Tbc1d12

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 Adipose gene expression Tbc1d12 0.04 0.03 2.3e-03 0.01 0.01 0 0.01 1.4e-02 1.1e-02 2.9e-01 1.9e-02
2 Liver gene expression Tbc1d12 0.03 0.02 2.7e-03 0.02 0.02 0.02 0.02 3.3e-03 4.5e-03 6.6e-03 4.5e-03
3 Brain gene expression Tbc1d12 0.06 0.04 2.3e-04 0.03 0.03 0.04 0.03 3.4e-04 5.2e-04 3.0e-04 5.0e-04
4 Brain intron excision ratio chr1_246092240_246094394 0.04 0.03 8.6e-03 0.02 0.01 0.01 0.01 7.9e-03 1.3e-02 1.2e-02 3.7e-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 density2.44.26.51.82.5-2.51.0
Area under the delay curve0.91.01.9-1.4-0.51.01.0
BMI with tail0.31.01.81.30.7-0.41.2
BMI without tail0.10.20.40.4-0.50.60.1
Body weight0.10.61.21.10.1-0.6-0.8
Weight adjusted by age0.10.10.30.2-0.00.50.5
Bone surface2.44.46.22.22.4-2.51.0
Bone volume2.44.46.52.22.4-2.50.4
Breakpoint value in progressive ratio session0.20.30.7-0.9-0.20.10.5
Number of licking bursts0.91.53.1-1.8-0.91.30.4
Context. condit. distance diff. score1.41.72.41.01.5-1.61.0
Locomotion velocity, session 12.02.25.2-2.3-0.91.50.7
Locomotion distance, session 10.81.02.4-1.5-0.70.9-0.1
Locomotion velocity, session 21.41.74.2-0.61.1-1.02.0
Locomotion distance, session 20.20.30.5-0.70.3-0.20.7
Locomotion velocity, session 30.30.40.90.30.7-1.0-0.0
Locomotion distance, session 30.80.91.40.60.6-1.2-1.2
Stereotopy head waving bouts, day 30.00.10.1-0.30.3-0.10.1
Stereotopy head waving duration, day 30.30.30.8-0.40.5-0.10.9
Locomotion velocity, session 72.42.74.31.52.0-2.10.0
Locomotion distance, session 72.12.64.21.81.8-2.0-0.0
Stereotopy head waving bouts, day 70.50.62.1-1.5-0.00.20.4
Stereotopy head waving duration, day 70.20.30.9-1.00.20.00.3
Locomotion velocity, session 80.40.50.8-0.00.8-0.80.9
Locomotion distance, session 81.42.13.90.31.5-1.52.0
Degree of sensitization distance0.70.72.50.20.5-0.21.6
Degree of sensitization stereotypy0.70.82.8-1.7-0.40.5-0.0
Conditioned locomotion0.50.61.21.10.2-0.3-0.9
Cocaine response after cond. corrected0.10.10.2-0.3-0.30.40.3
Cocaine response after cond. not corrected0.10.10.2-0.5-0.20.20.5
Cocaine response before conditioning0.20.20.7-0.8-0.2-0.10.4
Saline control response1.82.34.0-2.0-1.51.6-0.7
Bone: connectivity density3.65.68.22.42.9-2.61.3
Bone: cortical apparent density0.60.81.7-1.3-0.51.00.5
Bone: cortical area0.71.11.71.20.7-1.3-0.9
Bone: cortical porosity1.31.42.70.31.3-1.01.6
Bone: cortical porosity1.21.31.80.51.3-1.21.3
Bone: cortical thickness1.01.62.0-1.3-1.41.0-1.4
Bone: cortical thickness1.92.34.4-2.1-1.51.5-0.6
Bone: cortical tissue density0.60.91.7-1.3-0.51.00.7
Condit. Reinf. active minus inactive responses0.00.10.2-0.40.1-0.0-0.0
Condit. Reinf. active-inactive response ratio0.00.00.1-0.2-0.00.10.0
Condit. Reinf. active responses0.10.10.2-0.3-0.10.1-0.4
Condit. Reinf. inactive responses0.10.10.2-0.3-0.10.3-0.4
Incentive salience index mean0.40.40.7-0.8-0.80.6-0.3
Condit. Reinf. lever presses1.31.83.3-1.3-1.81.5-0.3
Condit. Reinf. active minus inactive responses2.02.64.22.11.8-1.70.1
Condit. Reinf. active-inactive response ratio1.31.52.41.51.4-1.20.6
Condit. Reinf. active responses0.81.11.71.30.5-0.9-1.3
Condit. Reinf. inactive responses1.52.05.3-0.6-1.30.7-2.3
Condit. Reinf. lever presses0.20.30.5-0.6-0.60.3-0.7
Condit. Reinf. lever reinforcers received0.50.61.50.80.2-0.6-1.2
Conditioned reinforcement - actives0.30.51.5-0.60.3-0.61.2
Conditioned reinforcement - inactives0.91.31.9-0.51.2-1.41.3
Conditioned locomotion0.10.10.4-0.6-0.30.20.1
Patch foraging indifference point 0 sec0.50.81.2-0.8-1.10.7-1.0
Patch foraging indifference point AUC3.44.88.6-2.9-2.22.4-0.3
Delay disc. indifference point, 0s delay1.11.22.30.61.3-0.81.5
Delay disc. indifference point, 16s delay0.80.91.6-1.3-0.91.00.4
Delay disc. indifference point, 2s delay0.30.31.0-0.30.50.31.0
Delay disc. indifference point, 24s delay1.71.93.8-1.9-1.31.30.6
Delay disc. indifference point, 4s delay0.70.81.4-1.1-0.30.71.2
Delay disc. indifference point, 8s delay2.32.64.8-2.2-1.41.90.4
Indifference point function ln k2.95.18.42.92.4-2.5-0.1
Indifference point function log k2.95.18.42.92.4-2.5-0.1
Patch foraging total patch changes 0 sec0.50.91.5-0.7-1.10.7-1.2
Patch foraging total patch changes 12 sec4.25.58.6-2.9-2.52.5-0.7
Patch foraging total patch changes 18 sec0.81.32.8-1.7-1.01.20.1
Patch foraging total patch changes 24 sec0.50.81.3-1.1-1.10.8-0.4
Patch foraging total patch changes 6 sec3.55.39.1-3.0-2.52.3-0.6
Patch foraging time to switch 0 sec0.71.51.9-1.1-1.11.41.3
Patch foraging water rate 0 sec0.91.92.81.41.5-1.7-0.8
Patch foraging water rate 12 sec0.50.91.30.91.0-1.1-0.9
Patch foraging water rate 18 sec1.11.73.31.11.5-1.8-0.4
Patch foraging water rate 24 sec0.60.81.21.01.0-1.1-0.2
Patch foraging water rate 6 sec0.10.20.30.30.4-0.4-0.6
Seeking ratio, delayed vs. immediate footshock0.20.20.5-0.2-0.70.2-0.5
Distance traveled before self-admin0.50.61.10.41.0-0.90.7
Distance traveled after self-admin1.31.63.01.01.7-1.50.6
Extensor digitorum longus weight0.21.01.61.11.3-1.1-0.0
Bone: elastic displacement0.10.10.30.20.10.60.3
Bone: elastic work0.30.40.70.50.8-0.50.5
Bone: endosteal estimation3.98.411.43.33.2-3.40.9
Bone: endosteal perimeter3.98.310.73.23.1-3.31.5
Epididymis fat weight0.62.05.42.31.1-0.9-0.9
Delta time in closed arm before/after self-admin0.80.71.6-0.2-0.90.7-1.3
Delta time in open arm before/after self-admin2.62.66.30.61.4-1.32.5
Diff in mean of infusions in LGA sessions1.21.52.11.11.5-1.40.9
Delay discount exponential model param1.01.12.01.40.5-1.0-1.0
Extinction: sum of active levers before priming0.00.00.10.1-0.3-0.0-0.1
Active lever presses in extinction session 64.74.69.21.02.3-1.83.0
Bone: final force0.10.20.40.2-0.1-0.6-0.6
Bone: final moment0.20.30.50.4-0.1-0.6-0.7
Food consumed during 24 hour testing period0.20.30.6-0.8-0.60.2-0.5
Glucose0.10.20.30.60.1-0.4-0.6
Heart weight0.91.43.80.6-1.00.7-2.0
Delay discount hyperbolic model param0.70.81.51.20.4-0.9-1.0
Intermittent access intake day 1-15 change1.12.33.41.41.6-1.81.1
Intermittent access intake escalation1.73.55.21.72.0-2.31.3
Intermittent access intake escalation 24.75.37.01.82.5-2.62.2
Intermitt. access day 1 inactive lever presses0.00.10.30.30.6-0.30.0
Intermitt. access day 15 inactive lever presses0.20.40.60.70.8-0.8-0.1
Intermitt. access escalation Index0.50.70.80.90.9-0.9-0.7
Intermittent access day 1 total infusions0.10.20.3-0.10.6-0.50.6
Intermittent access day 15 total infusions1.52.24.01.51.5-2.00.7
Intermittent access terminal intake (last 3 days)1.62.03.41.01.6-1.81.2
Intermittent access total infusions0.60.71.10.50.9-1.00.7
Intermittent access day 1 locomotion0.20.20.40.60.2-0.40.4
Intermittent access day 15 total locomotion0.20.41.1-0.70.00.01.0
Intermittent access total locomotion0.50.61.9-0.20.5-0.41.4
Intermittent access standard deviation1.53.14.21.11.6-2.12.1
Left kidney weight0.10.61.1-0.5-1.00.5-0.9
Right kidney weight0.62.74.2-1.2-2.11.5-1.7
Cocaine induced anxiety1.21.72.31.41.5-1.30.9
Post-drug Anxiety0.70.71.71.10.00.2-1.3
Baseline Anxiety2.63.08.2-0.1-1.51.2-2.9
Tail length0.10.41.50.3-0.2-0.3-1.2
Length with tail0.10.62.1-0.3-0.4-0.5-1.5
Length without tail0.20.61.90.20.7-1.4-0.2
Times rat made contact with spout0.30.40.9-0.11.0-0.70.4
Lifetime Intake0.30.30.40.40.7-0.70.6
Liver weight, left0.10.20.6-0.1-0.80.5-0.4
Liver weight, right0.40.61.30.90.7-1.10.2
Locomotor activity0.10.10.2-0.00.3-0.5-0.4
Locomotor testing distance0.10.10.2-0.20.3-0.5-0.2
Locomotor testing rearing0.61.11.60.81.2-1.30.9
Locomotion in novel chamber2.83.64.72.22.2-2.01.0
Locomotion in novel chamber post-restriction0.10.20.3-0.5-0.50.2-0.3
Fecal boli incidents, locomotor time 10.81.11.90.21.4-1.21.1
Change in fecal boli incidents, locomotor task1.01.02.2-0.5-1.51.1-0.2
Time >=10cm from walls, locomotor time 10.20.20.7-0.3-0.2-0.80.1
Bouts of movement, locomotor time 10.50.51.1-1.0-0.30.70.6
Total resting periods, locomotor time 10.70.82.1-1.5-0.40.70.7
Rest time, locomotor task time 10.20.30.6-0.80.30.10.6
Distance moved, locomotor task time 10.60.92.50.5-1.00.2-1.6
Vertical activity count, locomotor time 10.30.61.70.3-0.90.2-1.3
Time >=10cm from walls, locomotor time 20.20.30.6-0.40.3-0.80.4
Bouts of movement, locomotor time 21.62.65.4-2.3-1.01.51.3
Total resting periods, locomotor time 21.62.86.0-2.4-1.01.41.5
Rest time, locomotor task time 20.60.71.8-1.3-0.10.41.0
Distance moved, locomotor task time 20.91.12.11.30.2-0.7-1.5
Vertical activity count, locomotor time 20.10.20.40.6-0.0-0.4-0.3
Light reinforcement 10.20.40.6-0.7-0.40.8-0.5
Light reinforcement 21.01.53.1-1.8-0.81.50.4
Bone: marrow area4.08.711.73.33.3-3.41.0
Bone: maximum diameter4.88.912.93.33.4-3.60.7
Bone: maximum force0.50.81.60.81.0-1.30.3
Bone: maximum moment0.50.91.51.00.9-1.20.2
Mean time between licks in bursts0.20.40.60.1-0.80.5-0.8
Mean num. licks in bursts1.72.63.81.91.7-1.90.1
Cd content in liver1.21.32.1-1.3-1.11.4-0.5
Co content in liver2.32.67.2-0.4-1.31.2-2.7
Cu content in liver3.94.68.2-2.9-2.12.40.3
Fe content in liver2.32.84.4-1.9-1.82.1-0.2
K content in liver1.41.34.5-0.8-0.10.12.1
Mg content in liver1.41.55.0-0.8-0.10.22.2
Mn content in liver3.03.35.1-2.3-1.11.52.2
Na content in liver1.21.32.1-1.4-1.01.10.9
Rb content in liver0.10.10.30.10.6-0.40.2
Se content in liver16.419.429.6-5.4-4.65.2-0.0
Sr content in liver0.40.30.6-0.8-0.60.6-0.3
Zn content in liver1.61.73.0-1.7-1.21.50.4
Bone: minimum diameter5.610.216.24.03.3-3.8-0.0
Time in familiar zone, hab. session 10.10.10.20.50.4-0.1-0.3
Time in novel zone, hab. session 10.20.20.4-0.7-0.40.10.1
Total zone transitions, hab. session 10.00.10.2-0.40.2-0.20.1
Total locomotion distance, hab. session 11.01.43.1-1.8-1.01.1-0.2
Locomotion velocity, hab. session 12.02.85.2-2.3-1.61.6-0.8
Time in familiar zone, hab. session 20.70.72.20.0-0.50.7-1.5
Time in novel zone, hab. session 20.10.10.1-0.30.1-0.30.3
Total zone transitions, hab. session 20.50.60.8-0.9-0.90.7-0.5
Total locomotion distance, hab. session 21.01.31.6-1.3-1.21.2-0.7
Locomotion velocity, hab. session 21.01.32.0-1.4-1.21.2-0.6
Novel to familiar place preference ratio4.85.29.90.82.5-2.03.2
Novelty place preference4.85.29.20.92.5-2.13.0
Time in novel zone, NPP test4.75.08.10.92.6-2.22.8
Total zone transitions, NPP test0.71.01.2-1.0-1.10.8-1.0
Total locomotion distance, NPP test1.92.64.8-2.2-1.61.5-0.8
Locomotion velocity, NPP test1.72.44.2-2.1-1.61.5-0.7
Intraocular pressure0.30.51.0-0.5-0.71.00.1
Delta distance traveled before/after self-admin1.11.21.91.41.2-1.20.3
Delta ambulatory time before/after self-admin1.62.03.21.81.5-1.60.2
Parametrial fat weight0.81.83.4-0.8-1.41.0-1.8
Pavlov. Cond. lever latency0.10.10.30.30.10.2-0.6
Pavlov. Cond. magazine entry latency0.71.01.3-0.9-1.10.7-1.0
Pavlov. Cond. change in total contacts0.00.00.0-0.2-0.2-0.1-0.1
Pavlov. Cond. index score0.40.50.9-1.0-0.80.5-0.3
Pavlov. Cond. latency score0.30.30.6-0.8-0.70.4-0.3
Pavlov. Cond. lever contacts0.30.40.7-0.7-0.80.50.1
Pavlov. Cond. magazine entry number0.20.20.60.20.6-0.20.8
Pavlov. Cond. intertrial magazine entries0.20.20.5-0.4-0.20.20.7
Pavlov. Cond. lever-magazine prob. diff.0.40.50.8-0.9-0.80.5-0.3
Pavlov. Cond. response bias0.20.20.5-0.5-0.70.3-0.3
Pavlov. Cond. lever latency1.11.51.81.31.2-0.91.3
Pavlov. Cond. magazine entry latency0.20.20.4-0.6-0.40.2-0.6
Pavlov. Cond. change in total contacts0.40.60.8-0.6-0.90.6-0.9
Pavlov. Cond. index score0.60.91.3-1.2-0.90.6-1.0
Pavlov. Cond. latency score0.50.71.1-1.1-0.70.5-0.9
Pavlov. Cond. lever contacts1.31.82.3-1.3-1.41.1-1.5
Pavlov. Cond. magazine entry number1.62.02.61.61.4-1.11.4
Pavlov. Cond. intertrial magazine entries0.81.21.71.31.2-0.90.7
Pavlov. Cond. lever-magazine prob. diff.0.50.71.3-1.1-0.80.5-0.8
Pavlov. Cond. response bias1.11.51.9-1.3-1.30.9-1.4
Time in closed arm before self-admin0.70.91.40.21.2-0.91.2
Time in closed arm after self-admin0.40.41.0-0.1-0.40.6-1.0
Time in open arm before self-admin0.40.51.10.3-0.30.8-1.1
Time in open arm after self-admin0.50.51.8-0.10.5-0.31.4
Bone: periosteal estimation2.65.48.12.72.5-2.80.5
Bone: periosteal perimeter2.74.66.62.52.3-2.60.5
Bone: post-yield work1.11.62.11.11.3-1.41.2
Progressive ratio test 1 active lever presses0.20.20.8-0.20.2-0.20.9
Progressive ratio test 1 breakpoint0.20.20.7-0.40.0-0.00.8
Progressive ratio test 1 inactive lever presses0.40.61.30.41.1-0.90.3
Progressive ratio test 2 active lever presses1.41.73.30.11.4-1.21.8
Progressive ratio test 2 breakpoint1.51.73.20.11.4-1.31.8
Progressive ratio test 2 inactive lever presses0.60.91.9-0.01.1-0.81.4
Incentive Sensitization - Responses1.82.53.50.31.8-1.81.9
Incentive Sensitization - Breakpoint1.72.23.00.21.7-1.71.7
Sum of active levers in priming session hrs 5-60.20.20.4-0.3-0.50.7-0.3
Progressive ratio0.40.71.70.2-0.70.7-1.3
Food seeking constrained by brief footshock0.20.20.5-0.7-0.50.1-0.2
Seeking ratio, punishment vs. effort0.20.30.9-0.9-0.1-0.10.7
Retroperitoneal fat weight0.21.02.90.3-0.70.7-1.7
Reaction time number correct1.93.75.51.92.3-2.01.3
Reaction time mean minus median0.20.51.20.70.2-0.6-1.1
Reaction time mean minus median AUC0.20.51.10.70.2-0.4-1.0
Reaction time num false alarms0.10.10.30.0-0.50.2-0.4
Reaction time num false alarms AUC0.10.20.40.1-0.60.2-0.5
Reaction time trials correct on left1.93.75.51.92.3-2.01.3
Reaction time trials on left1.93.55.31.92.3-2.01.2
Reaction time mean1.01.52.6-0.7-1.41.1-1.6
Reaction time mean AUC1.21.92.6-0.9-1.61.3-1.6
Median of all reaction times1.21.72.2-1.0-1.51.4-1.4
Reaction time omissions0.71.02.11.00.6-0.6-1.5
Reaction time false alarm rate1.01.42.6-0.8-1.61.1-1.0
Reaction time premature initiation rate0.60.81.8-0.7-0.90.2-1.3
Reaction time premature initiations0.30.50.90.30.4-0.8-0.9
Std. dev. reaction times0.71.34.40.3-0.70.1-2.1
Reaction time trials completed1.93.55.31.92.3-2.01.2
Reaction time trials AUC1.73.35.11.82.2-1.81.1
Run reversals in cocaine runway, females0.60.61.1-0.8-0.40.71.1
Run reversals in cocaine runway, males2.52.63.9-2.0-1.71.5-1.1
Latency to leave start box in cocaine runway2.12.45.12.31.5-1.3-0.7
Latency to leave start box in cocaine runway, F2.93.46.42.52.0-1.8-0.0
Latency to leave start box in cocaine runway, M0.30.20.50.70.20.1-0.6
Std. dev. time between licks in bursts1.72.33.9-1.1-1.92.0-0.5
Total sessions with >9 infusions0.40.40.9-0.4-0.81.0-0.2
Short access day 1 total inactive lever presses1.41.83.31.11.8-1.11.2
Short access day 10 total inactive lever presses0.00.10.2-0.20.4-0.3-0.4
Short access day 1 total infusions0.60.81.3-1.0-0.71.10.4
Short access day 10 total infusions0.91.21.6-1.1-1.21.3-0.8
Short access total infusions0.10.10.2-0.30.00.10.4
Short access day 1 locomotion0.20.30.80.20.00.50.9
Short access day 10 total locomotion0.20.30.6-0.7-0.50.40.6
Short access total locomotion0.20.20.5-0.4-0.40.70.4
One hour access (0.3 mA shock)2.93.34.91.02.0-2.21.8
Compulsive drug intake1.51.72.61.51.4-1.6-0.0
One hour access (shock baseline)0.10.20.6-0.00.2-0.40.8
Social response proportion3.33.75.31.71.9-1.72.3
Social responses0.81.11.41.10.8-1.11.2
Social time0.40.51.4-0.2-0.70.21.2
Soleus weight1.13.24.72.12.2-1.90.5
Bone: stiffness0.71.12.30.91.1-1.5-0.2
Tibialis anterior weight0.62.23.41.41.9-1.60.9
Time to tail flick, vehicle, before self-admin0.50.50.7-0.9-0.20.70.8
Time to tail flick, vehicle, after self-admin0.20.30.50.60.6-0.70.3
Time to tail flick, test, before self-admin0.90.91.30.60.9-1.01.1
Time to tail flick, test, after self-admin0.10.10.2-0.00.5-0.00.2
Delta time to tail flick, vehicle, before/after SA0.90.81.50.91.0-1.20.3
Delta time to tail flick, test, before/after SA0.20.20.4-0.6-0.20.6-0.2
Tibia length0.10.30.5-0.2-0.60.5-0.7
Ambulatory time before self-admin0.30.41.00.41.0-0.70.3
Ambulatory time after self-admin3.13.76.11.52.5-2.21.2
Bone: tissue strength0.10.10.40.60.1-0.3-0.1
Total heroin consumption0.10.10.2-0.5-0.10.00.4
Bone: trabecular number1.62.63.91.42.0-1.90.9
Bone: trabecular spacing1.31.72.4-0.8-1.51.3-1.4
Bone: trabecular thickness1.92.33.71.61.8-1.9-0.1
Bone: trabecular tissue density0.81.11.61.11.3-1.20.3
Water consumed over 24 hours0.60.81.2-0.21.1-1.01.1
Number of responses in last shaping day0.30.30.5-0.0-0.50.7-0.7