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 BLA gene expression Pmp2 0.1 0.07 3.3e-04 0.04 0.01 0.01 0.01 2.6e-03 4.9e-02 9.9e-02 7.2e-02
2 PL gene expression Pmp2 0.1 0.06 1.6e-08 0.06 0.06 0.06 0.06 2.8e-07 6.5e-07 5.8e-07 8.2e-07
3 NAcc gene expression Pmp2 0.09 0.06 5.6e-09 0.05 0.06 0.06 0.06 7.8e-07 5.6e-08 1.4e-07 3.0e-07

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 density1.22.02.71.61.6-0.9
Area under the delay curve0.91.01.3-1.0-1.10.7
BMI with tail2.37.39.3-2.6-2.43.0
BMI without tail5.611.712.2-3.5-3.33.5
Body weight0.93.64.5-1.8-1.82.1
Weight adjusted by age0.30.30.5-0.5-0.70.5
Bone surface1.73.04.22.12.0-0.7
Bone volume1.52.63.92.01.9-0.7
Breakpoint value in progressive ratio session1.81.92.1-1.5-1.31.4
Number of licking bursts0.30.40.50.70.6-0.4
Context. condit. distance diff. score0.00.00.1-0.2-0.1-0.3
Locomotion velocity, session 12.72.93.1-1.7-1.71.6
Locomotion distance, session 11.31.72.2-1.2-1.31.5
Locomotion velocity, session 22.32.73.0-1.5-1.71.6
Locomotion distance, session 21.82.63.7-1.3-1.51.9
Locomotion velocity, session 30.00.00.00.00.0-0.2
Locomotion distance, session 30.10.20.30.50.4-0.1
Stereotopy head waving bouts, day 30.30.30.6-0.5-0.30.8
Stereotopy head waving duration, day 30.70.81.0-1.0-0.80.9
Locomotion velocity, session 73.03.34.72.22.1-0.8
Locomotion distance, session 73.84.85.82.42.4-1.7
Stereotopy head waving bouts, day 70.70.81.1-0.8-0.91.1
Stereotopy head waving duration, day 71.11.31.5-1.2-1.21.0
Locomotion velocity, session 83.84.55.3-2.2-2.31.8
Locomotion distance, session 81.21.82.0-1.4-1.41.3
Degree of sensitization distance0.30.30.40.60.6-0.5
Degree of sensitization stereotypy1.81.92.1-1.4-1.51.3
Conditioned locomotion0.20.20.2-0.5-0.50.5
Cocaine response after cond. corrected1.01.11.21.11.0-1.1
Cocaine response after cond. not corrected1.81.92.31.51.3-1.4
Cocaine response before conditioning0.20.20.40.70.4-0.2
Saline control response0.60.81.21.01.1-0.2
Bone: connectivity density1.62.63.31.71.8-1.2
Bone: cortical apparent density0.60.81.3-1.1-0.90.6
Bone: cortical area0.10.10.40.10.00.6
Bone: cortical porosity0.10.10.2-0.1-0.00.5
Bone: cortical porosity0.10.10.3-0.3-0.20.6
Bone: cortical thickness0.40.71.3-0.6-0.61.1
Bone: cortical thickness3.64.14.6-1.9-2.22.0
Bone: cortical tissue density0.60.91.3-1.1-1.00.6
Condit. Reinf. active minus inactive responses6.67.410.2-2.4-2.53.2
Condit. Reinf. active-inactive response ratio8.69.312.5-2.7-2.83.5
Condit. Reinf. active responses5.36.59.4-2.2-2.33.1
Condit. Reinf. inactive responses0.10.10.1-0.3-0.30.4
Incentive salience index mean6.88.211.3-2.6-2.63.4
Condit. Reinf. lever presses2.83.74.8-1.8-1.72.2
Condit. Reinf. active minus inactive responses1.31.62.41.61.5-0.3
Condit. Reinf. active-inactive response ratio0.60.61.11.10.90.1
Condit. Reinf. active responses1.82.53.71.91.9-0.5
Condit. Reinf. inactive responses0.10.20.30.40.6-0.2
Condit. Reinf. lever presses0.70.91.51.21.1-0.2
Condit. Reinf. lever reinforcers received2.12.94.32.12.0-0.6
Conditioned reinforcement - actives4.14.15.22.32.3-1.4
Conditioned reinforcement - inactives0.10.10.40.20.6-0.1
Conditioned locomotion2.53.04.21.92.0-1.1
Patch foraging indifference point 0 sec1.11.72.11.41.1-1.4
Patch foraging indifference point AUC0.40.40.6-0.7-0.80.4
Delay disc. indifference point, 0s delay0.10.10.10.20.1-0.4
Delay disc. indifference point, 16s delay1.01.01.4-1.1-1.20.7
Delay disc. indifference point, 2s delay0.80.91.7-0.8-0.71.3
Delay disc. indifference point, 24s delay0.00.00.1-0.2-0.30.0
Delay disc. indifference point, 4s delay1.92.02.9-1.4-1.71.0
Delay disc. indifference point, 8s delay0.00.00.1-0.2-0.2-0.3
Indifference point function ln k0.00.00.1-0.2-0.2-0.0
Indifference point function log k0.00.00.1-0.2-0.2-0.0
Patch foraging total patch changes 0 sec0.61.01.61.00.7-1.3
Patch foraging total patch changes 12 sec0.60.81.10.80.7-1.1
Patch foraging total patch changes 18 sec0.40.51.0-0.5-1.00.4
Patch foraging total patch changes 24 sec0.20.30.60.50.1-0.8
Patch foraging total patch changes 6 sec0.00.10.1-0.1-0.2-0.4
Patch foraging time to switch 0 sec2.03.04.4-1.6-1.42.1
Patch foraging water rate 0 sec0.20.40.80.40.2-0.9
Patch foraging water rate 12 sec1.52.32.71.61.3-1.6
Patch foraging water rate 18 sec0.60.81.01.01.0-0.8
Patch foraging water rate 24 sec0.20.30.60.20.4-0.8
Patch foraging water rate 6 sec2.43.63.92.01.9-1.8
Seeking ratio, delayed vs. immediate footshock9.510.911.33.43.4-3.2
Distance traveled before self-admin0.10.20.20.20.5-0.5
Distance traveled after self-admin0.10.20.40.00.2-0.7
Extensor digitorum longus weight11.244.047.8-6.9-6.76.3
Bone: elastic displacement0.20.20.7-0.1-0.20.8
Bone: elastic work0.10.20.50.2-0.00.7
Bone: endosteal estimation0.30.61.01.01.00.2
Bone: endosteal perimeter0.40.81.11.11.0-0.5
Epididymis fat weight0.10.20.50.10.1-0.7
Delta time in closed arm before/after self-admin0.30.30.40.50.4-0.6
Delta time in open arm before/after self-admin0.00.00.0-0.10.1-0.1
Diff in mean of infusions in LGA sessions2.52.83.6-1.6-1.51.9
Delay discount exponential model param0.70.70.90.90.9-0.6
Extinction: sum of active levers before priming1.11.01.2-1.0-1.10.9
Active lever presses in extinction session 60.40.40.40.70.7-0.5
Bone: final force0.20.30.8-0.1-0.20.9
Bone: final moment0.10.10.20.20.20.5
Food consumed during 24 hour testing period2.32.72.9-1.7-1.61.6
Glucose1.72.52.6-1.6-1.61.5
Heart weight1.92.63.11.61.5-1.8
Delay discount hyperbolic model param1.01.11.31.11.1-0.8
Intermittent access intake day 1-15 change6.26.16.32.42.5-2.5
Intermittent access intake escalation4.64.54.72.12.1-2.2
Intermittent access intake escalation 25.85.76.32.52.3-2.3
Intermitt. access day 1 inactive lever presses0.50.61.1-1.1-0.80.2
Intermitt. access day 15 inactive lever presses0.20.20.5-0.1-0.2-0.7
Intermitt. access escalation Index0.10.10.1-0.3-0.2-0.1
Intermittent access day 1 total infusions1.41.62.51.61.3-0.9
Intermittent access day 15 total infusions7.58.410.43.22.9-2.5
Intermittent access terminal intake (last 3 days)6.97.510.03.22.6-2.4
Intermittent access total infusions4.65.26.72.62.3-1.9
Intermittent access day 1 locomotion0.30.30.50.70.5-0.4
Intermittent access day 15 total locomotion0.70.81.11.11.0-0.4
Intermittent access total locomotion0.91.11.61.21.0-0.8
Intermittent access standard deviation6.06.47.62.42.4-2.8
Left kidney weight1.13.14.11.81.4-2.0
Right kidney weight0.61.62.91.10.8-1.7
Cocaine induced anxiety0.10.20.4-0.4-0.60.0
Post-drug Anxiety1.82.02.5-1.6-1.51.2
Baseline Anxiety0.10.20.3-0.4-0.10.5
Tail length0.51.72.1-1.3-1.41.1
Length with tail0.00.00.0-0.0-0.2-0.0
Length without tail0.61.31.51.21.2-0.9
Times rat made contact with spout0.10.10.20.40.1-0.2
Lifetime Intake4.65.26.52.52.3-2.0
Liver weight, left1.93.13.5-1.6-1.81.9
Liver weight, right0.20.30.6-0.5-0.80.3
Locomotor activity0.00.00.0-0.10.1-0.0
Locomotor testing distance0.00.00.0-0.00.00.1
Locomotor testing rearing0.81.21.31.11.0-1.1
Locomotion in novel chamber0.91.11.4-1.0-0.91.2
Locomotion in novel chamber post-restriction0.00.00.10.10.1-0.2
Fecal boli incidents, locomotor time 10.30.40.5-0.7-0.60.5
Change in fecal boli incidents, locomotor task3.02.83.71.61.9-1.4
Time >=10cm from walls, locomotor time 11.21.21.81.11.4-0.6
Bouts of movement, locomotor time 10.50.61.60.20.3-1.3
Total resting periods, locomotor time 10.50.51.30.30.4-1.1
Rest time, locomotor task time 10.60.61.20.50.7-1.1
Distance moved, locomotor task time 10.00.00.00.2-0.20.1
Vertical activity count, locomotor time 10.10.20.4-0.0-0.10.7
Time >=10cm from walls, locomotor time 20.50.50.90.71.00.0
Bouts of movement, locomotor time 20.20.20.3-0.5-0.5-0.5
Total resting periods, locomotor time 20.20.30.3-0.5-0.5-0.6
Rest time, locomotor task time 20.10.10.1-0.3-0.3-0.1
Distance moved, locomotor task time 20.00.00.10.30.0-0.2
Vertical activity count, locomotor time 21.21.31.6-1.1-1.01.3
Light reinforcement 10.81.52.4-1.2-1.60.7
Light reinforcement 22.73.74.3-2.0-2.11.7
Bone: marrow area0.20.50.70.80.90.3
Bone: maximum diameter0.10.30.40.70.6-0.2
Bone: maximum force0.10.20.70.1-0.10.8
Bone: maximum moment0.10.20.20.50.40.4
Mean time between licks in bursts1.31.92.6-1.3-1.11.6
Mean num. licks in bursts0.10.10.2-0.4-0.40.2
Cd content in liver0.80.91.5-1.2-1.10.2
Co content in liver0.10.10.2-0.4-0.3-0.3
Cu content in liver4.45.35.82.42.2-2.3
Fe content in liver0.20.30.30.50.40.6
K content in liver0.80.81.10.70.8-1.1
Mg content in liver0.50.50.60.70.7-0.7
Mn content in liver0.30.30.5-0.7-0.70.3
Na content in liver1.21.21.31.11.1-1.1
Rb content in liver0.00.00.0-0.0-0.2-0.1
Se content in liver0.20.20.40.40.4-0.6
Sr content in liver0.70.61.1-1.1-0.70.6
Zn content in liver1.81.92.31.31.4-1.5
Bone: minimum diameter0.91.64.1-0.5-0.62.0
Time in familiar zone, hab. session 11.00.91.60.70.8-1.3
Time in novel zone, hab. session 10.10.10.2-0.2-0.30.4
Total zone transitions, hab. session 11.21.62.1-1.2-1.21.4
Total locomotion distance, hab. session 10.40.61.3-0.5-0.61.1
Locomotion velocity, hab. session 10.91.32.3-0.8-1.01.5
Time in familiar zone, hab. session 22.52.64.21.21.4-2.1
Time in novel zone, hab. session 20.90.91.8-0.6-0.81.3
Total zone transitions, hab. session 20.30.40.6-0.8-0.60.3
Total locomotion distance, hab. session 20.20.30.4-0.4-0.50.6
Locomotion velocity, hab. session 20.10.20.3-0.3-0.40.5
Novel to familiar place preference ratio0.10.10.2-0.3-0.20.4
Novelty place preference0.00.00.0-0.1-0.00.2
Time in novel zone, NPP test0.00.00.0-0.2-0.10.1
Total zone transitions, NPP test0.71.11.3-1.2-1.10.8
Total locomotion distance, NPP test0.50.71.0-0.6-0.81.0
Locomotion velocity, NPP test0.20.30.6-0.3-0.50.8
Intraocular pressure2.63.64.1-1.9-1.72.0
Delta distance traveled before/after self-admin0.30.40.50.70.5-0.6
Delta ambulatory time before/after self-admin0.80.91.11.00.8-1.0
Parametrial fat weight0.10.20.4-0.6-0.40.3
Pavlov. Cond. lever latency0.81.01.20.90.9-1.1
Pavlov. Cond. magazine entry latency0.40.60.8-0.6-0.70.9
Pavlov. Cond. change in total contacts3.23.43.9-1.7-1.82.0
Pavlov. Cond. index score1.01.21.3-1.1-1.11.1
Pavlov. Cond. latency score0.91.11.2-1.0-1.11.1
Pavlov. Cond. lever contacts1.01.21.7-1.0-1.01.3
Pavlov. Cond. magazine entry number0.91.11.21.01.1-1.0
Pavlov. Cond. intertrial magazine entries0.50.60.70.80.8-0.6
Pavlov. Cond. lever-magazine prob. diff.0.91.21.2-1.0-1.11.1
Pavlov. Cond. response bias1.01.21.6-1.0-1.01.2
Pavlov. Cond. lever latency1.21.61.9-1.4-1.31.1
Pavlov. Cond. magazine entry latency0.00.00.00.1-0.10.1
Pavlov. Cond. change in total contacts0.10.20.40.30.20.7
Pavlov. Cond. index score0.10.10.30.50.30.2
Pavlov. Cond. latency score0.20.20.50.70.5-0.1
Pavlov. Cond. lever contacts0.70.91.21.11.0-0.7
Pavlov. Cond. magazine entry number0.10.10.2-0.00.3-0.4
Pavlov. Cond. intertrial magazine entries0.30.30.5-0.6-0.40.7
Pavlov. Cond. lever-magazine prob. diff.0.10.20.40.60.40.0
Pavlov. Cond. response bias0.20.30.60.80.6-0.1
Time in closed arm before self-admin0.50.50.70.80.5-0.8
Time in closed arm after self-admin0.70.71.20.80.5-1.1
Time in open arm before self-admin0.10.10.30.10.00.6
Time in open arm after self-admin1.41.51.6-1.3-1.11.2
Bone: periosteal estimation0.20.40.90.50.40.9
Bone: periosteal perimeter0.20.40.60.80.7-0.1
Bone: post-yield work3.34.55.72.42.1-1.9
Progressive ratio test 1 active lever presses3.63.74.41.91.7-2.1
Progressive ratio test 1 breakpoint3.43.53.81.91.7-1.9
Progressive ratio test 1 inactive lever presses0.10.10.20.10.2-0.5
Progressive ratio test 2 active lever presses3.43.74.62.22.0-1.6
Progressive ratio test 2 breakpoint3.13.54.42.12.0-1.5
Progressive ratio test 2 inactive lever presses1.92.22.61.61.5-1.3
Incentive Sensitization - Responses1.41.42.31.51.2-0.6
Incentive Sensitization - Breakpoint1.51.52.41.61.2-0.7
Sum of active levers in priming session hrs 5-60.10.10.20.50.40.1
Progressive ratio1.11.32.31.00.7-1.5
Food seeking constrained by brief footshock3.54.35.8-2.0-1.82.4
Seeking ratio, punishment vs. effort3.94.87.3-2.1-1.62.7
Retroperitoneal fat weight0.10.20.40.20.6-0.4
Reaction time number correct0.20.30.50.70.70.1
Reaction time mean minus median2.43.24.4-2.1-1.91.3
Reaction time mean minus median AUC3.44.45.3-2.3-2.21.7
Reaction time num false alarms0.40.61.01.00.9-0.2
Reaction time num false alarms AUC0.50.61.01.00.9-0.3
Reaction time trials correct on left0.20.30.50.70.70.1
Reaction time trials on left0.20.30.40.60.60.2
Reaction time mean2.12.93.4-1.8-1.61.7
Reaction time mean AUC2.43.23.5-1.9-1.71.8
Median of all reaction times1.82.53.0-1.6-1.41.7
Reaction time omissions4.46.16.9-2.6-2.62.1
Reaction time false alarm rate0.10.10.10.40.2-0.3
Reaction time premature initiation rate2.12.83.51.61.5-1.9
Reaction time premature initiations2.13.03.11.81.8-1.6
Std. dev. reaction times1.52.22.8-1.7-1.61.1
Reaction time trials completed0.20.30.40.60.60.2
Reaction time trials AUC0.10.20.30.50.50.3
Run reversals in cocaine runway, females0.60.60.9-1.0-0.50.7
Run reversals in cocaine runway, males3.63.53.8-1.8-1.82.0
Latency to leave start box in cocaine runway0.70.80.80.90.9-0.8
Latency to leave start box in cocaine runway, F3.13.43.61.91.8-1.8
Latency to leave start box in cocaine runway, M2.22.12.4-1.6-1.31.5
Std. dev. time between licks in bursts0.00.10.1-0.10.20.3
Total sessions with >9 infusions1.21.31.61.21.0-1.3
Short access day 1 total inactive lever presses0.50.60.80.70.6-0.9
Short access day 10 total inactive lever presses0.10.10.3-0.50.1-0.3
Short access day 1 total infusions3.03.23.51.91.7-1.7
Short access day 10 total infusions2.93.23.61.91.6-1.8
Short access total infusions3.33.74.32.11.9-1.8
Short access day 1 locomotion0.20.30.40.50.3-0.6
Short access day 10 total locomotion0.80.91.2-1.1-1.10.7
Short access total locomotion0.40.40.70.80.5-0.6
One hour access (0.3 mA shock)5.76.67.92.82.8-2.1
Compulsive drug intake1.11.11.8-1.3-0.81.0
One hour access (shock baseline)8.29.511.83.43.1-2.7
Social response proportion0.10.10.3-0.5-0.30.2
Social responses0.40.50.7-0.8-0.80.5
Social time0.00.00.00.20.00.1
Soleus weight0.92.63.0-1.5-1.71.6
Bone: stiffness0.10.10.2-0.2-0.10.5
Tibialis anterior weight9.231.632.8-5.7-5.55.6
Time to tail flick, vehicle, before self-admin0.91.01.31.11.1-0.6
Time to tail flick, vehicle, after self-admin2.52.73.41.71.9-1.3
Time to tail flick, test, before self-admin0.10.10.3-0.1-0.2-0.6
Time to tail flick, test, after self-admin0.70.81.00.90.7-1.0
Delta time to tail flick, vehicle, before/after SA1.21.21.81.01.3-0.9
Delta time to tail flick, test, before/after SA0.00.00.10.20.1-0.3
Tibia length1.44.14.22.02.0-2.0
Ambulatory time before self-admin0.10.10.20.00.5-0.4
Ambulatory time after self-admin0.30.30.60.40.5-0.8
Bone: tissue strength2.62.52.71.61.5-1.6
Total heroin consumption0.20.20.4-0.4-0.20.6
Bone: trabecular number0.71.11.41.21.2-0.8
Bone: trabecular spacing1.11.52.0-1.4-1.30.8
Bone: trabecular thickness1.62.02.81.71.6-0.8
Bone: trabecular tissue density2.23.14.0-1.8-2.01.3
Water consumed over 24 hours0.10.10.2-0.4-0.40.4
Number of responses in last shaping day0.10.10.20.40.3-0.3