Hub : Genes

Actg1

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	Liver	isoform ratio	NM_001127449.1	0.33	0.13	0.0e+00	0.36	0.38	0.38	0.38	2.1e-42	1.9e-44	1.0e-43	9.9e-44
2	Liver	isoform ratio	XM_039085690.1	0.36	0.13	0.0e+00	0.4	0.42	0.41	0.41	2.7e-47	7.9e-50	1.4e-49	1.5e-49

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	0.0	0.0	0.0	-0.0	0.1
Area under the delay curve	1.2	1.3	1.3	-1.2	1.1
BMI with tail	0.0	0.0	0.0	0.0	0.0
BMI without tail	0.0	0.0	0.0	0.2	-0.1
Body weight	2.0	8.3	8.5	2.9	-2.9
Weight adjusted by age	2.0	2.2	2.3	1.5	-1.5
Bone surface	0.3	0.6	0.6	0.7	-0.7
Bone volume	0.1	0.2	0.2	0.4	-0.4
Breakpoint value in progressive ratio session	0.6	0.7	0.7	0.8	-0.8
Number of licking bursts	0.0	0.0	0.0	-0.0	0.0
Context. condit. distance diff. score	0.9	1.1	1.2	-1.0	1.1
Locomotion velocity, session 1	0.0	0.0	0.0	-0.2	0.1
Locomotion distance, session 1	3.7	4.7	4.7	-2.2	2.2
Locomotion velocity, session 2	1.5	1.7	1.8	-1.3	1.3
Locomotion distance, session 2	1.3	1.8	1.8	-1.3	1.3
Locomotion velocity, session 3	0.2	0.2	0.3	-0.5	0.5
Locomotion distance, session 3	1.8	1.9	2.0	-1.4	1.4
Stereotopy head waving bouts, day 3	0.0	0.0	0.0	-0.0	0.0
Stereotopy head waving duration, day 3	0.0	0.0	0.0	-0.2	0.2
Locomotion velocity, session 7	0.7	0.8	0.8	-0.9	0.9
Locomotion distance, session 7	5.7	7.3	7.3	-2.7	2.7
Stereotopy head waving bouts, day 7	0.0	0.0	0.0	0.2	-0.2
Stereotopy head waving duration, day 7	0.5	0.6	0.6	0.8	-0.8
Locomotion velocity, session 8	2.1	2.5	2.5	-1.6	1.6
Locomotion distance, session 8	3.0	4.5	4.6	-2.1	2.1
Degree of sensitization distance	0.1	0.1	0.1	-0.4	0.4
Degree of sensitization stereotypy	0.0	0.0	0.0	0.2	-0.2
Conditioned locomotion	0.6	0.7	0.7	0.8	-0.8
Cocaine response after cond. corrected	0.0	0.0	0.0	0.1	-0.1
Cocaine response after cond. not corrected	0.1	0.1	0.1	-0.3	0.3
Cocaine response before conditioning	0.7	0.8	0.8	-0.9	0.9
Saline control response	1.8	2.4	2.4	1.5	-1.5
Bone: connectivity density	0.2	0.4	0.4	-0.6	0.6
Bone: cortical apparent density	1.2	1.5	1.6	-1.3	1.2
Bone: cortical area	5.7	8.6	8.7	3.0	-2.9
Bone: cortical porosity	4.8	5.2	5.2	2.3	-2.3
Bone: cortical porosity	4.0	4.4	4.4	2.1	-2.1
Bone: cortical thickness	6.6	10.8	10.9	3.3	-3.3
Bone: cortical thickness	1.7	2.0	2.0	1.4	-1.4
Bone: cortical tissue density	1.3	1.8	1.8	-1.3	1.3
Condit. Reinf. active minus inactive responses	0.7	0.8	0.9	0.9	-0.9
Condit. Reinf. active-inactive response ratio	0.3	0.3	0.3	0.5	-0.5
Condit. Reinf. active responses	1.4	1.7	1.7	1.3	-1.3
Condit. Reinf. inactive responses	0.3	0.4	0.4	0.6	-0.6
Incentive salience index mean	0.6	0.7	0.7	0.8	-0.8
Condit. Reinf. lever presses	0.1	0.1	0.1	-0.4	0.4
Condit. Reinf. active minus inactive responses	0.3	0.3	0.3	0.6	-0.6
Condit. Reinf. active-inactive response ratio	2.4	2.5	2.5	1.6	-1.6
Condit. Reinf. active responses	0.0	0.1	0.1	-0.2	0.3
Condit. Reinf. inactive responses	1.3	1.6	1.7	-1.3	1.3
Condit. Reinf. lever presses	0.3	0.4	0.5	-0.6	0.7
Condit. Reinf. lever reinforcers received	0.2	0.3	0.4	-0.6	0.6
Conditioned reinforcement - actives	0.1	0.1	0.1	-0.2	0.2
Conditioned reinforcement - inactives	1.2	1.4	1.4	1.2	-1.2
Conditioned locomotion	0.1	0.1	0.1	0.3	-0.4
Patch foraging indifference point 0 sec	0.0	0.0	0.0	0.2	-0.2
Patch foraging indifference point AUC	0.1	0.1	0.1	-0.3	0.3
Delay disc. indifference point, 0s delay	0.0	0.0	0.0	-0.1	0.1
Delay disc. indifference point, 16s delay	4.2	4.2	4.2	-2.1	2.1
Delay disc. indifference point, 2s delay	0.1	0.1	0.1	-0.3	0.2
Delay disc. indifference point, 24s delay	1.5	1.5	1.5	-1.2	1.2
Delay disc. indifference point, 4s delay	0.1	0.1	0.1	-0.3	0.3
Delay disc. indifference point, 8s delay	0.1	0.1	0.1	-0.3	0.3
Indifference point function ln k	0.8	1.1	1.1	-1.0	1.0
Indifference point function log k	0.8	1.1	1.1	-1.0	1.0
Patch foraging total patch changes 0 sec	0.0	0.0	0.0	-0.0	0.1
Patch foraging total patch changes 12 sec	0.1	0.1	0.1	0.3	-0.3
Patch foraging total patch changes 18 sec	1.0	1.2	1.3	-1.1	1.1
Patch foraging total patch changes 24 sec	0.1	0.1	0.1	0.4	-0.3
Patch foraging total patch changes 6 sec	0.7	1.0	1.0	1.0	-1.0
Patch foraging time to switch 0 sec	0.1	0.1	0.1	-0.4	0.3
Patch foraging water rate 0 sec	0.2	0.3	0.3	0.6	-0.5
Patch foraging water rate 12 sec	0.5	0.7	0.8	-0.8	0.9
Patch foraging water rate 18 sec	0.1	0.2	0.2	-0.4	0.4
Patch foraging water rate 24 sec	0.3	0.4	0.5	-0.6	0.7
Patch foraging water rate 6 sec	0.1	0.2	0.2	-0.4	0.5
Seeking ratio, delayed vs. immediate footshock	0.8	0.9	0.9	0.9	-0.9
Distance traveled before self-admin	1.9	2.0	2.0	1.4	-1.4
Distance traveled after self-admin	0.0	0.0	0.0	-0.2	0.2
Extensor digitorum longus weight	0.5	2.1	2.1	-1.4	1.5
Bone: elastic displacement	1.8	2.0	2.0	1.4	-1.4
Bone: elastic work	10.5	13.5	13.6	3.7	-3.7
Bone: endosteal estimation	0.4	0.9	0.9	-0.9	0.9
Bone: endosteal perimeter	0.6	1.2	1.2	1.1	-1.1
Epididymis fat weight	0.1	0.2	0.2	0.5	-0.5
Delta time in closed arm before/after self-admin	0.0	0.0	0.0	0.1	-0.2
Delta time in open arm before/after self-admin	0.3	0.3	0.3	-0.6	0.6
Diff in mean of infusions in LGA sessions	0.0	0.0	0.0	-0.1	0.1
Delay discount exponential model param	1.2	1.3	1.3	1.1	-1.1
Extinction: sum of active levers before priming	0.3	0.3	0.3	-0.6	0.6
Active lever presses in extinction session 6	0.1	0.1	0.1	0.3	-0.3
Bone: final force	4.0	6.4	6.5	2.5	-2.5
Bone: final moment	5.0	8.1	8.3	2.9	-2.8
Food consumed during 24 hour testing period	0.1	0.1	0.1	0.4	-0.3
Glucose	0.0	0.1	0.1	0.2	-0.3
Heart weight	0.1	0.2	0.2	0.4	-0.4
Delay discount hyperbolic model param	1.2	1.2	1.3	1.1	-1.1
Intermittent access intake day 1-15 change	0.6	0.6	0.6	0.8	-0.8
Intermittent access intake escalation	0.3	0.3	0.3	0.6	-0.6
Intermittent access intake escalation 2	3.0	2.9	3.0	1.7	-1.7
Intermitt. access day 1 inactive lever presses	1.1	1.2	1.2	1.1	-1.1
Intermitt. access day 15 inactive lever presses	0.1	0.1	0.1	0.4	-0.3
Intermitt. access escalation Index	0.0	0.0	0.0	-0.0	0.0
Intermittent access day 1 total infusions	0.1	0.1	0.1	0.3	-0.3
Intermittent access day 15 total infusions	0.2	0.2	0.2	0.5	-0.4
Intermittent access terminal intake (last 3 days)	0.8	0.9	0.9	1.0	-1.0
Intermittent access total infusions	0.2	0.2	0.2	0.4	-0.4
Intermittent access day 1 locomotion	0.0	0.0	0.0	0.2	-0.2
Intermittent access day 15 total locomotion	0.7	0.8	0.8	0.9	-0.9
Intermittent access total locomotion	0.3	0.4	0.4	0.6	-0.6
Intermittent access standard deviation	0.4	0.4	0.4	0.6	-0.6
Left kidney weight	0.6	1.6	1.6	1.2	-1.3
Right kidney weight	0.1	0.3	0.4	0.6	-0.6
Cocaine induced anxiety	6.3	7.3	7.4	2.7	-2.7
Post-drug Anxiety	0.9	1.0	1.1	1.0	-1.0
Baseline Anxiety	6.6	7.0	7.1	-2.7	2.6
Tail length	1.6	4.9	5.0	2.2	-2.2
Length with tail	3.0	10.9	10.9	3.3	-3.3
Length without tail	1.8	3.9	4.1	2.0	-2.0
Times rat made contact with spout	2.9	3.4	3.4	1.8	-1.8
Lifetime Intake	0.1	0.1	0.1	0.2	-0.2
Liver weight, left	0.4	0.6	0.6	0.8	-0.8
Liver weight, right	2.5	4.2	4.3	2.1	-2.1
Locomotor activity	0.3	0.5	0.5	-0.7	0.7
Locomotor testing distance	0.9	1.4	1.5	-1.2	1.2
Locomotor testing rearing	0.7	1.1	1.1	-1.0	1.0
Locomotion in novel chamber	0.6	0.7	0.7	-0.9	0.8
Locomotion in novel chamber post-restriction	1.5	1.8	1.8	1.3	-1.3
Fecal boli incidents, locomotor time 1	0.6	0.6	0.6	-0.8	0.8
Change in fecal boli incidents, locomotor task	0.0	0.0	0.0	-0.0	0.0
Time >=10cm from walls, locomotor time 1	0.2	0.2	0.3	-0.5	0.5
Bouts of movement, locomotor time 1	0.9	1.0	1.0	-1.0	1.0
Total resting periods, locomotor time 1	0.6	0.7	0.7	-0.8	0.8
Rest time, locomotor task time 1	0.1	0.1	0.1	0.4	-0.4
Distance moved, locomotor task time 1	0.0	0.0	0.0	0.1	-0.1
Vertical activity count, locomotor time 1	0.0	0.0	0.0	-0.1	0.1
Time >=10cm from walls, locomotor time 2	0.0	0.0	0.0	0.2	-0.2
Bouts of movement, locomotor time 2	1.4	1.5	1.5	-1.2	1.2
Total resting periods, locomotor time 2	1.3	1.4	1.4	-1.2	1.2
Rest time, locomotor task time 2	0.0	0.0	0.0	0.0	-0.0
Distance moved, locomotor task time 2	0.0	0.0	0.0	0.1	-0.1
Vertical activity count, locomotor time 2	0.3	0.3	0.3	-0.6	0.6
Light reinforcement 1	0.0	0.0	0.0	-0.1	0.1
Light reinforcement 2	0.6	0.8	0.8	0.9	-0.9
Bone: marrow area	0.4	0.9	0.9	-0.9	1.0
Bone: maximum diameter	1.5	2.8	2.8	1.7	-1.7
Bone: maximum force	3.4	5.9	6.0	2.5	-2.4
Bone: maximum moment	4.4	7.5	7.6	2.8	-2.7
Mean time between licks in bursts	1.2	1.7	1.7	-1.3	1.3
Mean num. licks in bursts	0.7	0.8	0.8	0.9	-0.9
Cd content in liver	2.5	2.7	2.7	-1.7	1.7
Co content in liver	0.2	0.2	0.2	-0.5	0.5
Cu content in liver	1.9	2.4	2.4	1.5	-1.5
Fe content in liver	0.9	1.1	1.1	-1.1	1.0
K content in liver	0.4	0.4	0.4	0.7	-0.7
Mg content in liver	0.6	0.6	0.6	-0.8	0.8
Mn content in liver	0.5	0.5	0.5	0.7	-0.7
Na content in liver	0.1	0.1	0.1	0.3	-0.3
Rb content in liver	0.0	0.0	0.0	-0.1	0.1
Se content in liver	0.0	0.0	0.1	0.2	-0.2
Sr content in liver	1.1	1.0	1.0	1.0	-1.0
Zn content in liver	0.4	0.4	0.4	0.6	-0.6
Bone: minimum diameter	2.9	5.5	5.5	2.3	-2.3
Time in familiar zone, hab. session 1	0.0	0.0	0.0	0.1	-0.0
Time in novel zone, hab. session 1	0.0	0.0	0.0	-0.2	0.2
Total zone transitions, hab. session 1	0.9	1.2	1.2	-1.1	1.1
Total locomotion distance, hab. session 1	0.4	0.5	0.5	-0.7	0.7
Locomotion velocity, hab. session 1	0.3	0.4	0.5	-0.7	0.7
Time in familiar zone, hab. session 2	0.7	0.7	0.7	-0.9	0.9
Time in novel zone, hab. session 2	0.0	0.0	0.0	0.0	-0.1
Total zone transitions, hab. session 2	2.5	3.2	3.3	-1.8	1.8
Total locomotion distance, hab. session 2	0.9	1.2	1.3	-1.1	1.1
Locomotion velocity, hab. session 2	0.5	0.7	0.7	-0.8	0.9
Novel to familiar place preference ratio	3.5	3.6	3.7	1.9	-1.9
Novelty place preference	3.6	3.7	3.8	1.9	-1.9
Time in novel zone, NPP test	2.6	2.6	2.7	1.6	-1.6
Total zone transitions, NPP test	3.4	4.8	4.8	-2.2	2.2
Total locomotion distance, NPP test	2.3	3.2	3.2	-1.8	1.8
Locomotion velocity, NPP test	1.3	1.8	1.8	-1.3	1.4
Intraocular pressure	0.0	0.0	0.0	0.1	-0.1
Delta distance traveled before/after self-admin	1.9	2.1	2.1	-1.4	1.4
Delta ambulatory time before/after self-admin	2.6	2.9	2.9	-1.7	1.7
Parametrial fat weight	1.1	2.2	2.3	1.5	-1.5
Pavlov. Cond. lever latency	4.5	5.7	5.8	-2.4	2.4
Pavlov. Cond. magazine entry latency	4.7	6.0	6.0	2.5	-2.5
Pavlov. Cond. change in total contacts	1.8	2.0	2.0	1.4	-1.4
Pavlov. Cond. index score	5.6	7.0	7.1	2.6	-2.7
Pavlov. Cond. latency score	5.7	7.3	7.3	2.7	-2.7
Pavlov. Cond. lever contacts	2.5	2.9	2.9	1.7	-1.7
Pavlov. Cond. magazine entry number	5.5	6.9	6.9	-2.6	2.6
Pavlov. Cond. intertrial magazine entries	0.3	0.3	0.3	-0.5	0.6
Pavlov. Cond. lever-magazine prob. diff.	5.6	7.0	7.0	2.6	-2.6
Pavlov. Cond. response bias	5.2	6.3	6.4	2.5	-2.5
Pavlov. Cond. lever latency	0.3	0.4	0.4	0.6	-0.6
Pavlov. Cond. magazine entry latency	4.3	4.9	5.0	-2.2	2.2
Pavlov. Cond. change in total contacts	1.7	2.4	2.4	-1.5	1.6
Pavlov. Cond. index score	1.7	2.2	2.2	-1.5	1.5
Pavlov. Cond. latency score	1.7	2.1	2.2	-1.4	1.5
Pavlov. Cond. lever contacts	0.3	0.4	0.4	-0.6	0.6
Pavlov. Cond. magazine entry number	3.8	4.6	4.6	2.1	-2.2
Pavlov. Cond. intertrial magazine entries	0.8	1.1	1.1	1.0	-1.0
Pavlov. Cond. lever-magazine prob. diff.	2.0	2.6	2.6	-1.6	1.6
Pavlov. Cond. response bias	1.0	1.3	1.3	-1.1	1.2
Time in closed arm before self-admin	0.1	0.1	0.1	0.3	-0.2
Time in closed arm after self-admin	0.5	0.5	0.5	0.7	-0.7
Time in open arm before self-admin	0.0	0.0	0.0	-0.1	0.1
Time in open arm after self-admin	0.6	0.6	0.6	-0.8	0.8
Bone: periosteal estimation	1.0	2.0	2.0	1.4	-1.4
Bone: periosteal perimeter	5.3	8.8	8.8	3.0	-3.0
Bone: post-yield work	0.4	0.6	0.6	-0.8	0.8
Progressive ratio test 1 active lever presses	0.4	0.4	0.4	0.6	-0.6
Progressive ratio test 1 breakpoint	0.5	0.5	0.5	0.7	-0.7
Progressive ratio test 1 inactive lever presses	0.6	0.7	0.7	0.8	-0.8
Progressive ratio test 2 active lever presses	0.4	0.4	0.4	0.6	-0.6
Progressive ratio test 2 breakpoint	0.2	0.2	0.2	0.5	-0.5
Progressive ratio test 2 inactive lever presses	0.5	0.6	0.6	0.8	-0.8
Incentive Sensitization - Responses	0.2	0.2	0.2	0.4	-0.4
Incentive Sensitization - Breakpoint	0.2	0.2	0.2	0.4	-0.4
Sum of active levers in priming session hrs 5-6	0.3	0.3	0.3	0.6	-0.5
Progressive ratio	0.2	0.2	0.2	-0.5	0.5
Food seeking constrained by brief footshock	0.0	0.0	0.0	0.1	-0.2
Seeking ratio, punishment vs. effort	0.0	0.0	0.0	0.1	-0.1
Retroperitoneal fat weight	1.9	6.3	6.4	2.5	-2.5
Reaction time number correct	4.4	6.4	6.5	-2.5	2.5
Reaction time mean minus median	0.3	0.4	0.4	0.7	-0.7
Reaction time mean minus median AUC	0.2	0.3	0.3	0.5	-0.6
Reaction time num false alarms	0.2	0.2	0.3	-0.5	0.5
Reaction time num false alarms AUC	0.6	0.8	0.8	-0.9	0.9
Reaction time trials correct on left	4.4	6.4	6.5	-2.5	2.5
Reaction time trials on left	4.6	6.5	6.6	-2.5	2.6
Reaction time mean	0.0	0.0	0.0	0.1	-0.1
Reaction time mean AUC	0.0	0.0	0.0	-0.2	0.2
Median of all reaction times	0.0	0.0	0.0	-0.2	0.2
Reaction time omissions	0.0	0.0	0.0	-0.1	0.1
Reaction time false alarm rate	0.2	0.2	0.2	0.4	-0.5
Reaction time premature initiation rate	0.8	1.1	1.1	-1.1	1.0
Reaction time premature initiations	3.7	5.2	5.2	-2.3	2.3
Std. dev. reaction times	0.2	0.3	0.3	-0.6	0.6
Reaction time trials completed	4.6	6.5	6.6	-2.5	2.6
Reaction time trials AUC	4.4	6.3	6.4	-2.5	2.5
Run reversals in cocaine runway, females	2.7	2.6	2.6	-1.6	1.6
Run reversals in cocaine runway, males	3.2	3.1	3.1	1.8	-1.8
Latency to leave start box in cocaine runway	0.5	0.5	0.5	-0.7	0.7
Latency to leave start box in cocaine runway, F	1.1	1.2	1.2	-1.1	1.1
Latency to leave start box in cocaine runway, M	0.1	0.1	0.1	0.4	-0.3
Std. dev. time between licks in bursts	1.4	1.7	1.7	-1.3	1.3
Total sessions with >9 infusions	0.1	0.1	0.1	-0.3	0.3
Short access day 1 total inactive lever presses	0.2	0.2	0.2	-0.5	0.5
Short access day 10 total inactive lever presses	2.4	2.6	2.7	1.6	-1.6
Short access day 1 total infusions	0.6	0.7	0.7	-0.8	0.8
Short access day 10 total infusions	0.6	0.7	0.7	0.8	-0.8
Short access total infusions	0.0	0.0	0.0	0.0	-0.0
Short access day 1 locomotion	0.1	0.1	0.1	0.2	-0.3
Short access day 10 total locomotion	0.5	0.5	0.5	0.7	-0.7
Short access total locomotion	0.1	0.1	0.1	0.3	-0.4
One hour access (0.3 mA shock)	0.3	0.3	0.3	0.6	-0.5
Compulsive drug intake	0.0	0.0	0.0	0.0	-0.0
One hour access (shock baseline)	0.0	0.0	0.0	0.2	-0.2
Social response proportion	0.8	0.9	0.9	-0.9	0.9
Social responses	0.2	0.2	0.2	-0.5	0.5
Social time	0.3	0.4	0.4	-0.6	0.6
Soleus weight	0.7	2.0	2.1	1.4	-1.4
Bone: stiffness	0.3	0.4	0.4	0.7	-0.7
Tibialis anterior weight	0.1	0.2	0.3	-0.5	0.5
Time to tail flick, vehicle, before self-admin	0.0	0.0	0.0	0.0	-0.0
Time to tail flick, vehicle, after self-admin	1.0	1.0	1.1	-1.0	1.0
Time to tail flick, test, before self-admin	0.3	0.3	0.3	0.5	-0.5
Time to tail flick, test, after self-admin	0.0	0.0	0.0	-0.1	0.0
Delta time to tail flick, vehicle, before/after SA	0.6	0.6	0.6	-0.8	0.8
Delta time to tail flick, test, before/after SA	0.0	0.0	0.0	-0.2	0.2
Tibia length	10.9	30.8	31.0	5.6	-5.5
Ambulatory time before self-admin	2.6	2.7	2.8	1.7	-1.6
Ambulatory time after self-admin	0.0	0.0	0.0	-0.0	0.0
Bone: tissue strength	0.1	0.1	0.1	0.3	-0.3
Total heroin consumption	0.5	0.6	0.6	0.7	-0.7
Bone: trabecular number	0.0	0.0	0.0	0.0	-0.0
Bone: trabecular spacing	1.8	2.4	2.4	-1.5	1.6
Bone: trabecular thickness	2.6	3.1	3.1	1.8	-1.8
Bone: trabecular tissue density	0.5	0.6	0.7	-0.8	0.8
Water consumed over 24 hours	0.5	0.6	0.6	0.8	-0.8
Number of responses in last shaping day	0.6	0.6	0.6	0.8	-0.8