Gba2

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 Brain gene expression ENSRNOG00000016364 0.1 0.06 2.9e-08 0.07 0.08 0.09 0.08 9.5e-07 3.1e-08 1.6e-08 4.0e-08
2 IL gene expression ENSRNOG00000016364 0.26 0.14 1.9e-04 0.02 0.14 0.14 0.04 1.3e-01 2.9e-04 3.9e-04 3.3e-02
3 NAcc gene expression ENSRNOG00000016364 0.05 0.03 3.2e-04 0.05 0.05 0.05 0.05 1.3e-04 9.9e-05 2.0e-04 1.8e-04
4 PL gene expression ENSRNOG00000016364 0.12 0.07 3.4e-05 0.05 0.05 0.04 0.05 1.7e-04 1.5e-04 2.7e-04 1.9e-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 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 3 4
BMI with tail2.16.99.6-3.0-2.5-3.1-1.7
BMI without tail2.65.514.3-2.2-1.5-3.8-0.4
Body weight1.87.618.6-2.8-1.9-4.3-0.6
Epididymis fat weight0.10.30.9-0.20.1-1.00.3
Glucose0.50.82.3-0.8-0.5-1.50.0
Heart weight0.20.31.1-0.3-0.0-1.10.4
Left kidney weight0.30.71.90.00.4-1.41.0
Right kidney weight0.10.40.70.60.7-0.00.8
Tail length0.82.47.8-1.2-0.5-2.80.3
Length with tail0.31.13.3-0.20.3-1.81.0
Length without tail0.30.60.80.90.80.80.6
Liver weight, left0.00.00.1-0.1-0.1-0.4-0.1
Liver weight, right0.20.40.60.70.70.50.6
Parametrial fat weight0.10.20.30.10.4-0.50.5
Retroperitoneal fat weight0.00.20.50.0-0.10.7-0.3
Intraocular pressure1.01.44.7-0.7-0.1-2.20.6
Extensor digitorum longus weight2.28.822.5-3.0-1.9-4.7-0.5
Soleus weight1.95.58.32.42.80.32.9
Tibialis anterior weight2.68.927.7-2.5-1.3-5.30.3
Tibia length0.82.23.11.61.70.31.7
Number of licking bursts3.13.75.8-2.1-1.8-2.4-1.1
Food consumed during 24 hour testing period0.20.30.9-0.20.0-0.90.4
Times rat made contact with spout0.80.91.2-1.1-1.0-0.7-0.9
Mean time between licks in bursts0.40.61.60.70.41.3-0.0
Mean num. licks in bursts1.01.22.91.10.81.70.3
Std. dev. time between licks in bursts0.20.30.80.50.30.90.0
Water consumed over 24 hours0.60.71.2-0.9-0.8-1.1-0.5
Indifference point 0 sec2.03.26.31.31.8-1.32.5
Indifference point AUC3.74.411.7-2.0-1.3-3.4-0.3
Indifference point function ln k1.42.04.21.51.22.10.6
Indifference point function log k1.42.04.21.51.22.10.6
Delay discounting total patch changes 0 sec1.62.64.90.91.4-1.72.2
Delay discounting total patch changes 12 sec1.51.95.0-1.4-0.9-2.2-0.2
Delay discounting total patch changes 18 sec0.30.41.4-0.3-0.0-1.20.4
Delay discounting total patch changes 24 sec1.31.65.3-0.8-0.2-2.30.6
Delay discounting total patch changes 6 sec1.52.37.3-0.40.3-2.71.3
Delay discounting time to switch 0 sec1.32.06.60.80.22.6-0.7
Delay discounting water rate 0 sec1.11.85.7-0.50.1-2.41.0
Delay discounting water rate 12 sec0.20.30.60.50.6-0.30.8
Delay discounting water rate 18 sec0.60.81.1-1.0-0.9-1.0-0.6
Delay discounting water rate 24 sec0.81.11.5-1.1-1.2-0.1-1.2
Delay discounting water rate 6 sec0.20.31.0-0.5-0.2-1.00.1
Locomotor activity0.00.00.0-0.00.0-0.00.1
Locomotor testing distance0.61.01.51.11.20.21.2
Locomotor testing rearing0.20.30.8-0.00.2-0.90.5
Light reinforcement 12.34.27.61.72.2-1.12.8
Light reinforcement 24.45.810.02.32.8-0.63.2
Reaction time number correct0.20.20.40.20.4-0.50.6
Reaction time mean minus median3.64.77.0-2.3-2.5-0.3-2.6
Reaction time mean minus median AUC2.93.74.9-2.2-2.2-0.9-2.1
Reaction time num false alarms0.30.40.6-0.7-0.80.0-0.8
Reaction time num false alarms AUC0.20.30.5-0.7-0.6-0.6-0.4
Reaction time trials correct on left0.20.20.40.20.4-0.50.6
Reaction time trials on left0.10.20.40.30.4-0.40.6
Reaction time mean1.42.03.4-0.6-1.11.7-1.9
Reaction time mean AUC1.62.13.6-0.6-1.11.8-1.9
Median of all reaction times1.31.75.70.4-0.12.4-1.0
Reaction time omissions0.70.92.90.70.51.7-0.1
Reaction time false alarm rate0.20.30.5-0.5-0.60.2-0.7
Reaction time premature initiation rate0.70.93.10.3-0.21.7-0.8
Reaction time premature initiations0.30.51.60.40.01.3-0.4
Std. dev. reaction times2.12.95.4-1.6-1.90.6-2.3
Reaction time trials completed0.10.20.40.30.4-0.40.6
Reaction time trials AUC0.10.20.30.30.4-0.40.6
Social response proportion1.21.34.40.60.12.1-0.7
Social responses0.20.30.5-0.6-0.5-0.7-0.4
Social time0.40.50.90.70.60.90.3
Conditioned locomotion0.91.01.91.01.2-0.21.4
Cocaine response after cond. corrected3.43.85.32.32.21.32.0
Cocaine response after cond. not corrected4.04.46.02.52.41.22.2
Cocaine response before conditioning0.30.40.6-0.7-0.6-0.8-0.4
Saline control response0.60.81.30.50.7-1.11.2
Condit. Reinf. active minus inactive responses0.60.71.0-0.9-0.8-1.0-0.6
Condit. Reinf. active-inactive response ratio0.50.50.6-0.8-0.8-0.4-0.7
Condit. Reinf. active responses1.21.73.6-1.4-1.1-1.9-0.5
Condit. Reinf. inactive responses2.02.43.5-1.8-1.5-1.9-1.0
Condit. Reinf. lever presses2.53.54.5-2.1-2.0-1.7-1.6
Condit. Reinf. lever reinforcers received1.42.04.1-1.5-1.2-2.0-0.6
Pavlov. Cond. lever latency2.83.95.12.22.11.81.7
Pavlov. Cond. magazine entry latency0.30.31.10.3-0.01.0-0.4
Pavlov. Cond. change in total contacts2.33.24.5-1.9-2.1-0.6-2.1
Pavlov. Cond. index score1.01.22.0-1.1-1.3-0.1-1.4
Pavlov. Cond. latency score1.41.72.5-1.4-1.5-0.3-1.6
Pavlov. Cond. lever contacts1.31.82.4-1.5-1.4-1.3-1.1
Pavlov. Cond. magazine entry number1.11.42.61.11.4-0.31.6
Pavlov. Cond. intertrial magazine entries0.30.31.0-0.4-0.2-1.00.1
Pavlov. Cond. lever-magazine prob. diff.1.11.42.3-1.2-1.4-0.1-1.5
Pavlov. Cond. response bias0.91.21.5-1.2-1.2-0.6-1.2
Conditioned reinforcement - actives0.30.30.4-0.6-0.6-0.6-0.4
Conditioned reinforcement - inactives0.00.10.10.30.20.10.3
Conditioned locomotion0.30.30.8-0.5-0.5-0.9-0.1
Intermittent access intake day 1-15 change1.91.92.6-1.5-1.6-0.6-1.6
Intermittent access intake escalation2.02.02.5-1.5-1.6-1.0-1.4
Intermittent access intake escalation 23.43.44.5-2.0-2.1-0.9-2.0
Intermitt. access day 1 inactive lever presses0.30.41.0-0.6-0.4-1.0-0.1
Intermitt. access day 15 inactive lever presses0.30.40.70.50.6-0.30.8
Intermitt. access escalation Index0.50.41.20.10.3-1.10.6
Intermittent access day 1 total infusions1.11.22.11.11.30.21.4
Intermittent access day 15 total infusions0.40.51.0-0.7-0.6-1.0-0.2
Intermittent access terminal intake (last 3 days)0.50.61.4-0.7-0.6-1.2-0.1
Intermittent access total infusions0.50.61.8-0.6-0.3-1.30.2
Intermittent access day 1 locomotion0.90.91.21.01.00.41.1
Intermittent access day 15 total locomotion0.20.20.20.50.40.50.5
Intermittent access total locomotion0.00.00.1-0.1-0.20.3-0.2
Intermittent access standard deviation0.50.50.7-0.9-0.8-0.6-0.6
Cocaine induced anxiety0.81.01.71.10.91.30.5
Post-drug Anxiety0.10.10.10.20.2-0.30.3
Baseline Anxiety1.51.61.9-1.4-1.3-1.1-1.1
Lifetime Intake0.70.81.80.10.4-1.31.0
Incentive Sensitization - Responses0.40.40.60.60.70.00.8
Incentive Sensitization - Breakpoint0.40.40.60.70.70.10.8
Progressive ratio test 1 active lever presses0.70.71.40.40.7-0.91.2
Progressive ratio test 1 breakpoint0.60.71.20.30.6-1.11.1
Progressive ratio test 1 inactive lever presses1.81.93.61.11.4-0.91.9
Progressive ratio test 2 active lever presses0.91.01.90.91.1-0.31.4
Progressive ratio test 2 breakpoint0.91.01.91.01.1-0.11.4
Progressive ratio test 2 inactive lever presses0.10.10.4-0.10.0-0.60.3
Total sessions with >9 infusions1.92.13.91.31.6-0.32.0
Short access day 1 total inactive lever presses0.91.03.4-0.5-0.1-1.80.6
Short access day 10 total inactive lever presses0.10.10.1-0.2-0.2-0.4-0.2
Short access day 1 total infusions1.61.73.10.71.1-1.41.8
Short access day 10 total infusions0.91.01.90.50.8-1.11.4
Short access total infusions1.61.73.41.11.3-0.71.8
Short access day 1 locomotion0.50.60.80.90.80.10.9
Short access day 10 total locomotion0.30.30.6-0.2-0.40.8-0.6
Short access total locomotion0.30.30.70.50.6-0.30.8
Compulsive drug intake0.10.10.4-0.3-0.2-0.7-0.0
One hour access (0.3 mA shock)0.40.51.2-0.00.2-1.10.7
One hour access (shock baseline)0.50.61.00.20.5-1.01.0
Number of responses in last shaping day2.72.74.81.61.8-0.42.2
Context. condit. distance diff. score0.00.10.1-0.1-0.20.2-0.3
Locomotion velocity, session 14.85.29.52.02.5-0.93.1
Locomotion distance, session 11.11.52.71.01.3-0.61.7
Locomotion velocity, session 22.02.33.0-1.7-1.5-1.7-1.0
Locomotion distance, session 20.60.82.3-0.00.4-1.50.9
Locomotion velocity, session 31.11.32.21.11.3-0.21.5
Locomotion distance, session 31.11.24.0-0.5-0.1-2.00.7
Stereotopy head waving bouts, day 31.72.12.81.61.70.41.7
Stereotopy head waving duration, day 31.01.21.61.31.30.71.1
Locomotion velocity, session 70.00.00.10.10.10.20.0
Locomotion distance, session 70.10.10.4-0.10.1-0.60.3
Stereotopy head waving bouts, day 71.01.13.6-0.8-0.3-1.90.3
Stereotopy head waving duration, day 70.20.20.7-0.00.2-0.80.5
Locomotion velocity, session 80.91.11.51.11.20.11.2
Locomotion distance, session 80.40.61.10.60.8-0.41.0
Degree of sensitization distance0.60.62.00.60.31.4-0.2
Degree of sensitization stereotypy0.80.82.3-0.9-0.5-1.5-0.0
Condit. Reinf. active minus inactive responses0.40.50.7-0.8-0.7-0.7-0.5
Condit. Reinf. active-inactive response ratio0.20.20.80.20.00.9-0.3
Condit. Reinf. active responses2.02.43.4-1.8-1.4-1.9-1.0
Condit. Reinf. inactive responses2.63.14.0-2.0-1.7-1.9-1.3
Incentive salience index mean2.12.55.9-1.6-1.2-2.4-0.5
Condit. Reinf. lever presses4.05.416.4-2.0-1.2-4.10.1
Time in familiar zone, hab. session 13.33.15.4-1.7-2.00.4-2.3
Time in novel zone, hab. session 16.66.48.42.92.91.52.6
Total zone transitions, hab. session 10.00.00.0-0.0-0.10.0-0.1
Total locomotion distance, hab. session 11.21.82.4-1.5-1.5-0.5-1.6
Locomotion velocity, hab. session 11.92.73.5-1.9-1.8-1.3-1.5
Time in familiar zone, hab. session 21.11.12.1-0.6-1.01.0-1.4
Time in novel zone, hab. session 23.53.54.62.12.10.92.1
Total zone transitions, hab. session 20.30.40.70.20.4-0.80.7
Total locomotion distance, hab. session 20.40.51.0-0.7-0.6-1.0-0.3
Locomotion velocity, hab. session 20.60.81.5-1.0-0.8-1.2-0.4
Novel to familiar place preference ratio4.14.35.52.32.21.81.8
Novelty place preference4.54.65.92.42.22.11.7
Time in novel zone, NPP test5.55.87.42.72.52.41.9
Total zone transitions, NPP test0.40.61.00.40.6-0.91.0
Total locomotion distance, NPP test0.71.03.3-0.40.1-1.80.7
Locomotion velocity, NPP test0.91.44.5-0.8-0.3-2.10.4
Pavlov. Cond. lever latency3.13.910.91.81.23.30.2
Pavlov. Cond. magazine entry latency0.20.30.4-0.6-0.6-0.6-0.5
Pavlov. Cond. change in total contacts1.11.23.3-1.0-0.6-1.8-0.1
Pavlov. Cond. index score1.62.04.0-1.5-1.2-2.0-0.7
Pavlov. Cond. latency score1.51.93.9-1.4-1.1-2.0-0.6
Pavlov. Cond. lever contacts2.73.17.8-1.7-1.3-2.8-0.4
Pavlov. Cond. magazine entry number0.50.60.80.80.70.90.5
Pavlov. Cond. intertrial magazine entries0.10.20.2-0.5-0.4-0.5-0.3
Pavlov. Cond. lever-magazine prob. diff.1.92.33.6-1.7-1.4-1.9-1.0
Pavlov. Cond. response bias1.51.84.1-1.4-1.0-2.0-0.5
Bone: apparent density1.01.72.6-1.5-1.2-1.6-0.8
Bone surface0.30.51.7-0.5-0.3-1.30.2
Bone volume0.40.71.6-0.8-0.6-1.2-0.3
Bone: connectivity density0.81.31.7-1.3-1.2-1.1-0.8
Bone: cortical apparent density1.21.62.8-1.1-1.40.4-1.7
Bone: cortical area1.93.03.8-2.0-1.7-1.8-1.3
Bone: cortical porosity0.20.20.50.40.30.70.1
Bone: cortical porosity0.00.00.0-0.00.0-0.10.1
Bone: cortical thickness1.72.83.7-1.9-1.9-1.1-1.7
Bone: cortical thickness0.20.20.3-0.2-0.40.5-0.6
Bone: cortical tissue density1.01.32.3-1.0-1.30.5-1.5
Bone: elastic displacement1.31.55.30.60.12.3-0.6
Bone: elastic work2.02.54.5-1.0-1.51.6-2.1
Bone: endosteal estimation0.30.62.1-0.20.2-1.50.6
Bone: endosteal perimeter0.40.92.40.00.4-1.61.0
Bone: final force0.50.81.5-1.0-0.8-1.2-0.5
Bone: final moment0.50.81.0-1.0-0.9-1.0-0.7
Bone: marrow area0.30.72.3-0.4-0.0-1.50.4
Bone: maximum diameter1.12.14.1-1.5-1.2-2.0-0.7
Bone: maximum force1.52.54.3-1.7-1.4-2.1-0.9
Bone: maximum moment1.32.33.1-1.7-1.5-1.8-1.1
Bone: minimum diameter0.10.10.2-0.3-0.30.2-0.4
Bone: periosteal estimation0.61.13.0-1.0-0.7-1.7-0.2
Bone: periosteal perimeter0.20.40.90.10.3-0.90.7
Bone: post-yield work0.40.51.8-0.20.2-1.30.6
Bone: stiffness1.62.64.7-1.7-1.4-2.2-0.9
Bone: tissue strength0.10.10.3-0.2-0.40.1-0.5
Bone: trabecular number1.32.02.6-1.6-1.4-1.4-1.1
Bone: trabecular spacing0.30.40.6-0.6-0.70.1-0.8
Bone: trabecular thickness0.00.00.1-0.0-0.00.3-0.1
Bone: trabecular tissue density0.60.92.4-0.9-0.6-1.5-0.3
Breakpoint value in progressive ratio session2.32.64.11.71.90.22.0
Distance traveled before self-admin1.51.65.6-0.6-0.1-2.40.7
Distance traveled after self-admin0.50.50.7-0.8-0.8-0.5-0.8
Delta time in closed arm before/after self-admin3.33.24.1-2.0-2.0-1.5-1.6
Delta time in open arm before/after self-admin1.01.01.21.11.10.61.0
Diff in mean of infusions in LGA sessions0.00.00.1-0.1-0.20.3-0.3
Extinction: sum of active levers before priming1.31.32.51.21.01.60.6
Active lever presses in extinction session 60.30.30.30.50.60.40.6
Delta distance traveled before/after self-admin0.40.41.50.30.01.2-0.4
Delta ambulatory time before/after self-admin0.91.03.40.60.21.8-0.4
Time in closed arm before self-admin1.01.12.61.10.81.60.4
Time in closed arm after self-admin0.30.30.6-0.4-0.60.3-0.7
Time in open arm before self-admin0.80.92.9-0.20.2-1.70.7
Time in open arm after self-admin0.70.82.0-0.00.4-1.40.9
Sum of active levers in priming session hrs 5-62.92.93.51.91.81.61.4
Time to tail flick, vehicle, before self-admin0.40.41.10.50.31.10.0
Time to tail flick, vehicle, after self-admin0.00.00.10.20.2-0.10.3
Time to tail flick, test, before self-admin0.50.50.6-0.8-0.7-0.6-0.6
Time to tail flick, test, after self-admin1.81.82.6-1.6-1.5-0.9-1.3
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.1-0.1-0.3-0.0
Delta time to tail flick, test, before/after SA0.10.00.1-0.2-0.20.2-0.3
Ambulatory time before self-admin1.41.54.6-0.30.3-2.11.1
Ambulatory time after self-admin0.00.00.1-0.00.1-0.30.2
Total heroin consumption1.51.82.41.51.50.51.6
Area under the delay curve0.91.01.21.11.10.71.0
Delay disc. indifference point, 0s delay1.61.72.31.51.31.21.1
Delay disc. indifference point, 16s delay2.72.83.61.81.90.81.9
Delay disc. indifference point, 2s delay0.20.30.4-0.5-0.6-0.1-0.6
Delay disc. indifference point, 24s delay0.10.10.20.30.30.50.1
Delay disc. indifference point, 4s delay0.10.10.10.30.20.30.2
Delay disc. indifference point, 8s delay0.00.00.00.10.1-0.00.2
Delay discount exponential model param0.80.81.0-1.0-1.0-0.5-1.0
Delay discount hyperbolic model param0.70.70.9-0.9-0.9-0.5-0.9
Fecal boli incidents, locomotor time 10.20.20.80.2-0.10.9-0.3
Change in fecal boli incidents, locomotor task0.60.61.50.10.4-1.20.8
Time >=10cm from walls, locomotor time 10.70.71.20.80.9-0.21.1
Bouts of movement, locomotor time 10.80.92.50.90.61.60.2
Total resting periods, locomotor time 10.91.03.30.60.31.8-0.3
Rest time, locomotor task time 12.32.54.5-0.8-1.41.7-2.1
Distance moved, locomotor task time 11.31.53.10.20.8-1.81.4
Vertical activity count, locomotor time 12.02.13.81.01.4-1.21.9
Time >=10cm from walls, locomotor time 20.00.00.10.10.2-0.30.3
Bouts of movement, locomotor time 20.30.30.6-0.6-0.3-0.8-0.1
Total resting periods, locomotor time 20.10.10.3-0.5-0.3-0.5-0.1
Rest time, locomotor task time 20.30.31.10.20.01.0-0.4
Distance moved, locomotor task time 20.60.60.8-0.9-0.9-0.4-0.9
Vertical activity count, locomotor time 20.10.10.3-0.00.0-0.60.2
Weight adjusted by age0.70.81.60.60.9-0.61.3
Seeking ratio, delayed vs. immediate footshock2.63.05.2-1.9-1.5-2.3-0.8
Locomotion in novel chamber0.60.71.2-0.8-1.00.0-1.1
Locomotion in novel chamber post-restriction3.44.05.2-2.2-2.3-1.2-2.1
Progressive ratio0.00.00.10.20.20.10.2
Food seeking constrained by brief footshock3.03.612.5-0.9-0.1-3.51.1
Seeking ratio, punishment vs. effort0.80.93.2-0.7-0.3-1.80.3
Run reversals in cocaine runway, females0.80.81.3-0.8-1.0-0.1-1.1
Run reversals in cocaine runway, males0.00.00.0-0.2-0.20.1-0.2
Latency to leave start box in cocaine runway0.70.71.0-1.0-0.9-0.9-0.7
Latency to leave start box in cocaine runway, F0.00.00.00.10.1-0.00.2
Latency to leave start box in cocaine runway, M0.50.41.5-0.4-0.1-1.20.3
Cd content in liver1.11.21.5-1.2-1.2-0.7-1.1
Co content in liver1.41.72.41.61.31.31.0
Cu content in liver0.60.72.20.4-0.11.5-0.7
Fe content in liver2.02.43.71.61.8-0.11.9
K content in liver0.70.71.01.01.00.50.9
Mg content in liver0.30.40.50.70.60.60.4
Mn content in liver0.60.71.0-0.8-1.0-0.3-1.0
Na content in liver1.21.33.01.20.81.70.2
Rb content in liver2.43.05.81.81.52.40.8
Se content in liver1.31.61.9-1.4-1.3-1.1-1.1
Sr content in liver0.20.20.4-0.4-0.4-0.6-0.3
Zn content in liver0.80.91.3-1.0-1.1-0.2-1.1