L1td1

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 L1td1 0.15 0.12 2.8e-11 0.11 0.11 0.1 0.11 1.4e-10 1.0e-10 1.5e-09 4.3e-10
2 pVTA gene expression L1td1 0.04 0.04 8.0e-04 0.02 0.03 0.01 0.01 5.0e-03 3.3e-03 2.0e-02 2.2e-02
3 IC alternative TSS XM_063288429.1 0.73 0.03 1.6e-03 0.02 0.02 -0 -0 4.3e-02 5.7e-02 5.0e-01 4.4e-01
4 PL gene expression L1td1 0.04 0.04 7.3e-05 0.04 0.04 0.05 0.04 7.7e-05 6.1e-05 6.5e-06 9.0e-05

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 density0.40.70.80.90.9-0.9-0.6
Area under the delay curve0.40.71.00.90.9-1.0-0.3
BMI with tail0.51.92.4-1.4-1.41.51.0
BMI without tail0.63.03.5-1.9-1.91.81.3
Body weight0.10.40.6-0.8-0.70.50.6
Weight adjusted by age0.41.11.5-1.2-1.21.10.7
Bone surface1.42.83.4-1.8-1.81.81.1
Bone volume0.30.50.7-0.8-0.80.80.5
Breakpoint value in progressive ratio session0.30.61.20.70.7-1.1-0.6
Number of licking bursts0.00.10.1-0.3-0.30.20.2
Context. condit. distance diff. score2.32.83.21.81.8-1.8-1.2
Locomotion velocity, session 10.00.00.1-0.2-0.20.10.2
Locomotion distance, session 10.60.81.00.90.9-1.0-0.6
Locomotion velocity, session 20.20.20.3-0.5-0.50.50.3
Locomotion distance, session 20.10.10.2-0.4-0.40.20.5
Locomotion velocity, session 30.00.00.00.00.0-0.00.1
Locomotion distance, session 30.00.00.00.00.0-0.00.2
Stereotopy head waving bouts, day 30.40.50.60.70.7-0.8-0.5
Stereotopy head waving duration, day 30.70.81.10.90.9-1.0-0.7
Locomotion velocity, session 70.20.20.30.50.5-0.6-0.3
Locomotion distance, session 70.20.30.30.50.5-0.6-0.3
Stereotopy head waving bouts, day 70.91.11.2-1.1-1.11.00.8
Stereotopy head waving duration, day 70.91.21.3-1.2-1.11.10.9
Locomotion velocity, session 80.30.40.50.70.7-0.7-0.4
Locomotion distance, session 80.81.21.51.11.1-1.2-0.7
Degree of sensitization distance0.10.10.1-0.3-0.30.30.1
Degree of sensitization stereotypy1.11.31.4-1.2-1.21.20.9
Conditioned locomotion0.00.00.00.10.1-0.1-0.0
Cocaine response after cond. corrected0.40.70.8-0.9-0.90.90.5
Cocaine response after cond. not corrected0.40.50.7-0.8-0.80.80.4
Cocaine response before conditioning0.00.00.00.10.10.0-0.0
Saline control response0.00.00.10.20.2-0.2-0.1
Bone: connectivity density1.01.61.9-1.4-1.41.40.9
Bone: cortical apparent density4.36.87.82.82.8-2.8-1.9
Bone: cortical area0.20.30.4-0.6-0.60.50.4
Bone: cortical porosity0.30.30.4-0.6-0.60.60.5
Bone: cortical porosity0.50.50.6-0.8-0.80.70.6
Bone: cortical thickness0.20.30.40.60.6-0.6-0.3
Bone: cortical thickness0.00.00.00.20.2-0.2-0.2
Bone: cortical tissue density4.26.77.72.82.8-2.8-2.0
Condit. Reinf. active minus inactive responses0.00.00.0-0.1-0.10.10.1
Condit. Reinf. active-inactive response ratio0.10.10.10.30.3-0.3-0.2
Condit. Reinf. active responses0.20.20.3-0.6-0.60.40.4
Condit. Reinf. inactive responses0.20.20.3-0.6-0.60.50.4
Incentive salience index mean0.00.00.0-0.1-0.10.10.1
Condit. Reinf. lever presses0.10.10.20.30.3-0.4-0.2
Condit. Reinf. active minus inactive responses0.81.21.51.21.2-1.2-0.7
Condit. Reinf. active-inactive response ratio0.20.40.50.70.7-0.7-0.4
Condit. Reinf. active responses0.71.01.31.11.1-1.1-0.5
Condit. Reinf. inactive responses1.21.72.21.51.5-1.5-0.7
Condit. Reinf. lever presses1.62.32.6-1.6-1.61.61.2
Condit. Reinf. lever reinforcers received0.30.40.50.70.7-0.7-0.2
Conditioned reinforcement - actives0.00.10.10.20.2-0.1-0.3
Conditioned reinforcement - inactives0.30.71.20.70.7-1.1-0.7
Conditioned locomotion0.20.30.40.50.5-0.6-0.3
Patch foraging indifference point 0 sec3.18.710.3-3.2-3.23.12.1
Patch foraging indifference point AUC0.41.01.3-1.1-1.10.90.8
Delay disc. indifference point, 0s delay1.61.82.31.51.5-1.4-0.9
Delay disc. indifference point, 16s delay0.40.50.6-0.8-0.80.60.8
Delay disc. indifference point, 2s delay0.20.20.20.50.5-0.5-0.1
Delay disc. indifference point, 24s delay0.10.20.30.50.5-0.6-0.1
Delay disc. indifference point, 4s delay2.72.93.81.91.9-1.9-0.8
Delay disc. indifference point, 8s delay1.01.72.11.41.4-1.5-0.7
Indifference point function ln k0.00.10.20.40.4-0.3-0.4
Indifference point function log k0.00.10.20.40.4-0.3-0.4
Patch foraging total patch changes 0 sec2.88.19.6-3.1-3.13.02.1
Patch foraging total patch changes 12 sec0.70.90.9-0.9-0.91.00.9
Patch foraging total patch changes 18 sec0.81.92.4-1.6-1.51.31.1
Patch foraging total patch changes 24 sec0.51.72.1-1.4-1.41.21.0
Patch foraging total patch changes 6 sec1.72.83.4-1.8-1.81.61.4
Patch foraging time to switch 0 sec0.62.22.81.61.6-1.7-1.0
Patch foraging water rate 0 sec0.62.12.6-1.6-1.61.51.0
Patch foraging water rate 12 sec1.14.35.2-2.3-2.22.11.7
Patch foraging water rate 18 sec0.10.20.2-0.5-0.40.30.4
Patch foraging water rate 24 sec0.00.00.0-0.1-0.0-0.10.1
Patch foraging water rate 6 sec0.10.20.2-0.5-0.50.4-0.0
Seeking ratio, delayed vs. immediate footshock0.00.00.10.20.2-0.30.0
Distance traveled before self-admin0.10.10.2-0.4-0.4-0.20.4
Distance traveled after self-admin0.20.40.8-0.7-0.6-0.10.9
Extensor digitorum longus weight0.52.12.51.51.5-1.6-1.1
Bone: elastic displacement0.60.70.90.90.9-0.9-0.7
Bone: elastic work1.62.02.41.51.5-1.5-1.1
Bone: endosteal estimation0.61.61.9-1.4-1.41.40.8
Bone: endosteal perimeter1.12.63.2-1.8-1.81.71.1
Epididymis fat weight0.00.20.50.40.4-0.7-0.1
Delta time in closed arm before/after self-admin0.00.00.1-0.0-0.10.3-0.3
Delta time in open arm before/after self-admin1.41.61.9-1.3-1.31.41.1
Diff in mean of infusions in LGA sessions0.10.10.2-0.4-0.40.20.1
Delay discount exponential model param0.50.71.1-0.9-0.91.00.2
Extinction: sum of active levers before priming0.20.40.70.60.6-0.9-0.3
Active lever presses in extinction session 60.00.00.1-0.1-0.1-0.1-0.3
Bone: final force0.20.30.30.60.6-0.5-0.5
Bone: final moment0.00.00.0-0.0-0.10.1-0.1
Food consumed during 24 hour testing period0.20.30.50.60.6-0.7-0.3
Glucose0.10.10.2-0.4-0.40.40.2
Heart weight2.03.33.82.01.9-1.9-1.4
Delay discount hyperbolic model param0.50.60.9-0.9-0.91.00.2
Intermittent access intake day 1-15 change0.00.10.30.30.3-0.6-0.2
Intermittent access intake escalation0.10.30.50.50.5-0.7-0.3
Intermittent access intake escalation 20.10.20.50.40.4-0.7-0.2
Intermitt. access day 1 inactive lever presses0.00.10.2-0.3-0.30.50.3
Intermitt. access day 15 inactive lever presses0.31.51.81.31.3-1.3-0.9
Intermitt. access escalation Index0.10.41.0-0.5-0.61.00.0
Intermittent access day 1 total infusions0.31.01.31.11.2-0.9-0.7
Intermittent access day 15 total infusions0.30.81.01.01.0-0.9-0.7
Intermittent access terminal intake (last 3 days)0.20.40.60.60.7-0.8-0.4
Intermittent access total infusions0.91.11.41.21.2-0.9-0.8
Intermittent access day 1 locomotion0.00.00.00.20.20.00.0
Intermittent access day 15 total locomotion0.00.00.0-0.00.00.00.2
Intermittent access total locomotion0.00.00.0-0.0-0.00.20.1
Intermittent access standard deviation0.10.60.70.80.9-0.8-0.6
Left kidney weight0.10.40.60.70.7-0.7-0.2
Right kidney weight0.10.50.80.70.8-0.9-0.3
Cocaine induced anxiety0.00.00.1-0.0-0.00.30.2
Post-drug Anxiety0.00.00.00.20.20.1-0.2
Baseline Anxiety0.00.00.00.00.00.0-0.2
Tail length0.10.51.10.60.6-1.1-0.3
Length with tail0.10.51.20.50.6-1.1-0.3
Length without tail0.00.10.20.20.2-0.5-0.1
Times rat made contact with spout0.00.00.0-0.1-0.10.10.1
Lifetime Intake0.91.11.51.21.2-1.0-0.8
Liver weight, left2.64.56.02.22.3-2.4-1.4
Liver weight, right1.93.44.61.92.0-2.1-1.2
Locomotor activity0.00.00.00.00.0-0.10.0
Locomotor testing distance0.71.82.2-1.5-1.51.31.0
Locomotor testing rearing0.00.00.10.10.1-0.20.2
Locomotion in novel chamber1.82.42.9-1.7-1.71.71.1
Locomotion in novel chamber post-restriction0.10.30.60.60.5-0.4-0.8
Fecal boli incidents, locomotor time 10.00.00.0-0.00.00.10.0
Change in fecal boli incidents, locomotor task0.10.10.10.40.4-0.4-0.2
Time >=10cm from walls, locomotor time 10.10.10.1-0.4-0.40.40.3
Bouts of movement, locomotor time 10.00.00.1-0.2-0.10.30.1
Total resting periods, locomotor time 10.00.10.1-0.2-0.20.30.1
Rest time, locomotor task time 10.20.30.3-0.6-0.50.30.6
Distance moved, locomotor task time 10.10.20.40.40.3-0.1-0.7
Vertical activity count, locomotor time 10.00.20.4-0.5-0.50.60.2
Time >=10cm from walls, locomotor time 20.82.42.91.71.7-1.5-1.2
Bouts of movement, locomotor time 20.20.61.0-0.8-0.81.00.4
Total resting periods, locomotor time 20.20.71.1-0.8-0.81.10.5
Rest time, locomotor task time 20.40.70.9-0.9-0.90.61.0
Distance moved, locomotor task time 20.91.21.51.21.1-0.9-1.2
Vertical activity count, locomotor time 20.10.20.30.50.5-0.4-0.5
Light reinforcement 10.10.71.00.80.9-1.0-0.5
Light reinforcement 20.10.20.20.50.4-0.4-0.4
Bone: marrow area0.51.31.6-1.3-1.31.30.7
Bone: maximum diameter0.30.70.9-0.9-0.90.80.5
Bone: maximum force0.00.00.00.10.1-0.1-0.1
Bone: maximum moment0.10.30.3-0.6-0.60.50.3
Mean time between licks in bursts1.16.98.12.92.8-2.8-1.9
Mean num. licks in bursts0.00.00.00.10.1-0.0-0.1
Cd content in liver0.80.81.0-1.0-1.01.00.6
Co content in liver0.10.10.10.20.2-0.3-0.2
Cu content in liver0.70.91.11.01.0-0.9-0.7
Fe content in liver0.00.00.00.20.2-0.0-0.0
K content in liver1.61.52.01.31.3-1.4-0.8
Mg content in liver0.40.40.6-0.8-0.80.60.5
Mn content in liver0.10.10.1-0.3-0.30.20.1
Na content in liver2.73.13.71.91.9-1.8-1.2
Rb content in liver0.40.40.70.60.6-0.8-0.5
Se content in liver0.10.20.3-0.4-0.40.50.3
Sr content in liver1.11.01.1-1.0-1.01.10.8
Zn content in liver0.80.91.0-1.0-1.01.00.7
Bone: minimum diameter1.32.53.1-1.8-1.71.61.1
Time in familiar zone, hab. session 12.22.43.01.71.7-1.7-1.1
Time in novel zone, hab. session 15.76.47.8-2.7-2.72.81.7
Total zone transitions, hab. session 11.41.92.41.51.5-1.5-1.0
Total locomotion distance, hab. session 10.00.10.10.30.3-0.3-0.2
Locomotion velocity, hab. session 10.10.10.20.30.3-0.4-0.2
Time in familiar zone, hab. session 20.40.50.60.80.8-0.8-0.5
Time in novel zone, hab. session 20.91.01.2-1.1-1.11.10.6
Total zone transitions, hab. session 23.84.85.72.32.4-2.4-1.6
Total locomotion distance, hab. session 21.62.02.51.51.5-1.6-1.0
Locomotion velocity, hab. session 21.31.72.21.41.4-1.5-0.9
Novel to familiar place preference ratio0.70.91.1-1.1-1.11.10.6
Novelty place preference0.50.60.8-0.9-0.90.90.4
Time in novel zone, NPP test0.81.01.3-1.1-1.11.10.6
Total zone transitions, NPP test1.52.22.91.51.6-1.7-1.0
Total locomotion distance, NPP test0.10.20.30.40.4-0.5-0.3
Locomotion velocity, NPP test0.30.40.60.60.6-0.8-0.4
Intraocular pressure0.00.00.00.20.20.2-0.0
Delta distance traveled before/after self-admin0.20.20.3-0.5-0.50.30.5
Delta ambulatory time before/after self-admin0.10.10.3-0.3-0.2-0.00.6
Parametrial fat weight5.913.916.7-4.0-4.14.12.5
Pavlov. Cond. lever latency0.20.20.40.50.5-0.6-0.2
Pavlov. Cond. magazine entry latency0.30.40.50.70.7-0.7-0.5
Pavlov. Cond. change in total contacts0.30.40.5-0.6-0.70.70.3
Pavlov. Cond. index score0.00.00.00.10.00.0-0.1
Pavlov. Cond. latency score0.00.00.0-0.0-0.10.1-0.1
Pavlov. Cond. lever contacts0.00.00.0-0.1-0.10.2-0.0
Pavlov. Cond. magazine entry number0.70.91.1-1.0-1.01.00.7
Pavlov. Cond. intertrial magazine entries0.60.70.90.90.9-1.0-0.6
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.1-0.10.2-0.0
Pavlov. Cond. response bias0.10.20.20.40.4-0.4-0.4
Pavlov. Cond. lever latency1.31.92.21.51.5-1.5-1.1
Pavlov. Cond. magazine entry latency1.01.51.7-1.3-1.31.31.0
Pavlov. Cond. change in total contacts0.92.22.6-1.6-1.61.61.1
Pavlov. Cond. index score1.01.51.8-1.3-1.31.41.0
Pavlov. Cond. latency score0.81.31.5-1.2-1.21.20.9
Pavlov. Cond. lever contacts1.42.12.4-1.5-1.51.61.1
Pavlov. Cond. magazine entry number0.30.40.50.60.6-0.7-0.6
Pavlov. Cond. intertrial magazine entries0.61.41.61.21.2-1.3-0.9
Pavlov. Cond. lever-magazine prob. diff.1.11.72.0-1.4-1.41.41.0
Pavlov. Cond. response bias1.21.61.8-1.3-1.31.41.0
Time in closed arm before self-admin0.10.10.20.40.4-0.3-0.1
Time in closed arm after self-admin0.10.10.10.40.30.2-0.2
Time in open arm before self-admin0.10.10.3-0.5-0.5-0.20.2
Time in open arm after self-admin2.52.73.5-1.9-1.81.51.4
Bone: periosteal estimation0.51.31.6-1.3-1.31.20.7
Bone: periosteal perimeter0.40.70.9-0.9-0.90.80.6
Bone: post-yield work1.11.92.3-1.5-1.51.50.9
Progressive ratio test 1 active lever presses1.73.03.92.02.0-1.6-1.3
Progressive ratio test 1 breakpoint2.13.64.52.12.1-1.8-1.4
Progressive ratio test 1 inactive lever presses1.53.85.02.22.2-2.0-1.2
Progressive ratio test 2 active lever presses0.10.10.10.40.4-0.3-0.3
Progressive ratio test 2 breakpoint0.20.20.30.50.5-0.5-0.4
Progressive ratio test 2 inactive lever presses0.10.50.60.70.7-0.8-0.5
Incentive Sensitization - Responses0.10.20.3-0.5-0.50.50.2
Incentive Sensitization - Breakpoint0.20.40.5-0.7-0.70.70.3
Sum of active levers in priming session hrs 5-60.40.40.80.50.6-0.9-0.3
Progressive ratio0.10.30.50.50.5-0.7-0.4
Food seeking constrained by brief footshock4.05.05.72.42.3-2.3-1.9
Seeking ratio, punishment vs. effort0.41.01.31.11.1-0.9-0.8
Retroperitoneal fat weight0.41.72.1-1.5-1.41.21.0
Reaction time number correct0.00.00.1-0.2-0.2-0.10.3
Reaction time mean minus median0.10.40.6-0.8-0.70.50.7
Reaction time mean minus median AUC0.00.10.1-0.3-0.30.10.4
Reaction time num false alarms0.10.20.2-0.5-0.50.40.3
Reaction time num false alarms AUC0.30.70.9-0.9-0.90.90.6
Reaction time trials correct on left0.00.00.1-0.2-0.2-0.10.3
Reaction time trials on left0.00.10.1-0.3-0.2-0.10.4
Reaction time mean0.51.01.2-1.1-1.11.10.7
Reaction time mean AUC0.20.50.6-0.7-0.80.70.6
Median of all reaction times0.71.21.6-1.1-1.21.30.7
Reaction time omissions0.60.91.2-1.0-1.01.10.7
Reaction time false alarm rate0.60.81.1-0.9-1.01.00.6
Reaction time premature initiation rate0.20.40.50.70.7-0.70.1
Reaction time premature initiations0.20.61.00.80.8-1.00.1
Std. dev. reaction times0.72.22.7-1.6-1.71.41.2
Reaction time trials completed0.00.10.1-0.3-0.2-0.10.4
Reaction time trials AUC0.00.10.1-0.3-0.2-0.10.3
Run reversals in cocaine runway, females0.10.10.10.30.3-0.3-0.1
Run reversals in cocaine runway, males0.50.60.6-0.8-0.70.70.8
Latency to leave start box in cocaine runway0.20.30.30.50.5-0.5-0.4
Latency to leave start box in cocaine runway, F0.10.10.2-0.4-0.40.40.2
Latency to leave start box in cocaine runway, M0.90.81.01.01.0-0.9-0.7
Std. dev. time between licks in bursts0.00.00.0-0.1-0.10.10.0
Total sessions with >9 infusions1.82.22.81.61.6-1.7-0.9
Short access day 1 total inactive lever presses0.10.10.30.30.3-0.2-0.5
Short access day 10 total inactive lever presses0.31.92.7-1.4-1.41.61.0
Short access day 1 total infusions0.10.20.30.50.5-0.3-0.5
Short access day 10 total infusions0.91.51.81.31.3-1.4-0.8
Short access total infusions0.50.81.01.01.0-0.8-0.6
Short access day 1 locomotion0.00.00.10.20.20.1-0.2
Short access day 10 total locomotion0.10.40.6-0.6-0.60.80.4
Short access total locomotion0.10.20.30.60.6-0.4-0.3
One hour access (0.3 mA shock)0.00.00.00.20.2-0.20.0
Compulsive drug intake2.43.54.8-1.9-1.92.21.4
One hour access (shock baseline)0.92.22.91.61.6-1.7-1.0
Social response proportion0.70.91.4-1.0-1.11.20.4
Social responses0.50.70.80.90.9-0.9-0.6
Social time0.00.00.00.10.0-0.0-0.1
Soleus weight0.00.10.10.30.3-0.3-0.3
Bone: stiffness0.00.00.00.00.0-0.10.1
Tibialis anterior weight6.923.827.8-5.3-5.35.33.4
Time to tail flick, vehicle, before self-admin0.81.01.6-1.2-1.20.80.6
Time to tail flick, vehicle, after self-admin0.71.51.8-1.4-1.31.11.1
Time to tail flick, test, before self-admin0.00.00.1-0.00.0-0.30.1
Time to tail flick, test, after self-admin0.20.20.40.40.4-0.6-0.1
Delta time to tail flick, vehicle, before/after SA0.00.00.10.30.2-0.00.1
Delta time to tail flick, test, before/after SA0.10.10.2-0.4-0.40.50.3
Tibia length2.36.47.82.72.7-2.8-1.7
Ambulatory time before self-admin0.00.10.3-0.1-0.0-0.50.2
Ambulatory time after self-admin0.10.20.3-0.4-0.4-0.20.6
Bone: tissue strength0.10.10.2-0.4-0.40.40.1
Total heroin consumption0.30.40.50.50.5-0.7-0.7
Bone: trabecular number0.10.20.30.50.5-0.5-0.3
Bone: trabecular spacing0.00.00.00.0-0.00.0-0.1
Bone: trabecular thickness0.10.10.20.40.4-0.4-0.3
Bone: trabecular tissue density10.217.820.74.64.5-4.5-3.1
Water consumed over 24 hours0.00.00.0-0.0-0.00.00.0
Number of responses in last shaping day0.10.10.20.40.4-0.4-0.2