Hub : Genes

Abi3

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	gene expression	ENSRNOG00000005575	0.09	0.05	7.2e-16	0.13	0.13	0.12	0.12	7.9e-14	1.4e-14	1.5e-13	7.1e-13
2	Liver	gene expression	ENSRNOG00000005575	0.02	0.02	6.0e-03	0.01	0.01	0.01	0.01	2.0e-02	6.8e-02	5.3e-02	3.1e-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 strong Z-scores (below -2 or above 2): lower negative Z-scores are darker blue, higher positive Z-scores are darker red.

Trait	Avg chi2 ratio	Avg chi2	Max chi2	1	2
BMI with tail	15.5	50.1	53.2	-6.9	7.3
BMI without tail	0.5	1.1	1.2	-1.0	1.1
Body weight	0.8	3.5	3.6	-1.9	1.9
Epididymis fat weight	0.0	0.1	0.1	-0.3	0.2
Glucose	0.9	1.4	1.6	-1.3	1.1
Heart weight	0.9	1.3	1.3	-1.2	1.1
Left kidney weight	0.0	0.0	0.0	-0.2	-0.1
Right kidney weight	0.6	1.6	1.9	-1.4	1.2
Tail length	15.6	47.3	50.8	6.6	-7.1
Length with tail	7.1	25.9	29.1	4.8	-5.4
Length without tail	0.0	0.0	0.1	-0.3	0.1
Liver weight, left	0.9	1.4	1.6	1.1	-1.3
Liver weight, right	0.4	0.6	0.7	0.7	-0.8
Parametrial fat weight	0.2	0.4	0.5	0.7	-0.6
Retroperitoneal fat weight	0.2	0.7	0.8	-0.7	0.9
Intraocular pressure	1.3	1.8	1.9	1.3	-1.4
Extensor digitorum longus weight	0.9	3.7	3.7	-1.9	1.9
Soleus weight	1.5	4.3	4.7	-2.2	2.0
Tibialis anterior weight	0.1	0.2	0.3	0.5	-0.5
Tibia length	0.6	1.7	2.0	-1.4	1.2
Number of licking bursts	1.1	1.3	1.5	1.2	-1.0
Food consumed during 24 hour testing period	2.0	2.4	2.4	1.5	-1.6
Times rat made contact with spout	0.8	0.9	0.9	0.9	-1.0
Mean time between licks in bursts	1.0	1.3	1.5	-1.2	1.1
Mean num. licks in bursts	0.1	0.1	0.2	-0.4	0.2
Std. dev. time between licks in bursts	0.8	0.9	1.0	-1.0	0.9
Water consumed over 24 hours	0.0	0.0	0.0	0.2	-0.1
Indifference point 0 sec	1.5	2.4	2.6	-1.5	1.6
Indifference point AUC	0.0	0.0	0.0	0.1	-0.1
Indifference point function ln k	0.0	0.0	0.0	0.2	-0.2
Indifference point function log k	0.0	0.0	0.0	0.2	-0.2
Delay discounting total patch changes 0 sec	1.7	2.8	2.9	-1.6	1.7
Delay discounting total patch changes 12 sec	0.1	0.1	0.2	-0.2	0.4
Delay discounting total patch changes 18 sec	2.6	3.4	3.6	-1.8	1.9
Delay discounting total patch changes 24 sec	1.2	1.5	1.7	-1.2	1.3
Delay discounting total patch changes 6 sec	1.1	1.7	1.8	-1.3	1.3
Delay discounting time to switch 0 sec	0.1	0.1	0.2	0.4	-0.1
Delay discounting water rate 0 sec	1.6	2.6	3.0	-1.7	1.5
Delay discounting water rate 12 sec	0.5	0.7	1.1	-1.0	0.6
Delay discounting water rate 18 sec	0.0	0.0	0.0	-0.1	0.0
Delay discounting water rate 24 sec	1.3	1.8	2.0	-1.4	1.3
Delay discounting water rate 6 sec	0.0	0.0	0.0	-0.1	0.0
Locomotor activity	0.0	0.1	0.1	-0.2	0.3
Locomotor testing distance	0.2	0.3	0.5	-0.4	0.7
Locomotor testing rearing	0.1	0.1	0.2	0.0	0.4
Light reinforcement 1	0.0	0.0	0.0	0.0	0.0
Light reinforcement 2	0.5	0.6	0.7	0.8	-0.7
Reaction time number correct	1.6	2.2	2.3	-1.5	1.5
Reaction time mean minus median	2.1	2.7	2.8	1.6	-1.7
Reaction time mean minus median AUC	3.2	4.1	4.2	2.0	-2.1
Reaction time num false alarms	1.0	1.4	1.7	1.0	-1.3
Reaction time num false alarms AUC	1.1	1.5	1.8	1.1	-1.4
Reaction time trials correct on left	1.6	2.2	2.3	-1.5	1.5
Reaction time trials on left	1.5	2.1	2.2	-1.5	1.4
Reaction time mean	1.2	1.7	1.7	1.3	-1.3
Reaction time mean AUC	1.5	2.0	2.0	1.4	-1.4
Median of all reaction times	0.4	0.6	0.7	0.8	-0.7
Reaction time omissions	1.2	1.6	1.6	1.3	-1.2
Reaction time false alarm rate	2.0	2.8	3.1	1.6	-1.8
Reaction time premature initiation rate	0.2	0.3	0.3	0.5	-0.5
Reaction time premature initiations	0.0	0.0	0.0	-0.2	0.2
Std. dev. reaction times	2.1	2.9	3.2	1.6	-1.8
Reaction time trials completed	1.5	2.1	2.2	-1.5	1.4
Reaction time trials AUC	1.5	2.1	2.2	-1.5	1.4
Social response proportion	2.1	2.3	2.3	1.5	-1.5
Social responses	0.0	0.0	0.0	0.1	-0.0
Social time	0.0	0.0	0.0	0.0	0.2
Conditioned locomotion	2.3	2.7	3.3	-1.4	1.8
Cocaine response after cond. corrected	5.5	6.2	6.7	-2.4	2.6
Cocaine response after cond. not corrected	3.1	3.4	3.6	-1.8	1.9
Cocaine response before conditioning	2.8	3.4	3.8	1.7	-2.0
Saline control response	0.1	0.1	0.2	0.0	0.5
Condit. Reinf. active minus inactive responses	0.2	0.3	0.4	0.6	-0.5
Condit. Reinf. active-inactive response ratio	0.4	0.4	0.6	0.8	-0.5
Condit. Reinf. active responses	0.1	0.2	0.2	0.4	-0.4
Condit. Reinf. inactive responses	0.0	0.0	0.0	-0.2	0.1
Condit. Reinf. lever presses	0.3	0.4	0.5	0.6	-0.7
Condit. Reinf. lever reinforcers received	0.2	0.2	0.2	0.5	-0.5
Pavlov. Cond. lever latency	1.8	2.5	2.8	1.7	-1.5
Pavlov. Cond. magazine entry latency	0.3	0.3	0.6	0.4	-0.7
Pavlov. Cond. change in total contacts	0.5	0.7	0.9	-0.9	0.7
Pavlov. Cond. index score	0.4	0.6	0.8	-0.9	0.6
Pavlov. Cond. latency score	0.2	0.3	0.4	-0.7	0.4
Pavlov. Cond. lever contacts	1.3	1.7	1.9	-1.4	1.3
Pavlov. Cond. magazine entry number	0.1	0.1	0.2	0.5	-0.0
Pavlov. Cond. intertrial magazine entries	1.9	2.4	2.7	1.6	-1.5
Pavlov. Cond. lever-magazine prob. diff.	0.6	0.8	1.0	-1.0	0.7
Pavlov. Cond. response bias	0.9	1.2	1.5	-1.2	1.0
Conditioned reinforcement - actives	0.4	0.4	0.5	0.5	-0.7
Conditioned reinforcement - inactives	0.1	0.1	0.1	0.3	-0.4
Conditioned locomotion	0.1	0.1	0.1	-0.2	0.4
Intermittent access intake day 1-15 change	0.8	0.8	1.0	-0.8	1.0
Intermittent access intake escalation	0.4	0.4	0.4	-0.6	0.7
Intermittent access intake escalation 2	0.7	0.7	1.0	-0.7	1.0
Intermitt. access day 1 inactive lever presses	0.0	0.0	0.0	0.2	-0.1
Intermitt. access day 15 inactive lever presses	1.6	1.8	2.0	-1.4	1.2
Intermitt. access escalation Index	0.1	0.1	0.2	0.4	-0.3
Intermittent access day 1 total infusions	1.0	1.1	1.2	1.0	-1.1
Intermittent access day 15 total infusions	0.5	0.6	0.6	0.7	-0.8
Intermittent access terminal intake (last 3 days)	0.2	0.2	0.2	0.5	-0.4
Intermittent access total infusions	0.3	0.3	0.4	0.5	-0.6
Intermittent access day 1 locomotion	2.4	2.5	2.6	1.5	-1.6
Intermittent access day 15 total locomotion	0.6	0.6	0.7	0.7	-0.8
Intermittent access total locomotion	0.8	0.9	1.0	0.9	-1.0
Intermittent access standard deviation	0.8	0.8	0.9	-0.9	0.9
Cocaine induced anxiety	0.0	0.0	0.0	0.2	0.0
Post-drug Anxiety	1.2	1.4	1.7	1.3	-1.0
Baseline Anxiety	0.0	0.0	0.0	-0.1	0.1
Lifetime Intake	0.3	0.4	0.4	0.6	-0.6
Incentive Sensitization - Responses	0.2	0.2	0.3	0.6	-0.4
Incentive Sensitization - Breakpoint	0.1	0.1	0.1	0.4	-0.1
Progressive ratio test 1 active lever presses	1.3	1.3	1.4	1.1	-1.2
Progressive ratio test 1 breakpoint	1.4	1.4	1.6	1.1	-1.2
Progressive ratio test 1 inactive lever presses	0.2	0.2	0.2	-0.5	0.5
Progressive ratio test 2 active lever presses	1.5	1.6	1.6	1.3	-1.2
Progressive ratio test 2 breakpoint	0.8	0.9	1.0	1.0	-0.9
Progressive ratio test 2 inactive lever presses	0.0	0.0	0.1	0.2	-0.2
Total sessions with >9 infusions	0.7	0.8	0.9	0.8	-1.0
Short access day 1 total inactive lever presses	0.2	0.2	0.2	0.4	-0.5
Short access day 10 total inactive lever presses	0.3	0.3	0.4	-0.5	0.6
Short access day 1 total infusions	0.0	0.0	0.0	0.1	-0.1
Short access day 10 total infusions	0.1	0.1	0.2	0.2	-0.4
Short access total infusions	0.0	0.0	0.0	-0.1	-0.0
Short access day 1 locomotion	0.0	0.0	0.0	-0.1	-0.0
Short access day 10 total locomotion	1.1	1.1	1.2	1.0	-1.1
Short access total locomotion	0.1	0.1	0.2	0.3	-0.4
Compulsive drug intake	7.6	7.6	8.5	2.6	-2.9
One hour access (0.3 mA shock)	0.9	1.1	1.1	1.0	-1.1
One hour access (shock baseline)	1.0	1.1	1.4	-0.9	1.2
Number of responses in last shaping day	2.1	2.1	2.5	-1.6	1.3
Context. condit. distance diff. score	1.0	1.3	1.5	-1.0	1.2
Locomotion velocity, session 1	0.1	0.1	0.1	0.3	-0.2
Locomotion distance, session 1	5.0	6.4	6.7	2.5	-2.6
Locomotion velocity, session 2	1.0	1.2	1.6	0.9	-1.2
Locomotion distance, session 2	6.6	9.4	9.7	3.0	-3.1
Locomotion velocity, session 3	0.5	0.6	0.8	-0.9	0.5
Locomotion distance, session 3	1.3	1.4	1.6	1.1	-1.3
Stereotopy head waving bouts, day 3	3.7	4.5	5.0	-2.2	2.0
Stereotopy head waving duration, day 3	3.1	3.7	4.0	-2.0	1.9
Locomotion velocity, session 7	1.0	1.1	1.3	1.0	-1.1
Locomotion distance, session 7	6.2	7.9	7.9	2.8	-2.8
Stereotopy head waving bouts, day 7	0.3	0.4	0.5	-0.7	0.5
Stereotopy head waving duration, day 7	0.2	0.3	0.5	-0.7	0.3
Locomotion velocity, session 8	0.6	0.8	0.8	-0.9	0.9
Locomotion distance, session 8	0.5	0.8	0.9	0.9	-0.9
Degree of sensitization distance	0.1	0.1	0.2	0.4	-0.3
Degree of sensitization stereotypy	0.3	0.3	0.3	0.5	-0.6
Condit. Reinf. active minus inactive responses	1.1	1.2	1.3	1.1	-1.1
Condit. Reinf. active-inactive response ratio	0.0	0.0	0.0	-0.1	0.2
Condit. Reinf. active responses	1.3	1.6	1.6	1.3	-1.3
Condit. Reinf. inactive responses	1.4	1.6	1.7	1.2	-1.3
Incentive salience index mean	2.1	2.5	2.7	1.6	-1.5
Condit. Reinf. lever presses	2.7	3.7	3.9	2.0	-1.8
Time in familiar zone, hab. session 1	0.1	0.1	0.2	0.5	-0.1
Time in novel zone, hab. session 1	2.3	2.2	2.8	-1.7	1.3
Total zone transitions, hab. session 1	6.9	9.7	9.8	3.1	-3.1
Total locomotion distance, hab. session 1	4.2	6.0	6.3	2.5	-2.4
Locomotion velocity, hab. session 1	5.3	7.6	8.1	2.8	-2.7
Time in familiar zone, hab. session 2	1.2	1.2	1.3	-1.1	1.1
Time in novel zone, hab. session 2	0.2	0.2	0.2	0.5	-0.3
Total zone transitions, hab. session 2	4.9	6.3	6.4	2.5	-2.5
Total locomotion distance, hab. session 2	1.2	1.6	1.7	1.3	-1.3
Locomotion velocity, hab. session 2	1.4	1.9	1.9	1.4	-1.4
Novel to familiar place preference ratio	0.3	0.3	0.4	0.7	-0.3
Novelty place preference	0.2	0.2	0.3	0.6	-0.2
Time in novel zone, NPP test	0.1	0.1	0.2	0.4	-0.1
Total zone transitions, NPP test	6.0	8.7	9.0	3.0	-2.9
Total locomotion distance, NPP test	2.1	2.9	3.3	1.8	-1.6
Locomotion velocity, NPP test	2.5	3.6	4.0	2.0	-1.8
Pavlov. Cond. lever latency	1.6	2.0	2.3	-1.5	1.3
Pavlov. Cond. magazine entry latency	0.2	0.3	0.3	0.6	-0.5
Pavlov. Cond. change in total contacts	4.2	4.4	4.8	2.2	-2.0
Pavlov. Cond. index score	1.1	1.4	1.7	1.3	-1.1
Pavlov. Cond. latency score	1.2	1.5	1.7	1.3	-1.1
Pavlov. Cond. lever contacts	2.7	3.2	3.6	1.9	-1.7
Pavlov. Cond. magazine entry number	0.7	0.9	1.1	-1.0	0.8
Pavlov. Cond. intertrial magazine entries	1.1	1.4	1.4	1.1	-1.2
Pavlov. Cond. lever-magazine prob. diff.	1.0	1.2	1.4	1.2	-1.0
Pavlov. Cond. response bias	0.9	1.1	1.3	1.1	-0.9
Bone: apparent density	1.1	1.8	2.1	-1.2	1.5
Bone surface	0.3	0.6	0.7	-0.7	0.8
Bone volume	0.9	1.5	1.7	-1.2	1.3
Bone: connectivity density	0.2	0.4	0.5	-0.5	0.7
Bone: cortical apparent density	4.8	6.3	6.8	2.4	-2.6
Bone: cortical area	0.4	0.7	0.7	-0.8	0.9
Bone: cortical porosity	0.3	0.3	0.3	-0.6	0.5
Bone: cortical porosity	0.1	0.2	0.2	-0.4	0.4
Bone: cortical thickness	0.2	0.3	0.4	-0.6	0.6
Bone: cortical thickness	0.3	0.4	0.4	0.6	-0.6
Bone: cortical tissue density	5.4	7.0	7.6	2.5	-2.8
Bone: elastic displacement	0.0	0.0	0.1	-0.0	0.2
Bone: elastic work	0.0	0.0	0.0	0.0	0.1
Bone: endosteal estimation	0.0	0.0	0.0	-0.1	0.2
Bone: endosteal perimeter	0.1	0.3	0.4	-0.5	0.6
Bone: final force	0.1	0.1	0.2	-0.2	0.4
Bone: final moment	0.1	0.2	0.3	-0.4	0.6
Bone: marrow area	0.0	0.0	0.0	0.0	0.1
Bone: maximum diameter	0.2	0.4	0.5	-0.6	0.7
Bone: maximum force	0.6	1.0	1.0	-0.9	1.0
Bone: maximum moment	0.7	1.2	1.3	-1.1	1.1
Bone: minimum diameter	0.0	0.0	0.0	-0.2	0.2
Bone: periosteal estimation	0.2	0.5	0.6	-0.6	0.8
Bone: periosteal perimeter	1.0	1.6	1.8	-1.2	1.3
Bone: post-yield work	0.7	1.0	1.1	-1.1	0.9
Bone: stiffness	0.0	0.1	0.1	-0.2	0.3
Bone: tissue strength	1.1	1.0	1.1	-1.1	1.0
Bone: trabecular number	0.0	0.1	0.1	-0.1	0.3
Bone: trabecular spacing	0.0	0.0	0.0	-0.1	0.1
Bone: trabecular thickness	3.8	4.6	4.8	-2.2	2.1
Bone: trabecular tissue density	0.0	0.0	0.0	-0.1	-0.1
Breakpoint value in progressive ratio session	3.2	3.5	4.1	1.7	-2.0
Distance traveled before self-admin	3.0	3.2	3.7	1.9	-1.7
Distance traveled after self-admin	0.0	0.0	0.1	-0.2	0.3
Delta time in closed arm before/after self-admin	0.2	0.2	0.2	-0.4	0.5
Delta time in open arm before/after self-admin	0.0	0.0	0.0	0.1	0.1
Diff in mean of infusions in LGA sessions	2.0	2.2	2.2	1.5	-1.5
Extinction: sum of active levers before priming	0.9	0.9	1.0	1.0	-0.9
Active lever presses in extinction session 6	0.0	0.0	0.0	-0.2	0.1
Delta distance traveled before/after self-admin	3.0	3.2	3.3	-1.8	1.8
Delta ambulatory time before/after self-admin	2.9	3.2	3.4	-1.8	1.7
Time in closed arm before self-admin	3.1	3.6	3.7	-1.9	1.9
Time in closed arm after self-admin	3.6	3.7	3.9	-1.9	2.0
Time in open arm before self-admin	0.5	0.6	0.6	0.8	-0.8
Time in open arm after self-admin	0.4	0.4	0.5	0.7	-0.6
Sum of active levers in priming session hrs 5-6	5.8	5.7	6.3	2.3	-2.5
Time to tail flick, vehicle, before self-admin	1.4	1.4	1.6	1.1	-1.3
Time to tail flick, vehicle, after self-admin	0.9	1.0	1.2	-0.9	1.1
Time to tail flick, test, before self-admin	0.8	0.8	1.0	-1.0	0.7
Time to tail flick, test, after self-admin	0.4	0.5	0.7	-0.8	0.5
Delta time to tail flick, vehicle, before/after SA	3.6	3.5	4.0	-1.7	2.0
Delta time to tail flick, test, before/after SA	0.5	0.5	0.5	0.6	-0.7
Ambulatory time before self-admin	1.9	2.0	2.5	1.6	-1.2
Ambulatory time after self-admin	0.2	0.2	0.3	-0.4	0.5
Total heroin consumption	0.5	0.6	0.7	0.7	-0.8
Area under the delay curve	0.0	0.0	0.0	0.0	-0.0
Delay disc. indifference point, 0s delay	0.1	0.1	0.1	-0.1	0.4
Delay disc. indifference point, 16s delay	1.2	1.2	1.4	-1.2	1.0
Delay disc. indifference point, 2s delay	0.0	0.0	0.1	0.2	-0.1
Delay disc. indifference point, 24s delay	0.9	0.8	0.9	0.9	-1.0
Delay disc. indifference point, 4s delay	0.8	0.8	0.9	0.9	-0.9
Delay disc. indifference point, 8s delay	0.1	0.1	0.1	0.2	-0.3
Delay discount exponential model param	0.0	0.0	0.0	-0.2	0.2
Delay discount hyperbolic model param	0.1	0.1	0.1	-0.3	0.3
Fecal boli incidents, locomotor time 1	3.0	3.3	3.6	-1.9	1.7
Change in fecal boli incidents, locomotor task	2.2	2.1	2.1	1.4	-1.4
Time >=10cm from walls, locomotor time 1	0.1	0.1	0.2	0.5	-0.0
Bouts of movement, locomotor time 1	0.2	0.3	0.4	-0.7	0.3
Total resting periods, locomotor time 1	0.6	0.7	1.0	-1.0	0.7
Rest time, locomotor task time 1	0.2	0.2	0.2	-0.4	0.4
Distance moved, locomotor task time 1	2.7	2.9	3.1	1.8	-1.7
Vertical activity count, locomotor time 1	0.6	0.7	0.7	0.8	-0.8
Time >=10cm from walls, locomotor time 2	0.3	0.4	0.5	0.7	-0.5
Bouts of movement, locomotor time 2	0.1	0.1	0.2	-0.0	0.4
Total resting periods, locomotor time 2	0.1	0.1	0.3	-0.0	0.5
Rest time, locomotor task time 2	0.4	0.4	0.6	0.6	-0.8
Distance moved, locomotor task time 2	0.2	0.2	0.2	0.4	-0.5
Vertical activity count, locomotor time 2	0.1	0.1	0.1	0.3	-0.2
Weight adjusted by age	0.0	0.1	0.1	0.3	-0.1
Seeking ratio, delayed vs. immediate footshock	2.0	2.3	2.7	-1.4	1.6
Locomotion in novel chamber	0.2	0.3	0.4	0.6	-0.5
Locomotion in novel chamber post-restriction	1.2	1.5	1.9	-1.0	1.4
Progressive ratio	0.2	0.2	0.3	-0.2	0.6
Food seeking constrained by brief footshock	0.0	0.0	0.0	-0.1	-0.0
Seeking ratio, punishment vs. effort	0.7	0.8	1.2	0.7	-1.1
Run reversals in cocaine runway, females	0.2	0.2	0.3	0.2	-0.6
Run reversals in cocaine runway, males	1.3	1.3	1.7	-0.9	1.3
Latency to leave start box in cocaine runway	6.0	6.5	7.4	-2.4	2.7
Latency to leave start box in cocaine runway, F	9.4	10.4	11.0	-3.1	3.3
Latency to leave start box in cocaine runway, M	0.1	0.1	0.1	0.0	0.4
Cd content in liver	0.3	0.3	0.5	0.7	-0.3
Co content in liver	0.0	0.0	0.0	0.1	0.0
Cu content in liver	11.1	13.4	13.4	3.7	-3.6
Fe content in liver	2.2	2.6	2.7	1.6	-1.6
K content in liver	0.6	0.6	0.6	0.8	-0.8
Mg content in liver	2.6	2.7	3.0	1.7	-1.5
Mn content in liver	3.5	4.0	4.2	2.1	-1.9
Na content in liver	0.4	0.4	0.5	0.7	-0.6
Rb content in liver	0.5	0.6	0.9	0.5	-0.9
Se content in liver	0.2	0.2	0.4	-0.2	0.6
Sr content in liver	0.3	0.3	0.3	0.6	-0.4
Zn content in liver	0.2	0.2	0.4	0.6	-0.2