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_118822056_118822310 0.14 0.17 4.0e-04 0.02 0.01 0 0.01 4.5e-03 1.3e-02 3.0e-01 2.9e-02
2 Liver intron excision ratio chr5_118822405_118824571 0.12 0.13 6.4e-06 0.03 0.03 0.02 0.02 1.5e-04 4.1e-04 3.8e-03 9.5e-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
Bone: apparent density0.40.70.7-0.80.8
Area under the delay curve0.10.10.1-0.30.3
BMI with tail0.51.61.61.3-1.3
BMI without tail0.73.63.61.9-1.9
Body weight0.10.60.60.8-0.8
Weight adjusted by age0.61.71.71.3-1.3
Bone surface1.52.92.91.7-1.7
Bone volume0.30.50.50.7-0.7
Breakpoint value in progressive ratio session0.40.70.7-0.90.9
Number of licking bursts0.00.10.10.3-0.3
Context. condit. distance diff. score2.42.92.9-1.71.7
Locomotion velocity, session 10.00.00.00.2-0.2
Locomotion distance, session 10.81.11.1-1.01.0
Locomotion velocity, session 20.00.00.00.2-0.2
Locomotion distance, session 20.10.10.10.4-0.4
Locomotion velocity, session 30.00.00.0-0.20.2
Locomotion distance, session 30.00.00.00.2-0.2
Stereotopy head waving bouts, day 30.50.60.6-0.80.8
Stereotopy head waving duration, day 31.21.51.5-1.21.2
Locomotion velocity, session 70.50.60.6-0.80.8
Locomotion distance, session 70.20.30.3-0.50.5
Stereotopy head waving bouts, day 70.50.50.50.7-0.7
Stereotopy head waving duration, day 70.60.80.80.9-0.9
Locomotion velocity, session 80.20.20.2-0.50.5
Locomotion distance, session 80.81.11.1-1.11.1
Degree of sensitization distance0.00.00.00.1-0.1
Degree of sensitization stereotypy0.70.80.80.9-0.9
Conditioned locomotion0.10.10.1-0.40.4
Cocaine response after cond. corrected0.20.40.40.6-0.6
Cocaine response after cond. not corrected0.20.30.30.5-0.5
Cocaine response before conditioning0.00.00.00.0-0.0
Saline control response0.00.00.0-0.10.1
Bone: connectivity density1.32.02.01.4-1.4
Bone: cortical apparent density5.48.58.5-2.92.9
Bone: cortical area0.20.40.40.6-0.6
Bone: cortical porosity0.30.30.30.6-0.6
Bone: cortical porosity0.50.50.50.7-0.7
Bone: cortical thickness0.30.40.4-0.70.7
Bone: cortical thickness0.10.20.2-0.40.4
Bone: cortical tissue density5.38.58.5-2.92.9
Condit. Reinf. active minus inactive responses0.30.40.40.6-0.6
Condit. Reinf. active-inactive response ratio0.00.00.00.1-0.1
Condit. Reinf. active responses1.01.31.31.1-1.1
Condit. Reinf. inactive responses0.50.70.70.8-0.8
Incentive salience index mean0.30.40.40.7-0.7
Condit. Reinf. lever presses0.00.00.0-0.00.0
Condit. Reinf. active minus inactive responses0.81.21.2-1.11.1
Condit. Reinf. active-inactive response ratio0.20.30.3-0.60.6
Condit. Reinf. active responses0.50.70.7-0.80.8
Condit. Reinf. inactive responses0.91.31.3-1.11.1
Condit. Reinf. lever presses1.92.72.71.6-1.6
Condit. Reinf. lever reinforcers received0.20.20.2-0.50.5
Conditioned reinforcement - actives0.00.10.1-0.30.3
Conditioned reinforcement - inactives0.10.10.1-0.40.4
Conditioned locomotion0.10.20.2-0.50.5
Patch foraging indifference point 0 sec3.810.610.63.3-3.3
Patch foraging indifference point AUC0.51.11.11.1-1.1
Delay disc. indifference point, 0s delay2.22.52.5-1.61.6
Delay disc. indifference point, 16s delay1.42.02.01.4-1.4
Delay disc. indifference point, 2s delay0.00.00.0-0.00.0
Delay disc. indifference point, 24s delay0.00.00.0-0.10.1
Delay disc. indifference point, 4s delay1.31.41.4-1.21.2
Delay disc. indifference point, 8s delay0.61.01.0-1.01.0
Indifference point function ln k0.10.40.4-0.60.6
Indifference point function log k0.10.40.4-0.60.6
Patch foraging total patch changes 0 sec3.49.99.93.1-3.1
Patch foraging total patch changes 12 sec1.31.81.81.3-1.3
Patch foraging total patch changes 18 sec1.22.92.91.7-1.7
Patch foraging total patch changes 24 sec0.51.71.71.3-1.3
Patch foraging total patch changes 6 sec2.44.04.02.0-2.0
Patch foraging time to switch 0 sec0.41.41.4-1.21.2
Patch foraging water rate 0 sec0.52.02.01.4-1.4
Patch foraging water rate 12 sec1.24.74.72.2-2.2
Patch foraging water rate 18 sec0.20.30.30.6-0.6
Patch foraging water rate 24 sec0.00.00.0-0.00.0
Patch foraging water rate 6 sec0.00.00.00.1-0.1
Seeking ratio, delayed vs. immediate footshock0.00.00.00.2-0.2
Distance traveled before self-admin0.30.60.60.8-0.8
Distance traveled after self-admin0.81.51.51.2-1.2
Extensor digitorum longus weight0.52.22.2-1.51.5
Bone: elastic displacement0.70.90.9-0.90.9
Bone: elastic work1.62.12.1-1.51.5
Bone: endosteal estimation0.71.81.81.4-1.4
Bone: endosteal perimeter1.43.53.51.9-1.9
Epididymis fat weight0.00.20.2-0.40.4
Delta time in closed arm before/after self-admin0.00.00.0-0.10.1
Delta time in open arm before/after self-admin1.92.22.21.5-1.5
Diff in mean of infusions in LGA sessions0.00.00.0-0.00.0
Delay discount exponential model param0.10.10.10.3-0.3
Extinction: sum of active levers before priming0.30.40.4-0.60.6
Active lever presses in extinction session 60.00.00.00.0-0.0
Bone: final force0.20.40.4-0.60.6
Bone: final moment0.00.00.0-0.10.1
Food consumed during 24 hour testing period0.00.10.1-0.30.3
Glucose0.00.00.0-0.00.0
Heart weight2.94.64.6-2.12.1
Delay discount hyperbolic model param0.00.00.00.2-0.2
Intermittent access intake day 1-15 change0.00.20.2-0.50.5
Intermittent access intake escalation0.10.60.6-0.80.8
Intermittent access intake escalation 20.10.20.2-0.40.4
Intermitt. access day 1 inactive lever presses0.00.00.00.1-0.1
Intermitt. access day 15 inactive lever presses0.52.42.4-1.61.6
Intermitt. access escalation Index0.00.10.10.3-0.3
Intermittent access day 1 total infusions0.41.31.3-1.21.2
Intermittent access day 15 total infusions0.81.91.9-1.41.4
Intermittent access terminal intake (last 3 days)0.30.60.6-0.80.8
Intermittent access total infusions1.72.02.0-1.41.4
Intermittent access day 1 locomotion0.00.10.1-0.30.3
Intermittent access day 15 total locomotion0.00.00.0-0.10.1
Intermittent access total locomotion0.10.10.1-0.40.4
Intermittent access standard deviation0.31.51.5-1.21.2
Left kidney weight0.00.30.3-0.60.6
Right kidney weight0.10.80.8-0.90.9
Cocaine induced anxiety0.00.00.00.2-0.2
Post-drug Anxiety0.00.00.0-0.10.1
Baseline Anxiety0.00.00.0-0.10.1
Tail length0.00.10.1-0.40.4
Length with tail0.00.10.1-0.30.3
Length without tail0.00.00.0-0.10.1
Times rat made contact with spout0.00.00.0-0.00.0
Lifetime Intake1.62.02.0-1.41.4
Liver weight, left2.94.94.9-2.22.2
Liver weight, right2.13.73.7-1.91.9
Locomotor activity0.00.00.00.1-0.1
Locomotor testing distance1.02.42.41.5-1.5
Locomotor testing rearing0.00.00.0-0.00.0
Locomotion in novel chamber1.41.91.91.4-1.4
Locomotion in novel chamber post-restriction0.30.80.8-0.90.9
Fecal boli incidents, locomotor time 10.00.10.1-0.30.3
Change in fecal boli incidents, locomotor task0.10.10.1-0.30.3
Time >=10cm from walls, locomotor time 10.30.30.30.6-0.6
Bouts of movement, locomotor time 10.00.10.10.2-0.2
Total resting periods, locomotor time 10.10.10.10.3-0.3
Rest time, locomotor task time 10.30.50.50.7-0.7
Distance moved, locomotor task time 10.00.10.1-0.30.3
Vertical activity count, locomotor time 10.00.10.10.3-0.3
Time >=10cm from walls, locomotor time 21.02.82.8-1.71.7
Bouts of movement, locomotor time 20.20.80.80.9-0.9
Total resting periods, locomotor time 20.20.90.90.9-0.9
Rest time, locomotor task time 20.40.70.70.8-0.8
Distance moved, locomotor task time 21.41.91.9-1.41.4
Vertical activity count, locomotor time 20.20.60.6-0.80.8
Light reinforcement 10.00.10.1-0.40.4
Light reinforcement 20.10.20.2-0.50.5
Bone: marrow area0.61.51.51.2-1.2
Bone: maximum diameter0.61.21.21.1-1.1
Bone: maximum force0.00.00.0-0.10.1
Bone: maximum moment0.10.30.30.5-0.5
Mean time between licks in bursts1.37.97.9-2.82.8
Mean num. licks in bursts0.00.00.0-0.20.2
Cd content in liver0.80.80.80.9-0.9
Co content in liver0.10.10.1-0.30.3
Cu content in liver1.01.21.2-1.11.1
Fe content in liver0.10.10.1-0.30.3
K content in liver2.02.02.0-1.41.4
Mg content in liver0.30.30.30.6-0.6
Mn content in liver0.00.10.10.2-0.2
Na content in liver3.23.63.6-1.91.9
Rb content in liver0.50.60.6-0.80.8
Se content in liver0.10.20.20.4-0.4
Sr content in liver1.21.11.11.0-1.0
Zn content in liver0.60.70.70.8-0.8
Bone: minimum diameter1.63.03.01.7-1.7
Time in familiar zone, hab. session 12.12.32.3-1.51.5
Time in novel zone, hab. session 15.35.95.92.4-2.4
Total zone transitions, hab. session 11.21.81.8-1.31.3
Total locomotion distance, hab. session 10.10.10.1-0.30.3
Locomotion velocity, hab. session 10.10.10.1-0.40.4
Time in familiar zone, hab. session 20.40.50.5-0.70.7
Time in novel zone, hab. session 20.70.70.70.8-0.8
Total zone transitions, hab. session 25.26.66.6-2.62.6
Total locomotion distance, hab. session 22.83.63.6-1.91.9
Locomotion velocity, hab. session 22.22.92.9-1.71.7
Novel to familiar place preference ratio0.40.60.60.8-0.8
Novelty place preference0.20.30.30.5-0.5
Time in novel zone, NPP test0.40.40.40.7-0.7
Total zone transitions, NPP test1.92.92.9-1.71.7
Total locomotion distance, NPP test0.30.40.4-0.70.7
Locomotion velocity, NPP test0.40.50.5-0.70.7
Intraocular pressure0.00.00.0-0.10.1
Delta distance traveled before/after self-admin0.50.50.50.7-0.7
Delta ambulatory time before/after self-admin0.20.40.40.6-0.6
Parametrial fat weight5.914.014.03.7-3.7
Pavlov. Cond. lever latency0.50.70.7-0.80.8
Pavlov. Cond. magazine entry latency0.20.30.3-0.50.5
Pavlov. Cond. change in total contacts0.60.60.60.8-0.8
Pavlov. Cond. index score0.00.00.00.2-0.2
Pavlov. Cond. latency score0.10.10.10.3-0.3
Pavlov. Cond. lever contacts0.20.20.20.4-0.4
Pavlov. Cond. magazine entry number0.60.70.70.9-0.9
Pavlov. Cond. intertrial magazine entries0.30.30.3-0.60.6
Pavlov. Cond. lever-magazine prob. diff.0.10.10.10.3-0.3
Pavlov. Cond. response bias0.00.00.0-0.20.2
Pavlov. Cond. lever latency1.31.81.8-1.31.3
Pavlov. Cond. magazine entry latency1.42.02.01.4-1.4
Pavlov. Cond. change in total contacts0.82.12.11.4-1.4
Pavlov. Cond. index score1.11.71.71.3-1.3
Pavlov. Cond. latency score0.91.41.41.2-1.2
Pavlov. Cond. lever contacts1.42.12.11.4-1.4
Pavlov. Cond. magazine entry number0.50.60.6-0.80.8
Pavlov. Cond. intertrial magazine entries0.91.91.9-1.41.4
Pavlov. Cond. lever-magazine prob. diff.1.21.81.81.3-1.3
Pavlov. Cond. response bias1.31.71.71.3-1.3
Time in closed arm before self-admin0.00.00.0-0.20.2
Time in closed arm after self-admin0.10.20.2-0.40.4
Time in open arm before self-admin0.00.00.00.2-0.2
Time in open arm after self-admin3.23.53.51.9-1.9
Bone: periosteal estimation0.61.51.51.2-1.2
Bone: periosteal perimeter0.61.11.11.1-1.1
Bone: post-yield work1.01.71.71.3-1.3
Progressive ratio test 1 active lever presses2.64.64.6-2.12.1
Progressive ratio test 1 breakpoint3.05.25.2-2.32.3
Progressive ratio test 1 inactive lever presses1.74.44.4-2.12.1
Progressive ratio test 2 active lever presses0.20.30.3-0.60.6
Progressive ratio test 2 breakpoint0.50.60.6-0.80.8
Progressive ratio test 2 inactive lever presses0.10.30.3-0.60.6
Incentive Sensitization - Responses0.00.10.10.3-0.3
Incentive Sensitization - Breakpoint0.10.30.30.5-0.5
Sum of active levers in priming session hrs 5-60.40.30.3-0.60.6
Progressive ratio0.10.30.3-0.60.6
Food seeking constrained by brief footshock5.26.56.5-2.52.5
Seeking ratio, punishment vs. effort0.61.41.4-1.21.2
Retroperitoneal fat weight0.31.31.31.1-1.1
Reaction time number correct0.00.00.00.1-0.1
Reaction time mean minus median0.10.50.50.7-0.7
Reaction time mean minus median AUC0.00.00.00.2-0.2
Reaction time num false alarms0.20.30.30.5-0.5
Reaction time num false alarms AUC0.41.01.01.0-1.0
Reaction time trials correct on left0.00.00.00.1-0.1
Reaction time trials on left0.00.00.00.2-0.2
Reaction time mean0.30.70.70.8-0.8
Reaction time mean AUC0.10.20.20.5-0.5
Median of all reaction times0.50.70.70.9-0.9
Reaction time omissions0.40.60.60.8-0.8
Reaction time false alarm rate0.91.21.21.1-1.1
Reaction time premature initiation rate0.10.20.2-0.50.5
Reaction time premature initiations0.10.40.4-0.60.6
Std. dev. reaction times0.62.02.01.4-1.4
Reaction time trials completed0.00.00.00.2-0.2
Reaction time trials AUC0.00.00.00.2-0.2
Run reversals in cocaine runway, females0.10.10.1-0.30.3
Run reversals in cocaine runway, males0.60.70.70.8-0.8
Latency to leave start box in cocaine runway0.40.50.5-0.70.7
Latency to leave start box in cocaine runway, F0.00.00.00.0-0.0
Latency to leave start box in cocaine runway, M0.80.70.7-0.80.8
Std. dev. time between licks in bursts0.00.00.0-0.00.0
Total sessions with >9 infusions1.72.12.1-1.51.5
Short access day 1 total inactive lever presses0.20.40.4-0.60.6
Short access day 10 total inactive lever presses0.32.12.11.5-1.5
Short access day 1 total infusions0.30.50.5-0.70.7
Short access day 10 total infusions1.32.12.1-1.41.4
Short access total infusions0.81.21.2-1.11.1
Short access day 1 locomotion0.20.20.2-0.50.5
Short access day 10 total locomotion0.00.10.10.2-0.2
Short access total locomotion0.30.50.5-0.70.7
One hour access (0.3 mA shock)0.00.00.0-0.10.1
Compulsive drug intake2.84.14.12.0-2.0
One hour access (shock baseline)0.92.42.4-1.61.6
Social response proportion0.20.20.20.5-0.5
Social responses0.70.90.9-1.01.0
Social time0.00.10.1-0.30.3
Soleus weight0.00.10.1-0.30.3
Bone: stiffness0.00.00.0-0.00.0
Tibialis anterior weight8.429.029.05.4-5.4
Time to tail flick, vehicle, before self-admin1.51.81.81.3-1.3
Time to tail flick, vehicle, after self-admin0.81.71.71.3-1.3
Time to tail flick, test, before self-admin0.00.00.00.1-0.1
Time to tail flick, test, after self-admin0.20.20.2-0.40.4
Delta time to tail flick, vehicle, before/after SA0.20.20.2-0.40.4
Delta time to tail flick, test, before/after SA0.20.20.20.4-0.4
Tibia length2.98.08.0-2.82.8
Ambulatory time before self-admin0.00.10.10.4-0.4
Ambulatory time after self-admin0.81.31.31.1-1.1
Bone: tissue strength0.20.20.20.4-0.4
Total heroin consumption0.81.01.0-1.01.0
Bone: trabecular number0.20.30.3-0.50.5
Bone: trabecular spacing0.00.00.00.1-0.1
Bone: trabecular thickness0.20.30.3-0.50.5
Bone: trabecular tissue density12.221.321.3-4.64.6
Water consumed over 24 hours0.00.00.00.1-0.1
Number of responses in last shaping day0.00.00.0-0.20.2