Vps16

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 pVTA mRNA stability Vps16 0.05 0.04 4.7e-04 0.02 0.01 0.03 0.03 4.9e-03 6.5e-02 1.1e-03 2.6e-03
2 Liver gene expression Vps16 0.17 0.11 0.0e+00 0.13 0.13 0.13 0.14 1.4e-14 3.1e-14 2.0e-14 9.2e-15
3 NAcc gene expression Vps16 0.01 0.01 7.6e-03 0.01 0.01 0.01 0.01 1.7e-03 3.3e-03 2.6e-03 2.6e-03
4 Brain mRNA stability Vps16 0.03 0.03 2.3e-03 0.01 0.02 0.02 0.02 2.6e-02 4.4e-03 4.1e-03 1.1e-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 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 4
Bone: apparent density0.30.51.51.2-0.5-0.60.0
Area under the delay curve0.30.40.8-0.90.40.60.0
BMI with tail0.10.30.40.5-0.6-0.60.0
BMI without tail1.64.87.62.2-2.8-2.60.0
Body weight2.510.815.43.7-3.9-3.80.0
Weight adjusted by age2.13.24.92.2-2.2-1.80.0
Bone surface0.50.92.11.4-0.9-1.00.0
Bone volume0.50.92.01.4-0.9-0.90.0
Breakpoint value in progressive ratio session1.72.13.11.5-1.8-1.70.0
Number of licking bursts0.20.20.7-0.80.40.40.0
Context. condit. distance diff. score0.10.10.40.6-0.1-0.00.0
Locomotion velocity, session 10.20.30.50.7-0.5-0.50.0
Locomotion distance, session 10.30.41.41.2-0.4-0.30.0
Locomotion velocity, session 20.10.10.2-0.10.40.40.0
Locomotion distance, session 21.11.63.61.9-1.2-1.20.0
Locomotion velocity, session 30.91.11.51.2-1.2-1.20.0
Locomotion distance, session 34.85.27.12.6-2.6-2.70.0
Stereotopy head waving bouts, day 30.50.61.3-0.41.01.10.0
Stereotopy head waving duration, day 30.50.61.0-0.71.01.00.0
Locomotion velocity, session 70.70.71.11.0-1.0-0.90.0
Locomotion distance, session 70.60.81.61.3-0.9-0.90.0
Stereotopy head waving bouts, day 70.30.30.60.4-0.7-0.80.0
Stereotopy head waving duration, day 70.10.10.20.2-0.3-0.40.0
Locomotion velocity, session 80.40.51.51.2-0.5-0.50.0
Locomotion distance, session 81.92.86.82.6-1.5-1.40.0
Degree of sensitization distance1.21.21.9-1.11.31.40.0
Degree of sensitization stereotypy1.61.72.91.1-1.6-1.70.0
Conditioned locomotion3.23.75.92.4-2.1-2.10.0
Cocaine response after cond. corrected0.10.10.2-0.10.40.40.0
Cocaine response after cond. not corrected0.10.10.2-0.40.50.40.0
Cocaine response before conditioning0.10.10.4-0.60.10.30.0
Saline control response6.18.111.23.3-3.3-3.30.0
Bone: connectivity density0.10.20.60.8-0.0-0.20.0
Bone: cortical apparent density0.60.81.50.4-1.2-1.20.0
Bone: cortical area2.74.15.62.3-2.3-2.40.0
Bone: cortical porosity0.20.20.6-0.7-0.3-0.20.0
Bone: cortical porosity0.20.20.5-0.1-0.7-0.60.0
Bone: cortical thickness1.11.82.81.3-1.6-1.70.0
Bone: cortical thickness0.10.20.30.4-0.4-0.60.0
Bone: cortical tissue density0.40.61.20.2-1.1-1.00.0
Condit. Reinf. active minus inactive responses0.40.40.80.5-0.8-0.90.0
Condit. Reinf. active-inactive response ratio0.50.50.70.8-0.8-0.90.0
Condit. Reinf. active responses0.30.30.60.3-0.8-0.70.0
Condit. Reinf. inactive responses0.00.00.00.0-0.1-0.00.0
Incentive salience index mean0.20.20.50.3-0.6-0.70.0
Condit. Reinf. lever presses0.00.00.10.0-0.2-0.30.0
Condit. Reinf. active minus inactive responses2.22.83.82.0-1.9-1.90.0
Condit. Reinf. active-inactive response ratio1.92.23.01.7-1.7-1.70.0
Condit. Reinf. active responses3.44.86.52.6-2.5-2.50.0
Condit. Reinf. inactive responses0.60.81.41.2-1.0-1.00.0
Condit. Reinf. lever presses1.11.52.41.2-1.5-1.50.0
Condit. Reinf. lever reinforcers received2.73.85.32.3-2.2-2.20.0
Conditioned reinforcement - actives0.00.10.2-0.40.00.30.0
Conditioned reinforcement - inactives0.10.20.70.9-0.3-0.20.0
Conditioned locomotion0.10.10.3-0.60.30.20.0
Patch foraging indifference point 0 sec0.20.41.31.2-0.4-0.30.0
Patch foraging indifference point AUC0.50.81.11.0-1.0-1.00.0
Delay disc. indifference point, 0s delay2.32.54.3-2.11.71.70.0
Delay disc. indifference point, 16s delay0.50.61.2-1.10.70.80.0
Delay disc. indifference point, 2s delay0.10.10.1-0.40.30.30.0
Delay disc. indifference point, 24s delay1.82.03.6-1.91.41.60.0
Delay disc. indifference point, 4s delay0.00.00.1-0.2-0.3-0.10.0
Delay disc. indifference point, 8s delay0.40.51.2-1.10.40.70.0
Indifference point function ln k0.10.10.20.5-0.3-0.30.0
Indifference point function log k0.10.10.20.5-0.3-0.30.0
Patch foraging total patch changes 0 sec0.30.51.61.3-0.5-0.40.0
Patch foraging total patch changes 12 sec0.40.50.91.0-0.8-0.60.0
Patch foraging total patch changes 18 sec0.20.30.7-0.40.70.80.0
Patch foraging total patch changes 24 sec0.61.01.9-0.51.41.40.0
Patch foraging total patch changes 6 sec0.71.02.61.6-1.0-0.70.0
Patch foraging time to switch 0 sec1.73.46.6-2.61.82.00.0
Patch foraging water rate 0 sec3.36.913.73.7-2.5-2.80.0
Patch foraging water rate 12 sec0.10.30.70.8-0.5-0.50.0
Patch foraging water rate 18 sec0.30.40.70.8-0.6-0.80.0
Patch foraging water rate 24 sec0.50.71.10.7-1.0-1.00.0
Patch foraging water rate 6 sec1.82.64.01.9-1.7-2.00.0
Seeking ratio, delayed vs. immediate footshock0.20.20.4-0.50.30.60.0
Distance traveled before self-admin3.44.57.52.7-2.4-2.20.0
Distance traveled after self-admin1.51.93.01.7-1.6-1.40.0
Extensor digitorum longus weight0.00.10.20.4-0.5-0.40.0
Bone: elastic displacement0.10.10.4-0.60.10.10.0
Bone: elastic work0.00.00.2-0.4-0.0-0.10.0
Bone: endosteal estimation0.61.22.21.5-1.2-1.20.0
Bone: endosteal perimeter2.14.57.52.7-2.3-2.30.0
Epididymis fat weight0.00.10.1-0.30.30.10.0
Delta time in closed arm before/after self-admin0.60.50.9-0.90.80.80.0
Delta time in open arm before/after self-admin1.01.02.81.7-0.7-0.80.0
Diff in mean of infusions in LGA sessions0.10.10.20.2-0.5-0.20.0
Delay discount exponential model param0.30.30.70.8-0.4-0.60.0
Extinction: sum of active levers before priming0.91.01.61.1-1.3-1.10.0
Active lever presses in extinction session 60.00.00.0-0.00.00.20.0
Bone: final force2.64.16.02.2-2.4-2.50.0
Bone: final moment2.03.24.62.0-2.0-2.20.0
Food consumed during 24 hour testing period0.50.71.2-0.61.11.10.0
Glucose0.10.10.30.5-0.3-0.40.0
Heart weight2.84.38.52.9-2.0-2.10.0
Delay discount hyperbolic model param0.30.30.60.8-0.4-0.60.0
Intermittent access intake day 1-15 change0.10.10.20.2-0.4-0.50.0
Intermittent access intake escalation0.10.10.20.1-0.4-0.50.0
Intermittent access intake escalation 20.00.00.10.1-0.3-0.30.0
Intermitt. access day 1 inactive lever presses0.10.41.11.0-0.6-0.50.0
Intermitt. access day 15 inactive lever presses0.00.10.20.40.40.30.0
Intermitt. access escalation Index0.10.10.20.4-0.2-0.50.0
Intermittent access day 1 total infusions0.00.00.1-0.2-0.0-0.00.0
Intermittent access day 15 total infusions0.00.00.10.1-0.3-0.20.0
Intermittent access terminal intake (last 3 days)0.00.10.10.2-0.3-0.20.0
Intermittent access total infusions0.00.00.10.1-0.3-0.10.0
Intermittent access day 1 locomotion0.10.10.1-0.30.30.30.0
Intermittent access day 15 total locomotion0.10.10.50.7-0.2-0.20.0
Intermittent access total locomotion0.10.10.20.5-0.4-0.40.0
Intermittent access standard deviation0.10.30.60.4-0.7-0.70.0
Left kidney weight0.10.41.31.1-0.1-0.40.0
Right kidney weight0.10.41.31.1-0.2-0.30.0
Cocaine induced anxiety2.94.16.5-2.12.62.40.0
Post-drug Anxiety2.42.53.9-1.72.01.80.0
Baseline Anxiety0.10.10.20.1-0.5-0.40.0
Tail length3.112.116.83.9-4.1-4.10.0
Length with tail4.620.027.25.1-5.2-5.20.0
Length without tail1.96.39.83.1-2.7-2.80.0
Times rat made contact with spout0.00.00.10.30.20.20.0
Lifetime Intake0.10.10.20.4-0.5-0.30.0
Liver weight, left0.71.11.81.4-1.1-1.20.0
Liver weight, right0.20.30.60.4-0.6-0.80.0
Locomotor activity0.10.20.30.4-0.5-0.60.0
Locomotor testing distance0.00.00.1-0.10.30.20.0
Locomotor testing rearing0.20.51.01.0-0.7-0.70.0
Locomotion in novel chamber0.00.00.1-0.2-0.3-0.30.0
Locomotion in novel chamber post-restriction0.40.60.80.9-0.9-0.90.0
Fecal boli incidents, locomotor time 10.00.00.0-0.0-0.20.10.0
Change in fecal boli incidents, locomotor task0.10.10.1-0.30.30.40.0
Time >=10cm from walls, locomotor time 10.00.00.10.0-0.3-0.30.0
Bouts of movement, locomotor time 11.72.03.1-1.81.51.50.0
Total resting periods, locomotor time 11.51.62.7-1.61.31.40.0
Rest time, locomotor task time 10.20.30.7-0.80.40.60.0
Distance moved, locomotor task time 10.00.00.10.30.1-0.00.0
Vertical activity count, locomotor time 10.10.20.60.8-0.2-0.30.0
Time >=10cm from walls, locomotor time 20.00.00.1-0.30.1-0.00.0
Bouts of movement, locomotor time 20.50.81.4-1.21.00.90.0
Total resting periods, locomotor time 20.40.81.6-1.30.90.80.0
Rest time, locomotor task time 20.30.41.2-1.10.20.40.0
Distance moved, locomotor task time 20.10.10.40.70.40.10.0
Vertical activity count, locomotor time 20.30.41.61.30.0-0.30.0
Light reinforcement 10.51.12.10.9-1.4-1.30.0
Light reinforcement 20.40.71.20.8-1.1-0.90.0
Bone: marrow area0.51.22.11.4-1.1-1.10.0
Bone: maximum diameter3.66.710.23.2-2.9-2.90.0
Bone: maximum force0.81.42.01.4-1.4-1.40.0
Bone: maximum moment0.40.71.01.0-0.9-1.00.0
Mean time between licks in bursts0.00.00.0-0.20.20.20.0
Mean num. licks in bursts0.20.31.11.0-0.3-0.30.0
Cd content in liver1.61.83.01.4-1.7-1.60.0
Co content in liver1.92.23.61.5-1.9-1.70.0
Cu content in liver2.73.24.62.1-2.0-2.10.0
Fe content in liver0.00.00.10.1-0.2-0.10.0
K content in liver0.30.30.50.7-0.5-0.70.0
Mg content in liver2.62.74.01.9-1.8-2.00.0
Mn content in liver2.22.43.41.9-1.8-1.80.0
Na content in liver0.30.30.6-0.50.70.80.0
Rb content in liver3.74.37.02.6-2.3-2.20.0
Se content in liver0.91.01.41.2-1.2-1.20.0
Sr content in liver0.30.30.50.7-0.6-0.50.0
Zn content in liver1.31.42.41.2-1.4-1.50.0
Bone: minimum diameter1.42.64.02.0-1.8-1.80.0
Time in familiar zone, hab. session 11.00.91.5-1.01.11.20.0
Time in novel zone, hab. session 10.40.40.80.9-0.6-0.70.0
Total zone transitions, hab. session 10.10.20.50.7-0.4-0.30.0
Total locomotion distance, hab. session 10.10.10.30.6-0.10.10.0
Locomotion velocity, hab. session 10.10.10.40.7-0.2-0.10.0
Time in familiar zone, hab. session 21.11.21.9-1.01.41.30.0
Time in novel zone, hab. session 21.21.21.91.1-1.4-1.30.0
Total zone transitions, hab. session 21.92.43.61.7-1.9-1.70.0
Total locomotion distance, hab. session 20.60.81.91.4-0.9-0.70.0
Locomotion velocity, hab. session 20.30.41.21.1-0.5-0.40.0
Novel to familiar place preference ratio0.10.10.2-0.00.50.40.0
Novelty place preference0.20.20.5-0.20.70.60.0
Time in novel zone, NPP test0.10.10.3-0.10.50.50.0
Total zone transitions, NPP test0.10.10.20.3-0.5-0.30.0
Total locomotion distance, NPP test0.20.30.90.9-0.4-0.20.0
Locomotion velocity, NPP test0.10.10.30.6-0.00.10.0
Intraocular pressure0.00.00.1-0.0-0.2-0.10.0
Delta distance traveled before/after self-admin0.10.10.20.2-0.4-0.40.0
Delta ambulatory time before/after self-admin0.40.51.0-1.00.70.80.0
Parametrial fat weight0.20.40.8-0.90.60.60.0
Pavlov. Cond. lever latency0.20.20.50.3-0.7-0.60.0
Pavlov. Cond. magazine entry latency0.10.10.20.3-0.4-0.50.0
Pavlov. Cond. change in total contacts0.00.00.10.3-0.1-0.20.0
Pavlov. Cond. index score0.00.00.0-0.10.20.10.0
Pavlov. Cond. latency score0.10.10.2-0.20.50.40.0
Pavlov. Cond. lever contacts0.00.00.00.10.20.10.0
Pavlov. Cond. magazine entry number0.30.30.6-0.30.80.80.0
Pavlov. Cond. intertrial magazine entries0.10.10.40.6-0.2-0.20.0
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.10.10.10.0
Pavlov. Cond. response bias0.20.20.40.5-0.6-0.60.0
Pavlov. Cond. lever latency3.24.46.8-2.12.62.50.0
Pavlov. Cond. magazine entry latency0.00.10.20.4-0.1-0.00.0
Pavlov. Cond. change in total contacts2.33.65.71.9-2.4-2.30.0
Pavlov. Cond. index score2.22.94.41.8-2.1-2.00.0
Pavlov. Cond. latency score1.72.33.41.7-1.8-1.80.0
Pavlov. Cond. lever contacts2.83.95.92.0-2.4-2.30.0
Pavlov. Cond. magazine entry number0.50.60.8-0.90.90.90.0
Pavlov. Cond. intertrial magazine entries0.50.71.1-0.91.01.00.0
Pavlov. Cond. lever-magazine prob. diff.1.92.53.71.7-1.9-1.80.0
Pavlov. Cond. response bias3.14.26.22.2-2.5-2.40.0
Time in closed arm before self-admin0.30.40.9-1.00.60.40.0
Time in closed arm after self-admin1.11.22.5-1.61.11.00.0
Time in open arm before self-admin0.20.20.3-0.60.30.50.0
Time in open arm after self-admin0.60.71.81.3-0.7-0.60.0
Bone: periosteal estimation1.83.85.42.3-2.2-2.20.0
Bone: periosteal perimeter2.64.47.92.8-2.2-2.20.0
Bone: post-yield work0.30.50.6-0.70.80.80.0
Progressive ratio test 1 active lever presses0.91.22.01.2-1.4-1.20.0
Progressive ratio test 1 breakpoint1.01.22.01.2-1.4-1.20.0
Progressive ratio test 1 inactive lever presses0.10.10.20.4-0.4-0.30.0
Progressive ratio test 2 active lever presses0.20.30.70.8-0.6-0.40.0
Progressive ratio test 2 breakpoint0.30.30.80.9-0.6-0.40.0
Progressive ratio test 2 inactive lever presses0.50.71.71.3-0.9-0.70.0
Incentive Sensitization - Responses0.10.10.40.7-0.3-0.30.0
Incentive Sensitization - Breakpoint0.10.10.30.5-0.1-0.10.0
Sum of active levers in priming session hrs 5-60.80.81.31.2-1.0-0.90.0
Progressive ratio2.33.66.1-2.51.92.20.0
Food seeking constrained by brief footshock0.30.41.11.0-0.4-0.40.0
Seeking ratio, punishment vs. effort2.33.46.62.6-1.7-2.00.0
Retroperitoneal fat weight0.52.13.2-1.61.81.60.0
Reaction time number correct0.30.61.01.0-0.6-1.00.0
Reaction time mean minus median0.20.61.0-0.70.91.00.0
Reaction time mean minus median AUC0.10.30.5-0.40.60.70.0
Reaction time num false alarms1.52.24.02.0-1.6-1.50.0
Reaction time num false alarms AUC1.32.13.31.8-1.7-1.60.0
Reaction time trials correct on left0.30.61.01.0-0.6-1.00.0
Reaction time trials on left0.30.71.11.0-0.6-1.10.0
Reaction time mean0.00.00.1-0.3-0.00.00.0
Reaction time mean AUC0.00.00.1-0.30.10.10.0
Median of all reaction times0.00.00.1-0.1-0.2-0.20.0
Reaction time omissions0.60.81.31.1-1.1-0.90.0
Reaction time false alarm rate0.60.91.51.2-1.2-0.90.0
Reaction time premature initiation rate0.10.20.6-0.80.30.30.0
Reaction time premature initiations0.00.10.2-0.40.2-0.00.0
Std. dev. reaction times0.10.10.20.1-0.5-0.40.0
Reaction time trials completed0.30.71.11.0-0.6-1.10.0
Reaction time trials AUC0.40.71.21.1-0.7-1.10.0
Run reversals in cocaine runway, females0.00.00.10.10.30.10.0
Run reversals in cocaine runway, males0.80.81.31.1-1.0-1.00.0
Latency to leave start box in cocaine runway0.40.51.0-0.71.00.60.0
Latency to leave start box in cocaine runway, F1.01.22.0-1.31.41.00.0
Latency to leave start box in cocaine runway, M0.20.20.30.6-0.5-0.60.0
Std. dev. time between licks in bursts0.30.40.70.8-0.6-0.60.0
Total sessions with >9 infusions0.10.20.40.3-0.6-0.40.0
Short access day 1 total inactive lever presses1.92.53.7-1.91.71.90.0
Short access day 10 total inactive lever presses0.71.62.5-1.31.61.50.0
Short access day 1 total infusions0.10.10.2-0.20.30.50.0
Short access day 10 total infusions0.20.20.6-0.80.30.30.0
Short access total infusions0.00.00.10.0-0.3-0.10.0
Short access day 1 locomotion0.40.50.9-0.41.01.00.0
Short access day 10 total locomotion0.00.00.00.00.00.10.0
Short access total locomotion0.00.00.00.10.10.20.0
One hour access (0.3 mA shock)0.00.00.00.00.10.10.0
Compulsive drug intake1.31.52.2-1.41.41.50.0
One hour access (shock baseline)0.30.50.80.9-0.8-0.90.0
Social response proportion1.31.53.11.8-1.2-1.10.0
Social responses3.84.96.62.5-2.6-2.60.0
Social time0.30.50.80.7-0.9-0.80.0
Soleus weight0.00.10.30.5-0.2-0.10.0
Bone: stiffness1.93.04.12.0-2.0-2.00.0
Tibialis anterior weight0.82.73.71.8-1.9-1.90.0
Time to tail flick, vehicle, before self-admin0.91.01.5-1.11.21.00.0
Time to tail flick, vehicle, after self-admin0.50.71.1-1.01.10.80.0
Time to tail flick, test, before self-admin0.91.01.70.7-1.3-1.30.0
Time to tail flick, test, after self-admin0.20.20.4-0.40.60.50.0
Delta time to tail flick, vehicle, before/after SA1.81.72.31.5-1.5-1.50.0
Delta time to tail flick, test, before/after SA0.70.71.3-0.51.21.10.0
Tibia length3.49.414.03.3-3.6-3.70.0
Ambulatory time before self-admin2.13.24.72.2-2.1-1.90.0
Ambulatory time after self-admin2.32.73.82.0-2.0-1.80.0
Bone: tissue strength0.10.10.20.5-0.4-0.30.0
Total heroin consumption2.73.14.82.0-2.2-1.90.0
Bone: trabecular number0.60.91.81.4-0.9-1.00.0
Bone: trabecular spacing0.10.10.4-0.60.10.20.0
Bone: trabecular thickness0.40.51.11.1-0.6-0.70.0
Bone: trabecular tissue density1.52.23.01.7-1.7-1.60.0
Water consumed over 24 hours0.00.00.1-0.30.20.20.0
Number of responses in last shaping day0.00.10.10.2-0.3-0.20.0