Hub : Genes

Rp1l1

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	BLA	gene expression	Rp1l1	0.07	0.05	3.7e-03	0.03	0.04	0.03	0.04	1.5e-02	4.8e-03	1.5e-02	5.0e-03
2	NAcc	gene expression	Rp1l1	0.05	0.04	7.5e-03	0.01	0	0	0.01	3.7e-03	6.2e-02	4.6e-02	2.2e-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	0.1	0.1	0.2	0.5	-0.2
Area under the delay curve	1.1	1.6	3.0	-1.7	0.5
BMI with tail	0.4	1.5	2.0	-1.4	1.0
BMI without tail	0.0	0.0	0.0	-0.1	0.2
Body weight	1.5	6.4	7.3	-2.7	2.4
Weight adjusted by age	1.4	4.1	4.3	-1.9	2.1
Bone surface	0.0	0.1	0.1	0.3	-0.1
Bone volume	0.1	0.1	0.1	0.3	-0.4
Breakpoint value in progressive ratio session	0.1	0.1	0.3	-0.5	-0.0
Number of licking bursts	0.0	0.0	0.0	-0.1	-0.1
Context. condit. distance diff. score	3.9	4.7	5.8	1.9	-2.4
Locomotion velocity, session 1	0.1	0.1	0.1	-0.4	0.1
Locomotion distance, session 1	0.0	0.0	0.0	-0.1	0.0
Locomotion velocity, session 2	0.1	0.1	0.2	-0.3	-0.4
Locomotion distance, session 2	0.0	0.0	0.0	0.0	0.1
Locomotion velocity, session 3	1.4	1.7	1.8	-1.2	1.3
Locomotion distance, session 3	0.2	0.2	0.3	-0.5	0.3
Stereotopy head waving bouts, day 3	0.4	0.4	0.9	-0.0	0.9
Stereotopy head waving duration, day 3	1.1	1.4	2.0	-0.8	1.4
Locomotion velocity, session 7	3.6	3.9	4.9	1.7	-2.2
Locomotion distance, session 7	4.3	5.5	5.8	2.3	-2.4
Stereotopy head waving bouts, day 7	2.1	2.5	2.6	-1.6	1.5
Stereotopy head waving duration, day 7	3.8	4.7	4.7	-2.2	2.2
Locomotion velocity, session 8	0.2	0.2	0.4	0.0	-0.6
Locomotion distance, session 8	1.1	1.6	2.1	1.0	-1.4
Degree of sensitization distance	8.7	9.4	9.4	3.1	-3.0
Degree of sensitization stereotypy	1.1	1.2	1.8	-1.3	0.8
Conditioned locomotion	1.0	1.2	1.3	1.0	-1.1
Cocaine response after cond. corrected	1.0	1.4	1.9	1.0	-1.4
Cocaine response after cond. not corrected	0.6	0.9	1.2	0.7	-1.1
Cocaine response before conditioning	0.8	1.0	1.2	-0.9	1.1
Saline control response	0.3	0.4	0.8	-0.3	0.9
Bone: connectivity density	0.2	0.3	0.5	0.7	0.3
Bone: cortical apparent density	0.0	0.0	0.1	-0.2	0.2
Bone: cortical area	0.1	0.1	0.2	-0.5	-0.2
Bone: cortical porosity	1.1	1.2	1.8	-1.3	0.8
Bone: cortical porosity	1.3	1.4	1.9	-1.4	1.0
Bone: cortical thickness	0.2	0.3	0.6	-0.8	-0.1
Bone: cortical thickness	1.3	1.6	3.1	0.4	-1.8
Bone: cortical tissue density	0.0	0.0	0.0	-0.2	0.1
Condit. Reinf. active minus inactive responses	0.5	0.5	0.6	-0.8	0.7
Condit. Reinf. active-inactive response ratio	0.0	0.0	0.1	-0.0	0.3
Condit. Reinf. active responses	0.5	0.6	0.8	-0.9	0.6
Condit. Reinf. inactive responses	0.3	0.3	0.5	-0.7	0.5
Incentive salience index mean	1.7	2.2	3.0	-1.7	1.2
Condit. Reinf. lever presses	1.9	2.8	4.1	-2.0	1.3
Condit. Reinf. active minus inactive responses	0.6	0.9	1.0	0.9	-1.0
Condit. Reinf. active-inactive response ratio	0.1	0.2	0.2	0.4	-0.5
Condit. Reinf. active responses	0.7	1.0	1.1	1.0	-1.1
Condit. Reinf. inactive responses	1.0	1.5	1.5	1.2	-1.2
Condit. Reinf. lever presses	0.3	0.4	0.6	-0.5	0.7
Condit. Reinf. lever reinforcers received	0.4	0.5	0.6	0.6	-0.8
Conditioned reinforcement - actives	1.1	4.3	5.8	2.4	-1.7
Conditioned reinforcement - inactives	0.1	0.4	0.8	0.9	0.2
Conditioned locomotion	3.1	4.6	5.1	2.0	-2.3
Patch foraging indifference point 0 sec	0.2	0.7	0.8	-0.8	0.9
Patch foraging indifference point AUC	0.9	2.0	2.5	1.3	-1.6
Delay disc. indifference point, 0s delay	0.0	0.0	0.0	-0.1	0.1
Delay disc. indifference point, 16s delay	0.3	0.5	0.9	-0.9	-0.2
Delay disc. indifference point, 2s delay	0.2	0.3	0.4	-0.6	0.3
Delay disc. indifference point, 24s delay	0.2	0.4	0.5	-0.7	-0.5
Delay disc. indifference point, 4s delay	2.7	2.9	4.0	-2.0	1.3
Delay disc. indifference point, 8s delay	1.1	1.9	3.4	-1.8	0.7
Indifference point function ln k	0.8	2.4	2.6	-1.6	1.5
Indifference point function log k	0.8	2.4	2.6	-1.6	1.5
Patch foraging total patch changes 0 sec	0.4	1.3	1.3	-1.1	1.1
Patch foraging total patch changes 12 sec	0.0	0.0	0.0	-0.1	-0.2
Patch foraging total patch changes 18 sec	0.5	1.2	1.4	1.0	-1.2
Patch foraging total patch changes 24 sec	0.0	0.0	0.0	-0.0	-0.0
Patch foraging total patch changes 6 sec	0.0	0.0	0.0	0.0	-0.1
Patch foraging time to switch 0 sec	0.0	0.2	0.2	0.4	-0.4
Patch foraging water rate 0 sec	0.3	1.3	1.7	-1.3	0.9
Patch foraging water rate 12 sec	0.2	0.6	0.9	-0.9	0.6
Patch foraging water rate 18 sec	1.5	3.3	4.3	-2.1	1.5
Patch foraging water rate 24 sec	0.1	0.1	0.3	-0.1	-0.5
Patch foraging water rate 6 sec	1.3	2.0	2.1	-1.4	1.3
Seeking ratio, delayed vs. immediate footshock	0.0	0.0	0.0	-0.2	-0.0
Distance traveled before self-admin	0.2	0.3	0.5	-0.4	0.7
Distance traveled after self-admin	0.3	0.4	0.6	-0.8	0.6
Extensor digitorum longus weight	5.2	20.6	27.3	-5.2	3.7
Bone: elastic displacement	0.1	0.1	0.2	0.5	-0.1
Bone: elastic work	0.5	0.6	0.7	-0.7	0.8
Bone: endosteal estimation	0.0	0.0	0.0	0.1	-0.0
Bone: endosteal perimeter	0.1	0.2	0.3	0.6	-0.2
Epididymis fat weight	0.0	0.1	0.2	0.2	-0.5
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	0.2	0.2	0.3	-0.2	0.6
Diff in mean of infusions in LGA sessions	2.2	3.9	4.6	-2.2	1.8
Delay discount exponential model param	1.6	2.1	3.8	1.9	-0.7
Extinction: sum of active levers before priming	0.0	0.0	0.1	-0.2	0.1
Active lever presses in extinction session 6	0.5	0.5	0.6	0.6	-0.8
Bone: final force	0.3	0.5	1.0	-1.0	0.2
Bone: final moment	0.5	0.8	1.3	-1.1	0.5
Food consumed during 24 hour testing period	0.2	0.4	0.6	-0.5	0.8
Glucose	0.2	0.3	0.5	0.2	-0.7
Heart weight	0.1	0.2	0.2	0.5	-0.4
Delay discount hyperbolic model param	1.5	1.9	3.3	1.8	-0.7
Intermittent access intake day 1-15 change	0.2	1.4	1.9	1.4	-0.9
Intermittent access intake escalation	0.1	0.6	0.9	0.9	-0.5
Intermittent access intake escalation 2	0.2	0.3	0.4	0.7	-0.4
Intermitt. access day 1 inactive lever presses	0.0	0.1	0.2	0.4	0.0
Intermitt. access day 15 inactive lever presses	0.3	1.5	2.4	-0.9	1.5
Intermitt. access escalation Index	0.0	0.1	0.2	0.4	-0.3
Intermittent access day 1 total infusions	0.3	0.9	1.0	1.0	-0.8
Intermittent access day 15 total infusions	1.0	2.5	3.3	1.8	-1.3
Intermittent access terminal intake (last 3 days)	1.5	2.7	3.5	1.9	-1.3
Intermittent access total infusions	3.1	3.6	4.3	2.1	-1.7
Intermittent access day 1 locomotion	0.0	0.1	0.1	-0.2	0.2
Intermittent access day 15 total locomotion	0.3	1.0	1.4	1.2	-0.8
Intermittent access total locomotion	0.2	0.2	0.4	0.6	-0.3
Intermittent access standard deviation	0.3	1.4	1.8	1.3	-1.0
Left kidney weight	0.8	6.7	7.3	-2.5	2.7
Right kidney weight	1.9	13.0	14.0	-3.5	3.7
Cocaine induced anxiety	0.5	1.4	1.8	-1.4	1.0
Post-drug Anxiety	2.4	2.7	2.9	-1.6	1.7
Baseline Anxiety	0.1	0.2	0.3	-0.1	0.6
Tail length	0.1	0.7	1.4	-0.3	1.2
Length with tail	0.8	3.7	4.4	-1.7	2.1
Length without tail	1.3	6.7	8.1	-2.8	2.3
Times rat made contact with spout	0.0	0.0	0.1	0.0	-0.3
Lifetime Intake	2.6	3.2	4.0	2.0	-1.6
Liver weight, left	2.4	4.1	4.6	-1.9	2.1
Liver weight, right	0.8	1.4	1.7	-1.3	1.0
Locomotor activity	4.6	7.2	7.6	-2.8	2.6
Locomotor testing distance	0.8	1.8	2.5	-1.1	1.6
Locomotor testing rearing	0.6	2.2	3.6	-0.9	1.9
Locomotion in novel chamber	0.4	0.6	0.7	-0.9	0.7
Locomotion in novel chamber post-restriction	0.2	0.6	1.2	0.2	-1.1
Fecal boli incidents, locomotor time 1	0.1	0.2	0.3	0.2	-0.6
Change in fecal boli incidents, locomotor task	0.2	0.2	0.3	-0.2	0.5
Time >=10cm from walls, locomotor time 1	0.6	0.7	1.1	-0.6	1.0
Bouts of movement, locomotor time 1	0.0	0.1	0.1	-0.0	-0.3
Total resting periods, locomotor time 1	0.5	0.6	1.0	0.5	-1.0
Rest time, locomotor task time 1	0.5	0.9	1.4	0.6	-1.2
Distance moved, locomotor task time 1	0.0	0.1	0.2	0.1	0.5
Vertical activity count, locomotor time 1	0.2	1.5	2.5	-0.8	1.6
Time >=10cm from walls, locomotor time 2	0.2	0.7	1.0	-0.6	1.0
Bouts of movement, locomotor time 2	0.2	0.5	1.0	-1.0	0.2
Total resting periods, locomotor time 2	0.2	0.7	1.4	-1.2	0.3
Rest time, locomotor task time 2	0.3	0.5	1.0	-0.1	-1.0
Distance moved, locomotor task time 2	0.2	0.2	0.4	0.1	0.6
Vertical activity count, locomotor time 2	0.2	0.4	0.7	-0.2	0.9
Light reinforcement 1	0.0	0.2	0.2	-0.5	0.5
Light reinforcement 2	0.1	0.3	0.3	0.6	-0.5
Bone: marrow area	0.0	0.0	0.1	0.3	-0.1
Bone: maximum diameter	0.1	0.2	0.3	0.1	-0.6
Bone: maximum force	0.3	0.6	1.1	-1.0	0.2
Bone: maximum moment	0.5	0.9	1.5	-1.2	0.5
Mean time between licks in bursts	0.2	1.0	1.9	1.4	-0.4
Mean num. licks in bursts	0.0	0.0	0.0	0.2	-0.2
Cd content in liver	2.4	2.7	3.6	-1.3	1.9
Co content in liver	0.2	0.3	0.5	-0.7	-0.1
Cu content in liver	0.6	0.7	1.0	-1.0	0.6
Fe content in liver	0.3	0.3	0.6	0.8	-0.2
K content in liver	0.3	0.3	0.4	0.6	-0.5
Mg content in liver	1.1	1.3	1.7	1.3	-0.9
Mn content in liver	1.0	1.2	1.4	1.2	-1.0
Na content in liver	6.2	7.0	8.1	-2.9	2.4
Rb content in liver	0.2	0.2	0.3	0.6	0.3
Se content in liver	0.2	0.2	0.4	-0.2	0.6
Sr content in liver	0.2	0.2	0.3	0.1	0.6
Zn content in liver	0.0	0.1	0.1	0.3	0.1
Bone: minimum diameter	0.0	0.1	0.1	-0.4	-0.2
Time in familiar zone, hab. session 1	1.2	1.3	1.8	0.9	-1.4
Time in novel zone, hab. session 1	1.1	1.2	1.3	-1.1	1.1
Total zone transitions, hab. session 1	0.0	0.1	0.1	-0.3	-0.1
Total locomotion distance, hab. session 1	0.1	0.1	0.2	0.3	-0.4
Locomotion velocity, hab. session 1	0.0	0.0	0.0	-0.1	-0.0
Time in familiar zone, hab. session 2	0.3	0.4	0.4	0.6	-0.6
Time in novel zone, hab. session 2	0.0	0.0	0.0	-0.2	0.0
Total zone transitions, hab. session 2	0.4	0.5	0.7	-0.9	0.5
Total locomotion distance, hab. session 2	0.0	0.1	0.1	-0.3	-0.1
Locomotion velocity, hab. session 2	0.1	0.2	0.3	-0.6	0.1
Novel to familiar place preference ratio	0.7	0.9	1.0	0.9	-1.0
Novelty place preference	0.5	0.7	0.8	0.8	-0.9
Time in novel zone, NPP test	0.3	0.4	0.4	0.6	-0.7
Total zone transitions, NPP test	0.0	0.0	0.0	-0.2	-0.1
Total locomotion distance, NPP test	0.5	0.7	1.0	1.0	-0.7
Locomotion velocity, NPP test	0.7	1.0	1.2	1.1	-0.9
Intraocular pressure	1.7	2.7	4.2	2.0	-1.1
Delta distance traveled before/after self-admin	0.1	0.2	0.3	-0.5	0.2
Delta ambulatory time before/after self-admin	0.0	0.0	0.0	-0.2	-0.2
Parametrial fat weight	2.2	5.3	5.3	2.3	-2.3
Pavlov. Cond. lever latency	1.0	1.2	1.9	1.4	-0.7
Pavlov. Cond. magazine entry latency	0.8	1.1	1.2	-1.1	1.0
Pavlov. Cond. change in total contacts	2.2	2.4	3.5	-1.9	1.1
Pavlov. Cond. index score	3.2	4.1	5.5	-2.4	1.6
Pavlov. Cond. latency score	2.3	3.0	4.1	-2.0	1.4
Pavlov. Cond. lever contacts	1.4	1.6	2.5	-1.6	0.9
Pavlov. Cond. magazine entry number	2.4	3.1	3.8	1.9	-1.5
Pavlov. Cond. intertrial magazine entries	0.1	0.1	0.1	-0.3	0.4
Pavlov. Cond. lever-magazine prob. diff.	3.6	4.4	6.0	-2.5	1.7
Pavlov. Cond. response bias	2.1	2.6	3.6	-1.9	1.3
Pavlov. Cond. lever latency	2.3	3.3	3.8	1.7	-1.9
Pavlov. Cond. magazine entry latency	1.3	1.8	2.3	-1.5	1.2
Pavlov. Cond. change in total contacts	2.3	5.5	5.8	-2.3	2.4
Pavlov. Cond. index score	2.7	4.3	4.3	-2.1	2.1
Pavlov. Cond. latency score	2.8	4.5	4.6	-2.1	2.2
Pavlov. Cond. lever contacts	2.2	3.3	3.8	-1.7	2.0
Pavlov. Cond. magazine entry number	0.4	0.5	0.7	0.8	-0.5
Pavlov. Cond. intertrial magazine entries	2.9	6.3	8.2	2.9	-2.1
Pavlov. Cond. lever-magazine prob. diff.	2.5	3.9	4.1	-2.0	1.9
Pavlov. Cond. response bias	2.4	3.4	3.4	-1.9	1.8
Time in closed arm before self-admin	1.6	2.7	3.0	-1.6	1.7
Time in closed arm after self-admin	0.5	0.5	0.8	-0.9	0.5
Time in open arm before self-admin	0.8	1.0	1.1	1.0	-1.0
Time in open arm after self-admin	0.1	0.1	0.2	0.1	0.4
Bone: periosteal estimation	0.0	0.0	0.0	-0.1	-0.2
Bone: periosteal perimeter	0.0	0.0	0.0	0.1	-0.2
Bone: post-yield work	3.0	5.1	7.8	1.6	-2.8
Progressive ratio test 1 active lever presses	0.8	1.4	1.6	1.3	-1.1
Progressive ratio test 1 breakpoint	0.7	1.1	1.3	1.1	-1.0
Progressive ratio test 1 inactive lever presses	0.1	0.2	0.4	0.7	0.1
Progressive ratio test 2 active lever presses	0.4	0.6	1.0	1.0	-0.4
Progressive ratio test 2 breakpoint	0.2	0.3	0.6	0.8	-0.2
Progressive ratio test 2 inactive lever presses	0.3	1.0	1.8	1.3	-0.4
Incentive Sensitization - Responses	0.1	0.3	0.5	0.1	0.7
Incentive Sensitization - Breakpoint	0.1	0.3	0.7	0.1	0.8
Sum of active levers in priming session hrs 5-6	0.2	0.2	0.3	0.3	-0.5
Progressive ratio	0.5	1.5	1.7	-1.1	1.3
Food seeking constrained by brief footshock	0.4	0.5	0.5	0.7	-0.7
Seeking ratio, punishment vs. effort	0.4	0.9	1.2	0.8	-1.1
Retroperitoneal fat weight	0.2	1.1	1.2	1.0	-1.1
Reaction time number correct	0.0	0.1	0.2	0.4	-0.1
Reaction time mean minus median	0.1	0.4	0.4	-0.7	0.6
Reaction time mean minus median AUC	0.1	0.3	0.4	-0.5	0.7
Reaction time num false alarms	1.1	1.8	2.0	-1.4	1.3
Reaction time num false alarms AUC	0.7	1.5	1.8	-1.3	1.1
Reaction time trials correct on left	0.0	0.1	0.2	0.4	-0.1
Reaction time trials on left	0.0	0.1	0.2	0.5	-0.1
Reaction time mean	0.1	0.2	0.3	-0.1	0.6
Reaction time mean AUC	0.2	0.6	0.9	-0.5	1.0
Median of all reaction times	0.1	0.2	0.3	-0.0	0.6
Reaction time omissions	0.9	1.4	2.2	1.5	-0.8
Reaction time false alarm rate	1.0	1.4	1.9	-1.4	0.9
Reaction time premature initiation rate	0.0	0.0	0.1	-0.3	-0.1
Reaction time premature initiations	0.0	0.1	0.1	0.2	-0.4
Std. dev. reaction times	0.0	0.0	0.0	0.1	-0.0
Reaction time trials completed	0.0	0.1	0.2	0.5	-0.1
Reaction time trials AUC	0.0	0.2	0.3	0.5	-0.1
Run reversals in cocaine runway, females	0.2	0.3	0.3	0.4	-0.6
Run reversals in cocaine runway, males	1.6	1.7	2.3	-1.5	1.1
Latency to leave start box in cocaine runway	0.8	1.1	1.8	1.3	-0.7
Latency to leave start box in cocaine runway, F	0.1	0.1	0.2	0.5	0.1
Latency to leave start box in cocaine runway, M	0.5	0.5	0.8	0.9	-0.4
Std. dev. time between licks in bursts	0.2	0.4	0.7	0.8	-0.1
Total sessions with >9 infusions	0.2	0.3	0.5	0.7	-0.2
Short access day 1 total inactive lever presses	0.1	0.3	0.3	0.5	-0.5
Short access day 10 total inactive lever presses	0.1	0.5	0.5	0.7	-0.7
Short access day 1 total infusions	1.5	2.9	3.8	1.9	-1.4
Short access day 10 total infusions	0.1	0.1	0.2	0.4	-0.3
Short access total infusions	0.7	0.9	1.2	1.1	-0.8
Short access day 1 locomotion	0.0	0.0	0.0	0.0	0.1
Short access day 10 total locomotion	0.1	0.5	0.6	-0.6	0.8
Short access total locomotion	0.2	0.4	0.5	-0.5	0.7
One hour access (0.3 mA shock)	1.9	2.3	2.3	1.5	-1.5
Compulsive drug intake	0.0	0.0	0.1	-0.3	0.1
One hour access (shock baseline)	0.9	2.5	2.9	1.7	-1.4
Social response proportion	2.5	3.1	3.4	1.8	-1.7
Social responses	3.4	4.4	4.5	2.1	-2.1
Social time	0.6	0.9	1.4	-0.6	1.2
Soleus weight	0.0	0.1	0.3	-0.5	0.0
Bone: stiffness	0.6	1.1	1.9	-1.4	0.6
Tibialis anterior weight	6.1	21.0	26.7	-5.2	3.9
Time to tail flick, vehicle, before self-admin	0.5	0.6	1.1	-1.0	0.5
Time to tail flick, vehicle, after self-admin	0.1	0.3	0.5	-0.7	0.3
Time to tail flick, test, before self-admin	0.0	0.0	0.0	-0.1	0.1
Time to tail flick, test, after self-admin	3.1	3.3	4.6	2.1	-1.4
Delta time to tail flick, vehicle, before/after SA	0.3	0.3	0.4	0.7	-0.5
Delta time to tail flick, test, before/after SA	1.4	1.8	2.6	1.6	-1.0
Tibia length	3.4	9.5	10.8	-2.9	3.3
Ambulatory time before self-admin	0.0	0.1	0.1	-0.2	0.3
Ambulatory time after self-admin	0.6	0.9	1.3	-1.1	0.8
Bone: tissue strength	0.1	0.1	0.1	0.3	0.2
Total heroin consumption	0.2	0.2	0.3	-0.5	0.3
Bone: trabecular number	0.1	0.2	0.3	0.6	-0.1
Bone: trabecular spacing	0.3	0.5	0.9	-0.9	0.2
Bone: trabecular thickness	0.3	0.4	0.6	-0.8	0.3
Bone: trabecular tissue density	1.6	2.8	3.6	-1.9	1.4
Water consumed over 24 hours	0.7	1.3	1.4	-1.2	1.0
Number of responses in last shaping day	0.0	0.0	0.0	-0.2	0.1