUC	1.5	2.2	2.5	1.6	-1.4
Run reversals in cocaine runway, females	0.1	0.1	0.1	0.3	-0.2
Run reversals in cocaine runway, males	0.1	0.1	0.1	0.3	-0.2
Latency to leave start box in cocaine runway	1.4	1.5	1.7	1.2	-1.3
Latency to leave start box in cocaine runway, F	0.1	0.1	0.1	0.3	-0.3
Latency to leave start box in cocaine runway, M	2.9	2.8	3.3	1.5	-1.8
Std. dev. time between licks in bursts	0.5	0.6	0.7	0.8	-0.8
Total sessions with >9 infusions	0.0	0.0	0.0	-0.1	0.1
Short access day 1 total inactive lever presses	0.0	0.0	0.1	-0.2	0.2
Short access day 10 total inactive lever presses	1.1	1.3	1.3	-1.1	1.1
Short access day 1 total infusions	0.4	0.5	0.6	-0.6	0.7
Short access day 10 total infusions	0.4	0.4	0.4	-0.6	0.6
Short access total infusions	0.7	0.8	0.9	-0.9	0.9
Short access day 1 locomotion	0.1	0.1	0.1	-0.1	0.3
Short access day 10 total locomotion	0.0	0.0	0.0	0.1	-0.1
Short access total locomotion	0.9	0.9	1.0	-0.9	1.0
One hour access (0.3 mA shock)	0.0	0.0	0.0	0.1	-0.1
Compulsive drug intake	0.7	0.7	0.7	0.8	-0.8
One hour access (shock baseline)	0.7	0.8	0.9	-0.9	0.9
Social response proportion	0.4	0.4	0.5	-0.6	0.7
Social responses	0.1	0.1	0.2	0.3	-0.4
Social time	0.0	0.0	0.1	-0.3	-0.0
Soleus weight	16.7	49.0	49.7	7.1	-6.9
Bone: stiffness	1.2	1.9	2.0	1.3	-1.4
Tibialis anterior weight	12.4	42.5	43.1	6.5	-6.6
Time to tail flick, vehicle, before self-admin	0.0	0.0	0.0	0.1	-0.0
Time to tail flick, vehicle, after self-admin	0.3	0.3	0.3	-0.6	0.5
Time to tail flick, test, before self-admin	0.8	0.8	0.9	-0.9	0.9
Time to tail flick, test, after self-admin	3.8	3.9	4.4	-1.9	2.1
Delta time to tail flick, vehicle, before/after SA	0.5	0.5	0.5	-0.7	0.7
Delta time to tail flick, test, before/after SA	0.1	0.1	0.2	-0.3	0.4
Tibia length	0.1	0.2	0.2	-0.4	0.5
Ambulatory time before self-admin	0.4	0.5	0.5	-0.6	0.7
Ambulatory time after self-admin	0.5	0.6	0.6	0.7	-0.8
Bone: tissue strength	1.9	1.8	1.8	-1.4	1.3
Total heroin consumption	1.4	1.6	1.6	1.3	-1.3
Bone: trabecular number	1.3	2.1	2.4	-1.4	1.5
Bone: trabecular spacing	0.0	0.0	0.0	0.1	-0.1
Bone: trabecular thickness	0.2	0.3	0.3	-0.4	0.6
Bone: trabecular tissue density	5.8	8.2	8.5	2.9	-2.8
Water consumed over 24 hours	0.5	0.6	0.6	-0.8	0.8
Number of responses in last shaping day	0.1	0.1	0.1	-0.2	0.3