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 isoform ratio NM_001399252.1 0.02 0.02 8.8e-03 0.01 0.01 0.01 0.01 4.0e-02 6.0e-02 3.6e-02 5.4e-02
2 Liver intron excision ratio chr5_113706569_113706823 0.19 0.19 4.1e-04 0.02 0.01 0.01 0.01 6.6e-03 3.1e-02 3.5e-02 1.3e-02
3 Liver intron excision ratio chr5_113706918_113709084 0.15 0.16 6.5e-06 0.03 0.02 0.03 0.03 2.5e-04 9.0e-04 3.8e-04 3.9e-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 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 3
Bone: apparent density0.10.10.10.4-0.40.4
Area under the delay curve0.00.00.00.2-0.20.2
BMI with tail0.00.10.1-0.40.3-0.3
BMI without tail0.10.30.4-0.60.5-0.5
Body weight0.00.20.20.4-0.40.4
Weight adjusted by age2.22.52.5-1.61.6-1.6
Bone surface2.34.04.0-2.02.0-2.0
Bone volume0.61.11.1-1.01.0-1.0
Breakpoint value in progressive ratio session0.50.50.60.7-0.70.7
Number of licking bursts0.00.00.0-0.20.2-0.2
Context. condit. distance diff. score2.53.03.11.8-1.71.7
Locomotion velocity, session 10.10.10.1-0.40.3-0.3
Locomotion distance, session 10.60.80.80.9-0.90.9
Locomotion velocity, session 20.00.00.0-0.20.1-0.1
Locomotion distance, session 20.20.20.3-0.50.5-0.5
Locomotion velocity, session 30.00.00.00.1-0.10.1
Locomotion distance, session 30.00.00.0-0.20.2-0.2
Stereotopy head waving bouts, day 30.50.60.60.7-0.80.8
Stereotopy head waving duration, day 31.11.41.41.1-1.21.2
Locomotion velocity, session 70.70.70.80.9-0.90.9
Locomotion distance, session 70.40.50.50.7-0.70.7
Stereotopy head waving bouts, day 70.70.80.8-0.90.9-0.9
Stereotopy head waving duration, day 71.01.21.3-1.11.1-1.1
Locomotion velocity, session 80.30.40.50.7-0.60.6
Locomotion distance, session 80.71.11.11.0-1.01.0
Degree of sensitization distance0.00.00.00.1-0.10.1
Degree of sensitization stereotypy1.01.11.1-1.01.0-1.0
Conditioned locomotion0.10.10.10.3-0.30.3
Cocaine response after cond. corrected0.30.30.3-0.60.6-0.6
Cocaine response after cond. not corrected0.20.30.3-0.50.5-0.5
Cocaine response before conditioning0.00.00.00.0-0.00.0
Saline control response0.10.10.10.4-0.40.4
Bone: connectivity density2.23.43.4-1.81.8-1.8
Bone: cortical apparent density7.910.410.43.2-3.23.2
Bone: cortical area0.20.30.3-0.50.5-0.5
Bone: cortical porosity0.60.60.6-0.80.8-0.8
Bone: cortical porosity0.70.70.7-0.90.9-0.9
Bone: cortical thickness0.20.40.40.6-0.60.6
Bone: cortical thickness0.10.10.10.4-0.40.4
Bone: cortical tissue density7.810.210.23.2-3.23.2
Condit. Reinf. active minus inactive responses0.20.20.3-0.40.5-0.5
Condit. Reinf. active-inactive response ratio0.00.00.00.00.1-0.1
Condit. Reinf. active responses0.81.01.1-0.91.0-1.0
Condit. Reinf. inactive responses0.40.40.5-0.60.7-0.7
Incentive salience index mean0.30.30.4-0.50.6-0.6
Condit. Reinf. lever presses0.00.10.10.3-0.20.2
Condit. Reinf. active minus inactive responses1.01.21.21.1-1.11.1
Condit. Reinf. active-inactive response ratio0.40.40.40.7-0.70.7
Condit. Reinf. active responses0.50.60.60.8-0.80.8
Condit. Reinf. inactive responses0.91.11.11.0-1.01.0
Condit. Reinf. lever presses3.34.54.5-2.12.1-2.1
Condit. Reinf. lever reinforcers received0.10.10.10.4-0.40.4
Conditioned reinforcement - actives0.20.20.30.5-0.50.5
Conditioned reinforcement - inactives0.20.20.20.5-0.50.5
Conditioned locomotion0.20.30.30.5-0.50.5
Patch foraging indifference point 0 sec6.610.610.8-3.33.2-3.2
Patch foraging indifference point AUC1.01.11.2-1.11.0-1.0
Delay disc. indifference point, 0s delay2.52.72.81.7-1.61.6
Delay disc. indifference point, 16s delay1.71.71.7-1.31.3-1.3
Delay disc. indifference point, 2s delay0.00.00.00.1-0.20.2
Delay disc. indifference point, 24s delay0.00.00.00.1-0.10.1
Delay disc. indifference point, 4s delay1.51.61.61.3-1.31.3
Delay disc. indifference point, 8s delay1.01.11.11.0-1.01.0
Indifference point function ln k0.50.70.70.9-0.80.8
Indifference point function log k0.50.70.70.9-0.80.8
Patch foraging total patch changes 0 sec5.99.59.7-3.13.1-3.1
Patch foraging total patch changes 12 sec1.51.92.1-1.51.3-1.3
Patch foraging total patch changes 18 sec2.63.43.5-1.91.8-1.8
Patch foraging total patch changes 24 sec1.21.41.5-1.21.2-1.2
Patch foraging total patch changes 6 sec2.74.04.3-2.12.0-2.0
Patch foraging time to switch 0 sec1.31.92.01.4-1.41.4
Patch foraging water rate 0 sec1.62.62.6-1.61.6-1.6
Patch foraging water rate 12 sec3.14.74.8-2.12.2-2.2
Patch foraging water rate 18 sec0.20.30.4-0.50.6-0.6
Patch foraging water rate 24 sec0.00.00.0-0.00.1-0.1
Patch foraging water rate 6 sec0.00.00.0-0.10.2-0.2
Seeking ratio, delayed vs. immediate footshock0.00.00.0-0.20.2-0.2
Distance traveled before self-admin0.10.10.1-0.30.3-0.3
Distance traveled after self-admin1.61.71.8-1.31.3-1.3
Extensor digitorum longus weight0.52.02.01.4-1.41.4
Bone: elastic displacement1.01.11.11.0-1.01.0
Bone: elastic work1.41.81.81.3-1.31.3
Bone: endosteal estimation0.61.41.4-1.21.2-1.2
Bone: endosteal perimeter1.63.33.3-1.81.8-1.8
Epididymis fat weight2.25.25.32.3-2.32.3
Delta time in closed arm before/after self-admin0.10.10.1-0.40.4-0.4
Delta time in open arm before/after self-admin1.31.31.3-1.11.1-1.1
Diff in mean of infusions in LGA sessions0.50.60.60.7-0.80.8
Delay discount exponential model param0.00.00.0-0.20.2-0.2
Extinction: sum of active levers before priming0.30.30.30.5-0.50.5
Active lever presses in extinction session 60.00.00.00.1-0.20.2
Bone: final force0.40.60.60.8-0.80.8
Bone: final moment0.00.00.00.2-0.20.2
Food consumed during 24 hour testing period0.10.10.10.2-0.20.2
Glucose0.00.00.10.2-0.20.2
Heart weight3.54.95.12.3-2.22.2
Delay discount hyperbolic model param0.10.10.1-0.30.3-0.3
Intermittent access intake day 1-15 change1.01.01.01.0-1.01.0
Intermittent access intake escalation0.80.80.80.9-0.90.9
Intermittent access intake escalation 21.11.11.11.0-1.01.0
Intermitt. access day 1 inactive lever presses1.31.31.4-1.11.2-1.2
Intermitt. access day 15 inactive lever presses0.80.90.91.0-0.90.9
Intermitt. access escalation Index0.80.70.7-0.80.8-0.8
Intermittent access day 1 total infusions0.00.00.00.1-0.10.1
Intermittent access day 15 total infusions0.50.60.60.8-0.80.8
Intermittent access terminal intake (last 3 days)0.10.10.10.4-0.40.4
Intermittent access total infusions0.40.40.40.6-0.60.6
Intermittent access day 1 locomotion0.10.10.1-0.30.3-0.3
Intermittent access day 15 total locomotion0.00.00.0-0.00.0-0.0
Intermittent access total locomotion0.00.00.00.0-0.00.0
Intermittent access standard deviation1.71.81.81.3-1.31.3
Left kidney weight0.51.31.31.1-1.11.1
Right kidney weight0.41.01.01.0-1.01.0
Cocaine induced anxiety0.00.00.00.2-0.10.1
Post-drug Anxiety0.80.90.90.9-0.90.9
Baseline Anxiety0.70.70.70.8-0.80.8
Tail length0.41.31.41.1-1.21.2
Length with tail0.20.90.90.9-0.90.9
Length without tail0.00.00.00.1-0.00.0
Times rat made contact with spout0.00.00.0-0.10.1-0.1
Lifetime Intake0.10.10.10.3-0.30.3
Liver weight, left1.52.42.41.5-1.61.6
Liver weight, right6.310.510.63.3-3.23.2
Locomotor activity0.00.00.00.0-0.10.1
Locomotor testing distance1.42.42.6-1.61.5-1.5
Locomotor testing rearing0.00.00.00.1-0.20.2
Locomotion in novel chamber1.01.31.3-1.11.1-1.1
Locomotion in novel chamber post-restriction0.10.10.10.3-0.30.3
Fecal boli incidents, locomotor time 10.00.00.00.1-0.10.1
Change in fecal boli incidents, locomotor task0.10.10.10.4-0.40.4
Time >=10cm from walls, locomotor time 10.30.30.3-0.60.6-0.6
Bouts of movement, locomotor time 10.00.10.1-0.20.2-0.2
Total resting periods, locomotor time 10.10.10.1-0.40.4-0.4
Rest time, locomotor task time 10.10.10.1-0.30.3-0.3
Distance moved, locomotor task time 10.30.40.40.6-0.60.6
Vertical activity count, locomotor time 10.00.00.00.1-0.10.1
Time >=10cm from walls, locomotor time 22.42.52.51.6-1.61.6
Bouts of movement, locomotor time 20.80.90.9-0.90.9-0.9
Total resting periods, locomotor time 20.91.01.0-1.01.0-1.0
Rest time, locomotor task time 20.80.90.9-0.90.9-0.9
Distance moved, locomotor task time 22.63.03.01.7-1.71.7
Vertical activity count, locomotor time 21.11.21.21.1-1.11.1
Light reinforcement 10.20.30.30.6-0.60.6
Light reinforcement 20.30.40.40.7-0.60.6
Bone: marrow area0.61.31.3-1.11.1-1.1
Bone: maximum diameter0.81.51.5-1.21.2-1.2
Bone: maximum force0.10.10.10.4-0.40.4
Bone: maximum moment0.10.10.1-0.30.3-0.3
Mean time between licks in bursts6.08.48.42.9-2.92.9
Mean num. licks in bursts0.00.00.0-0.00.0-0.0
Cd content in liver1.01.11.1-1.11.1-1.1
Co content in liver0.10.20.20.4-0.40.4
Cu content in liver0.30.30.30.6-0.60.6
Fe content in liver0.80.90.9-1.01.0-1.0
K content in liver1.11.11.11.1-1.11.1
Mg content in liver0.30.30.3-0.50.5-0.5
Mn content in liver0.10.10.10.4-0.40.4
Na content in liver3.03.23.21.8-1.81.8
Rb content in liver0.70.80.80.9-0.90.9
Se content in liver0.91.21.2-1.11.1-1.1
Sr content in liver0.10.10.1-0.30.3-0.3
Zn content in liver0.60.60.6-0.80.8-0.8
Bone: minimum diameter1.83.33.3-1.81.8-1.8
Time in familiar zone, hab. session 12.82.72.71.6-1.61.6
Time in novel zone, hab. session 16.96.86.8-2.62.6-2.6
Total zone transitions, hab. session 11.11.51.61.2-1.21.2
Total locomotion distance, hab. session 10.10.10.10.3-0.30.3
Locomotion velocity, hab. session 10.10.10.10.3-0.40.4
Time in familiar zone, hab. session 20.60.60.60.8-0.80.8
Time in novel zone, hab. session 21.11.11.1-1.01.0-1.0
Total zone transitions, hab. session 24.86.26.32.5-2.52.5
Total locomotion distance, hab. session 22.73.53.61.8-1.91.9
Locomotion velocity, hab. session 22.12.93.01.7-1.71.7
Novel to familiar place preference ratio0.80.80.8-0.90.9-0.9
Novelty place preference0.40.40.4-0.70.6-0.6
Time in novel zone, NPP test0.60.60.6-0.80.7-0.7
Total zone transitions, NPP test1.72.52.51.6-1.61.6
Total locomotion distance, NPP test0.30.50.50.6-0.70.7
Locomotion velocity, NPP test0.40.50.60.7-0.80.8
Intraocular pressure0.00.00.0-0.20.2-0.2
Delta distance traveled before/after self-admin1.71.81.8-1.31.4-1.4
Delta ambulatory time before/after self-admin1.41.51.5-1.21.2-1.2
Parametrial fat weight3.97.67.6-2.82.8-2.8
Pavlov. Cond. lever latency0.50.70.70.7-0.90.9
Pavlov. Cond. magazine entry latency0.30.40.50.7-0.60.6
Pavlov. Cond. change in total contacts0.50.50.6-0.60.8-0.8
Pavlov. Cond. index score0.00.00.0-0.10.2-0.2
Pavlov. Cond. latency score0.00.10.1-0.10.3-0.3
Pavlov. Cond. lever contacts0.10.10.1-0.30.4-0.4
Pavlov. Cond. magazine entry number0.60.70.8-0.90.8-0.8
Pavlov. Cond. intertrial magazine entries0.50.60.60.8-0.70.7
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.00.2-0.2
Pavlov. Cond. response bias0.10.10.10.4-0.30.3
Pavlov. Cond. lever latency1.01.41.41.2-1.21.2
Pavlov. Cond. magazine entry latency1.82.12.1-1.41.4-1.4
Pavlov. Cond. change in total contacts2.12.82.8-1.71.7-1.7
Pavlov. Cond. index score1.72.22.2-1.51.5-1.5
Pavlov. Cond. latency score1.31.71.7-1.31.3-1.3
Pavlov. Cond. lever contacts2.33.13.1-1.81.8-1.8
Pavlov. Cond. magazine entry number0.60.70.70.9-0.90.9
Pavlov. Cond. intertrial magazine entries1.52.02.01.4-1.41.4
Pavlov. Cond. lever-magazine prob. diff.1.72.12.1-1.51.5-1.5
Pavlov. Cond. response bias1.92.62.6-1.61.6-1.6
Time in closed arm before self-admin0.00.00.00.1-0.10.1
Time in closed arm after self-admin0.00.00.0-0.00.0-0.0
Time in open arm before self-admin0.00.10.1-0.20.2-0.2
Time in open arm after self-admin2.52.82.8-1.71.7-1.7
Bone: periosteal estimation0.71.41.4-1.21.2-1.2
Bone: periosteal perimeter0.81.41.4-1.21.2-1.2
Bone: post-yield work1.41.91.9-1.41.4-1.4
Progressive ratio test 1 active lever presses3.63.83.82.0-1.91.9
Progressive ratio test 1 breakpoint4.64.84.92.2-2.22.2
Progressive ratio test 1 inactive lever presses1.01.11.21.1-1.11.1
Progressive ratio test 2 active lever presses0.20.20.30.5-0.50.5
Progressive ratio test 2 breakpoint0.30.30.30.6-0.60.6
Progressive ratio test 2 inactive lever presses0.00.00.00.0-0.00.0
Incentive Sensitization - Responses0.10.10.1-0.30.3-0.3
Incentive Sensitization - Breakpoint0.10.10.1-0.40.4-0.4
Sum of active levers in priming session hrs 5-61.61.61.61.2-1.31.3
Progressive ratio0.30.40.40.6-0.60.6
Food seeking constrained by brief footshock5.56.86.82.6-2.62.6
Seeking ratio, punishment vs. effort1.01.21.21.1-1.11.1
Retroperitoneal fat weight0.30.80.90.9-0.90.9
Reaction time number correct0.10.10.1-0.20.3-0.3
Reaction time mean minus median0.70.90.9-0.90.9-0.9
Reaction time mean minus median AUC0.20.20.2-0.40.5-0.5
Reaction time num false alarms0.30.50.5-0.70.7-0.7
Reaction time num false alarms AUC1.01.31.3-1.21.2-1.2
Reaction time trials correct on left0.10.10.1-0.20.3-0.3
Reaction time trials on left0.10.10.1-0.30.3-0.3
Reaction time mean0.70.90.9-1.01.0-1.0
Reaction time mean AUC0.30.40.4-0.60.6-0.6
Median of all reaction times0.60.80.8-0.90.9-0.9
Reaction time omissions0.20.30.3-0.60.6-0.6
Reaction time false alarm rate1.01.31.4-1.21.1-1.1
Reaction time premature initiation rate0.10.10.10.3-0.30.3
Reaction time premature initiations0.10.10.20.4-0.40.4
Std. dev. reaction times2.13.03.0-1.71.7-1.7
Reaction time trials completed0.10.10.1-0.30.3-0.3
Reaction time trials AUC0.10.10.1-0.30.3-0.3
Run reversals in cocaine runway, females0.00.00.0-0.1-0.00.0
Run reversals in cocaine runway, males0.50.50.5-0.70.7-0.7
Latency to leave start box in cocaine runway0.30.40.40.6-0.60.6
Latency to leave start box in cocaine runway, F0.10.10.10.2-0.30.3
Latency to leave start box in cocaine runway, M0.30.30.30.5-0.50.5
Std. dev. time between licks in bursts0.00.00.0-0.00.0-0.0
Total sessions with >9 infusions1.31.41.51.2-1.21.2
Short access day 1 total inactive lever presses0.20.20.2-0.50.4-0.4
Short access day 10 total inactive lever presses2.32.52.5-1.61.6-1.6
Short access day 1 total infusions0.00.00.00.0-0.00.0
Short access day 10 total infusions0.10.10.10.2-0.30.3
Short access total infusions0.00.00.0-0.00.0-0.0
Short access day 1 locomotion0.20.30.3-0.50.5-0.5
Short access day 10 total locomotion0.00.00.0-0.10.1-0.1
Short access total locomotion0.20.20.20.4-0.40.4
One hour access (0.3 mA shock)0.10.10.1-0.20.3-0.3
Compulsive drug intake5.85.95.9-2.42.4-2.4
One hour access (shock baseline)2.22.52.51.6-1.61.6
Social response proportion0.30.30.3-0.50.6-0.6
Social responses0.70.90.91.0-0.90.9
Social time0.10.10.10.3-0.30.3
Soleus weight0.10.20.20.5-0.50.5
Bone: stiffness0.10.10.10.3-0.30.3
Tibialis anterior weight8.428.728.7-5.35.4-5.4
Time to tail flick, vehicle, before self-admin2.22.22.3-1.51.5-1.5
Time to tail flick, vehicle, after self-admin1.61.71.8-1.31.3-1.3
Time to tail flick, test, before self-admin0.20.10.2-0.40.4-0.4
Time to tail flick, test, after self-admin0.10.10.1-0.30.2-0.2
Delta time to tail flick, vehicle, before/after SA0.50.50.50.7-0.70.7
Delta time to tail flick, test, before/after SA0.30.30.3-0.50.5-0.5
Tibia length2.26.16.22.5-2.52.5
Ambulatory time before self-admin0.00.00.00.1-0.10.1
Ambulatory time after self-admin1.71.91.9-1.31.4-1.4
Bone: tissue strength0.70.70.7-0.80.8-0.8
Total heroin consumption1.41.61.61.2-1.31.3
Bone: trabecular number0.00.00.00.1-0.10.1
Bone: trabecular spacing0.00.10.10.2-0.20.2
Bone: trabecular thickness0.10.10.10.3-0.30.3
Bone: trabecular tissue density16.222.822.84.8-4.84.8
Water consumed over 24 hours0.20.20.2-0.50.5-0.5
Number of responses in last shaping day0.00.00.00.1-0.10.1