Pmp2

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 PL gene expression Pmp2 0.09 0.06 5.6e-08 0.06 0.06 0.05 0.06 1.1e-06 8.2e-07 1.4e-06 7.2e-07
2 NAcc gene expression Pmp2 0.07 0.05 2.3e-10 0.06 0.06 0.05 0.06 1.3e-09 1.5e-09 1.4e-08 2.3e-09
3 BLA gene expression Pmp2 0.09 0.06 3.3e-04 0.03 0.02 0.03 0.01 8.4e-03 2.4e-02 1.2e-02 6.3e-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
Bone: apparent density1.12.02.2-1.31.51.4
Area under the delay curve0.71.01.31.1-0.9-1.0
BMI with tail0.72.62.81.7-1.7-1.5
BMI without tail0.73.84.61.9-2.1-1.8
Body weight1.14.85.42.3-2.2-2.0
Weight adjusted by age0.10.30.40.3-0.7-0.5
Bone surface1.53.03.6-1.71.61.9
Bone volume1.22.42.7-1.61.51.6
Breakpoint value in progressive ratio session0.61.11.40.9-1.1-1.2
Number of licking bursts0.10.40.5-0.70.60.6
Context. condit. distance diff. score0.00.00.00.20.2-0.0
Locomotion velocity, session 12.62.93.71.9-1.6-1.6
Locomotion distance, session 11.21.52.01.4-1.1-1.1
Locomotion velocity, session 22.63.13.21.8-1.7-1.8
Locomotion distance, session 21.62.32.51.6-1.4-1.5
Locomotion velocity, session 30.00.00.00.10.10.0
Locomotion distance, session 30.30.30.4-0.50.60.4
Stereotopy head waving bouts, day 30.10.10.10.4-0.3-0.3
Stereotopy head waving duration, day 30.50.70.80.9-0.8-0.7
Locomotion velocity, session 74.14.54.9-2.02.12.2
Locomotion distance, session 75.16.56.8-2.52.52.6
Stereotopy head waving bouts, day 70.91.11.11.0-1.0-1.1
Stereotopy head waving duration, day 71.31.61.61.3-1.2-1.3
Locomotion velocity, session 84.04.95.72.4-2.0-2.2
Locomotion distance, session 81.11.62.41.5-1.0-1.2
Degree of sensitization distance0.40.40.6-0.60.60.8
Degree of sensitization stereotypy2.02.22.31.5-1.5-1.5
Conditioned locomotion0.20.20.20.5-0.4-0.5
Cocaine response after cond. corrected0.71.01.0-1.01.01.0
Cocaine response after cond. not corrected1.21.81.8-1.31.41.3
Cocaine response before conditioning0.20.20.3-0.60.50.4
Saline control response0.20.30.4-0.50.50.6
Bone: connectivity density1.72.83.4-1.41.71.8
Bone: cortical apparent density0.81.31.41.2-1.0-1.2
Bone: cortical area0.20.40.70.3-0.9-0.5
Bone: cortical porosity0.00.00.1-0.3-0.00.1
Bone: cortical porosity0.00.00.10.0-0.3-0.2
Bone: cortical thickness0.71.21.60.9-1.3-1.1
Bone: cortical thickness5.06.17.32.2-2.7-2.5
Bone: cortical tissue density0.81.21.41.2-1.0-1.2
Condit. Reinf. active minus inactive responses5.66.36.62.4-2.6-2.6
Condit. Reinf. active-inactive response ratio7.27.88.12.7-2.9-2.8
Condit. Reinf. active responses4.05.25.42.2-2.3-2.3
Condit. Reinf. inactive responses0.00.10.10.2-0.3-0.2
Incentive salience index mean5.46.97.22.6-2.7-2.7
Condit. Reinf. lever presses2.43.64.12.0-1.9-1.8
Condit. Reinf. active minus inactive responses1.11.72.1-1.51.11.3
Condit. Reinf. active-inactive response ratio0.30.60.8-0.90.60.7
Condit. Reinf. active responses2.02.93.4-1.81.51.7
Condit. Reinf. inactive responses0.10.20.4-0.40.40.6
Condit. Reinf. lever presses0.81.11.5-1.20.81.1
Condit. Reinf. lever reinforcers received2.23.13.6-1.91.61.8
Conditioned reinforcement - actives1.76.67.7-2.32.82.6
Conditioned reinforcement - inactives0.10.40.6-0.80.60.4
Conditioned locomotion2.13.14.0-1.52.01.7
Patch foraging indifference point 0 sec0.51.51.6-1.31.21.3
Patch foraging indifference point AUC0.10.20.30.5-0.5-0.5
Delay disc. indifference point, 0s delay0.20.20.30.00.60.5
Delay disc. indifference point, 16s delay0.50.70.90.8-0.9-0.8
Delay disc. indifference point, 2s delay0.91.01.71.3-0.7-0.9
Delay disc. indifference point, 24s delay0.10.10.20.1-0.4-0.5
Delay disc. indifference point, 4s delay2.02.12.41.6-1.2-1.5
Delay disc. indifference point, 8s delay0.10.10.20.2-0.2-0.4
Indifference point function ln k0.00.00.00.10.10.1
Indifference point function log k0.00.00.00.10.10.1
Patch foraging total patch changes 0 sec0.30.91.0-1.00.90.9
Patch foraging total patch changes 12 sec0.30.40.5-0.70.50.5
Patch foraging total patch changes 18 sec0.30.60.80.7-0.9-0.8
Patch foraging total patch changes 24 sec0.00.10.10.00.30.3
Patch foraging total patch changes 6 sec0.00.00.00.1-0.1-0.1
Patch foraging time to switch 0 sec0.52.02.21.4-1.4-1.5
Patch foraging water rate 0 sec0.00.10.2-0.30.20.4
Patch foraging water rate 12 sec0.62.52.7-1.61.41.6
Patch foraging water rate 18 sec0.20.40.5-0.70.60.7
Patch foraging water rate 24 sec0.00.10.1-0.10.10.4
Patch foraging water rate 6 sec2.23.23.6-1.81.71.9
Seeking ratio, delayed vs. immediate footshock8.011.411.9-3.33.53.4
Distance traveled before self-admin0.30.71.21.1-0.6-0.8
Distance traveled after self-admin0.00.10.1-0.30.30.3
Extensor digitorum longus weight11.244.949.47.0-6.5-6.5
Bone: elastic displacement0.00.00.10.2-0.1-0.3
Bone: elastic work0.00.00.00.0-0.1-0.1
Bone: endosteal estimation0.20.50.7-0.70.60.8
Bone: endosteal perimeter0.30.70.9-0.90.60.9
Epididymis fat weight0.21.22.21.5-0.8-0.9
Delta time in closed arm before/after self-admin0.10.10.10.00.40.2
Delta time in open arm before/after self-admin0.20.20.3-0.50.40.5
Diff in mean of infusions in LGA sessions1.11.92.11.2-1.5-1.4
Delay discount exponential model param0.60.91.0-1.00.81.0
Extinction: sum of active levers before priming0.10.10.20.2-0.3-0.5
Active lever presses in extinction session 60.10.10.1-0.30.40.2
Bone: final force0.30.50.90.4-0.9-0.6
Bone: final moment0.10.10.20.0-0.5-0.2
Food consumed during 24 hour testing period1.42.83.01.7-1.6-1.7
Glucose1.42.22.41.4-1.5-1.5
Heart weight0.30.60.70.8-0.8-0.7
Delay discount hyperbolic model param1.11.51.8-1.31.11.2
Intermittent access intake day 1-15 change0.94.75.2-2.32.22.1
Intermittent access intake escalation1.05.75.9-2.42.42.3
Intermittent access intake escalation 24.57.67.8-2.82.82.7
Intermitt. access day 1 inactive lever presses0.21.92.11.3-1.4-1.4
Intermitt. access day 15 inactive lever presses0.00.20.30.1-0.5-0.6
Intermitt. access escalation Index0.10.50.60.6-0.8-0.6
Intermittent access day 1 total infusions1.23.54.8-2.21.81.6
Intermittent access day 15 total infusions4.711.413.0-3.63.43.2
Intermittent access terminal intake (last 3 days)6.711.715.5-3.93.23.0
Intermittent access total infusions5.97.08.9-3.02.62.4
Intermittent access day 1 locomotion0.71.22.1-1.41.00.8
Intermittent access day 15 total locomotion0.31.12.0-1.40.90.6
Intermittent access total locomotion2.12.54.1-2.01.41.1
Intermittent access standard deviation1.57.78.2-2.92.82.6
Left kidney weight0.00.20.2-0.50.30.5
Right kidney weight0.00.20.30.5-0.6-0.4
Cocaine induced anxiety0.20.50.60.6-0.7-0.8
Post-drug Anxiety2.12.43.11.8-1.4-1.5
Baseline Anxiety0.20.30.50.7-0.5-0.4
Tail length0.42.02.01.4-1.4-1.4
Length with tail0.31.41.81.4-1.1-1.0
Length without tail0.00.10.20.00.40.4
Times rat made contact with spout0.10.10.1-0.40.20.2
Lifetime Intake4.85.97.5-2.72.42.1
Liver weight, left0.50.91.01.0-1.0-0.8
Liver weight, right0.10.10.30.3-0.5-0.2
Locomotor activity0.00.10.10.40.10.1
Locomotor testing distance0.00.10.20.40.1-0.1
Locomotor testing rearing0.41.41.7-1.01.31.1
Locomotion in novel chamber0.81.11.11.0-1.1-1.0
Locomotion in novel chamber post-restriction0.00.00.00.0-0.10.2
Fecal boli incidents, locomotor time 10.10.30.50.5-0.4-0.7
Change in fecal boli incidents, locomotor task3.23.44.4-1.71.72.1
Time >=10cm from walls, locomotor time 10.81.01.2-1.01.10.8
Bouts of movement, locomotor time 10.00.10.1-0.10.40.2
Total resting periods, locomotor time 10.10.10.2-0.10.50.4
Rest time, locomotor task time 10.10.20.5-0.10.30.7
Distance moved, locomotor task time 10.10.20.40.1-0.3-0.6
Vertical activity count, locomotor time 10.00.10.20.1-0.2-0.4
Time >=10cm from walls, locomotor time 20.10.30.5-0.70.40.6
Bouts of movement, locomotor time 20.10.30.50.7-0.6-0.4
Total resting periods, locomotor time 20.10.30.60.8-0.6-0.4
Rest time, locomotor task time 20.10.10.30.5-0.4-0.1
Distance moved, locomotor task time 20.00.10.1-0.3-0.1-0.3
Vertical activity count, locomotor time 20.71.51.91.0-1.3-1.4
Light reinforcement 10.41.82.21.1-1.4-1.5
Light reinforcement 22.04.55.31.9-2.3-2.2
Bone: marrow area0.10.30.5-0.60.40.7
Bone: maximum diameter0.00.10.1-0.3-0.30.1
Bone: maximum force0.10.30.50.3-0.7-0.5
Bone: maximum moment0.00.00.0-0.1-0.2-0.0
Mean time between licks in bursts0.10.80.90.9-0.8-0.9
Mean num. licks in bursts0.10.20.20.4-0.3-0.4
Cd content in liver0.60.60.80.7-0.8-0.9
Co content in liver0.00.10.10.3-0.3-0.1
Cu content in liver3.33.94.1-2.02.01.9
Fe content in liver0.50.60.7-0.80.70.7
K content in liver0.70.70.9-0.70.81.0
Mg content in liver0.70.80.9-0.80.90.9
Mn content in liver0.00.00.10.30.10.1
Na content in liver1.11.21.5-1.20.81.2
Rb content in liver0.00.00.0-0.10.00.1
Se content in liver0.00.10.1-0.10.30.2
Sr content in liver0.20.10.20.50.40.1
Zn content in liver3.03.53.5-1.91.91.9
Bone: minimum diameter0.40.71.00.7-1.0-0.8
Time in familiar zone, hab. session 10.50.50.7-0.50.80.9
Time in novel zone, hab. session 10.10.10.2-0.1-0.2-0.4
Total zone transitions, hab. session 11.21.72.11.5-1.2-1.2
Total locomotion distance, hab. session 10.30.40.50.7-0.6-0.6
Locomotion velocity, hab. session 10.81.11.21.1-1.0-1.0
Time in familiar zone, hab. session 21.41.61.8-1.11.31.4
Time in novel zone, hab. session 20.40.40.60.4-0.7-0.7
Total zone transitions, hab. session 20.40.51.01.0-0.5-0.6
Total locomotion distance, hab. session 20.20.30.40.6-0.4-0.6
Locomotion velocity, hab. session 20.10.20.30.5-0.3-0.4
Novel to familiar place preference ratio0.00.00.0-0.1-0.1-0.1
Novelty place preference0.00.00.1-0.30.10.0
Time in novel zone, NPP test0.00.00.0-0.2-0.0-0.1
Total zone transitions, NPP test1.01.52.61.6-0.9-1.0
Total locomotion distance, NPP test0.40.60.80.9-0.6-0.8
Locomotion velocity, NPP test0.20.20.40.6-0.3-0.5
Intraocular pressure2.13.43.82.0-1.9-1.7
Delta distance traveled before/after self-admin3.64.04.9-2.21.81.9
Delta ambulatory time before/after self-admin2.44.25.2-2.31.91.9
Parametrial fat weight0.10.20.20.4-0.4-0.4
Pavlov. Cond. lever latency0.50.60.7-0.80.70.8
Pavlov. Cond. magazine entry latency0.30.40.40.6-0.6-0.6
Pavlov. Cond. change in total contacts2.62.83.11.7-1.6-1.8
Pavlov. Cond. index score0.81.01.11.0-0.9-1.0
Pavlov. Cond. latency score0.70.91.01.0-0.8-1.0
Pavlov. Cond. lever contacts0.50.60.80.9-0.7-0.8
Pavlov. Cond. magazine entry number0.91.21.2-1.11.01.1
Pavlov. Cond. intertrial magazine entries0.50.60.7-0.70.80.9
Pavlov. Cond. lever-magazine prob. diff.0.70.80.91.0-0.8-1.0
Pavlov. Cond. response bias0.70.91.11.0-0.9-1.0
Pavlov. Cond. lever latency1.11.61.81.4-1.1-1.3
Pavlov. Cond. magazine entry latency0.00.00.1-0.1-0.3-0.1
Pavlov. Cond. change in total contacts0.00.00.0-0.2-0.10.2
Pavlov. Cond. index score0.10.10.2-0.40.00.3
Pavlov. Cond. latency score0.20.30.4-0.70.20.5
Pavlov. Cond. lever contacts0.60.91.1-1.00.71.1
Pavlov. Cond. magazine entry number0.10.10.2-0.10.50.2
Pavlov. Cond. intertrial magazine entries0.10.20.40.6-0.3-0.4
Pavlov. Cond. lever-magazine prob. diff.0.10.10.2-0.50.10.4
Pavlov. Cond. response bias0.20.20.4-0.60.20.5
Time in closed arm before self-admin0.81.31.8-1.31.11.0
Time in closed arm after self-admin0.30.30.4-0.50.60.5
Time in open arm before self-admin0.00.00.00.2-0.1-0.2
Time in open arm after self-admin0.40.50.60.8-0.7-0.5
Bone: periosteal estimation0.00.10.30.0-0.5-0.2
Bone: periosteal perimeter0.10.10.2-0.40.00.4
Bone: post-yield work3.05.15.5-2.32.12.3
Progressive ratio test 1 active lever presses1.32.33.4-1.81.51.2
Progressive ratio test 1 breakpoint1.42.43.5-1.91.51.3
Progressive ratio test 1 inactive lever presses0.00.00.1-0.30.1-0.1
Progressive ratio test 2 active lever presses4.26.06.3-2.52.52.4
Progressive ratio test 2 breakpoint4.45.65.9-2.42.42.3
Progressive ratio test 2 inactive lever presses0.61.82.8-1.71.21.1
Incentive Sensitization - Responses1.02.93.1-1.61.81.7
Incentive Sensitization - Breakpoint1.33.03.3-1.61.81.8
Sum of active levers in priming session hrs 5-60.50.50.6-0.60.70.7
Progressive ratio0.30.91.3-1.11.00.7
Food seeking constrained by brief footshock3.44.24.72.2-2.0-2.0
Seeking ratio, punishment vs. effort1.73.84.92.2-1.9-1.7
Retroperitoneal fat weight0.20.91.31.2-0.9-0.8
Reaction time number correct0.10.40.5-0.70.60.7
Reaction time mean minus median0.74.35.41.7-2.3-2.2
Reaction time mean minus median AUC0.85.66.61.9-2.6-2.5
Reaction time num false alarms0.81.41.6-1.31.21.2
Reaction time num false alarms AUC0.71.71.9-1.41.31.2
Reaction time trials correct on left0.10.40.5-0.70.60.7
Reaction time trials on left0.10.30.4-0.60.50.6
Reaction time mean1.63.54.51.6-1.9-2.1
Reaction time mean AUC1.63.74.91.6-2.0-2.2
Median of all reaction times1.62.53.41.3-1.5-1.8
Reaction time omissions4.77.68.62.5-2.9-2.8
Reaction time false alarm rate0.30.40.5-0.70.60.6
Reaction time premature initiation rate1.52.32.4-1.51.61.5
Reaction time premature initiations0.92.72.7-1.71.61.6
Std. dev. reaction times0.82.83.51.2-1.9-1.9
Reaction time trials completed0.10.30.4-0.60.50.6
Reaction time trials AUC0.10.20.2-0.50.40.5
Run reversals in cocaine runway, females0.60.60.80.9-0.7-0.8
Run reversals in cocaine runway, males2.42.72.81.7-1.7-1.6
Latency to leave start box in cocaine runway0.71.01.1-1.01.01.0
Latency to leave start box in cocaine runway, F3.24.04.2-1.92.02.1
Latency to leave start box in cocaine runway, M2.92.83.01.6-1.7-1.7
Std. dev. time between licks in bursts0.00.00.00.00.10.1
Total sessions with >9 infusions1.82.33.2-1.81.51.2
Short access day 1 total inactive lever presses0.71.41.9-1.41.11.0
Short access day 10 total inactive lever presses0.00.20.40.6-0.3-0.1
Short access day 1 total infusions1.32.62.9-1.71.71.5
Short access day 10 total infusions2.23.64.4-2.11.91.7
Short access total infusions1.82.53.5-1.91.51.3
Short access day 1 locomotion0.20.30.6-0.80.40.2
Short access day 10 total locomotion0.10.40.70.4-0.6-0.8
Short access total locomotion0.30.51.0-1.00.60.4
One hour access (0.3 mA shock)6.57.78.0-2.82.82.7
Compulsive drug intake0.40.61.21.1-0.6-0.5
One hour access (shock baseline)4.411.514.5-3.83.33.1
Social response proportion0.30.40.70.5-0.8-0.5
Social responses0.70.91.20.8-1.1-0.9
Social time0.10.10.1-0.3-0.2-0.3
Soleus weight1.13.13.31.7-1.7-1.8
Bone: stiffness0.20.30.50.4-0.7-0.5
Tibialis anterior weight9.332.035.05.9-5.4-5.6
Time to tail flick, vehicle, before self-admin0.30.40.5-0.40.70.6
Time to tail flick, vehicle, after self-admin1.83.74.1-1.81.92.0
Time to tail flick, test, before self-admin0.00.00.0-0.00.10.2
Time to tail flick, test, after self-admin1.51.62.7-1.61.01.0
Delta time to tail flick, vehicle, before/after SA2.83.03.7-1.91.71.6
Delta time to tail flick, test, before/after SA0.10.10.1-0.2-0.3-0.3
Tibia length1.33.64.1-1.81.82.0
Ambulatory time before self-admin0.51.62.21.5-1.0-1.2
Ambulatory time after self-admin0.30.40.5-0.70.70.6
Bone: tissue strength3.03.13.2-1.81.81.8
Total heroin consumption0.10.10.1-0.30.30.2
Bone: trabecular number0.50.91.0-0.91.00.9
Bone: trabecular spacing1.01.51.81.2-1.3-1.2
Bone: trabecular thickness1.31.72.1-1.51.31.1
Bone: trabecular tissue density2.74.75.41.9-2.3-2.3
Water consumed over 24 hours0.10.20.20.4-0.4-0.5
Number of responses in last shaping day0.50.71.1-1.10.70.7