Hub : Genes

Angptl3

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	intron excision ratio	chr5:113706569:113706823	0.12	0.18	8.0e-04	0.02	0.01	0.02	0.01	5.2e-03	1.2e-02	4.1e-03	7.7e-03
2	Liver	intron excision ratio	chr5:113706918:113709084	0.12	0.14	1.1e-05	0.03	0.03	0.03	0.03	3.1e-04	6.3e-04	3.7e-04	4.1e-04

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	0.0	0.0	0.1	-0.0	0.3
BMI without tail	0.1	0.2	0.3	-0.2	0.5
Body weight	0.1	0.4	0.6	0.8	-0.5
Epididymis fat weight	2.5	5.9	6.2	2.5	-2.4
Glucose	0.1	0.2	0.3	0.6	-0.2
Heart weight	3.9	5.6	6.2	2.5	-2.2
Left kidney weight	0.6	1.7	1.8	1.4	-1.2
Right kidney weight	0.4	1.3	1.5	1.2	-1.0
Tail length	0.5	1.5	1.6	1.3	-1.1
Length with tail	0.2	0.8	0.9	0.9	-1.0
Length without tail	0.0	0.0	0.0	-0.1	-0.1
Liver weight, left	1.2	1.9	2.4	1.2	-1.5
Liver weight, right	5.6	9.4	10.0	2.9	-3.2
Parametrial fat weight	3.3	6.4	7.8	-2.2	2.8
Retroperitoneal fat weight	0.3	1.1	1.4	1.2	-0.9
Intraocular pressure	0.1	0.1	0.2	-0.4	0.2
Extensor digitorum longus weight	0.5	2.1	2.2	1.4	-1.5
Soleus weight	0.1	0.3	0.3	0.6	-0.5
Tibialis anterior weight	7.9	27.4	27.6	-5.2	5.3
Tibia length	2.2	6.2	6.4	2.4	-2.5
Number of licking bursts	0.0	0.0	0.0	-0.1	0.1
Food consumed during 24 hour testing period	0.0	0.0	0.1	-0.3	-0.2
Times rat made contact with spout	0.1	0.1	0.2	-0.4	0.3
Mean time between licks in bursts	5.2	7.2	7.8	2.6	-2.8
Mean num. licks in bursts	0.0	0.0	0.1	-0.3	0.1
Std. dev. time between licks in bursts	0.0	0.0	0.0	0.1	0.0
Water consumed over 24 hours	0.3	0.4	0.4	-0.7	0.6
Indifference point 0 sec	6.8	11.0	11.3	-3.4	3.3
Indifference point AUC	1.0	1.1	1.2	-1.0	1.1
Indifference point function ln k	0.8	1.1	1.5	1.2	-0.9
Indifference point function log k	0.8	1.1	1.5	1.2	-0.9
Delay discounting total patch changes 0 sec	6.1	10.0	10.2	-3.2	3.1
Delay discounting total patch changes 12 sec	2.1	2.8	3.5	-1.9	1.5
Delay discounting total patch changes 18 sec	3.0	4.0	4.3	-2.1	1.9
Delay discounting total patch changes 24 sec	1.0	1.2	1.4	-1.0	1.2
Delay discounting total patch changes 6 sec	3.0	4.6	5.1	-2.3	2.0
Delay discounting time to switch 0 sec	0.9	1.4	1.9	1.0	-1.4
Delay discounting water rate 0 sec	1.3	2.1	2.5	-1.3	1.6
Delay discounting water rate 12 sec	2.9	4.3	4.4	-2.1	2.1
Delay discounting water rate 18 sec	0.2	0.3	0.3	-0.5	0.5
Delay discounting water rate 24 sec	0.0	0.0	0.0	0.1	0.0
Delay discounting water rate 6 sec	0.1	0.1	0.2	0.5	0.1
Locomotor activity	0.0	0.0	0.0	-0.1	0.0
Locomotor testing distance	1.5	2.4	2.5	-1.5	1.6
Locomotor testing rearing	0.0	0.0	0.0	-0.2	-0.0
Light reinforcement 1	0.2	0.3	0.4	0.4	-0.7
Light reinforcement 2	0.6	0.8	1.1	1.1	-0.7
Reaction time number correct	0.0	0.0	0.1	-0.2	0.2
Reaction time mean minus median	0.9	1.2	1.5	-1.2	1.0
Reaction time mean minus median AUC	0.3	0.4	0.6	-0.8	0.5
Reaction time num false alarms	0.4	0.6	0.7	-0.9	0.7
Reaction time num false alarms AUC	1.1	1.6	1.8	-1.4	1.2
Reaction time trials correct on left	0.0	0.0	0.1	-0.2	0.2
Reaction time trials on left	0.1	0.1	0.1	-0.3	0.2
Reaction time mean	0.8	1.2	1.2	-1.1	1.1
Reaction time mean AUC	0.5	0.6	0.7	-0.8	0.7
Median of all reaction times	0.7	0.9	1.0	-0.9	1.0
Reaction time omissions	0.2	0.3	0.4	-0.4	0.6
Reaction time false alarm rate	1.2	1.7	2.0	-1.4	1.2
Reaction time premature initiation rate	0.1	0.1	0.1	-0.3	-0.3
Reaction time premature initiations	0.1	0.1	0.2	-0.2	-0.4
Std. dev. reaction times	2.4	3.3	3.5	-1.9	1.8
Reaction time trials completed	0.1	0.1	0.1	-0.3	0.2
Reaction time trials AUC	0.1	0.1	0.1	-0.3	0.3
Social response proportion	0.1	0.1	0.3	0.1	0.5
Social responses	0.9	1.1	1.3	1.2	-0.9
Social time	0.3	0.4	0.7	0.8	-0.4
Conditioned locomotion	0.1	0.1	0.1	0.4	-0.3
Cocaine response after cond. corrected	0.2	0.2	0.4	-0.3	0.6
Cocaine response after cond. not corrected	0.2	0.2	0.3	-0.3	0.6
Cocaine response before conditioning	0.0	0.0	0.0	-0.1	-0.0
Saline control response	0.0	0.0	0.1	-0.0	-0.3
Condit. Reinf. active minus inactive responses	0.8	1.0	1.3	0.9	-1.1
Condit. Reinf. active-inactive response ratio	0.4	0.4	0.5	0.6	-0.7
Condit. Reinf. active responses	0.3	0.4	0.7	0.3	-0.8
Condit. Reinf. inactive responses	0.4	0.6	1.0	0.4	-1.0
Condit. Reinf. lever presses	4.1	5.7	6.4	-2.5	2.2
Condit. Reinf. lever reinforcers received	0.1	0.1	0.1	-0.2	-0.4
Pavlov. Cond. lever latency	1.2	1.6	1.7	1.3	-1.2
Pavlov. Cond. magazine entry latency	2.2	2.6	3.0	-1.7	1.5
Pavlov. Cond. change in total contacts	2.3	3.3	3.4	-1.8	1.8
Pavlov. Cond. index score	2.1	2.7	3.1	-1.8	1.5
Pavlov. Cond. latency score	1.6	2.1	2.4	-1.5	1.3
Pavlov. Cond. lever contacts	2.6	3.6	3.9	-2.0	1.8
Pavlov. Cond. magazine entry number	1.0	1.2	1.6	1.3	-0.9
Pavlov. Cond. intertrial magazine entries	1.7	2.2	2.5	1.6	-1.4
Pavlov. Cond. lever-magazine prob. diff.	2.0	2.6	2.9	-1.7	1.5
Pavlov. Cond. response bias	2.3	3.2	3.7	-1.9	1.7
Conditioned reinforcement - actives	0.2	0.2	0.2	0.4	-0.5
Conditioned reinforcement - inactives	0.1	0.1	0.2	0.1	-0.5
Conditioned locomotion	0.2	0.2	0.3	0.4	-0.5
Intermittent access intake day 1-15 change	1.3	1.3	1.6	1.3	-1.0
Intermittent access intake escalation	1.1	1.0	1.3	1.1	-0.9
Intermittent access intake escalation 2	1.6	1.6	2.2	1.5	-1.0
Intermitt. access day 1 inactive lever presses	1.5	1.6	1.8	-1.3	1.2
Intermitt. access day 15 inactive lever presses	0.5	0.6	0.9	0.5	-0.9
Intermitt. access escalation Index	0.6	0.5	0.7	-0.6	0.8
Intermittent access day 1 total infusions	0.1	0.1	0.1	-0.4	-0.1
Intermittent access day 15 total infusions	0.5	0.5	0.6	0.7	-0.8
Intermittent access terminal intake (last 3 days)	0.1	0.1	0.1	0.4	-0.4
Intermittent access total infusions	0.3	0.4	0.4	0.6	-0.6
Intermittent access day 1 locomotion	0.2	0.2	0.3	-0.6	0.3
Intermittent access day 15 total locomotion	0.0	0.0	0.0	-0.2	0.0
Intermittent access total locomotion	0.0	0.0	0.0	0.2	-0.0
Intermittent access standard deviation	2.1	2.3	2.7	1.7	-1.3
Cocaine induced anxiety	0.0	0.0	0.0	-0.2	-0.1
Post-drug Anxiety	0.7	0.7	0.9	0.8	-0.9
Baseline Anxiety	1.0	1.0	1.4	1.2	-0.8
Lifetime Intake	0.0	0.0	0.1	0.1	-0.3
Incentive Sensitization - Responses	0.0	0.0	0.1	0.1	0.3
Incentive Sensitization - Breakpoint	0.1	0.1	0.1	0.0	0.4
Progressive ratio test 1 active lever presses	2.8	2.9	3.7	1.4	-1.9
Progressive ratio test 1 breakpoint	3.6	3.7	4.8	1.7	-2.2
Progressive ratio test 1 inactive lever presses	0.5	0.6	1.1	0.2	-1.1
Progressive ratio test 2 active lever presses	0.2	0.2	0.3	0.4	-0.5
Progressive ratio test 2 breakpoint	0.3	0.3	0.3	0.6	-0.6
Progressive ratio test 2 inactive lever presses	0.1	0.1	0.3	-0.5	-0.0
Total sessions with >9 infusions	1.1	1.2	1.5	1.0	-1.2
Short access day 1 total inactive lever presses	0.2	0.2	0.3	-0.6	0.4
Short access day 10 total inactive lever presses	2.7	3.0	3.4	-1.8	1.6
Short access day 1 total infusions	0.0	0.0	0.0	0.1	-0.0
Short access day 10 total infusions	0.0	0.0	0.1	-0.1	-0.3
Short access total infusions	0.0	0.0	0.1	-0.2	0.0
Short access day 1 locomotion	0.4	0.4	0.5	-0.7	0.5
Short access day 10 total locomotion	0.0	0.0	0.0	0.1	0.1
Short access total locomotion	0.1	0.1	0.2	0.1	-0.4
Compulsive drug intake	6.0	5.9	6.0	-2.5	2.4
One hour access (0.3 mA shock)	0.3	0.3	0.6	-0.8	0.3
One hour access (shock baseline)	1.7	1.9	2.5	1.2	-1.6
Number of responses in last shaping day	0.1	0.1	0.3	-0.5	-0.1
Context. condit. distance diff. score	2.1	2.6	2.8	1.6	-1.7
Locomotion velocity, session 1	0.1	0.1	0.2	-0.4	0.3
Locomotion distance, session 1	0.5	0.7	0.7	0.8	-0.9
Locomotion velocity, session 2	0.1	0.1	0.1	0.4	0.1
Locomotion distance, session 2	0.2	0.2	0.3	-0.5	0.5
Locomotion velocity, session 3	0.0	0.0	0.0	0.1	-0.1
Locomotion distance, session 3	0.1	0.1	0.2	-0.5	0.2
Stereotopy head waving bouts, day 3	0.5	0.6	0.8	0.9	-0.7
Stereotopy head waving duration, day 3	1.4	1.7	2.0	1.4	-1.1
Locomotion velocity, session 7	0.9	0.9	1.2	1.1	-0.8
Locomotion distance, session 7	0.5	0.6	0.7	0.8	-0.7
Stereotopy head waving bouts, day 7	0.5	0.6	0.8	-0.6	0.9
Stereotopy head waving duration, day 7	0.9	1.1	1.2	-1.0	1.1
Locomotion velocity, session 8	0.2	0.3	0.3	0.4	-0.6
Locomotion distance, session 8	0.5	0.8	0.9	0.8	-1.0
Degree of sensitization distance	0.1	0.1	0.2	0.4	-0.1
Degree of sensitization stereotypy	0.9	0.9	1.1	-0.9	1.0
Condit. Reinf. active minus inactive responses	0.5	0.6	0.9	-1.0	0.5
Condit. Reinf. active-inactive response ratio	0.1	0.1	0.2	-0.4	0.0
Condit. Reinf. active responses	1.4	1.7	2.2	-1.5	1.1
Condit. Reinf. inactive responses	0.5	0.6	0.6	-0.8	0.7
Incentive salience index mean	0.6	0.8	1.1	-1.1	0.6
Condit. Reinf. lever presses	0.0	0.0	0.0	-0.2	-0.1
Time in familiar zone, hab. session 1	2.7	2.5	2.6	1.6	-1.6
Time in novel zone, hab. session 1	6.3	6.2	6.6	-2.4	2.6
Total zone transitions, hab. session 1	0.8	1.2	1.5	0.9	-1.2
Total locomotion distance, hab. session 1	0.1	0.1	0.1	0.3	-0.3
Locomotion velocity, hab. session 1	0.1	0.2	0.2	0.4	-0.4
Time in familiar zone, hab. session 2	0.5	0.5	0.6	0.7	-0.7
Time in novel zone, hab. session 2	0.8	0.8	1.0	-0.8	1.0
Total zone transitions, hab. session 2	4.9	6.3	6.4	2.5	-2.5
Total locomotion distance, hab. session 2	3.3	4.4	5.1	2.3	-1.9
Locomotion velocity, hab. session 2	2.6	3.5	4.0	2.0	-1.7
Novel to familiar place preference ratio	0.6	0.6	0.7	-0.7	0.8
Novelty place preference	0.2	0.3	0.3	-0.4	0.6
Time in novel zone, NPP test	0.3	0.4	0.5	-0.4	0.7
Total zone transitions, NPP test	1.7	2.4	2.4	1.6	-1.5
Total locomotion distance, NPP test	0.5	0.7	1.1	1.0	-0.6
Locomotion velocity, NPP test	0.5	0.7	0.8	0.9	-0.7
Pavlov. Cond. lever latency	1.0	1.3	1.6	1.3	-0.9
Pavlov. Cond. magazine entry latency	0.1	0.2	0.3	0.1	-0.6
Pavlov. Cond. change in total contacts	0.8	0.8	1.0	-1.0	0.8
Pavlov. Cond. index score	0.2	0.3	0.4	-0.7	0.3
Pavlov. Cond. latency score	0.2	0.3	0.5	-0.7	0.4
Pavlov. Cond. lever contacts	0.5	0.6	0.9	-0.9	0.5
Pavlov. Cond. magazine entry number	0.2	0.3	0.5	-0.3	0.7
Pavlov. Cond. intertrial magazine entries	0.4	0.5	0.6	0.7	-0.8
Pavlov. Cond. lever-magazine prob. diff.	0.2	0.3	0.5	-0.7	0.3
Pavlov. Cond. response bias	0.1	0.1	0.1	-0.4	-0.1
Bone: apparent density	0.1	0.1	0.1	0.2	-0.4
Bone surface	2.3	4.0	4.0	-2.0	2.0
Bone volume	0.6	1.0	1.1	-1.0	1.0
Bone: connectivity density	2.3	3.6	3.7	-1.9	1.8
Bone: cortical apparent density	8.0	10.4	10.4	3.2	-3.2
Bone: cortical area	0.2	0.3	0.4	-0.6	0.5
Bone: cortical porosity	0.6	0.7	0.7	-0.8	0.8
Bone: cortical porosity	0.7	0.8	0.8	-0.9	0.9
Bone: cortical thickness	0.2	0.4	0.4	0.6	-0.6
Bone: cortical thickness	0.3	0.4	0.6	0.8	-0.4
Bone: cortical tissue density	7.9	10.2	10.3	3.2	-3.2
Bone: elastic displacement	1.0	1.1	1.1	1.1	-1.0
Bone: elastic work	1.3	1.7	1.8	1.3	-1.3
Bone: endosteal estimation	0.6	1.4	1.4	-1.2	1.2
Bone: endosteal perimeter	1.7	3.6	3.8	-2.0	1.8
Bone: final force	0.4	0.7	0.8	0.9	-0.8
Bone: final moment	0.0	0.1	0.1	0.3	-0.2
Bone: marrow area	0.6	1.2	1.3	-1.1	1.1
Bone: maximum diameter	0.9	1.7	1.9	-1.4	1.2
Bone: maximum force	0.1	0.1	0.1	0.4	-0.4
Bone: maximum moment	0.0	0.1	0.1	-0.3	0.3
Bone: minimum diameter	1.9	3.6	3.9	-2.0	1.8
Bone: periosteal estimation	0.7	1.5	1.6	-1.3	1.2
Bone: periosteal perimeter	1.0	1.7	1.9	-1.4	1.2
Bone: post-yield work	1.3	1.8	1.9	-1.3	1.4
Bone: stiffness	0.0	0.1	0.1	0.2	-0.3
Bone: tissue strength	0.7	0.7	0.7	-0.8	0.8
Bone: trabecular number	0.0	0.0	0.0	-0.0	-0.1
Bone: trabecular spacing	0.1	0.1	0.2	0.4	-0.2
Bone: trabecular thickness	0.1	0.1	0.2	0.4	-0.3
Bone: trabecular tissue density	16.1	22.5	22.8	4.7	-4.8
Breakpoint value in progressive ratio session	0.5	0.6	0.8	0.9	-0.6
Distance traveled before self-admin	0.1	0.1	0.2	-0.4	0.3
Distance traveled after self-admin	2.1	2.3	3.0	-1.7	1.3
Delta time in closed arm before/after self-admin	0.1	0.1	0.2	-0.2	0.4
Delta time in open arm before/after self-admin	2.1	2.0	2.7	-1.6	1.1
Diff in mean of infusions in LGA sessions	0.7	0.8	1.0	1.0	-0.7
Extinction: sum of active levers before priming	0.2	0.2	0.2	0.5	-0.4
Active lever presses in extinction session 6	0.0	0.0	0.0	0.2	-0.1
Delta distance traveled before/after self-admin	2.2	2.3	2.8	-1.7	1.3
Delta ambulatory time before/after self-admin	2.0	2.2	2.9	-1.7	1.2
Time in closed arm before self-admin	0.0	0.0	0.0	-0.2	-0.1
Time in closed arm after self-admin	0.0	0.0	0.0	0.2	-0.0
Time in open arm before self-admin	0.0	0.0	0.1	0.1	0.3
Time in open arm after self-admin	3.3	3.7	4.4	-2.1	1.7
Sum of active levers in priming session hrs 5-6	1.4	1.4	1.4	1.2	-1.2
Time to tail flick, vehicle, before self-admin	2.2	2.2	2.6	-1.4	1.6
Time to tail flick, vehicle, after self-admin	1.4	1.5	1.6	-1.2	1.3
Time to tail flick, test, before self-admin	0.2	0.2	0.2	-0.5	0.5
Time to tail flick, test, after self-admin	0.1	0.1	0.1	-0.3	0.3
Delta time to tail flick, vehicle, before/after SA	0.7	0.7	0.7	0.9	-0.8
Delta time to tail flick, test, before/after SA	0.3	0.3	0.3	-0.6	0.5
Ambulatory time before self-admin	0.0	0.0	0.0	0.1	-0.2
Ambulatory time after self-admin	2.2	2.4	3.2	-1.8	1.3
Total heroin consumption	2.1	2.6	3.7	1.9	-1.2
Area under the delay curve	0.1	0.1	0.2	-0.4	-0.2
Delay disc. indifference point, 0s delay	2.5	2.7	2.7	1.7	-1.6
Delay disc. indifference point, 16s delay	2.5	2.5	3.4	-1.8	1.3
Delay disc. indifference point, 2s delay	0.0	0.0	0.0	-0.1	-0.2
Delay disc. indifference point, 24s delay	0.0	0.0	0.1	-0.2	-0.1
Delay disc. indifference point, 4s delay	0.8	0.9	1.6	0.4	-1.3
Delay disc. indifference point, 8s delay	0.7	0.7	1.1	0.5	-1.0
Delay discount exponential model param	0.1	0.1	0.2	0.5	0.2
Delay discount hyperbolic model param	0.1	0.1	0.1	0.3	0.3
Fecal boli incidents, locomotor time 1	0.0	0.0	0.0	0.1	-0.1
Change in fecal boli incidents, locomotor task	0.1	0.1	0.1	0.4	-0.4
Time >=10cm from walls, locomotor time 1	0.5	0.5	0.6	-0.8	0.6
Bouts of movement, locomotor time 1	0.1	0.1	0.1	-0.3	0.2
Total resting periods, locomotor time 1	0.1	0.2	0.2	-0.5	0.4
Rest time, locomotor task time 1	0.2	0.2	0.3	-0.6	0.3
Distance moved, locomotor task time 1	0.7	0.8	1.2	1.1	-0.6
Vertical activity count, locomotor time 1	0.2	0.2	0.4	0.6	-0.1
Time >=10cm from walls, locomotor time 2	2.4	2.5	2.5	1.6	-1.6
Bouts of movement, locomotor time 2	0.8	0.8	0.9	-0.9	0.9
Total resting periods, locomotor time 2	0.9	1.0	1.0	-1.0	1.0
Rest time, locomotor task time 2	0.9	1.1	1.2	-1.1	0.9
Distance moved, locomotor task time 2	3.7	4.3	5.5	2.4	-1.7
Vertical activity count, locomotor time 2	1.9	2.0	2.8	1.7	-1.1
Weight adjusted by age	2.2	2.4	2.7	-1.5	1.7
Seeking ratio, delayed vs. immediate footshock	0.1	0.2	0.3	-0.5	0.2
Locomotion in novel chamber	0.8	1.0	1.2	-0.9	1.1
Locomotion in novel chamber post-restriction	0.4	0.5	0.8	0.9	-0.5
Progressive ratio	0.7	0.8	1.1	1.1	-0.7
Food seeking constrained by brief footshock	6.9	8.4	10.0	3.2	-2.6
Seeking ratio, punishment vs. effort	0.8	1.0	1.0	1.0	-1.0
Run reversals in cocaine runway, females	0.0	0.0	0.0	0.1	-0.0
Run reversals in cocaine runway, males	0.7	0.7	0.9	-1.0	0.7
Latency to leave start box in cocaine runway	0.3	0.3	0.3	0.6	-0.5
Latency to leave start box in cocaine runway, F	0.1	0.1	0.1	0.3	-0.1
Latency to leave start box in cocaine runway, M	0.3	0.3	0.3	0.5	-0.5
Cd content in liver	1.0	1.1	1.2	-1.0	1.1
Co content in liver	0.2	0.3	0.3	0.6	-0.4
Cu content in liver	0.2	0.3	0.3	0.5	-0.6
Fe content in liver	0.8	0.9	0.9	-0.9	1.0
K content in liver	1.1	1.1	1.3	1.1	-1.0
Mg content in liver	0.2	0.3	0.4	-0.4	0.6
Mn content in liver	0.1	0.1	0.1	0.4	-0.4
Na content in liver	2.8	3.0	3.2	1.7	-1.8
Rb content in liver	0.8	1.0	1.1	1.1	-0.9
Se content in liver	1.1	1.3	1.4	-1.2	1.1
Sr content in liver	0.0	0.0	0.1	-0.2	0.2
Zn content in liver	0.4	0.5	0.6	-0.6	0.8