Tcap

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 BLA gene expression Tcap 0.09 0.07 1.9e-03 0.04 0.02 0.03 0.03 3.0e-03 2.6e-02 7.7e-03 1.3e-02
2 NAcc gene expression Tcap 0.04 0.03 6.4e-05 0.04 0.04 0.03 0.04 1.7e-05 3.1e-05 2.9e-04 4.5e-05
3 Brain gene expression Tcap 0.23 0.11 2.2e-16 0.15 0.17 0.15 0.15 4.8e-14 2.3e-15 1.7e-13 4.5e-14
4 PL gene expression Tcap 0.21 0.09 1.6e-13 0.1 0.11 0.07 0.1 2.1e-11 1.6e-12 9.0e-08 2.0e-11

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 density2.33.84.12.02.0-2.0-1.8
Area under the delay curve0.90.91.30.80.9-1.0-1.1
BMI with tail1.34.25.7-2.4-2.41.91.4
BMI without tail0.10.20.4-0.6-0.60.30.1
Body weight5.623.326.0-5.1-5.14.74.3
Weight adjusted by age0.10.10.1-0.3-0.40.20.1
Bone surface0.00.00.0-0.1-0.1-0.1-0.1
Bone volume0.10.20.40.40.4-0.6-0.5
Breakpoint value in progressive ratio session2.32.54.5-1.3-1.31.52.1
Number of licking bursts0.91.01.50.90.8-1.1-1.2
Context. condit. distance diff. score0.30.40.6-0.7-0.60.80.4
Locomotion velocity, session 10.80.81.1-1.0-1.00.80.8
Locomotion distance, session 13.74.75.4-2.3-2.32.02.0
Locomotion velocity, session 20.80.91.1-0.9-1.00.91.0
Locomotion distance, session 21.01.41.6-1.2-1.21.01.3
Locomotion velocity, session 30.40.50.8-0.5-0.50.70.9
Locomotion distance, session 30.60.60.6-0.8-0.80.80.8
Stereotopy head waving bouts, day 33.44.04.62.12.1-1.9-1.8
Stereotopy head waving duration, day 30.60.70.70.90.8-0.8-0.8
Locomotion velocity, session 70.60.70.9-1.0-1.00.80.6
Locomotion distance, session 70.10.10.1-0.3-0.30.30.1
Stereotopy head waving bouts, day 71.21.41.61.11.1-1.2-1.3
Stereotopy head waving duration, day 70.30.30.30.60.6-0.6-0.6
Locomotion velocity, session 86.27.48.2-2.9-2.92.82.4
Locomotion distance, session 81.42.12.4-1.6-1.51.41.3
Degree of sensitization distance0.10.10.2-0.4-0.40.40.2
Degree of sensitization stereotypy2.02.22.61.41.4-1.5-1.6
Conditioned locomotion0.10.10.10.30.3-0.2-0.1
Cocaine response after cond. corrected3.84.25.41.91.9-2.1-2.3
Cocaine response after cond. not corrected5.86.48.12.32.3-2.6-2.8
Cocaine response before conditioning1.01.21.31.11.1-1.0-1.1
Saline control response0.60.81.50.60.7-0.9-1.2
Bone: connectivity density2.64.24.62.12.1-2.1-1.8
Bone: cortical apparent density5.16.78.32.92.9-2.5-2.0
Bone: cortical area0.30.50.60.60.6-0.7-0.8
Bone: cortical porosity1.01.01.50.90.9-1.1-1.2
Bone: cortical porosity1.31.42.11.01.0-1.3-1.5
Bone: cortical thickness1.93.23.31.81.8-1.7-1.7
Bone: cortical thickness4.75.46.62.62.6-2.2-1.8
Bone: cortical tissue density5.16.78.32.92.9-2.5-2.0
Condit. Reinf. active minus inactive responses0.20.30.40.70.6-0.4-0.2
Condit. Reinf. active-inactive response ratio0.30.30.60.80.8-0.5-0.2
Condit. Reinf. active responses0.60.70.91.00.9-0.8-0.6
Condit. Reinf. inactive responses0.81.01.10.90.9-1.0-1.1
Incentive salience index mean1.01.21.61.31.2-1.1-0.8
Condit. Reinf. lever presses1.01.41.51.21.2-1.2-1.0
Condit. Reinf. active minus inactive responses0.30.40.60.70.7-0.7-0.3
Condit. Reinf. active-inactive response ratio0.20.20.20.50.5-0.5-0.1
Condit. Reinf. active responses0.70.91.21.11.1-1.0-0.6
Condit. Reinf. inactive responses1.92.42.61.61.6-1.6-1.3
Condit. Reinf. lever presses0.00.00.00.20.2-0.00.1
Condit. Reinf. lever reinforcers received0.60.81.11.01.0-0.9-0.5
Conditioned reinforcement - actives1.31.31.61.21.2-1.0-1.0
Conditioned reinforcement - inactives0.60.61.01.01.0-0.7-0.3
Conditioned locomotion1.21.41.71.11.1-1.3-1.3
Patch foraging indifference point 0 sec1.11.82.41.51.5-1.2-1.0
Patch foraging indifference point AUC0.00.00.10.00.0-0.1-0.2
Delay disc. indifference point, 0s delay1.11.21.31.11.1-1.2-1.0
Delay disc. indifference point, 16s delay0.80.80.80.90.9-0.8-0.9
Delay disc. indifference point, 2s delay3.03.43.91.81.7-1.9-2.0
Delay disc. indifference point, 24s delay0.20.20.50.40.4-0.4-0.7
Delay disc. indifference point, 4s delay0.60.60.90.70.6-1.0-0.9
Delay disc. indifference point, 8s delay0.60.60.90.60.8-0.7-1.0
Indifference point function ln k0.00.00.0-0.0-0.10.0-0.1
Indifference point function log k0.00.00.0-0.0-0.10.0-0.1
Patch foraging total patch changes 0 sec0.71.21.51.21.2-1.0-0.8
Patch foraging total patch changes 12 sec4.65.97.12.62.7-2.4-2.0
Patch foraging total patch changes 18 sec0.60.81.00.91.0-0.8-0.9
Patch foraging total patch changes 24 sec2.63.23.51.71.7-1.8-1.9
Patch foraging total patch changes 6 sec1.42.12.51.51.6-1.4-1.2
Patch foraging time to switch 0 sec0.00.00.10.20.2-0.1-0.0
Patch foraging water rate 0 sec0.00.10.1-0.2-0.20.20.3
Patch foraging water rate 12 sec0.40.60.8-0.7-0.80.70.9
Patch foraging water rate 18 sec0.30.40.60.60.6-0.8-0.6
Patch foraging water rate 24 sec0.10.10.20.40.4-0.4-0.0
Patch foraging water rate 6 sec0.60.91.21.11.1-1.0-0.5
Seeking ratio, delayed vs. immediate footshock0.10.10.3-0.3-0.20.20.5
Distance traveled before self-admin0.60.60.8-0.9-0.90.60.8
Distance traveled after self-admin2.02.32.3-1.5-1.51.51.5
Extensor digitorum longus weight7.328.633.0-5.7-5.75.44.4
Bone: elastic displacement0.00.00.00.10.1-0.2-0.2
Bone: elastic work0.00.00.00.00.0-0.10.1
Bone: endosteal estimation2.04.35.3-2.3-2.32.01.7
Bone: endosteal perimeter1.94.04.4-2.1-2.12.01.9
Epididymis fat weight0.41.01.5-0.8-0.81.01.2
Delta time in closed arm before/after self-admin3.83.74.5-2.1-2.11.81.6
Delta time in open arm before/after self-admin0.10.10.10.30.3-0.3-0.3
Diff in mean of infusions in LGA sessions0.70.81.7-0.6-0.61.01.3
Delay discount exponential model param0.50.50.8-0.6-0.60.70.9
Extinction: sum of active levers before priming0.70.71.0-1.0-1.00.80.4
Active lever presses in extinction session 60.20.20.40.30.3-0.6-0.3
Bone: final force1.72.73.31.51.5-1.7-1.8
Bone: final moment1.42.33.01.41.4-1.6-1.7
Food consumed during 24 hour testing period0.60.80.9-1.0-0.90.90.8
Glucose1.01.52.21.01.0-1.3-1.5
Heart weight3.44.95.7-2.4-2.42.11.9
Delay discount hyperbolic model param0.70.81.1-0.7-0.80.91.1
Intermittent access intake day 1-15 change0.10.10.10.30.3-0.10.3
Intermittent access intake escalation0.10.10.20.00.00.10.4
Intermittent access intake escalation 20.30.30.3-0.5-0.50.40.6
Intermitt. access day 1 inactive lever presses0.50.50.90.90.9-0.40.1
Intermitt. access day 15 inactive lever presses1.71.92.71.31.3-1.6-1.1
Intermitt. access escalation Index0.40.30.4-0.6-0.60.70.1
Intermittent access day 1 total infusions0.10.10.20.40.4-0.2-0.1
Intermittent access day 15 total infusions0.10.10.20.40.4-0.20.2
Intermittent access terminal intake (last 3 days)0.20.20.30.60.6-0.30.1
Intermittent access total infusions0.10.10.20.20.20.10.5
Intermittent access day 1 locomotion0.20.30.30.50.5-0.5-0.5
Intermittent access day 15 total locomotion0.40.40.60.50.5-0.8-0.7
Intermittent access total locomotion0.40.40.50.70.7-0.7-0.5
Intermittent access standard deviation0.20.20.50.30.30.00.7
Left kidney weight2.77.57.6-2.8-2.72.72.7
Right kidney weight0.51.31.5-1.1-1.11.21.2
Cocaine induced anxiety1.72.02.4-1.6-1.61.41.1
Post-drug Anxiety0.00.00.0-0.1-0.1-0.0-0.2
Baseline Anxiety3.03.23.41.81.8-1.8-1.8
Tail length1.23.74.3-1.9-1.91.82.1
Length with tail4.918.018.4-4.2-4.24.34.3
Length without tail4.610.110.4-3.2-3.23.23.2
Times rat made contact with spout1.11.31.51.11.1-1.2-1.1
Lifetime Intake0.10.10.40.10.10.20.6
Liver weight, left0.20.30.4-0.4-0.50.40.7
Liver weight, right0.00.10.10.20.20.00.4
Locomotor activity0.71.11.31.01.0-1.1-1.1
Locomotor testing distance2.74.64.72.22.2-2.1-2.1
Locomotor testing rearing4.36.67.62.72.8-2.6-2.2
Locomotion in novel chamber4.75.88.22.12.1-2.9-2.5
Locomotion in novel chamber post-restriction0.91.11.31.11.0-1.1-0.9
Fecal boli incidents, locomotor time 10.20.20.3-0.5-0.60.20.1
Change in fecal boli incidents, locomotor task0.20.20.20.40.4-0.4-0.5
Time >=10cm from walls, locomotor time 11.01.01.11.01.0-0.9-1.0
Bouts of movement, locomotor time 10.50.50.8-0.7-0.60.90.7
Total resting periods, locomotor time 10.60.70.9-0.9-0.71.00.7
Rest time, locomotor task time 10.00.00.00.00.20.0-0.0
Distance moved, locomotor task time 10.30.30.50.70.4-0.6-0.5
Vertical activity count, locomotor time 10.10.10.2-0.3-0.5-0.0-0.0
Time >=10cm from walls, locomotor time 22.22.32.91.41.3-1.6-1.7
Bouts of movement, locomotor time 20.00.00.00.00.10.10.1
Total resting periods, locomotor time 20.10.10.2-0.2-0.10.40.4
Rest time, locomotor task time 21.41.62.0-1.4-1.31.21.1
Distance moved, locomotor task time 20.10.10.20.30.2-0.4-0.5
Vertical activity count, locomotor time 20.00.00.0-0.1-0.1-0.0-0.2
Light reinforcement 11.42.63.41.81.8-1.6-1.1
Light reinforcement 20.70.91.11.00.9-1.0-0.9
Bone: marrow area1.94.15.0-2.2-2.21.91.7
Bone: maximum diameter0.00.00.00.10.1-0.2-0.2
Bone: maximum force0.20.30.50.40.4-0.5-0.7
Bone: maximum moment0.10.20.40.20.2-0.4-0.6
Mean time between licks in bursts1.31.92.2-1.5-1.41.31.2
Mean num. licks in bursts0.00.00.1-0.00.00.10.3
Cd content in liver0.10.10.10.30.3-0.2-0.2
Co content in liver1.61.82.5-1.2-1.21.41.6
Cu content in liver1.31.52.5-1.0-1.01.21.6
Fe content in liver1.31.61.9-1.4-1.41.11.1
K content in liver0.30.30.40.60.6-0.6-0.3
Mg content in liver0.20.30.40.60.6-0.4-0.2
Mn content in liver0.40.40.70.80.8-0.5-0.1
Na content in liver0.40.40.50.60.6-0.7-0.7
Rb content in liver0.81.01.21.11.1-1.1-0.9
Se content in liver1.92.33.31.81.8-1.4-0.8
Sr content in liver0.40.40.8-0.4-0.40.60.9
Zn content in liver1.11.21.61.31.3-1.1-0.5
Bone: minimum diameter0.40.70.9-0.9-0.90.80.6
Time in familiar zone, hab. session 10.60.60.80.60.6-0.9-0.8
Time in novel zone, hab. session 10.60.60.80.90.9-0.6-0.6
Total zone transitions, hab. session 12.13.03.1-1.7-1.71.81.7
Total locomotion distance, hab. session 10.10.10.2-0.2-0.20.30.5
Locomotion velocity, hab. session 10.81.11.5-0.9-0.91.11.2
Time in familiar zone, hab. session 20.40.40.50.60.6-0.7-0.5
Time in novel zone, hab. session 20.00.00.00.20.2-0.00.0
Total zone transitions, hab. session 20.50.60.9-0.9-0.90.70.5
Total locomotion distance, hab. session 20.10.10.2-0.4-0.40.30.2
Locomotion velocity, hab. session 20.30.30.5-0.7-0.70.50.5
Novel to familiar place preference ratio1.41.51.6-1.3-1.21.31.1
Novelty place preference0.90.91.1-1.0-0.91.00.8
Time in novel zone, NPP test0.20.20.3-0.5-0.40.50.3
Total zone transitions, NPP test0.20.30.5-0.7-0.70.40.3
Total locomotion distance, NPP test0.00.00.10.10.1-0.3-0.2
Locomotion velocity, NPP test0.20.30.4-0.6-0.60.40.4
Intraocular pressure1.11.51.9-1.4-1.41.30.9
Delta distance traveled before/after self-admin0.91.01.2-1.0-1.01.10.8
Delta ambulatory time before/after self-admin0.10.10.3-0.3-0.30.50.1
Parametrial fat weight0.30.50.91.01.0-0.60.0
Pavlov. Cond. lever latency3.03.84.2-2.0-2.02.01.8
Pavlov. Cond. magazine entry latency9.912.714.13.73.8-3.6-3.1
Pavlov. Cond. change in total contacts7.27.79.33.03.0-2.7-2.2
Pavlov. Cond. index score8.610.911.73.43.4-3.4-3.0
Pavlov. Cond. latency score7.08.99.53.03.0-3.1-2.7
Pavlov. Cond. lever contacts2.83.33.71.81.8-1.9-1.7
Pavlov. Cond. magazine entry number12.715.817.5-4.2-4.24.03.5
Pavlov. Cond. intertrial magazine entries1.51.82.0-1.3-1.41.41.2
Pavlov. Cond. lever-magazine prob. diff.9.712.012.93.63.6-3.5-3.1
Pavlov. Cond. response bias9.311.312.63.53.5-3.4-2.9
Pavlov. Cond. lever latency0.20.20.3-0.5-0.50.50.4
Pavlov. Cond. magazine entry latency0.00.00.0-0.1-0.1-0.1-0.1
Pavlov. Cond. change in total contacts0.30.40.50.70.7-0.7-0.5
Pavlov. Cond. index score0.20.30.40.50.5-0.6-0.6
Pavlov. Cond. latency score0.10.20.20.40.3-0.5-0.5
Pavlov. Cond. lever contacts0.81.01.21.01.0-1.1-1.0
Pavlov. Cond. magazine entry number0.20.20.3-0.3-0.30.50.5
Pavlov. Cond. intertrial magazine entries1.72.22.8-1.4-1.41.71.5
Pavlov. Cond. lever-magazine prob. diff.0.10.10.20.30.3-0.4-0.4
Pavlov. Cond. response bias0.91.21.51.11.1-1.2-1.0
Time in closed arm before self-admin1.21.31.91.41.4-0.9-0.9
Time in closed arm after self-admin0.80.81.0-0.8-0.81.00.9
Time in open arm before self-admin3.94.25.1-2.2-2.21.81.9
Time in open arm after self-admin0.80.81.0-1.0-1.00.80.9
Bone: periosteal estimation0.10.30.4-0.6-0.60.40.3
Bone: periosteal perimeter0.50.91.2-1.1-1.10.90.7
Bone: post-yield work0.81.11.4-1.2-1.21.10.8
Progressive ratio test 1 active lever presses1.61.61.71.31.3-1.2-1.3
Progressive ratio test 1 breakpoint1.61.61.91.41.4-1.1-1.2
Progressive ratio test 1 inactive lever presses0.60.61.01.01.0-0.6-0.3
Progressive ratio test 2 active lever presses0.80.91.01.01.0-1.0-0.7
Progressive ratio test 2 breakpoint0.80.91.01.01.0-1.0-0.8
Progressive ratio test 2 inactive lever presses0.00.00.1-0.2-0.2-0.10.4
Incentive Sensitization - Responses0.80.81.00.90.9-1.0-0.7
Incentive Sensitization - Breakpoint0.70.81.10.80.8-1.0-0.8
Sum of active levers in priming session hrs 5-60.30.30.40.50.5-0.6-0.5
Progressive ratio0.00.00.0-0.0-0.1-0.1-0.0
Food seeking constrained by brief footshock0.40.50.80.90.8-0.5-0.5
Seeking ratio, punishment vs. effort0.30.40.50.70.7-0.4-0.7
Retroperitoneal fat weight0.10.40.5-0.5-0.50.60.7
Reaction time number correct0.71.01.3-1.1-1.10.80.9
Reaction time mean minus median0.00.00.1-0.3-0.30.20.0
Reaction time mean minus median AUC0.30.40.70.50.5-0.6-0.9
Reaction time num false alarms0.81.11.31.01.0-1.2-1.1
Reaction time num false alarms AUC0.70.91.00.90.9-1.0-1.0
Reaction time trials correct on left0.71.01.3-1.1-1.10.80.9
Reaction time trials on left0.70.91.2-1.1-1.10.80.8
Reaction time mean0.00.00.10.10.10.10.3
Reaction time mean AUC0.00.00.2-0.0-0.10.20.4
Median of all reaction times0.10.20.30.60.5-0.4-0.0
Reaction time omissions0.70.91.21.11.1-0.9-0.7
Reaction time false alarm rate1.31.81.91.31.4-1.3-1.3
Reaction time premature initiation rate0.30.40.70.80.8-0.4-0.2
Reaction time premature initiations0.00.10.2-0.1-0.00.30.4
Std. dev. reaction times0.00.00.00.10.1-0.0-0.1
Reaction time trials completed0.70.91.2-1.1-1.10.80.8
Reaction time trials AUC0.50.71.0-1.0-1.00.70.7
Run reversals in cocaine runway, females3.02.93.2-1.8-1.71.71.6
Run reversals in cocaine runway, males0.40.40.70.20.2-0.9-0.8
Latency to leave start box in cocaine runway3.23.43.8-1.9-1.91.71.8
Latency to leave start box in cocaine runway, F2.42.62.8-1.7-1.71.61.6
Latency to leave start box in cocaine runway, M0.60.60.9-0.7-0.70.61.0
Std. dev. time between licks in bursts0.20.30.4-0.6-0.60.40.5
Total sessions with >9 infusions0.70.81.21.11.1-0.7-0.7
Short access day 1 total inactive lever presses0.80.91.41.21.2-0.9-0.3
Short access day 10 total inactive lever presses0.91.01.9-0.7-0.71.01.4
Short access day 1 total infusions0.10.10.20.40.4-0.00.4
Short access day 10 total infusions0.10.10.20.50.5-0.3-0.1
Short access total infusions0.10.20.50.20.20.30.7
Short access day 1 locomotion1.92.02.61.61.6-1.4-0.9
Short access day 10 total locomotion1.71.92.01.41.4-1.4-1.4
Short access total locomotion0.30.30.50.70.7-0.4-0.2
One hour access (0.3 mA shock)0.00.00.10.30.30.10.1
Compulsive drug intake0.00.00.10.10.10.40.2
One hour access (shock baseline)0.00.00.00.20.2-0.20.0
Social response proportion0.10.10.30.10.1-0.2-0.5
Social responses0.10.20.20.30.3-0.5-0.5
Social time0.00.00.0-0.1-0.1-0.1-0.1
Soleus weight0.92.74.91.21.2-1.7-2.2
Bone: stiffness0.10.20.40.40.4-0.4-0.6
Tibialis anterior weight1.13.64.7-2.2-2.21.81.4
Time to tail flick, vehicle, before self-admin0.30.30.30.50.5-0.5-0.6
Time to tail flick, vehicle, after self-admin0.20.20.40.40.4-0.6-0.6
Time to tail flick, test, before self-admin0.60.50.7-0.8-0.80.80.6
Time to tail flick, test, after self-admin0.20.20.30.30.3-0.5-0.4
Delta time to tail flick, vehicle, before/after SA0.50.50.60.70.7-0.8-0.8
Delta time to tail flick, test, before/after SA1.91.82.51.21.2-1.6-1.3
Tibia length0.41.32.0-1.4-1.40.90.4
Ambulatory time before self-admin1.01.11.3-1.1-1.10.81.0
Ambulatory time after self-admin3.23.53.6-1.9-1.91.91.8
Bone: tissue strength0.20.10.2-0.5-0.50.40.1
Total heroin consumption0.20.20.40.40.4-0.60.0
Bone: trabecular number5.17.98.42.92.9-2.9-2.6
Bone: trabecular spacing0.70.91.2-1.1-1.10.80.6
Bone: trabecular thickness0.00.00.10.20.2-0.2-0.1
Bone: trabecular tissue density0.00.00.00.10.10.20.1
Water consumed over 24 hours0.00.00.00.10.1-0.1-0.1
Number of responses in last shaping day0.20.20.5-0.2-0.20.30.7