Plxdc1

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 mRNA stability Plxdc1 0.11 0.14 1.1e-04 0.04 0.03 0.03 0.04 7.0e-05 9.3e-04 1.7e-03 1.8e-04
2 NAcc mRNA stability Plxdc1 0.02 0.02 7.3e-03 0.01 0.01 0.01 0.01 3.2e-03 4.5e-03 4.8e-03 2.2e-03
3 Brain gene expression Plxdc1 0.04 0.04 1.1e-04 0.04 0.04 0.04 0.03 2.1e-04 1.9e-04 2.4e-04 3.3e-04
4 Adipose gene expression Plxdc1 0.23 0.22 3.1e-13 0.12 0.11 0.12 0.12 8.7e-13 1.9e-12 5.8e-13 9.9e-13

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 density2.33.94.42.12.01.82.0
Area under the delay curve1.01.11.41.20.71.11.1
BMI with tail2.07.08.1-2.8-2.7-2.6-2.4
BMI without tail1.54.55.5-2.1-2.3-2.2-1.7
Body weight7.432.333.9-5.6-5.7-5.8-5.6
Weight adjusted by age0.10.20.3-0.2-0.6-0.4-0.6
Bone surface0.00.10.30.50.0-0.00.1
Bone volume0.20.30.60.80.50.30.4
Breakpoint value in progressive ratio session1.72.02.4-1.4-1.5-1.5-1.2
Number of licking bursts0.30.50.80.60.90.80.6
Context. condit. distance diff. score0.60.71.0-1.0-0.8-0.7-0.8
Locomotion velocity, session 10.91.01.2-0.8-1.0-1.1-1.1
Locomotion distance, session 13.54.45.7-1.8-2.4-2.3-1.9
Locomotion velocity, session 20.60.70.9-0.8-0.8-0.9-0.8
Locomotion distance, session 20.81.01.6-0.6-1.3-1.2-0.8
Locomotion velocity, session 30.10.10.2-0.3-0.4-0.4-0.2
Locomotion distance, session 30.50.50.6-0.6-0.8-0.8-0.7
Stereotopy head waving bouts, day 33.74.34.81.92.22.12.1
Stereotopy head waving duration, day 30.60.71.00.71.00.90.8
Locomotion velocity, session 70.80.91.0-0.9-1.0-0.9-0.9
Locomotion distance, session 70.10.10.3-0.5-0.3-0.3-0.3
Stereotopy head waving bouts, day 71.41.51.91.31.41.31.0
Stereotopy head waving duration, day 70.30.40.60.60.80.60.4
Locomotion velocity, session 87.38.89.5-3.1-3.0-2.9-2.9
Locomotion distance, session 81.72.52.9-1.4-1.7-1.6-1.6
Degree of sensitization distance0.40.40.7-0.9-0.4-0.5-0.6
Degree of sensitization stereotypy1.82.02.41.41.51.41.2
Conditioned locomotion0.10.20.20.40.40.50.4
Cocaine response after cond. corrected2.22.63.51.51.91.61.4
Cocaine response after cond. not corrected3.13.75.01.72.22.01.7
Cocaine response before conditioning0.50.60.80.30.90.90.8
Saline control response0.00.00.0-0.10.10.1-0.0
Bone: connectivity density3.24.95.52.32.12.12.3
Bone: cortical apparent density5.27.17.62.72.82.62.6
Bone: cortical area0.20.30.50.70.60.50.5
Bone: cortical porosity0.80.91.00.91.01.00.8
Bone: cortical porosity0.70.71.00.70.91.00.8
Bone: cortical thickness1.52.43.11.51.71.61.4
Bone: cortical thickness4.75.65.82.22.42.42.4
Bone: cortical tissue density5.27.17.62.72.82.62.5
Condit. Reinf. active minus inactive responses0.60.61.10.80.70.71.0
Condit. Reinf. active-inactive response ratio0.90.91.50.90.80.91.2
Condit. Reinf. active responses0.70.91.10.91.00.91.0
Condit. Reinf. inactive responses0.40.50.90.30.90.80.5
Incentive salience index mean1.51.82.41.31.21.31.6
Condit. Reinf. lever presses1.31.92.21.31.31.31.5
Condit. Reinf. active minus inactive responses0.50.60.70.70.80.80.8
Condit. Reinf. active-inactive response ratio0.40.40.50.70.60.60.6
Condit. Reinf. active responses0.91.21.41.01.01.11.2
Condit. Reinf. inactive responses1.72.22.51.41.41.51.6
Condit. Reinf. lever presses0.00.00.00.10.10.10.2
Condit. Reinf. lever reinforcers received0.91.21.51.11.01.11.2
Conditioned reinforcement - actives0.50.91.11.01.00.90.8
Conditioned reinforcement - inactives0.00.10.20.10.10.10.4
Conditioned locomotion1.41.82.01.21.41.41.3
Patch foraging indifference point 0 sec1.52.84.12.01.51.51.6
Patch foraging indifference point AUC0.10.10.20.40.2-0.1-0.3
Delay disc. indifference point, 0s delay2.12.32.61.51.61.51.4
Delay disc. indifference point, 16s delay0.60.60.80.90.70.90.7
Delay disc. indifference point, 2s delay2.62.93.31.81.61.71.6
Delay disc. indifference point, 24s delay0.00.00.10.30.10.2-0.1
Delay disc. indifference point, 4s delay0.80.81.51.20.60.90.8
Delay disc. indifference point, 8s delay0.50.61.00.80.20.91.0
Indifference point function ln k0.00.00.10.0-0.10.10.2
Indifference point function log k0.00.00.10.0-0.10.10.2
Patch foraging total patch changes 0 sec1.01.83.11.81.11.21.3
Patch foraging total patch changes 12 sec4.55.86.72.62.52.32.2
Patch foraging total patch changes 18 sec0.30.51.01.00.80.50.2
Patch foraging total patch changes 24 sec1.11.93.01.31.71.41.0
Patch foraging total patch changes 6 sec1.32.03.31.81.31.21.2
Patch foraging time to switch 0 sec0.00.00.10.10.00.10.2
Patch foraging water rate 0 sec0.00.00.00.10.10.10.2
Patch foraging water rate 12 sec0.30.60.7-0.9-0.7-0.7-0.8
Patch foraging water rate 18 sec0.40.61.10.50.60.81.1
Patch foraging water rate 24 sec0.20.30.70.40.40.60.8
Patch foraging water rate 6 sec0.91.31.71.01.11.11.3
Seeking ratio, delayed vs. immediate footshock0.20.20.4-0.5-0.2-0.5-0.6
Distance traveled before self-admin0.20.20.6-0.3-0.8-0.5-0.3
Distance traveled after self-admin0.81.01.3-1.0-1.2-1.0-0.6
Extensor digitorum longus weight9.135.737.7-6.1-5.8-5.8-6.1
Bone: elastic displacement0.00.00.10.20.10.20.1
Bone: elastic work0.00.00.10.40.10.10.1
Bone: endosteal estimation1.84.04.5-1.7-2.1-2.1-2.0
Bone: endosteal perimeter1.83.84.5-1.7-2.1-2.0-1.9
Epididymis fat weight0.10.20.3-0.6-0.3-0.4-0.5
Delta time in closed arm before/after self-admin4.74.45.8-2.4-2.1-2.0-1.8
Delta time in open arm before/after self-admin0.00.00.0-0.0-0.00.1-0.1
Diff in mean of infusions in LGA sessions0.20.30.7-0.8-0.5-0.4-0.0
Delay discount exponential model param0.60.70.9-1.0-0.4-0.9-0.9
Extinction: sum of active levers before priming0.50.60.7-0.9-0.7-0.7-0.7
Active lever presses in extinction session 60.10.10.40.6-0.10.10.3
Bone: final force1.22.02.31.41.51.41.3
Bone: final moment1.01.61.91.31.41.31.2
Food consumed during 24 hour testing period0.91.21.9-1.0-0.9-1.1-1.4
Glucose0.50.81.11.01.10.90.5
Heart weight3.55.56.8-2.1-2.6-2.3-2.3
Delay discount hyperbolic model param0.60.60.9-0.9-0.4-0.9-0.9
Intermittent access intake day 1-15 change0.10.20.6-0.8-0.4-0.50.0
Intermittent access intake escalation0.10.20.6-0.7-0.4-0.50.0
Intermittent access intake escalation 20.70.81.4-1.2-0.8-0.9-0.6
Intermitt. access day 1 inactive lever presses0.20.61.60.30.50.71.3
Intermitt. access day 15 inactive lever presses0.50.91.50.70.91.01.2
Intermitt. access escalation Index1.01.42.2-1.1-1.1-1.1-1.5
Intermittent access day 1 total infusions0.00.00.10.3-0.10.00.0
Intermittent access day 15 total infusions0.10.20.2-0.5-0.5-0.4-0.1
Intermittent access terminal intake (last 3 days)0.00.00.1-0.10.1-0.00.2
Intermittent access total infusions0.10.10.1-0.3-0.2-0.3-0.2
Intermittent access day 1 locomotion0.10.20.30.50.20.40.3
Intermittent access day 15 total locomotion0.40.71.00.90.70.91.0
Intermittent access total locomotion1.11.31.51.11.11.21.2
Intermittent access standard deviation0.10.20.5-0.10.30.20.7
Left kidney weight1.25.45.7-2.4-2.3-2.4-2.2
Right kidney weight0.10.50.6-0.7-0.6-0.8-0.7
Cocaine induced anxiety3.44.95.7-2.2-2.4-2.3-2.0
Post-drug Anxiety1.11.11.5-1.1-1.2-1.1-0.8
Baseline Anxiety3.33.94.62.22.02.11.6
Tail length1.45.56.6-1.9-2.6-2.5-2.3
Length with tail4.519.721.3-4.1-4.6-4.6-4.4
Length without tail3.511.212.9-3.1-3.3-3.3-3.6
Times rat made contact with spout0.91.01.21.11.11.00.8
Lifetime Intake0.00.00.0-0.1-0.2-0.2-0.0
Liver weight, left0.10.20.2-0.3-0.4-0.5-0.4
Liver weight, right0.40.60.70.80.80.70.8
Locomotor activity0.60.91.21.10.91.00.9
Locomotor testing distance2.74.85.12.22.12.22.3
Locomotor testing rearing4.48.811.53.42.62.83.0
Locomotion in novel chamber3.95.08.62.92.02.21.7
Locomotion in novel chamber post-restriction0.20.40.60.80.70.50.4
Fecal boli incidents, locomotor time 10.20.30.4-0.5-0.6-0.5-0.5
Change in fecal boli incidents, locomotor task0.40.40.50.70.60.70.5
Time >=10cm from walls, locomotor time 10.70.70.90.90.90.90.7
Bouts of movement, locomotor time 10.40.50.7-0.9-0.7-0.7-0.4
Total resting periods, locomotor time 10.70.71.1-1.0-0.9-0.9-0.6
Rest time, locomotor task time 10.00.00.0-0.1-0.1-0.2-0.0
Distance moved, locomotor task time 10.10.10.20.30.40.40.3
Vertical activity count, locomotor time 10.10.10.4-0.1-0.7-0.2-0.2
Time >=10cm from walls, locomotor time 21.21.72.71.61.21.40.8
Bouts of movement, locomotor time 20.10.10.40.2-0.00.30.6
Total resting periods, locomotor time 20.00.10.2-0.1-0.30.00.4
Rest time, locomotor task time 21.01.21.6-1.0-1.3-1.2-1.0
Distance moved, locomotor task time 20.00.00.10.30.00.0-0.1
Vertical activity count, locomotor time 20.10.10.3-0.1-0.5-0.2-0.1
Light reinforcement 11.33.34.32.11.51.62.0
Light reinforcement 20.61.01.21.10.80.91.1
Bone: marrow area1.83.84.3-1.7-2.1-2.0-2.0
Bone: maximum diameter0.00.00.00.10.10.00.0
Bone: maximum force0.00.00.10.10.30.10.1
Bone: maximum moment0.00.00.00.00.20.00.0
Mean time between licks in bursts1.02.52.9-1.5-1.7-1.6-1.5
Mean num. licks in bursts0.00.00.00.2-0.10.10.2
Cd content in liver1.21.31.5-1.2-1.2-1.2-0.9
Co content in liver2.32.72.9-1.7-1.6-1.6-1.6
Cu content in liver0.40.50.8-0.1-0.8-0.9-0.7
Fe content in liver2.02.42.8-1.3-1.6-1.6-1.7
K content in liver0.20.20.80.90.20.20.1
Mg content in liver0.20.20.60.80.40.30.2
Mn content in liver0.30.41.31.10.20.30.4
Na content in liver0.20.20.20.50.50.40.3
Rb content in liver1.92.23.61.91.21.31.5
Se content in liver4.35.07.02.62.12.02.1
Sr content in liver1.00.91.0-0.8-1.0-1.0-0.9
Zn content in liver1.92.12.51.51.31.41.6
Bone: minimum diameter0.40.71.0-0.3-1.0-0.9-0.9
Time in familiar zone, hab. session 10.40.30.50.40.60.70.7
Time in novel zone, hab. session 10.70.70.80.80.90.80.8
Total zone transitions, hab. session 12.33.23.4-1.7-1.8-1.8-1.8
Total locomotion distance, hab. session 10.00.00.1-0.3-0.2-0.2-0.1
Locomotion velocity, hab. session 10.60.91.0-0.9-1.0-0.9-0.8
Time in familiar zone, hab. session 20.60.61.00.70.60.81.0
Time in novel zone, hab. session 20.00.00.10.10.20.20.2
Total zone transitions, hab. session 20.60.81.0-0.7-1.0-0.9-0.8
Total locomotion distance, hab. session 20.10.10.2-0.4-0.5-0.4-0.2
Locomotion velocity, hab. session 20.30.40.5-0.7-0.7-0.6-0.5
Novel to familiar place preference ratio1.71.82.3-1.4-1.2-1.3-1.5
Novelty place preference1.11.21.6-1.2-1.0-1.0-1.3
Time in novel zone, NPP test0.40.40.6-0.8-0.5-0.5-0.8
Total zone transitions, NPP test0.30.40.5-0.4-0.7-0.7-0.6
Total locomotion distance, NPP test0.00.00.00.20.00.00.1
Locomotion velocity, NPP test0.20.30.4-0.4-0.6-0.7-0.6
Intraocular pressure1.72.42.8-1.6-1.7-1.5-1.4
Delta distance traveled before/after self-admin0.70.71.0-1.0-0.8-0.8-0.6
Delta ambulatory time before/after self-admin0.30.30.9-0.9-0.3-0.5-0.3
Parametrial fat weight0.40.91.70.60.91.01.3
Pavlov. Cond. lever latency2.73.44.0-1.8-1.8-1.9-2.0
Pavlov. Cond. magazine entry latency10.012.913.33.63.53.63.7
Pavlov. Cond. change in total contacts9.29.810.13.03.23.23.1
Pavlov. Cond. index score9.512.012.73.43.43.53.6
Pavlov. Cond. latency score7.49.49.83.03.03.13.1
Pavlov. Cond. lever contacts3.44.14.71.91.92.02.2
Pavlov. Cond. magazine entry number14.618.418.6-4.3-4.3-4.3-4.3
Pavlov. Cond. intertrial magazine entries1.41.71.9-1.2-1.3-1.3-1.4
Pavlov. Cond. lever-magazine prob. diff.11.113.714.53.63.63.73.8
Pavlov. Cond. response bias11.113.714.33.73.63.73.8
Pavlov. Cond. lever latency0.20.30.4-0.5-0.6-0.6-0.5
Pavlov. Cond. magazine entry latency0.10.10.1-0.4-0.1-0.2-0.4
Pavlov. Cond. change in total contacts0.30.50.60.80.70.70.7
Pavlov. Cond. index score0.10.10.20.30.40.40.3
Pavlov. Cond. latency score0.10.10.10.20.40.40.2
Pavlov. Cond. lever contacts0.40.60.60.70.80.80.7
Pavlov. Cond. magazine entry number0.10.10.2-0.2-0.4-0.4-0.4
Pavlov. Cond. intertrial magazine entries1.62.42.5-1.5-1.5-1.5-1.6
Pavlov. Cond. lever-magazine prob. diff.0.00.00.10.10.30.30.1
Pavlov. Cond. response bias0.70.91.00.91.01.00.9
Time in closed arm before self-admin2.22.83.31.71.81.51.7
Time in closed arm after self-admin0.30.30.4-0.6-0.5-0.6-0.4
Time in open arm before self-admin2.83.14.3-1.2-2.1-1.7-1.9
Time in open arm after self-admin0.50.60.9-0.4-0.9-0.7-0.9
Bone: periosteal estimation0.10.30.4-0.3-0.6-0.6-0.6
Bone: periosteal perimeter0.61.11.3-0.9-1.1-1.1-1.0
Bone: post-yield work0.91.32.0-1.4-1.1-1.1-0.9
Progressive ratio test 1 active lever presses0.50.60.91.00.90.70.6
Progressive ratio test 1 breakpoint0.40.50.70.80.80.60.6
Progressive ratio test 1 inactive lever presses0.00.10.3-0.0-0.00.10.5
Progressive ratio test 2 active lever presses0.50.60.90.90.90.70.6
Progressive ratio test 2 breakpoint0.60.70.91.00.90.80.7
Progressive ratio test 2 inactive lever presses0.00.10.1-0.1-0.3-0.3-0.2
Incentive Sensitization - Responses0.50.70.90.90.90.80.7
Incentive Sensitization - Breakpoint0.40.60.70.80.80.70.6
Sum of active levers in priming session hrs 5-60.20.20.30.50.30.40.4
Progressive ratio0.00.10.20.4-0.1-0.1-0.1
Food seeking constrained by brief footshock0.50.70.80.80.80.70.9
Seeking ratio, punishment vs. effort0.10.20.3-0.10.50.50.5
Retroperitoneal fat weight0.10.50.90.60.70.70.9
Reaction time number correct0.71.41.8-1.1-1.1-1.1-1.4
Reaction time mean minus median0.10.20.6-0.8-0.3-0.3-0.2
Reaction time mean minus median AUC0.10.20.40.00.60.60.5
Reaction time num false alarms0.70.91.01.01.00.90.9
Reaction time num false alarms AUC0.40.60.80.80.90.80.8
Reaction time trials correct on left0.71.41.8-1.1-1.1-1.1-1.4
Reaction time trials on left0.71.31.7-1.1-1.1-1.0-1.3
Reaction time mean0.00.00.0-0.20.10.10.2
Reaction time mean AUC0.00.00.0-0.1-0.10.00.2
Median of all reaction times0.20.20.30.40.50.50.6
Reaction time omissions0.40.50.80.50.80.60.9
Reaction time false alarm rate1.31.82.01.21.41.31.4
Reaction time premature initiation rate0.20.30.40.40.70.60.5
Reaction time premature initiations0.10.10.3-0.4-0.2-0.3-0.5
Std. dev. reaction times0.00.00.1-0.30.10.10.2
Reaction time trials completed0.71.31.7-1.1-1.1-1.0-1.3
Reaction time trials AUC0.61.21.6-1.1-1.0-1.0-1.3
Run reversals in cocaine runway, females1.61.61.8-1.4-1.2-1.2-1.3
Run reversals in cocaine runway, males0.20.20.30.50.20.50.4
Latency to leave start box in cocaine runway2.63.03.4-1.5-1.8-1.8-1.8
Latency to leave start box in cocaine runway, F3.54.05.2-1.8-1.9-2.0-2.3
Latency to leave start box in cocaine runway, M0.10.10.20.1-0.5-0.4-0.2
Std. dev. time between licks in bursts0.20.30.3-0.4-0.6-0.6-0.5
Total sessions with >9 infusions0.00.00.10.30.10.10.2
Short access day 1 total inactive lever presses0.91.22.30.80.81.01.5
Short access day 10 total inactive lever presses0.30.81.5-1.2-0.8-0.9-0.3
Short access day 1 total infusions0.10.10.20.40.20.20.3
Short access day 10 total infusions0.20.30.60.80.40.50.5
Short access total infusions0.00.00.10.3-0.1-0.00.0
Short access day 1 locomotion0.80.91.21.00.80.91.1
Short access day 10 total locomotion1.93.64.02.01.81.91.9
Short access total locomotion0.30.40.60.80.40.50.6
One hour access (0.3 mA shock)0.00.00.0-0.20.0-0.1-0.2
Compulsive drug intake0.10.10.30.20.60.40.1
One hour access (shock baseline)0.10.10.2-0.4-0.5-0.4-0.2
Social response proportion0.00.00.00.20.10.10.2
Social responses0.30.41.11.00.30.30.7
Social time0.00.00.00.2-0.1-0.00.0
Soleus weight0.41.11.70.51.31.20.9
Bone: stiffness0.00.00.10.10.30.10.1
Tibialis anterior weight1.55.05.7-2.4-2.1-2.1-2.3
Time to tail flick, vehicle, before self-admin0.30.40.80.30.40.60.9
Time to tail flick, vehicle, after self-admin0.00.00.10.20.10.20.1
Time to tail flick, test, before self-admin0.40.40.5-0.7-0.6-0.7-0.7
Time to tail flick, test, after self-admin0.10.10.20.10.20.30.4
Delta time to tail flick, vehicle, before/after SA0.40.40.60.70.80.60.3
Delta time to tail flick, test, before/after SA1.92.02.21.41.31.51.5
Tibia length0.82.32.9-1.6-1.3-1.4-1.7
Ambulatory time before self-admin0.40.61.2-0.5-1.1-0.8-0.6
Ambulatory time after self-admin2.12.52.9-1.7-1.7-1.7-1.2
Bone: tissue strength0.70.71.5-1.2-0.5-0.7-0.9
Total heroin consumption0.70.81.61.30.60.80.8
Bone: trabecular number5.99.710.53.23.03.03.2
Bone: trabecular spacing1.31.72.1-1.4-1.2-1.2-1.3
Bone: trabecular thickness0.00.00.10.10.20.10.2
Bone: trabecular tissue density0.00.00.0-0.1-0.0-0.1-0.2
Water consumed over 24 hours0.00.10.1-0.30.0-0.1-0.3
Number of responses in last shaping day0.00.00.1-0.2-0.0-0.3-0.0