Hub : Genes

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 2.4e-03
3 Brain gene expression Plxdc1 0.04 0.04 1.1e-04 0.04 0.04 0.04 0.04 2.1e-04 1.9e-04 2.4e-04 3.2e-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 9.6e-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 density2.13.94.4-2.12.01.8-2.0
Area under the delay curve0.71.11.4-1.20.71.1-1.1
BMI with tail2.07.08.12.8-2.7-2.62.4
BMI without tail0.84.55.52.1-2.3-2.21.7
Body weight7.432.333.95.6-5.7-5.85.6
Weight adjusted by age0.10.20.30.2-0.6-0.40.6
Bone surface0.00.10.3-0.50.0-0.0-0.1
Bone volume0.10.30.6-0.80.50.3-0.4
Breakpoint value in progressive ratio session1.12.02.41.4-1.5-1.51.2
Number of licking bursts0.20.50.8-0.60.90.8-0.6
Context. condit. distance diff. score0.60.71.01.0-0.8-0.70.8
Locomotion velocity, session 10.91.01.20.8-1.0-1.11.1
Locomotion distance, session 13.54.45.71.8-2.4-2.31.9
Locomotion velocity, session 20.60.70.90.8-0.8-0.90.8
Locomotion distance, session 20.71.01.60.6-1.3-1.20.8
Locomotion velocity, session 30.10.10.20.3-0.4-0.40.2
Locomotion distance, session 30.40.50.60.6-0.8-0.80.7
Stereotopy head waving bouts, day 33.64.34.8-1.92.22.1-2.1
Stereotopy head waving duration, day 30.60.71.0-0.71.00.9-0.8
Locomotion velocity, session 70.80.91.00.9-1.0-0.90.9
Locomotion distance, session 70.10.10.30.5-0.3-0.30.3
Stereotopy head waving bouts, day 71.31.51.9-1.31.41.3-1.0
Stereotopy head waving duration, day 70.30.40.6-0.60.80.6-0.4
Locomotion velocity, session 87.38.89.53.1-3.0-2.92.9
Locomotion distance, session 81.72.52.91.4-1.7-1.61.6
Degree of sensitization distance0.30.40.70.9-0.4-0.50.6
Degree of sensitization stereotypy1.82.02.4-1.41.51.4-1.2
Conditioned locomotion0.10.20.2-0.40.40.5-0.4
Cocaine response after cond. corrected1.82.63.5-1.51.91.6-1.4
Cocaine response after cond. not corrected2.53.75.0-1.72.22.0-1.7
Cocaine response before conditioning0.50.60.8-0.30.90.9-0.8
Saline control response0.00.00.00.10.10.10.0
Bone: connectivity density3.14.95.5-2.32.12.1-2.3
Bone: cortical apparent density4.57.17.6-2.72.82.6-2.6
Bone: cortical area0.20.30.5-0.70.60.5-0.5
Bone: cortical porosity0.80.91.0-0.91.01.0-0.8
Bone: cortical porosity0.70.71.0-0.70.91.0-0.8
Bone: cortical thickness1.52.43.1-1.51.71.6-1.4
Bone: cortical thickness4.65.65.8-2.22.42.4-2.4
Bone: cortical tissue density4.57.17.6-2.72.82.6-2.5
Condit. Reinf. active minus inactive responses0.60.61.1-0.80.70.7-1.0
Condit. Reinf. active-inactive response ratio0.90.91.5-0.90.80.9-1.2
Condit. Reinf. active responses0.70.91.1-0.91.00.9-1.0
Condit. Reinf. inactive responses0.40.50.9-0.30.90.8-0.5
Incentive salience index mean1.41.82.4-1.31.21.3-1.6
Condit. Reinf. lever presses1.21.92.2-1.31.31.3-1.5
Condit. Reinf. active minus inactive responses0.40.60.7-0.70.80.8-0.8
Condit. Reinf. active-inactive response ratio0.30.40.5-0.70.60.6-0.6
Condit. Reinf. active responses0.81.21.4-1.01.01.1-1.2
Condit. Reinf. inactive responses1.52.22.5-1.41.41.5-1.6
Condit. Reinf. lever presses0.00.00.0-0.10.10.1-0.2
Condit. Reinf. lever reinforcers received0.91.21.5-1.11.01.1-1.2
Conditioned reinforcement - actives0.20.91.1-1.01.00.9-0.8
Conditioned reinforcement - inactives0.00.10.2-0.10.10.1-0.4
Conditioned locomotion1.21.82.0-1.21.41.4-1.3
Patch foraging indifference point 0 sec1.02.84.1-2.01.51.5-1.6
Patch foraging indifference point AUC0.00.10.2-0.40.2-0.10.3
Delay disc. indifference point, 0s delay2.02.32.6-1.51.61.5-1.4
Delay disc. indifference point, 16s delay0.40.60.8-0.90.70.9-0.7
Delay disc. indifference point, 2s delay2.62.93.3-1.81.61.7-1.6
Delay disc. indifference point, 24s delay0.00.00.1-0.30.10.20.1
Delay disc. indifference point, 4s delay0.80.81.5-1.20.60.9-0.8
Delay disc. indifference point, 8s delay0.40.61.0-0.80.20.9-1.0
Indifference point function ln k0.00.00.1-0.0-0.10.1-0.2
Indifference point function log k0.00.00.1-0.0-0.10.1-0.2
Patch foraging total patch changes 0 sec0.61.83.1-1.81.11.2-1.3
Patch foraging total patch changes 12 sec4.35.86.7-2.62.52.3-2.2
Patch foraging total patch changes 18 sec0.20.51.0-1.00.80.5-0.2
Patch foraging total patch changes 24 sec0.61.93.0-1.31.71.4-1.0
Patch foraging total patch changes 6 sec1.22.03.3-1.81.31.2-1.2
Patch foraging time to switch 0 sec0.00.00.1-0.10.00.1-0.2
Patch foraging water rate 0 sec0.00.00.0-0.10.10.1-0.2
Patch foraging water rate 12 sec0.20.60.70.9-0.7-0.70.8
Patch foraging water rate 18 sec0.30.61.1-0.50.60.8-1.1
Patch foraging water rate 24 sec0.20.30.7-0.40.40.6-0.8
Patch foraging water rate 6 sec0.91.31.7-1.01.11.1-1.3
Seeking ratio, delayed vs. immediate footshock0.10.20.40.5-0.2-0.50.6
Distance traveled before self-admin0.10.20.60.3-0.8-0.50.3
Distance traveled after self-admin0.51.01.31.0-1.2-1.00.6
Extensor digitorum longus weight8.935.737.76.1-5.8-5.86.1
Bone: elastic displacement0.00.00.1-0.20.10.2-0.1
Bone: elastic work0.00.00.1-0.40.10.1-0.1
Bone: endosteal estimation1.64.04.51.7-2.1-2.12.0
Bone: endosteal perimeter1.53.84.51.7-2.1-2.01.9
Epididymis fat weight0.00.20.30.6-0.3-0.40.5
Delta time in closed arm before/after self-admin4.74.45.82.4-2.1-2.01.8
Delta time in open arm before/after self-admin0.00.00.00.0-0.00.10.1
Diff in mean of infusions in LGA sessions0.20.30.70.8-0.5-0.40.0
Delay discount exponential model param0.50.70.91.0-0.4-0.90.9
Extinction: sum of active levers before priming0.40.60.70.9-0.7-0.70.7
Active lever presses in extinction session 60.10.10.4-0.6-0.10.1-0.3
Bone: final force1.22.02.3-1.41.51.4-1.3
Bone: final moment1.01.61.9-1.31.41.3-1.2
Food consumed during 24 hour testing period0.61.21.91.0-0.9-1.11.4
Glucose0.50.81.1-1.01.10.9-0.5
Heart weight3.45.56.82.1-2.6-2.32.3
Delay discount hyperbolic model param0.50.60.90.9-0.4-0.90.9
Intermittent access intake day 1-15 change0.00.20.60.8-0.4-0.5-0.0
Intermittent access intake escalation0.00.20.60.7-0.4-0.5-0.0
Intermittent access intake escalation 20.50.81.41.2-0.8-0.90.6
Intermitt. access day 1 inactive lever presses0.00.61.6-0.30.50.7-1.3
Intermitt. access day 15 inactive lever presses0.20.91.5-0.70.91.0-1.2
Intermitt. access escalation Index0.51.42.21.1-1.1-1.11.5
Intermittent access day 1 total infusions0.00.00.1-0.3-0.10.0-0.0
Intermittent access day 15 total infusions0.10.20.20.5-0.5-0.40.1
Intermittent access terminal intake (last 3 days)0.00.00.10.10.1-0.0-0.2
Intermittent access total infusions0.10.10.10.3-0.2-0.30.2
Intermittent access day 1 locomotion0.10.20.3-0.50.20.4-0.3
Intermittent access day 15 total locomotion0.20.71.0-0.90.70.9-1.0
Intermittent access total locomotion1.11.31.5-1.11.11.2-1.2
Intermittent access standard deviation0.00.20.50.10.30.2-0.7
Left kidney weight0.75.45.72.4-2.3-2.42.2
Right kidney weight0.10.50.60.7-0.6-0.80.7
Cocaine induced anxiety1.84.95.72.2-2.4-2.32.0
Post-drug Anxiety1.01.11.51.1-1.2-1.10.8
Baseline Anxiety2.33.94.6-2.22.02.1-1.6
Tail length1.05.56.61.9-2.6-2.52.3
Length with tail4.419.721.34.1-4.6-4.64.4
Length without tail2.111.212.93.1-3.3-3.33.6
Times rat made contact with spout0.91.01.2-1.11.11.0-0.8
Lifetime Intake0.00.00.00.1-0.2-0.20.0
Liver weight, left0.10.20.20.3-0.4-0.50.4
Liver weight, right0.40.60.7-0.80.80.7-0.8
Locomotor activity0.60.91.2-1.10.91.0-0.9
Locomotor testing distance2.04.85.1-2.22.12.2-2.3
Locomotor testing rearing2.48.811.5-3.42.62.8-3.0
Locomotion in novel chamber3.75.08.6-2.92.02.2-1.7
Locomotion in novel chamber post-restriction0.10.40.6-0.80.70.5-0.4
Fecal boli incidents, locomotor time 10.10.30.40.5-0.6-0.50.5
Change in fecal boli incidents, locomotor task0.40.40.5-0.70.60.7-0.5
Time >=10cm from walls, locomotor time 10.60.70.9-0.90.90.9-0.7
Bouts of movement, locomotor time 10.40.50.70.9-0.7-0.70.4
Total resting periods, locomotor time 10.60.71.11.0-0.9-0.90.6
Rest time, locomotor task time 10.00.00.00.1-0.1-0.20.0
Distance moved, locomotor task time 10.00.10.2-0.30.40.4-0.3
Vertical activity count, locomotor time 10.00.10.40.1-0.7-0.20.2
Time >=10cm from walls, locomotor time 20.61.72.7-1.61.21.4-0.8
Bouts of movement, locomotor time 20.00.10.4-0.2-0.00.3-0.6
Total resting periods, locomotor time 20.00.10.20.1-0.30.0-0.4
Rest time, locomotor task time 20.71.21.61.0-1.3-1.21.0
Distance moved, locomotor task time 20.00.00.1-0.30.00.00.1
Vertical activity count, locomotor time 20.00.10.30.1-0.5-0.20.1
Light reinforcement 10.73.34.3-2.11.51.6-2.0
Light reinforcement 20.41.01.2-1.10.80.9-1.1
Bone: marrow area1.63.84.31.7-2.1-2.02.0
Bone: maximum diameter0.00.00.0-0.10.10.0-0.0
Bone: maximum force0.00.00.1-0.10.30.1-0.1
Bone: maximum moment0.00.00.0-0.00.20.0-0.0
Mean time between licks in bursts0.42.52.91.5-1.7-1.61.5
Mean num. licks in bursts0.00.00.0-0.2-0.10.1-0.2
Cd content in liver1.21.31.51.2-1.2-1.20.9
Co content in liver2.32.72.91.7-1.6-1.61.6
Cu content in liver0.40.50.80.1-0.8-0.90.7
Fe content in liver2.02.42.81.3-1.6-1.61.7
K content in liver0.20.20.8-0.90.20.2-0.1
Mg content in liver0.20.20.6-0.80.40.3-0.2
Mn content in liver0.30.41.3-1.10.20.3-0.4
Na content in liver0.20.20.2-0.50.50.4-0.3
Rb content in liver1.92.23.6-1.91.21.3-1.5
Se content in liver4.35.07.0-2.62.12.0-2.1
Sr content in liver1.00.91.00.8-1.0-1.00.9
Zn content in liver1.82.12.5-1.51.31.4-1.6
Bone: minimum diameter0.40.71.00.3-1.0-0.90.9
Time in familiar zone, hab. session 10.30.30.5-0.40.60.7-0.7
Time in novel zone, hab. session 10.60.70.8-0.80.90.8-0.8
Total zone transitions, hab. session 12.33.23.41.7-1.8-1.81.8
Total locomotion distance, hab. session 10.00.00.10.3-0.2-0.20.1
Locomotion velocity, hab. session 10.60.91.00.9-1.0-0.90.8
Time in familiar zone, hab. session 20.50.61.0-0.70.60.8-1.0
Time in novel zone, hab. session 20.00.00.1-0.10.20.2-0.2
Total zone transitions, hab. session 20.60.81.00.7-1.0-0.90.8
Total locomotion distance, hab. session 20.10.10.20.4-0.5-0.40.2
Locomotion velocity, hab. session 20.30.40.50.7-0.7-0.60.5
Novel to familiar place preference ratio1.41.82.31.4-1.2-1.31.5
Novelty place preference1.01.21.61.2-1.0-1.01.3
Time in novel zone, NPP test0.30.40.60.8-0.5-0.50.8
Total zone transitions, NPP test0.30.40.50.4-0.7-0.70.6
Total locomotion distance, NPP test0.00.00.0-0.20.00.0-0.1
Locomotion velocity, NPP test0.20.30.40.4-0.6-0.70.6
Intraocular pressure1.52.42.81.6-1.7-1.51.4
Delta distance traveled before/after self-admin0.60.71.01.0-0.8-0.80.6
Delta ambulatory time before/after self-admin0.20.30.90.9-0.3-0.50.3
Parametrial fat weight0.40.91.7-0.60.91.0-1.3
Pavlov. Cond. lever latency2.73.44.01.8-1.8-1.92.0
Pavlov. Cond. magazine entry latency10.012.913.3-3.63.53.6-3.7
Pavlov. Cond. change in total contacts9.19.810.1-3.03.23.2-3.1
Pavlov. Cond. index score9.412.012.7-3.43.43.5-3.6
Pavlov. Cond. latency score7.49.49.9-3.03.03.1-3.1
Pavlov. Cond. lever contacts3.44.14.7-1.91.92.0-2.2
Pavlov. Cond. magazine entry number14.518.418.64.3-4.3-4.34.3
Pavlov. Cond. intertrial magazine entries1.41.71.91.2-1.3-1.31.4
Pavlov. Cond. lever-magazine prob. diff.11.013.714.5-3.63.63.7-3.8
Pavlov. Cond. response bias11.013.714.3-3.73.63.7-3.8
Pavlov. Cond. lever latency0.20.30.40.5-0.6-0.60.5
Pavlov. Cond. magazine entry latency0.10.10.10.4-0.1-0.20.4
Pavlov. Cond. change in total contacts0.20.50.6-0.80.70.7-0.7
Pavlov. Cond. index score0.10.10.2-0.30.40.4-0.3
Pavlov. Cond. latency score0.10.10.1-0.20.40.4-0.2
Pavlov. Cond. lever contacts0.40.60.6-0.70.80.8-0.7
Pavlov. Cond. magazine entry number0.10.10.20.2-0.4-0.40.4
Pavlov. Cond. intertrial magazine entries1.12.42.51.5-1.5-1.51.6
Pavlov. Cond. lever-magazine prob. diff.0.00.00.1-0.10.30.3-0.1
Pavlov. Cond. response bias0.70.91.0-0.91.01.0-0.9
Time in closed arm before self-admin1.62.83.3-1.71.81.5-1.7
Time in closed arm after self-admin0.20.30.40.6-0.5-0.60.4
Time in open arm before self-admin2.53.14.31.2-2.1-1.71.9
Time in open arm after self-admin0.50.60.90.4-0.9-0.70.9
Bone: periosteal estimation0.10.30.40.3-0.6-0.60.6
Bone: periosteal perimeter0.61.11.30.9-1.1-1.11.0
Bone: post-yield work0.71.32.01.4-1.1-1.10.9
Progressive ratio test 1 active lever presses0.30.60.9-1.00.90.7-0.6
Progressive ratio test 1 breakpoint0.30.50.7-0.80.80.6-0.6
Progressive ratio test 1 inactive lever presses0.00.10.30.0-0.00.1-0.5
Progressive ratio test 2 active lever presses0.40.60.9-0.90.90.7-0.6
Progressive ratio test 2 breakpoint0.60.70.9-1.00.90.8-0.7
Progressive ratio test 2 inactive lever presses0.00.10.10.1-0.3-0.30.2
Incentive Sensitization - Responses0.30.70.9-0.90.90.8-0.7
Incentive Sensitization - Breakpoint0.20.60.7-0.80.80.7-0.6
Sum of active levers in priming session hrs 5-60.20.20.3-0.50.30.4-0.4
Progressive ratio0.00.10.2-0.4-0.1-0.10.1
Food seeking constrained by brief footshock0.50.70.8-0.80.80.7-0.9
Seeking ratio, punishment vs. effort0.10.20.30.10.50.5-0.5
Retroperitoneal fat weight0.10.50.9-0.60.70.7-0.9
Reaction time number correct0.41.41.81.1-1.1-1.11.4
Reaction time mean minus median0.00.20.60.8-0.3-0.30.2
Reaction time mean minus median AUC0.00.20.4-0.00.60.6-0.5
Reaction time num false alarms0.60.91.0-1.01.00.9-0.9
Reaction time num false alarms AUC0.30.60.8-0.80.90.8-0.8
Reaction time trials correct on left0.41.41.81.1-1.1-1.11.4
Reaction time trials on left0.41.31.71.1-1.1-1.01.3
Reaction time mean0.00.00.00.20.10.1-0.2
Reaction time mean AUC0.00.00.00.1-0.10.0-0.2
Median of all reaction times0.10.20.3-0.40.50.5-0.6
Reaction time omissions0.30.50.8-0.50.80.6-0.9
Reaction time false alarm rate1.31.82.0-1.21.41.3-1.4
Reaction time premature initiation rate0.20.30.4-0.40.70.6-0.5
Reaction time premature initiations0.00.10.30.4-0.2-0.30.5
Std. dev. reaction times0.00.00.10.30.10.1-0.2
Reaction time trials completed0.41.31.71.1-1.1-1.01.3
Reaction time trials AUC0.31.21.61.1-1.0-1.01.3
Run reversals in cocaine runway, females1.41.61.81.4-1.2-1.21.3
Run reversals in cocaine runway, males0.20.20.3-0.50.20.5-0.4
Latency to leave start box in cocaine runway2.23.03.41.5-1.8-1.81.8
Latency to leave start box in cocaine runway, F3.24.05.21.8-1.9-2.02.3
Latency to leave start box in cocaine runway, M0.10.10.2-0.1-0.5-0.40.2
Std. dev. time between licks in bursts0.10.30.30.4-0.6-0.60.5
Total sessions with >9 infusions0.00.00.1-0.30.10.1-0.2
Short access day 1 total inactive lever presses0.61.22.3-0.80.81.0-1.5
Short access day 10 total inactive lever presses0.10.81.51.2-0.8-0.90.3
Short access day 1 total infusions0.00.10.2-0.40.20.2-0.3
Short access day 10 total infusions0.20.30.6-0.80.40.5-0.5
Short access total infusions0.00.00.1-0.3-0.1-0.0-0.0
Short access day 1 locomotion0.60.91.2-1.00.80.9-1.1
Short access day 10 total locomotion0.93.64.0-2.01.81.9-1.9
Short access total locomotion0.20.40.6-0.80.40.5-0.6
One hour access (0.3 mA shock)0.00.00.00.20.0-0.10.2
Compulsive drug intake0.10.10.3-0.20.60.4-0.1
One hour access (shock baseline)0.10.10.20.4-0.5-0.40.2
Social response proportion0.00.00.0-0.20.10.1-0.2
Social responses0.30.41.1-1.00.30.3-0.7
Social time0.00.00.0-0.2-0.1-0.0-0.0
Soleus weight0.41.11.7-0.51.31.2-0.9
Bone: stiffness0.00.00.1-0.10.30.1-0.1
Tibialis anterior weight1.45.05.72.4-2.1-2.12.3
Time to tail flick, vehicle, before self-admin0.30.40.8-0.30.40.6-0.9
Time to tail flick, vehicle, after self-admin0.00.00.1-0.20.10.2-0.1
Time to tail flick, test, before self-admin0.40.40.50.7-0.6-0.70.7
Time to tail flick, test, after self-admin0.10.10.2-0.10.20.3-0.4
Delta time to tail flick, vehicle, before/after SA0.40.40.6-0.70.80.6-0.3
Delta time to tail flick, test, before/after SA1.62.02.2-1.41.31.5-1.5
Tibia length0.82.32.91.6-1.3-1.41.7
Ambulatory time before self-admin0.20.61.20.5-1.1-0.80.6
Ambulatory time after self-admin1.62.52.91.7-1.7-1.71.2
Bone: tissue strength0.70.71.51.2-0.5-0.70.9
Total heroin consumption0.70.81.6-1.30.60.8-0.8
Bone: trabecular number5.19.710.5-3.23.03.0-3.2
Bone: trabecular spacing1.11.72.11.4-1.2-1.21.3
Bone: trabecular thickness0.00.00.1-0.10.20.1-0.2
Bone: trabecular tissue density0.00.00.00.1-0.0-0.10.2
Water consumed over 24 hours0.00.10.10.30.0-0.10.3
Number of responses in last shaping day0.00.00.10.2-0.0-0.30.0