Rab3a

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 RMTg gene expression Rab3a 0.11 0.08 9.3e-03 0.03 0.07 0.01 0.04 6.8e-02 5.0e-03 1.9e-01 3.2e-02
2 pVTA gene expression Rab3a 0.04 0.03 4.3e-04 0.05 0.04 0.04 0.04 7.8e-05 4.0e-04 6.3e-04 3.7e-04
3 IL gene expression Rab3a 0.41 0.22 1.6e-03 0.02 0.04 0.03 0.06 1.2e-01 3.7e-02 5.5e-02 1.9e-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
Bone: apparent density1.22.15.1-2.3-0.5-0.9
Area under the delay curve0.30.30.70.90.3-0.3
BMI with tail1.96.48.8-3.0-2.0-2.5
BMI without tail3.19.511.5-3.1-2.7-3.4
Body weight5.925.736.6-6.1-4.2-4.8
Weight adjusted by age2.43.73.9-1.8-2.0-1.9
Bone surface0.71.33.1-1.8-0.2-0.8
Bone volume1.52.75.4-2.3-0.8-1.4
Breakpoint value in progressive ratio session0.10.10.3-0.5-0.3-0.1
Number of licking bursts0.20.40.80.50.40.9
Context. condit. distance diff. score0.50.61.7-0.30.01.3
Locomotion velocity, session 10.20.30.4-0.60.60.2
Locomotion distance, session 11.11.42.70.21.61.2
Locomotion velocity, session 21.41.72.1-1.5-1.2-1.2
Locomotion distance, session 21.31.83.90.52.01.0
Locomotion velocity, session 31.01.23.10.30.61.8
Locomotion distance, session 30.60.61.3-0.10.81.1
Stereotopy head waving bouts, day 31.61.85.2-0.00.62.3
Stereotopy head waving duration, day 30.80.92.6-0.30.11.6
Locomotion velocity, session 71.21.41.81.31.21.0
Locomotion distance, session 71.62.03.11.81.50.9
Stereotopy head waving bouts, day 70.80.92.3-1.5-0.30.6
Stereotopy head waving duration, day 71.11.33.0-1.7-0.90.2
Locomotion velocity, session 81.61.94.20.21.22.0
Locomotion distance, session 80.71.01.6-0.21.31.1
Degree of sensitization distance0.80.82.11.40.60.0
Degree of sensitization stereotypy1.01.13.0-1.7-0.6-0.2
Conditioned locomotion0.00.00.00.20.1-0.2
Cocaine response after cond. corrected0.30.30.60.8-0.50.4
Cocaine response after cond. not corrected0.50.61.31.10.10.7
Cocaine response before conditioning0.50.61.40.51.20.5
Saline control response0.20.30.4-0.60.70.2
Bone: connectivity density0.91.42.5-1.6-0.3-1.2
Bone: cortical apparent density0.20.30.40.40.6-0.5
Bone: cortical area7.010.816.0-4.0-3.0-2.7
Bone: cortical porosity0.10.10.1-0.20.4-0.2
Bone: cortical porosity0.10.10.1-0.30.4-0.1
Bone: cortical thickness5.08.316.0-4.0-2.4-1.7
Bone: cortical thickness2.53.07.2-2.7-1.3-0.4
Bone: cortical tissue density0.30.40.50.60.7-0.4
Condit. Reinf. active minus inactive responses0.91.02.7-1.6-0.4-0.3
Condit. Reinf. active-inactive response ratio0.40.51.1-1.0-0.5-0.2
Condit. Reinf. active responses1.11.43.5-1.9-0.5-0.5
Condit. Reinf. inactive responses0.40.40.6-0.7-0.4-0.8
Incentive salience index mean1.72.15.4-2.3-0.5-0.8
Condit. Reinf. lever presses2.13.07.7-2.8-0.5-0.9
Condit. Reinf. active minus inactive responses0.10.20.4-0.10.60.4
Condit. Reinf. active-inactive response ratio0.30.40.8-0.9-0.6-0.2
Condit. Reinf. active responses0.91.21.80.91.41.0
Condit. Reinf. inactive responses2.63.35.22.31.81.3
Condit. Reinf. lever presses0.00.10.10.1-0.2-0.3
Condit. Reinf. lever reinforcers received0.30.40.50.70.70.4
Conditioned reinforcement - actives1.11.92.3-1.0-1.5-1.5
Conditioned reinforcement - inactives6.59.512.0-2.8-3.5-3.0
Conditioned locomotion1.01.42.2-0.6-1.5-1.3
Patch foraging indifference point 0 sec2.03.84.4-2.1-2.0-1.7
Patch foraging indifference point AUC0.10.20.30.60.2-0.4
Delay disc. indifference point, 0s delay2.62.93.51.91.71.6
Delay disc. indifference point, 16s delay1.61.84.62.10.90.3
Delay disc. indifference point, 2s delay0.30.40.70.40.90.5
Delay disc. indifference point, 24s delay0.20.20.20.5-0.4-0.4
Delay disc. indifference point, 4s delay0.10.10.2-0.20.5-0.1
Delay disc. indifference point, 8s delay0.40.40.50.7-0.6-0.7
Indifference point function ln k0.40.81.0-0.9-1.0-0.7
Indifference point function log k0.40.81.0-0.9-1.0-0.7
Patch foraging total patch changes 0 sec3.15.86.8-2.5-2.6-2.1
Patch foraging total patch changes 12 sec0.40.60.8-0.7-0.9-0.6
Patch foraging total patch changes 18 sec0.10.10.20.50.30.0
Patch foraging total patch changes 24 sec0.30.40.7-0.8-0.6-0.5
Patch foraging total patch changes 6 sec1.21.82.3-1.4-1.5-1.1
Patch foraging time to switch 0 sec0.91.82.91.21.71.0
Patch foraging water rate 0 sec1.12.32.8-1.7-1.6-1.2
Patch foraging water rate 12 sec0.40.91.2-0.9-0.8-1.1
Patch foraging water rate 18 sec0.10.10.3-0.20.4-0.5
Patch foraging water rate 24 sec0.81.22.1-1.5-0.4-1.1
Patch foraging water rate 6 sec1.11.62.2-1.1-1.5-1.2
Seeking ratio, delayed vs. immediate footshock1.01.31.70.91.21.3
Distance traveled before self-admin0.81.01.4-1.1-1.2-0.5
Distance traveled after self-admin1.51.82.9-1.7-1.4-0.8
Extensor digitorum longus weight0.31.32.9-1.7-0.9-0.3
Bone: elastic displacement0.20.20.5-0.30.70.3
Bone: elastic work1.82.33.8-2.0-1.4-1.0
Bone: endosteal estimation0.30.71.20.6-0.6-1.1
Bone: endosteal perimeter0.81.83.1-0.8-1.8-1.3
Epididymis fat weight1.13.76.4-1.8-1.3-2.5
Delta time in closed arm before/after self-admin0.30.30.50.5-0.2-0.7
Delta time in open arm before/after self-admin0.60.61.00.71.00.6
Diff in mean of infusions in LGA sessions0.81.01.4-0.7-1.2-1.0
Delay discount exponential model param0.10.10.2-0.50.00.5
Extinction: sum of active levers before priming0.30.41.0-0.11.00.3
Active lever presses in extinction session 60.20.20.40.40.20.7
Bone: final force8.012.813.7-3.7-3.6-3.4
Bone: final moment7.311.812.7-3.4-3.6-3.3
Food consumed during 24 hour testing period0.30.41.0-0.31.00.2
Glucose1.62.53.0-1.4-1.6-1.7
Heart weight2.03.17.2-2.7-1.4-0.4
Delay discount hyperbolic model param0.10.10.1-0.3-0.10.4
Intermittent access intake day 1-15 change0.20.40.8-0.9-0.3-0.5
Intermittent access intake escalation0.10.20.5-0.70.1-0.3
Intermittent access intake escalation 20.60.61.1-0.7-0.4-1.1
Intermitt. access day 1 inactive lever presses0.10.30.4-0.6-0.6-0.4
Intermitt. access day 15 inactive lever presses0.00.10.10.0-0.30.4
Intermitt. access escalation Index0.70.91.11.10.90.9
Intermittent access day 1 total infusions0.40.61.40.1-1.2-0.7
Intermittent access day 15 total infusions0.20.20.4-0.3-0.5-0.7
Intermittent access terminal intake (last 3 days)0.20.30.7-0.0-0.4-0.8
Intermittent access total infusions1.01.21.7-0.4-1.3-1.3
Intermittent access day 1 locomotion1.51.92.7-0.7-1.7-1.6
Intermittent access day 15 total locomotion0.20.30.7-0.3-0.5-0.8
Intermittent access total locomotion1.72.02.9-0.9-1.5-1.7
Intermittent access standard deviation0.10.20.3-0.2-0.5-0.5
Left kidney weight0.52.54.2-2.1-1.1-1.4
Right kidney weight1.57.09.2-2.8-2.0-3.0
Cocaine induced anxiety1.01.42.9-1.0-1.7-0.7
Post-drug Anxiety0.00.00.10.0-0.30.2
Baseline Anxiety2.52.94.61.52.21.3
Tail length0.93.74.7-2.2-1.6-1.9
Length with tail2.510.815.4-3.9-2.7-3.1
Length without tail2.16.811.9-3.5-2.1-2.1
Times rat made contact with spout0.20.20.50.30.70.2
Lifetime Intake1.62.02.8-0.9-1.7-1.5
Liver weight, left0.30.51.4-0.21.20.4
Liver weight, right2.03.46.5-1.6-1.2-2.6
Locomotor activity0.60.92.3-1.50.4-0.5
Locomotor testing distance0.20.40.9-0.50.90.3
Locomotor testing rearing0.20.51.3-0.31.20.2
Locomotion in novel chamber0.20.30.5-0.7-0.0-0.5
Locomotion in novel chamber post-restriction0.50.82.0-1.40.3-0.5
Fecal boli incidents, locomotor time 10.20.41.11.00.2-0.0
Change in fecal boli incidents, locomotor task0.30.30.70.80.30.5
Time >=10cm from walls, locomotor time 10.20.20.50.70.3-0.2
Bouts of movement, locomotor time 10.20.20.40.60.5-0.1
Total resting periods, locomotor time 10.50.61.01.00.90.2
Rest time, locomotor task time 10.20.20.60.8-0.00.2
Distance moved, locomotor task time 10.10.10.30.20.30.5
Vertical activity count, locomotor time 10.10.20.4-0.60.5-0.0
Time >=10cm from walls, locomotor time 21.11.71.81.31.31.4
Bouts of movement, locomotor time 20.10.10.2-0.40.10.4
Total resting periods, locomotor time 20.00.10.2-0.5-0.10.2
Rest time, locomotor task time 20.60.81.1-0.7-1.1-0.9
Distance moved, locomotor task time 20.50.60.80.90.50.9
Vertical activity count, locomotor time 20.40.51.2-0.30.51.1
Light reinforcement 10.10.30.50.7-0.3-0.4
Light reinforcement 20.40.61.41.2-0.7-0.3
Bone: marrow area0.30.61.00.7-0.5-1.0
Bone: maximum diameter2.64.86.1-2.5-2.4-1.6
Bone: maximum force7.513.317.8-4.2-3.4-3.3
Bone: maximum moment6.411.314.0-3.7-3.2-3.1
Mean time between licks in bursts1.74.25.0-1.8-2.2-2.0
Mean num. licks in bursts0.20.30.6-0.5-0.0-0.8
Cd content in liver1.41.52.3-1.1-1.5-1.0
Co content in liver0.10.10.2-0.3-0.30.4
Cu content in liver1.41.62.8-0.11.41.7
Fe content in liver0.70.91.41.20.90.6
K content in liver3.02.93.81.81.32.0
Mg content in liver0.40.41.10.30.21.0
Mn content in liver0.10.10.2-0.4-0.30.4
Na content in liver2.72.94.21.42.01.6
Rb content in liver1.01.23.0-0.8-1.7-0.3
Se content in liver0.60.71.6-0.10.61.3
Sr content in liver0.40.40.60.80.5-0.5
Zn content in liver0.00.00.10.00.30.0
Bone: minimum diameter2.34.14.9-2.0-1.9-2.2
Time in familiar zone, hab. session 10.70.61.8-0.2-0.3-1.3
Time in novel zone, hab. session 10.30.30.7-0.2-0.10.9
Total zone transitions, hab. session 10.30.51.30.41.1-0.1
Total locomotion distance, hab. session 10.91.23.40.51.80.2
Locomotion velocity, hab. session 10.91.23.10.71.80.2
Time in familiar zone, hab. session 20.10.10.3-0.0-0.2-0.5
Time in novel zone, hab. session 20.00.00.00.1-0.1-0.1
Total zone transitions, hab. session 20.00.00.10.10.30.1
Total locomotion distance, hab. session 20.20.30.5-0.60.70.2
Locomotion velocity, hab. session 20.30.30.8-0.40.90.2
Novel to familiar place preference ratio0.40.41.00.4-0.3-1.0
Novelty place preference0.30.30.60.6-0.2-0.8
Time in novel zone, NPP test0.40.40.70.80.1-0.7
Total zone transitions, NPP test0.50.81.50.31.20.9
Total locomotion distance, NPP test1.21.73.40.21.81.3
Locomotion velocity, NPP test1.21.73.20.41.81.3
Intraocular pressure1.11.63.2-1.1-1.8-0.7
Delta distance traveled before/after self-admin0.90.91.0-1.0-0.9-1.0
Delta ambulatory time before/after self-admin0.20.20.3-0.6-0.5-0.3
Parametrial fat weight2.66.29.2-1.0-2.9-3.0
Pavlov. Cond. lever latency1.01.23.71.9-0.2-0.0
Pavlov. Cond. magazine entry latency0.20.30.5-0.6-0.2-0.7
Pavlov. Cond. change in total contacts1.71.84.3-2.1-0.8-0.8
Pavlov. Cond. index score0.30.41.1-1.00.3-0.2
Pavlov. Cond. latency score0.50.61.5-1.20.40.1
Pavlov. Cond. lever contacts0.81.02.9-1.70.0-0.3
Pavlov. Cond. magazine entry number0.30.40.50.70.40.7
Pavlov. Cond. intertrial magazine entries0.80.91.4-1.20.21.1
Pavlov. Cond. lever-magazine prob. diff.0.30.30.9-0.90.2-0.0
Pavlov. Cond. response bias0.40.51.1-1.1-0.2-0.6
Pavlov. Cond. lever latency0.60.91.00.91.00.8
Pavlov. Cond. magazine entry latency0.50.60.9-1.0-0.8-0.4
Pavlov. Cond. change in total contacts0.50.91.2-1.1-1.1-0.5
Pavlov. Cond. index score0.91.21.7-1.2-1.3-0.7
Pavlov. Cond. latency score0.50.71.0-1.0-0.9-0.4
Pavlov. Cond. lever contacts0.50.70.8-0.9-0.9-0.6
Pavlov. Cond. magazine entry number1.41.82.01.41.41.1
Pavlov. Cond. intertrial magazine entries0.81.11.81.31.20.4
Pavlov. Cond. lever-magazine prob. diff.1.01.41.8-1.3-1.3-0.8
Pavlov. Cond. response bias0.81.11.5-1.1-1.2-0.9
Time in closed arm before self-admin4.45.78.7-2.6-3.0-1.3
Time in closed arm after self-admin3.03.26.2-1.1-2.5-1.4
Time in open arm before self-admin0.50.61.7-0.11.30.3
Time in open arm after self-admin1.61.83.8-0.32.01.2
Bone: periosteal estimation2.04.14.4-1.9-2.1-2.1
Bone: periosteal perimeter4.67.99.9-2.9-3.2-2.3
Bone: post-yield work0.00.00.0-0.10.10.1
Progressive ratio test 1 active lever presses2.12.63.1-1.7-1.7-1.4
Progressive ratio test 1 breakpoint1.92.32.7-1.6-1.6-1.3
Progressive ratio test 1 inactive lever presses1.11.61.9-1.4-1.3-1.1
Progressive ratio test 2 active lever presses0.50.61.0-0.3-0.9-1.0
Progressive ratio test 2 breakpoint0.40.40.7-0.2-0.7-0.8
Progressive ratio test 2 inactive lever presses0.91.52.3-1.2-1.5-0.9
Incentive Sensitization - Responses0.30.51.41.20.1-0.2
Incentive Sensitization - Breakpoint0.50.72.01.40.3-0.1
Sum of active levers in priming session hrs 5-62.92.73.91.12.01.7
Progressive ratio0.00.10.20.40.0-0.1
Food seeking constrained by brief footshock0.20.30.70.00.40.8
Seeking ratio, punishment vs. effort0.30.40.6-0.20.70.8
Retroperitoneal fat weight2.510.712.3-2.9-3.5-3.4
Reaction time number correct0.20.40.7-0.70.8-0.2
Reaction time mean minus median0.00.00.00.00.10.0
Reaction time mean minus median AUC0.00.00.0-0.1-0.20.0
Reaction time num false alarms0.70.91.7-1.0-1.3-0.1
Reaction time num false alarms AUC0.40.71.4-0.8-1.20.1
Reaction time trials correct on left0.20.40.7-0.70.8-0.2
Reaction time trials on left0.20.40.6-0.80.8-0.3
Reaction time mean0.61.02.00.1-1.4-0.9
Reaction time mean AUC0.30.50.80.7-0.9-0.5
Median of all reaction times0.81.12.40.3-1.6-0.9
Reaction time omissions1.21.72.2-1.1-1.5-1.3
Reaction time false alarm rate0.71.02.4-0.7-1.5-0.1
Reaction time premature initiation rate0.30.30.6-0.50.80.4
Reaction time premature initiations0.30.60.8-0.90.90.0
Std. dev. reaction times0.40.71.0-0.5-0.9-1.0
Reaction time trials completed0.20.40.6-0.80.8-0.3
Reaction time trials AUC0.20.40.7-0.80.6-0.6
Run reversals in cocaine runway, females3.73.75.0-1.8-2.2-1.8
Run reversals in cocaine runway, males1.31.32.10.81.11.5
Latency to leave start box in cocaine runway0.10.10.40.2-0.0-0.6
Latency to leave start box in cocaine runway, F0.60.61.1-0.7-0.6-1.1
Latency to leave start box in cocaine runway, M1.11.02.41.60.50.5
Std. dev. time between licks in bursts2.33.23.6-1.6-1.9-1.8
Total sessions with >9 infusions3.64.44.9-2.1-2.2-2.0
Short access day 1 total inactive lever presses1.01.32.2-0.6-1.5-1.1
Short access day 10 total inactive lever presses0.20.61.20.60.31.1
Short access day 1 total infusions3.24.34.6-2.1-2.0-2.0
Short access day 10 total infusions0.70.91.1-0.9-1.1-0.8
Short access total infusions1.72.12.7-1.2-1.6-1.5
Short access day 1 locomotion5.26.48.2-2.4-2.9-2.3
Short access day 10 total locomotion1.83.26.2-2.5-1.2-1.5
Short access total locomotion2.93.54.5-2.1-1.7-1.7
One hour access (0.3 mA shock)0.10.10.4-0.2-0.6-0.0
Compulsive drug intake1.41.72.21.51.01.3
One hour access (shock baseline)1.52.32.9-1.4-1.7-1.4
Social response proportion3.43.86.4-2.5-1.8-1.3
Social responses0.70.92.6-1.6-0.3-0.3
Social time0.30.40.9-0.9-0.40.5
Soleus weight0.72.03.7-0.6-1.9-1.4
Bone: stiffness5.69.112.0-3.5-2.9-2.7
Tibialis anterior weight0.31.02.3-1.50.0-0.8
Time to tail flick, vehicle, before self-admin0.30.30.40.7-0.4-0.7
Time to tail flick, vehicle, after self-admin0.10.10.3-0.2-0.3-0.5
Time to tail flick, test, before self-admin1.81.93.4-1.5-1.8-0.3
Time to tail flick, test, after self-admin0.80.82.01.40.40.5
Delta time to tail flick, vehicle, before/after SA0.20.20.2-0.30.50.4
Delta time to tail flick, test, before/after SA1.61.62.91.71.40.1
Tibia length0.72.03.6-1.9-1.2-1.0
Ambulatory time before self-admin1.01.42.0-1.3-1.4-0.8
Ambulatory time after self-admin2.73.24.9-2.2-1.8-1.3
Bone: tissue strength0.30.30.9-0.0-0.3-0.9
Total heroin consumption0.20.20.4-0.1-0.6-0.4
Bone: trabecular number1.52.55.0-2.2-0.7-1.4
Bone: trabecular spacing0.30.41.01.00.00.4
Bone: trabecular thickness1.11.43.3-1.8-0.4-0.8
Bone: trabecular tissue density0.30.40.80.60.90.1
Water consumed over 24 hours0.20.30.5-0.70.3-0.5
Number of responses in last shaping day0.30.40.9-0.9-0.4-0.3