Hub : Genes

Lmnb2

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	Lmnb2	0.06	0.04	3.0e-04	0.06	0.06	0.05	0.05	4.5e-04	3.1e-04	8.5e-04	9.5e-04
2	PL	gene expression	Lmnb2	0.05	0.04	8.0e-08	0.07	0.07	0.06	0.07	3.4e-08	6.9e-08	2.6e-07	7.5e-08

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	0.2	0.4	0.6	0.4	-0.8
Area under the delay curve	2.6	2.7	2.7	1.7	-1.6
BMI with tail	6.5	20.9	21.7	4.7	-4.5
BMI without tail	1.9	4.0	4.5	2.1	-1.9
Body weight	1.1	4.6	4.9	2.2	-2.1
Weight adjusted by age	0.1	0.2	0.2	0.5	-0.3
Bone surface	0.1	0.1	0.2	-0.0	-0.5
Bone volume	0.1	0.1	0.2	-0.1	-0.5
Breakpoint value in progressive ratio session	6.1	6.8	6.9	-2.6	2.6
Number of licking bursts	0.0	0.0	0.0	-0.0	0.1
Context. condit. distance diff. score	0.3	0.3	0.3	0.6	-0.6
Locomotion velocity, session 1	0.3	0.3	0.4	-0.6	0.5
Locomotion distance, session 1	0.0	0.0	0.0	-0.1	-0.1
Locomotion velocity, session 2	2.5	2.9	3.2	-1.8	1.6
Locomotion distance, session 2	0.9	1.2	1.4	-1.2	1.0
Locomotion velocity, session 3	6.5	7.6	7.6	-2.8	2.8
Locomotion distance, session 3	0.0	0.0	0.0	-0.0	-0.0
Stereotopy head waving bouts, day 3	4.6	5.4	5.5	-2.3	2.3
Stereotopy head waving duration, day 3	5.8	6.9	7.0	-2.6	2.6
Locomotion velocity, session 7	0.6	0.7	0.7	-0.9	0.8
Locomotion distance, session 7	0.0	0.0	0.0	0.2	-0.1
Stereotopy head waving bouts, day 7	0.0	0.0	0.1	0.1	-0.2
Stereotopy head waving duration, day 7	0.0	0.0	0.1	-0.3	0.1
Locomotion velocity, session 8	0.2	0.2	0.2	-0.5	0.4
Locomotion distance, session 8	0.0	0.1	0.1	-0.3	0.2
Degree of sensitization distance	0.4	0.4	0.4	0.6	-0.6
Degree of sensitization stereotypy	2.4	2.6	2.9	1.5	-1.7
Conditioned locomotion	0.9	1.1	1.4	1.2	-0.9
Cocaine response after cond. corrected	3.9	4.4	5.1	2.3	-1.9
Cocaine response after cond. not corrected	4.1	4.5	5.3	2.3	-1.9
Cocaine response before conditioning	0.4	0.5	0.5	-0.7	0.7
Saline control response	0.0	0.0	0.0	0.2	-0.1
Bone: connectivity density	0.6	0.9	1.2	0.8	-1.1
Bone: cortical apparent density	0.8	1.1	1.1	1.0	-1.1
Bone: cortical area	0.8	1.2	1.3	1.0	-1.2
Bone: cortical porosity	0.4	0.4	0.5	-0.7	0.6
Bone: cortical porosity	0.0	0.0	0.0	0.0	-0.2
Bone: cortical thickness	1.3	2.2	2.3	1.4	-1.5
Bone: cortical thickness	0.0	0.1	0.1	-0.2	0.3
Bone: cortical tissue density	0.6	0.7	0.8	0.8	-0.9
Condit. Reinf. active minus inactive responses	4.1	4.6	4.9	-2.2	2.1
Condit. Reinf. active-inactive response ratio	2.4	2.6	2.7	-1.6	1.6
Condit. Reinf. active responses	3.1	3.8	4.1	-2.0	1.8
Condit. Reinf. inactive responses	0.4	0.5	0.6	-0.8	0.6
Incentive salience index mean	1.8	2.1	2.4	-1.5	1.4
Condit. Reinf. lever presses	0.1	0.1	0.2	0.1	-0.4
Condit. Reinf. active minus inactive responses	2.8	3.4	3.5	-1.9	1.9
Condit. Reinf. active-inactive response ratio	0.3	0.3	0.4	-0.5	0.6
Condit. Reinf. active responses	2.4	3.4	3.4	-1.9	1.8
Condit. Reinf. inactive responses	1.1	1.3	1.4	-1.2	1.2
Condit. Reinf. lever presses	2.9	4.0	4.3	-1.9	2.1
Condit. Reinf. lever reinforcers received	1.9	2.7	2.8	-1.6	1.7
Conditioned reinforcement - actives	2.4	2.4	2.7	-1.6	1.4
Conditioned reinforcement - inactives	0.4	0.4	0.5	0.7	-0.6
Conditioned locomotion	7.6	9.2	10.0	-3.2	2.9
Patch foraging indifference point 0 sec	0.2	0.3	0.3	0.5	-0.5
Patch foraging indifference point AUC	1.0	1.2	1.3	-1.1	1.0
Delay disc. indifference point, 0s delay	8.8	9.6	10.1	3.0	-3.2
Delay disc. indifference point, 16s delay	0.1	0.1	0.2	0.4	-0.4
Delay disc. indifference point, 2s delay	6.8	7.5	7.7	2.7	-2.8
Delay disc. indifference point, 24s delay	0.6	0.6	0.6	0.8	-0.7
Delay disc. indifference point, 4s delay	1.4	1.5	1.5	1.2	-1.2
Delay disc. indifference point, 8s delay	1.1	1.1	1.1	1.1	-1.0
Indifference point function ln k	0.2	0.3	0.3	0.6	-0.5
Indifference point function log k	0.2	0.3	0.3	0.6	-0.5
Patch foraging total patch changes 0 sec	0.1	0.2	0.2	0.4	-0.4
Patch foraging total patch changes 12 sec	0.1	0.2	0.2	0.5	-0.4
Patch foraging total patch changes 18 sec	1.2	1.5	1.6	-1.3	1.2
Patch foraging total patch changes 24 sec	0.1	0.1	0.1	-0.3	0.3
Patch foraging total patch changes 6 sec	0.2	0.3	0.3	-0.6	0.5
Patch foraging time to switch 0 sec	1.8	2.7	2.8	1.7	-1.6
Patch foraging water rate 0 sec	0.1	0.1	0.1	-0.4	0.3
Patch foraging water rate 12 sec	0.5	0.7	0.9	1.0	-0.7
Patch foraging water rate 18 sec	0.4	0.6	0.8	-0.6	0.9
Patch foraging water rate 24 sec	0.0	0.0	0.0	0.2	-0.0
Patch foraging water rate 6 sec	0.6	0.9	1.1	-0.9	1.0
Seeking ratio, delayed vs. immediate footshock	4.3	4.9	5.4	-2.3	2.1
Distance traveled before self-admin	0.5	0.6	0.7	0.6	-0.9
Distance traveled after self-admin	0.6	0.7	0.8	-0.9	0.8
Extensor digitorum longus weight	4.4	17.4	17.7	4.2	-4.1
Bone: elastic displacement	0.2	0.3	0.3	-0.5	0.5
Bone: elastic work	0.2	0.3	0.3	0.6	-0.6
Bone: endosteal estimation	0.3	0.6	0.6	0.7	-0.8
Bone: endosteal perimeter	0.1	0.3	0.3	-0.5	0.5
Epididymis fat weight	0.2	0.6	0.6	-0.7	0.8
Delta time in closed arm before/after self-admin	0.2	0.2	0.3	0.5	-0.4
Delta time in open arm before/after self-admin	1.3	1.3	1.4	1.2	-1.1
Diff in mean of infusions in LGA sessions	1.9	2.1	2.1	-1.4	1.5
Delay discount exponential model param	2.3	2.4	2.4	-1.6	1.5
Extinction: sum of active levers before priming	1.6	1.5	1.6	-1.3	1.2
Active lever presses in extinction session 6	2.9	2.9	3.1	-1.8	1.6
Bone: final force	1.5	2.4	2.5	1.5	-1.6
Bone: final moment	1.2	1.9	2.0	1.4	-1.4
Food consumed during 24 hour testing period	0.6	0.8	1.0	0.8	-1.0
Glucose	1.3	2.0	2.0	1.4	-1.4
Heart weight	0.5	0.6	0.7	-0.8	0.8
Delay discount hyperbolic model param	3.3	3.4	3.5	-1.9	1.9
Intermittent access intake day 1-15 change	7.5	7.4	7.7	-2.8	2.7
Intermittent access intake escalation	7.8	7.7	7.8	-2.8	2.7
Intermittent access intake escalation 2	9.8	9.6	9.9	-3.1	3.1
Intermitt. access day 1 inactive lever presses	0.3	0.3	0.4	-0.7	0.5
Intermitt. access day 15 inactive lever presses	0.6	0.7	0.8	-0.8	0.9
Intermitt. access escalation Index	0.5	0.5	0.6	0.5	-0.8
Intermittent access day 1 total infusions	0.0	0.1	0.1	0.3	-0.2
Intermittent access day 15 total infusions	2.4	2.7	2.7	-1.6	1.7
Intermittent access terminal intake (last 3 days)	1.3	1.4	1.5	-1.2	1.2
Intermittent access total infusions	0.3	0.3	0.3	-0.5	0.5
Intermittent access day 1 locomotion	0.4	0.4	0.5	-0.6	0.7
Intermittent access day 15 total locomotion	4.0	4.3	4.4	-2.1	2.0
Intermittent access total locomotion	1.0	1.1	1.3	-1.1	1.0
Intermittent access standard deviation	3.5	3.8	3.8	-1.9	1.9
Left kidney weight	0.0	0.0	0.0	-0.2	0.1
Right kidney weight	1.4	4.0	4.1	-2.0	2.0
Cocaine induced anxiety	0.4	0.5	0.5	-0.7	0.7
Post-drug Anxiety	0.3	0.3	0.4	-0.4	0.7
Baseline Anxiety	0.2	0.2	0.4	-0.3	0.6
Tail length	3.5	10.6	10.8	-3.2	3.3
Length with tail	1.9	7.0	7.1	-2.7	2.6
Length without tail	0.0	0.0	0.0	-0.2	0.0
Times rat made contact with spout	0.1	0.1	0.1	0.4	-0.3
Lifetime Intake	0.1	0.1	0.1	-0.3	0.3
Liver weight, left	2.3	3.6	4.0	2.0	-1.8
Liver weight, right	1.9	3.1	3.2	1.8	-1.7
Locomotor activity	2.9	4.6	5.0	-2.2	2.0
Locomotor testing distance	1.8	3.1	3.3	-1.8	1.7
Locomotor testing rearing	0.1	0.1	0.2	-0.3	0.4
Locomotion in novel chamber	0.4	0.5	0.5	-0.7	0.6
Locomotion in novel chamber post-restriction	0.8	1.0	1.0	-1.0	1.0
Fecal boli incidents, locomotor time 1	1.4	1.6	1.7	1.3	-1.2
Change in fecal boli incidents, locomotor task	0.1	0.1	0.1	-0.4	0.3
Time >=10cm from walls, locomotor time 1	0.4	0.4	0.4	0.6	-0.7
Bouts of movement, locomotor time 1	0.2	0.2	0.2	-0.5	0.5
Total resting periods, locomotor time 1	0.3	0.3	0.3	-0.5	0.5
Rest time, locomotor task time 1	0.1	0.2	0.2	-0.4	0.3
Distance moved, locomotor task time 1	0.6	0.6	0.6	0.8	-0.8
Vertical activity count, locomotor time 1	0.0	0.0	0.1	0.2	-0.2
Time >=10cm from walls, locomotor time 2	1.0	1.0	1.1	1.0	-1.0
Bouts of movement, locomotor time 2	0.2	0.2	0.3	-0.5	0.3
Total resting periods, locomotor time 2	0.1	0.1	0.2	-0.5	0.3
Rest time, locomotor task time 2	0.5	0.5	0.5	-0.7	0.7
Distance moved, locomotor task time 2	0.6	0.7	0.7	0.9	-0.8
Vertical activity count, locomotor time 2	0.4	0.5	0.5	0.7	-0.7
Light reinforcement 1	5.8	10.5	10.9	-3.3	3.2
Light reinforcement 2	1.8	2.5	2.6	-1.6	1.5
Bone: marrow area	0.3	0.6	0.6	0.7	-0.8
Bone: maximum diameter	0.4	0.7	0.9	-0.9	0.8
Bone: maximum force	1.4	2.4	2.4	1.6	-1.5
Bone: maximum moment	1.1	2.0	2.0	1.4	-1.4
Mean time between licks in bursts	4.8	6.7	7.0	-2.6	2.6
Mean num. licks in bursts	0.1	0.1	0.1	0.3	-0.3
Cd content in liver	0.2	0.3	0.3	0.5	-0.5
Co content in liver	0.7	0.8	0.8	-0.9	0.9
Cu content in liver	0.2	0.2	0.3	0.4	-0.5
Fe content in liver	0.1	0.1	0.1	-0.2	0.3
K content in liver	0.1	0.1	0.1	0.1	-0.3
Mg content in liver	0.1	0.1	0.1	0.2	-0.3
Mn content in liver	0.3	0.4	0.5	-0.7	0.5
Na content in liver	1.4	1.5	1.6	1.1	-1.3
Rb content in liver	0.6	0.8	0.9	0.8	-1.0
Se content in liver	0.1	0.1	0.2	-0.4	0.3
Sr content in liver	0.0	0.0	0.0	-0.2	0.2
Zn content in liver	2.5	2.8	2.8	-1.7	1.7
Bone: minimum diameter	0.0	0.1	0.1	0.2	-0.3
Time in familiar zone, hab. session 1	2.9	2.7	3.1	-1.5	1.8
Time in novel zone, hab. session 1	1.5	1.5	1.8	1.1	-1.3
Total zone transitions, hab. session 1	0.5	0.7	0.8	-0.9	0.8
Total locomotion distance, hab. session 1	0.5	0.7	0.8	-0.9	0.8
Locomotion velocity, hab. session 1	0.9	1.3	1.4	-1.2	1.1
Time in familiar zone, hab. session 2	7.5	7.7	8.1	-2.7	2.8
Time in novel zone, hab. session 2	5.7	5.7	6.0	2.3	-2.4
Total zone transitions, hab. session 2	0.4	0.5	0.6	0.6	-0.7
Total locomotion distance, hab. session 2	0.6	0.7	0.7	-0.9	0.9
Locomotion velocity, hab. session 2	0.4	0.6	0.6	-0.8	0.7
Novel to familiar place preference ratio	5.2	5.3	5.7	2.2	-2.4
Novelty place preference	3.3	3.3	3.6	1.7	-1.9
Time in novel zone, NPP test	3.6	3.7	4.0	1.9	-2.0
Total zone transitions, NPP test	0.0	0.0	0.0	0.2	-0.2
Total locomotion distance, NPP test	0.1	0.1	0.1	0.3	-0.3
Locomotion velocity, NPP test	0.0	0.0	0.0	0.0	-0.0
Intraocular pressure	0.1	0.2	0.2	-0.3	0.5
Delta distance traveled before/after self-admin	1.8	2.0	2.1	-1.4	1.5
Delta ambulatory time before/after self-admin	1.8	1.9	2.0	-1.4	1.4
Parametrial fat weight	0.5	1.0	1.0	-1.0	1.0
Pavlov. Cond. lever latency	0.1	0.1	0.1	-0.2	0.3
Pavlov. Cond. magazine entry latency	3.1	4.0	4.1	-2.0	2.0
Pavlov. Cond. change in total contacts	0.0	0.0	0.0	-0.2	0.2
Pavlov. Cond. index score	0.3	0.3	0.4	-0.6	0.5
Pavlov. Cond. latency score	0.2	0.2	0.3	-0.5	0.4
Pavlov. Cond. lever contacts	0.0	0.0	0.0	0.0	-0.2
Pavlov. Cond. magazine entry number	0.7	0.8	0.8	0.9	-0.9
Pavlov. Cond. intertrial magazine entries	0.2	0.3	0.3	-0.5	0.5
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.7	0.8	-0.9	0.8
Pavlov. Cond. response bias	1.1	1.3	1.3	-1.2	1.1
Pavlov. Cond. lever latency	0.9	1.3	1.4	1.1	-1.2
Pavlov. Cond. magazine entry latency	0.5	0.5	0.5	-0.7	0.7
Pavlov. Cond. change in total contacts	0.9	1.3	1.3	-1.1	1.1
Pavlov. Cond. index score	1.1	1.4	1.5	-1.1	1.2
Pavlov. Cond. latency score	0.9	1.2	1.2	-1.0	1.1
Pavlov. Cond. lever contacts	1.0	1.3	1.5	-1.1	1.2
Pavlov. Cond. magazine entry number	0.8	0.9	0.9	1.0	-1.0
Pavlov. Cond. intertrial magazine entries	0.2	0.2	0.3	0.5	-0.4
Pavlov. Cond. lever-magazine prob. diff.	1.0	1.3	1.4	-1.1	1.2
Pavlov. Cond. response bias	2.2	3.0	3.2	-1.7	1.8
Time in closed arm before self-admin	1.1	1.3	1.4	1.1	-1.2
Time in closed arm after self-admin	0.0	0.0	0.0	-0.1	0.1
Time in open arm before self-admin	0.9	1.0	1.2	-1.1	0.9
Time in open arm after self-admin	0.7	0.8	0.9	0.9	-0.9
Bone: periosteal estimation	0.5	1.0	1.2	0.9	-1.1
Bone: periosteal perimeter	0.0	0.0	0.0	-0.1	-0.0
Bone: post-yield work	0.5	0.7	0.8	0.9	-0.8
Progressive ratio test 1 active lever presses	0.0	0.0	0.1	0.2	-0.2
Progressive ratio test 1 breakpoint	0.1	0.1	0.1	0.4	-0.3
Progressive ratio test 1 inactive lever presses	0.0	0.0	0.0	-0.1	0.0
Progressive ratio test 2 active lever presses	0.3	0.3	0.3	-0.5	0.5
Progressive ratio test 2 breakpoint	0.3	0.3	0.3	-0.6	0.5
Progressive ratio test 2 inactive lever presses	0.0	0.0	0.1	-0.2	0.2
Incentive Sensitization - Responses	0.3	0.3	0.3	-0.6	0.4
Incentive Sensitization - Breakpoint	0.3	0.3	0.4	-0.6	0.5
Sum of active levers in priming session hrs 5-6	0.0	0.0	0.0	-0.0	-0.0
Progressive ratio	0.1	0.1	0.2	0.4	-0.3
Food seeking constrained by brief footshock	0.1	0.1	0.1	-0.3	0.3
Seeking ratio, punishment vs. effort	0.1	0.1	0.1	-0.4	0.3
Retroperitoneal fat weight	0.3	0.9	1.0	1.0	-0.9
Reaction time number correct	0.3	0.5	0.5	0.7	-0.7
Reaction time mean minus median	0.8	1.1	1.2	-1.0	1.1
Reaction time mean minus median AUC	0.0	0.0	0.0	0.1	-0.1
Reaction time num false alarms	0.0	0.0	0.0	0.2	-0.2
Reaction time num false alarms AUC	0.0	0.1	0.1	0.2	-0.2
Reaction time trials correct on left	0.3	0.5	0.5	0.7	-0.7
Reaction time trials on left	0.3	0.5	0.5	0.7	-0.7
Reaction time mean	0.0	0.0	0.0	0.1	-0.0
Reaction time mean AUC	0.0	0.0	0.0	0.2	-0.1
Median of all reaction times	0.3	0.4	0.4	0.7	-0.6
Reaction time omissions	0.2	0.2	0.3	-0.6	0.4
Reaction time false alarm rate	0.0	0.0	0.0	0.1	-0.1
Reaction time premature initiation rate	1.5	1.9	2.2	-1.3	1.5
Reaction time premature initiations	0.9	1.3	1.5	-1.0	1.2
Std. dev. reaction times	0.2	0.3	0.3	-0.5	0.6
Reaction time trials completed	0.3	0.5	0.5	0.7	-0.7
Reaction time trials AUC	0.3	0.4	0.4	0.6	-0.6
Run reversals in cocaine runway, females	0.3	0.3	0.3	-0.6	0.5
Run reversals in cocaine runway, males	1.1	1.1	1.1	-1.1	1.0
Latency to leave start box in cocaine runway	0.6	0.7	0.8	-0.9	0.7
Latency to leave start box in cocaine runway, F	0.1	0.1	0.2	0.2	-0.4
Latency to leave start box in cocaine runway, M	3.7	3.5	3.6	-1.8	1.9
Std. dev. time between licks in bursts	0.6	0.8	0.8	-0.9	0.9
Total sessions with >9 infusions	0.0	0.0	0.1	0.1	-0.3
Short access day 1 total inactive lever presses	0.0	0.0	0.0	-0.2	0.1
Short access day 10 total inactive lever presses	0.0	0.1	0.1	-0.3	0.2
Short access day 1 total infusions	0.0	0.0	0.1	-0.3	0.2
Short access day 10 total infusions	0.0	0.0	0.0	-0.2	0.1
Short access total infusions	0.0	0.0	0.0	0.0	-0.1
Short access day 1 locomotion	0.8	0.9	1.0	-1.0	0.9
Short access day 10 total locomotion	4.2	4.7	5.4	-2.3	2.0
Short access total locomotion	0.8	0.9	1.1	-1.0	0.8
One hour access (0.3 mA shock)	0.2	0.2	0.2	0.4	-0.4
Compulsive drug intake	1.5	1.5	1.7	1.2	-1.3
One hour access (shock baseline)	0.1	0.2	0.2	-0.3	0.4
Social response proportion	0.5	0.5	0.6	-0.7	0.7
Social responses	6.7	8.6	8.8	-3.0	2.9
Social time	0.5	0.7	0.8	0.9	-0.7
Soleus weight	9.5	27.8	28.2	5.3	-5.2
Bone: stiffness	3.4	5.3	5.4	2.3	-2.3
Tibialis anterior weight	1.3	4.5	4.8	2.0	-2.2
Time to tail flick, vehicle, before self-admin	0.2	0.2	0.3	-0.5	0.3
Time to tail flick, vehicle, after self-admin	0.3	0.3	0.4	-0.4	0.6
Time to tail flick, test, before self-admin	0.1	0.1	0.1	-0.3	0.2
Time to tail flick, test, after self-admin	0.1	0.1	0.1	-0.4	0.3
Delta time to tail flick, vehicle, before/after SA	0.1	0.1	0.2	0.5	-0.1
Delta time to tail flick, test, before/after SA	0.2	0.2	0.2	-0.4	0.4
Tibia length	1.1	3.2	3.5	-1.7	1.9
Ambulatory time before self-admin	0.4	0.5	0.6	0.6	-0.8
Ambulatory time after self-admin	0.3	0.4	0.4	-0.7	0.5
Bone: tissue strength	1.8	1.8	1.8	1.3	-1.3
Total heroin consumption	2.0	2.3	2.5	-1.6	1.5
Bone: trabecular number	0.3	0.4	0.6	-0.8	0.5
Bone: trabecular spacing	0.1	0.1	0.1	0.4	-0.0
Bone: trabecular thickness	0.3	0.3	0.6	0.4	-0.7
Bone: trabecular tissue density	1.4	1.9	2.2	1.5	-1.3
Water consumed over 24 hours	0.8	1.0	1.1	0.9	-1.1
Number of responses in last shaping day	0.1	0.1	0.2	-0.4	0.3