Pgpep1

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 Adipose gene expression Pgpep1 0.05 0.03 2.7e-07 0.02 0.05 0.03 0.04 1.4e-03 6.2e-06 2.8e-04 3.0e-05
2 Liver gene expression Pgpep1 0.06 0.03 8.0e-08 0.02 0.05 0.02 0.03 2.5e-03 2.0e-06 8.7e-04 3.6e-04
3 Liver isoform ratio NM_201988.2 0.04 0.03 2.6e-04 0.01 0.02 0.02 0.01 3.9e-02 2.1e-03 4.0e-03 9.6e-03
4 Liver isoform ratio XM_063275159.1 0.04 0.03 2.3e-04 0.01 0.02 0.01 0.01 4.8e-02 3.1e-03 1.0e-02 2.3e-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 4
Bone: apparent density1.32.24.1-2.0-1.31.4-1.1
Area under the delay curve0.40.50.60.80.7-0.70.6
BMI with tail2.910.111.7-3.2-3.43.1-3.0
BMI without tail4.112.614.4-3.5-3.83.5-3.5
Body weight8.436.939.9-6.3-6.26.0-5.8
Weight adjusted by age2.74.14.3-2.0-2.12.0-2.0
Bone surface0.91.62.7-1.7-1.21.1-0.9
Bone volume1.93.35.1-2.2-1.81.7-1.5
Breakpoint value in progressive ratio session0.30.30.5-0.6-0.70.5-0.4
Number of licking bursts0.20.30.40.50.6-0.50.4
Context. condit. distance diff. score0.00.00.1-0.00.30.2-0.3
Locomotion velocity, session 10.40.40.7-0.5-0.90.6-0.4
Locomotion distance, session 10.30.40.70.50.5-0.70.9
Locomotion velocity, session 22.63.03.5-1.5-1.91.8-1.8
Locomotion distance, session 20.71.01.50.80.9-1.11.2
Locomotion velocity, session 30.10.20.30.50.5-0.30.2
Locomotion distance, session 30.10.20.20.10.5-0.40.5
Stereotopy head waving bouts, day 30.30.30.90.50.9-0.30.3
Stereotopy head waving duration, day 30.00.10.20.10.40.1-0.2
Locomotion velocity, session 71.51.61.91.41.2-1.31.2
Locomotion distance, session 72.43.13.21.71.7-1.81.8
Stereotopy head waving bouts, day 70.91.01.3-1.1-0.81.1-1.0
Stereotopy head waving duration, day 71.82.12.5-1.4-1.21.6-1.6
Locomotion velocity, session 80.20.20.40.60.5-0.30.3
Locomotion distance, session 80.10.10.10.10.3-0.30.4
Degree of sensitization distance1.11.21.61.31.0-1.11.0
Degree of sensitization stereotypy1.61.82.3-1.5-1.21.4-1.3
Conditioned locomotion0.10.10.10.20.3-0.30.3
Cocaine response after cond. corrected0.50.61.20.81.1-0.60.5
Cocaine response after cond. not corrected1.01.11.61.21.3-0.90.8
Cocaine response before conditioning0.20.20.30.50.1-0.50.5
Saline control response0.10.10.2-0.4-0.30.2-0.2
Bone: connectivity density0.81.22.4-1.5-1.10.9-0.7
Bone: cortical apparent density0.10.10.20.30.1-0.40.5
Bone: cortical area9.514.616.5-4.1-3.83.8-3.7
Bone: cortical porosity0.10.10.2-0.2-0.50.1-0.0
Bone: cortical porosity0.10.10.2-0.3-0.50.2-0.1
Bone: cortical thickness7.212.014.6-3.8-3.33.4-3.3
Bone: cortical thickness2.93.44.9-2.2-1.31.9-1.8
Bone: cortical tissue density0.20.20.30.50.2-0.60.6
Condit. Reinf. active minus inactive responses1.11.21.9-1.4-0.91.1-1.0
Condit. Reinf. active-inactive response ratio0.30.30.7-0.9-0.30.6-0.5
Condit. Reinf. active responses1.62.02.6-1.6-1.31.4-1.3
Condit. Reinf. inactive responses0.70.81.0-0.8-1.00.9-0.9
Incentive salience index mean2.73.34.3-2.1-1.81.8-1.6
Condit. Reinf. lever presses3.95.46.5-2.6-2.42.3-2.0
Condit. Reinf. active minus inactive responses0.00.00.0-0.00.0-0.10.2
Condit. Reinf. active-inactive response ratio0.60.70.7-0.8-0.80.8-0.8
Condit. Reinf. active responses0.60.91.01.00.8-1.01.0
Condit. Reinf. inactive responses3.03.94.92.21.7-2.01.9
Condit. Reinf. lever presses0.10.10.2-0.0-0.40.2-0.3
Condit. Reinf. lever reinforcers received0.20.30.40.60.4-0.60.5
Conditioned reinforcement - actives1.01.71.8-1.2-1.31.3-1.3
Conditioned reinforcement - inactives6.59.510.2-3.0-2.93.2-3.2
Conditioned locomotion0.70.91.2-0.8-0.91.0-1.1
Patch foraging indifference point 0 sec3.15.86.3-2.2-2.42.5-2.5
Patch foraging indifference point AUC0.10.10.10.40.1-0.30.3
Delay disc. indifference point, 0s delay3.23.54.02.01.9-1.81.8
Delay disc. indifference point, 16s delay2.72.93.71.91.6-1.71.6
Delay disc. indifference point, 2s delay0.40.40.50.60.7-0.70.7
Delay disc. indifference point, 24s delay0.00.00.10.3-0.0-0.0-0.1
Delay disc. indifference point, 4s delay0.00.00.0-0.2-0.20.1-0.1
Delay disc. indifference point, 8s delay0.10.10.20.50.3-0.30.2
Indifference point function ln k0.40.80.9-0.9-0.80.9-0.9
Indifference point function log k0.40.80.9-0.9-0.80.9-0.9
Patch foraging total patch changes 0 sec4.48.39.0-2.6-2.92.9-3.0
Patch foraging total patch changes 12 sec0.70.91.3-0.7-0.91.0-1.2
Patch foraging total patch changes 18 sec0.00.10.10.40.1-0.20.1
Patch foraging total patch changes 24 sec0.40.70.7-0.8-0.70.8-0.8
Patch foraging total patch changes 6 sec2.03.13.8-1.4-1.81.8-1.9
Patch foraging time to switch 0 sec0.81.61.81.31.2-1.31.3
Patch foraging water rate 0 sec1.53.13.2-1.7-1.81.8-1.8
Patch foraging water rate 12 sec0.40.81.0-1.0-1.00.9-0.8
Patch foraging water rate 18 sec0.00.00.1-0.2-0.3-0.00.2
Patch foraging water rate 24 sec1.01.42.0-1.4-1.31.1-0.9
Patch foraging water rate 6 sec1.11.71.7-1.2-1.31.3-1.3
Seeking ratio, delayed vs. immediate footshock0.50.70.91.00.7-0.80.7
Distance traveled before self-admin1.41.82.1-1.2-1.41.4-1.4
Distance traveled after self-admin2.63.23.5-1.7-1.91.8-1.8
Extensor digitorum longus weight0.72.83.1-1.6-1.61.7-1.8
Bone: elastic displacement0.00.00.0-0.10.1-0.10.2
Bone: elastic work2.63.43.7-1.9-1.81.9-1.8
Bone: endosteal estimation0.00.00.10.3-0.1-0.20.1
Bone: endosteal perimeter0.71.41.5-1.1-1.21.2-1.2
Epididymis fat weight1.34.46.3-2.2-2.51.9-1.8
Delta time in closed arm before/after self-admin0.10.10.20.40.3-0.30.2
Delta time in open arm before/after self-admin0.50.50.70.60.6-0.80.8
Diff in mean of infusions in LGA sessions1.41.72.2-0.9-1.51.3-1.4
Delay discount exponential model param0.10.10.2-0.4-0.40.3-0.2
Extinction: sum of active levers before priming0.10.10.2-0.0-0.0-0.30.5
Active lever presses in extinction session 60.10.10.20.50.3-0.40.3
Bone: final force9.515.115.4-3.9-3.93.9-3.9
Bone: final moment8.213.113.2-3.6-3.63.6-3.6
Food consumed during 24 hour testing period0.00.00.1-0.10.0-0.20.3
Glucose1.93.03.6-1.6-1.91.7-1.7
Heart weight2.84.45.3-2.3-1.72.2-2.1
Delay discount hyperbolic model param0.00.00.1-0.3-0.30.2-0.1
Intermittent access intake day 1-15 change0.20.40.7-0.9-0.60.6-0.4
Intermittent access intake escalation0.10.10.4-0.6-0.30.3-0.1
Intermittent access intake escalation 20.50.60.8-0.9-0.90.7-0.6
Intermitt. access day 1 inactive lever presses0.10.40.4-0.6-0.50.6-0.7
Intermitt. access day 15 inactive lever presses0.00.00.00.10.20.0-0.0
Intermitt. access escalation Index0.91.31.41.11.2-1.11.1
Intermittent access day 1 total infusions0.20.30.5-0.2-0.40.6-0.7
Intermittent access day 15 total infusions0.10.10.2-0.4-0.30.3-0.3
Intermittent access terminal intake (last 3 days)0.00.00.1-0.3-0.20.2-0.1
Intermittent access total infusions0.50.60.7-0.7-0.80.8-0.9
Intermittent access day 1 locomotion1.11.41.7-1.0-1.21.2-1.3
Intermittent access day 15 total locomotion0.10.10.2-0.4-0.40.3-0.3
Intermittent access total locomotion1.41.71.8-1.2-1.31.3-1.4
Intermittent access standard deviation0.10.10.2-0.3-0.40.4-0.4
Left kidney weight1.14.95.9-2.1-2.42.2-2.1
Right kidney weight2.310.613.5-3.2-3.73.1-3.0
Cocaine induced anxiety1.31.92.5-1.1-1.41.5-1.6
Post-drug Anxiety0.00.00.1-0.0-0.20.2-0.3
Baseline Anxiety2.93.33.81.61.8-1.92.0
Tail length1.45.35.8-2.3-2.42.3-2.3
Length with tail3.515.016.5-4.1-4.03.8-3.7
Length without tail2.89.111.4-3.4-2.93.0-2.8
Times rat made contact with spout0.20.20.30.30.4-0.50.6
Lifetime Intake1.41.72.0-1.2-1.21.3-1.4
Liver weight, left0.00.10.1-0.1-0.1-0.20.4
Liver weight, right2.13.75.2-1.9-2.31.7-1.7
Locomotor activity0.71.11.8-1.3-1.20.9-0.6
Locomotor testing distance0.00.00.1-0.30.0-0.10.3
Locomotor testing rearing0.00.00.1-0.2-0.2-0.20.3
Locomotion in novel chamber0.30.40.5-0.7-0.70.5-0.4
Locomotion in novel chamber post-restriction0.40.61.6-1.2-0.70.6-0.3
Fecal boli incidents, locomotor time 10.50.70.80.90.7-0.90.9
Change in fecal boli incidents, locomotor task0.40.40.70.80.6-0.60.5
Time >=10cm from walls, locomotor time 10.10.10.30.50.2-0.40.3
Bouts of movement, locomotor time 10.20.20.40.40.2-0.60.7
Total resting periods, locomotor time 10.70.81.20.80.6-1.01.1
Rest time, locomotor task time 10.20.30.50.70.6-0.50.4
Distance moved, locomotor task time 10.00.00.00.20.1-0.10.1
Vertical activity count, locomotor time 10.10.20.3-0.5-0.50.4-0.3
Time >=10cm from walls, locomotor time 21.52.22.71.41.6-1.41.4
Bouts of movement, locomotor time 20.00.00.1-0.3-0.10.2-0.2
Total resting periods, locomotor time 20.00.10.1-0.3-0.20.3-0.3
Rest time, locomotor task time 20.60.70.8-0.8-0.80.9-0.9
Distance moved, locomotor task time 20.70.81.00.91.0-0.90.8
Vertical activity count, locomotor time 20.00.00.10.00.4-0.10.1
Light reinforcement 10.00.10.20.50.1-0.30.2
Light reinforcement 20.20.30.70.90.5-0.40.2
Bone: marrow area0.00.00.10.30.0-0.20.2
Bone: maximum diameter3.36.16.4-2.5-2.32.5-2.5
Bone: maximum force9.917.619.0-4.4-4.34.1-4.0
Bone: maximum moment8.114.115.2-3.9-3.83.7-3.6
Mean time between licks in bursts1.94.75.2-2.1-2.32.2-2.2
Mean num. licks in bursts0.10.10.2-0.5-0.30.2-0.1
Cd content in liver0.70.81.4-1.2-0.60.9-0.8
Co content in liver0.00.00.0-0.2-0.10.2-0.2
Cu content in liver0.30.40.60.30.7-0.60.8
Fe content in liver1.11.31.41.11.1-1.21.2
K content in liver3.43.33.81.91.9-1.71.6
Mg content in liver0.20.20.30.40.5-0.30.3
Mn content in liver0.10.10.2-0.3-0.30.4-0.4
Na content in liver2.22.42.81.51.4-1.61.7
Rb content in liver0.50.60.9-0.7-0.30.9-1.0
Se content in liver0.00.10.10.10.3-0.20.3
Sr content in liver0.40.40.50.60.3-0.70.7
Zn content in liver0.00.00.00.0-0.1-0.00.0
Bone: minimum diameter2.75.06.1-2.3-2.52.1-2.1
Time in familiar zone, hab. session 10.20.20.4-0.4-0.60.4-0.3
Time in novel zone, hab. session 10.00.00.10.00.4-0.10.0
Total zone transitions, hab. session 10.20.20.40.40.2-0.50.6
Total locomotion distance, hab. session 10.50.81.40.60.6-1.01.2
Locomotion velocity, hab. session 10.60.81.30.70.6-1.01.2
Time in familiar zone, hab. session 20.10.10.1-0.2-0.30.2-0.2
Time in novel zone, hab. session 20.10.10.10.20.3-0.20.2
Total zone transitions, hab. session 20.10.10.10.20.2-0.30.3
Total locomotion distance, hab. session 20.00.00.1-0.3-0.00.00.2
Locomotion velocity, hab. session 20.00.00.1-0.20.1-0.10.3
Novel to familiar place preference ratio0.00.00.10.20.1-0.20.2
Novelty place preference0.10.10.10.40.3-0.40.3
Time in novel zone, NPP test0.40.40.40.60.5-0.70.6
Total zone transitions, NPP test0.30.40.60.50.6-0.70.8
Total locomotion distance, NPP test0.50.71.20.50.8-0.91.1
Locomotion velocity, NPP test0.60.81.30.70.8-1.01.1
Intraocular pressure0.91.31.7-1.1-0.91.3-1.3
Delta distance traveled before/after self-admin1.21.31.6-1.1-1.31.1-1.0
Delta ambulatory time before/after self-admin0.30.30.4-0.6-0.60.6-0.5
Parametrial fat weight1.94.45.3-1.7-2.32.1-2.3
Pavlov. Cond. lever latency1.51.92.61.61.4-1.31.1
Pavlov. Cond. magazine entry latency0.30.40.5-0.6-0.70.6-0.5
Pavlov. Cond. change in total contacts3.13.33.6-1.9-1.81.8-1.8
Pavlov. Cond. index score0.50.70.9-0.9-0.90.7-0.6
Pavlov. Cond. latency score0.60.81.0-1.0-1.00.8-0.7
Pavlov. Cond. lever contacts1.61.92.4-1.5-1.51.3-1.2
Pavlov. Cond. magazine entry number0.50.60.80.80.9-0.70.7
Pavlov. Cond. intertrial magazine entries0.10.20.5-0.70.10.4-0.3
Pavlov. Cond. lever-magazine prob. diff.0.50.60.8-0.8-0.90.7-0.6
Pavlov. Cond. response bias0.70.91.1-1.0-1.00.9-0.8
Pavlov. Cond. lever latency1.11.51.81.01.3-1.21.3
Pavlov. Cond. magazine entry latency0.91.11.2-1.0-1.11.0-1.1
Pavlov. Cond. change in total contacts1.11.72.1-1.1-1.31.4-1.5
Pavlov. Cond. index score1.62.22.6-1.3-1.51.5-1.6
Pavlov. Cond. latency score1.01.41.7-1.0-1.21.2-1.3
Pavlov. Cond. lever contacts1.01.31.6-0.9-1.21.2-1.3
Pavlov. Cond. magazine entry number2.42.93.31.51.8-1.71.8
Pavlov. Cond. intertrial magazine entries1.11.72.11.31.2-1.41.4
Pavlov. Cond. lever-magazine prob. diff.1.92.52.9-1.4-1.61.6-1.7
Pavlov. Cond. response bias1.52.02.4-1.2-1.51.4-1.5
Time in closed arm before self-admin7.29.211.3-2.6-2.93.2-3.4
Time in closed arm after self-admin2.93.14.6-1.4-1.61.9-2.1
Time in open arm before self-admin0.20.20.50.10.3-0.50.7
Time in open arm after self-admin0.30.40.90.00.4-0.60.9
Bone: periosteal estimation2.14.44.8-2.1-2.22.1-2.0
Bone: periosteal perimeter5.59.49.7-3.1-3.03.1-3.1
Bone: post-yield work0.00.00.1-0.10.1-0.10.2
Progressive ratio test 1 active lever presses3.13.84.3-1.8-1.92.0-2.1
Progressive ratio test 1 breakpoint2.83.43.9-1.7-1.81.9-2.0
Progressive ratio test 1 inactive lever presses1.72.42.7-1.5-1.51.6-1.6
Progressive ratio test 2 active lever presses0.30.40.5-0.5-0.60.7-0.7
Progressive ratio test 2 breakpoint0.20.20.3-0.4-0.50.5-0.6
Progressive ratio test 2 inactive lever presses1.01.71.9-1.3-1.21.4-1.4
Incentive Sensitization - Responses0.50.60.80.90.8-0.80.7
Incentive Sensitization - Breakpoint0.81.11.31.11.0-1.11.0
Sum of active levers in priming session hrs 5-63.73.54.51.41.9-1.92.1
Progressive ratio0.10.20.30.40.5-0.40.4
Food seeking constrained by brief footshock0.40.50.90.20.9-0.60.8
Seeking ratio, punishment vs. effort0.10.10.1-0.10.3-0.30.4
Retroperitoneal fat weight2.811.912.7-3.3-3.63.4-3.5
Reaction time number correct0.20.30.7-0.7-0.80.4-0.1
Reaction time mean minus median0.00.00.1-0.0-0.20.1-0.1
Reaction time mean minus median AUC0.00.10.1-0.2-0.30.3-0.3
Reaction time num false alarms0.91.21.4-1.0-1.01.2-1.2
Reaction time num false alarms AUC0.50.70.9-0.8-0.70.9-1.0
Reaction time trials correct on left0.20.30.7-0.7-0.80.4-0.1
Reaction time trials on left0.20.40.9-0.8-0.90.4-0.2
Reaction time mean0.20.20.4-0.2-0.50.5-0.6
Reaction time mean AUC0.00.00.10.4-0.0-0.0-0.1
Median of all reaction times0.10.10.30.0-0.20.3-0.5
Reaction time omissions1.72.53.2-1.4-1.81.6-1.6
Reaction time false alarm rate0.40.61.0-0.7-0.50.9-1.0
Reaction time premature initiation rate0.00.00.1-0.3-0.10.10.1
Reaction time premature initiations0.20.40.6-0.8-0.70.5-0.2
Std. dev. reaction times0.40.71.0-0.7-1.00.8-0.8
Reaction time trials completed0.20.40.9-0.8-0.90.4-0.2
Reaction time trials AUC0.30.51.0-0.9-1.00.5-0.3
Run reversals in cocaine runway, females4.04.04.2-1.9-2.02.1-2.1
Run reversals in cocaine runway, males0.80.81.00.90.8-0.91.0
Latency to leave start box in cocaine runway0.00.00.00.0-0.1-0.10.1
Latency to leave start box in cocaine runway, F0.50.50.6-0.8-0.80.7-0.6
Latency to leave start box in cocaine runway, M1.71.52.01.41.2-1.21.1
Std. dev. time between licks in bursts2.43.33.4-1.8-1.81.8-1.8
Total sessions with >9 infusions4.55.56.0-2.3-2.32.4-2.4
Short access day 1 total inactive lever presses0.50.70.9-0.8-0.60.9-1.0
Short access day 10 total inactive lever presses0.10.20.50.70.5-0.30.2
Short access day 1 total infusions3.85.15.3-2.3-2.22.3-2.3
Short access day 10 total infusions0.70.91.0-1.0-0.91.0-1.0
Short access total infusions1.82.32.6-1.4-1.51.6-1.6
Short access day 1 locomotion5.87.18.2-2.6-2.52.8-2.9
Short access day 10 total locomotion2.64.95.9-2.4-2.22.2-2.0
Short access total locomotion3.74.44.8-2.2-2.02.1-2.1
One hour access (0.3 mA shock)0.10.10.1-0.30.10.3-0.3
Compulsive drug intake2.12.52.81.51.7-1.51.5
One hour access (shock baseline)1.62.52.9-1.5-1.51.6-1.7
Social response proportion3.43.85.3-2.3-1.62.0-1.9
Social responses0.70.91.8-1.3-0.80.9-0.7
Social time0.20.30.3-0.6-0.10.6-0.6
Soleus weight0.61.72.1-1.0-1.41.3-1.4
Bone: stiffness7.612.312.7-3.6-3.53.5-3.5
Tibialis anterior weight0.51.62.1-1.5-1.41.2-1.0
Time to tail flick, vehicle, before self-admin0.20.20.20.40.4-0.50.5
Time to tail flick, vehicle, after self-admin0.20.20.3-0.3-0.50.4-0.5
Time to tail flick, test, before self-admin2.02.12.6-1.4-1.21.6-1.6
Time to tail flick, test, after self-admin1.92.02.31.41.5-1.41.3
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.1-0.20.2-0.2
Delta time to tail flick, test, before/after SA2.72.73.21.51.5-1.81.8
Tibia length1.12.93.3-1.8-1.61.7-1.7
Ambulatory time before self-admin1.92.83.2-1.4-1.81.7-1.8
Ambulatory time after self-admin4.85.66.3-2.3-2.52.4-2.3
Bone: tissue strength0.20.20.4-0.2-0.70.3-0.4
Total heroin consumption0.10.20.3-0.3-0.60.4-0.4
Bone: trabecular number1.82.94.6-2.1-1.71.5-1.4
Bone: trabecular spacing0.30.40.70.90.6-0.60.5
Bone: trabecular thickness1.41.82.8-1.7-1.31.2-1.1
Bone: trabecular tissue density0.20.30.40.50.2-0.60.7
Water consumed over 24 hours0.20.20.4-0.6-0.50.3-0.2
Number of responses in last shaping day0.40.40.8-0.9-0.50.6-0.5