Prtn3

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 NAcc gene expression Prtn3 0.09 0.06 6.6e-06 0.04 0.04 0.04 0.04 1.2e-05 1.3e-05 1.2e-05 3.5e-05
2 Brain gene expression Prtn3 0.05 0.04 4.8e-03 0.01 0.02 0.02 0.02 3.1e-02 9.0e-03 9.2e-03 9.6e-03
3 PL gene expression Prtn3 0.1 0.07 3.5e-06 0.05 0.05 0.04 0.05 1.4e-06 3.2e-06 1.4e-05 4.6e-06
4 BLA gene expression Prtn3 0.05 0.04 4.5e-03 0.04 0.04 0.04 0.04 3.2e-03 2.0e-03 2.6e-03 2.7e-03

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 density0.71.22.9-0.91.7-1.00.3
Area under the delay curve2.32.42.91.7-1.21.6-1.6
BMI with tail6.621.524.14.7-4.14.8-4.9
BMI without tail3.77.79.02.7-2.83.0-2.6
Body weight1.35.46.12.3-2.12.5-2.4
Weight adjusted by age1.51.72.51.3-1.61.2-1.0
Bone surface2.44.28.2-1.82.9-2.01.1
Bone volume2.23.77.4-1.72.7-1.91.0
Breakpoint value in progressive ratio session3.84.25.7-2.11.4-2.12.4
Number of licking bursts0.60.71.40.9-1.20.7-0.5
Context. condit. distance diff. score0.20.30.60.3-0.60.8-0.4
Locomotion velocity, session 11.51.62.4-1.21.5-1.31.0
Locomotion distance, session 12.53.25.7-1.92.4-1.41.2
Locomotion velocity, session 28.810.212.0-3.43.5-3.02.9
Locomotion distance, session 24.96.89.9-2.53.1-2.62.0
Locomotion velocity, session 35.46.38.1-2.71.9-2.52.8
Locomotion distance, session 30.00.10.1-0.0-0.30.3-0.0
Stereotopy head waving bouts, day 36.78.08.8-3.02.6-2.72.9
Stereotopy head waving duration, day 36.78.09.2-2.92.5-2.83.0
Locomotion velocity, session 70.40.51.0-1.00.3-0.40.8
Locomotion distance, session 70.70.91.60.7-1.21.0-0.7
Stereotopy head waving bouts, day 70.60.61.1-0.91.1-0.60.5
Stereotopy head waving duration, day 71.11.32.1-1.21.4-1.00.9
Locomotion velocity, session 82.83.34.7-2.02.2-1.61.5
Locomotion distance, session 80.81.21.6-1.31.3-0.80.9
Degree of sensitization distance0.30.30.40.5-0.50.6-0.6
Degree of sensitization stereotypy0.80.91.50.9-0.41.0-1.2
Conditioned locomotion2.93.34.21.7-2.01.9-1.6
Cocaine response after cond. corrected9.911.112.23.4-3.53.4-3.1
Cocaine response after cond. not corrected10.411.412.83.4-3.63.4-3.1
Cocaine response before conditioning0.70.91.2-1.10.8-0.80.9
Saline control response0.10.10.10.3-0.40.3-0.3
Bone: connectivity density0.20.31.1-0.31.1-0.3-0.1
Bone: cortical apparent density1.01.42.21.5-1.00.9-1.3
Bone: cortical area0.20.20.50.4-0.00.5-0.7
Bone: cortical porosity1.01.11.4-1.11.2-1.00.9
Bone: cortical porosity0.60.71.3-0.91.1-0.70.4
Bone: cortical thickness0.61.01.71.0-0.61.0-1.3
Bone: cortical thickness0.50.61.20.8-1.10.6-0.4
Bone: cortical tissue density0.81.01.81.3-0.90.7-1.1
Condit. Reinf. active minus inactive responses4.55.16.2-2.41.9-2.22.5
Condit. Reinf. active-inactive response ratio1.01.11.8-1.00.5-1.11.4
Condit. Reinf. active responses6.17.58.6-2.92.7-2.72.7
Condit. Reinf. inactive responses3.23.75.2-2.12.3-1.81.5
Incentive salience index mean4.04.95.9-2.42.2-2.02.2
Condit. Reinf. lever presses1.41.93.9-1.42.0-1.10.7
Condit. Reinf. active minus inactive responses0.60.81.4-0.80.2-1.11.2
Condit. Reinf. active-inactive response ratio0.40.51.00.8-1.00.3-0.4
Condit. Reinf. active responses0.91.21.8-1.00.5-1.31.3
Condit. Reinf. inactive responses0.80.91.3-1.00.7-1.01.1
Condit. Reinf. lever presses1.01.32.1-1.20.5-1.21.4
Condit. Reinf. lever reinforcers received0.40.51.0-0.70.1-0.91.0
Conditioned reinforcement - actives2.02.02.7-1.61.2-1.41.5
Conditioned reinforcement - inactives0.70.81.10.8-1.01.1-0.8
Conditioned locomotion6.37.68.8-3.02.3-2.83.0
Patch foraging indifference point 0 sec0.10.10.20.3-0.10.3-0.4
Patch foraging indifference point AUC0.50.60.7-0.80.6-0.80.9
Delay disc. indifference point, 0s delay2.62.85.21.7-0.41.7-2.3
Delay disc. indifference point, 16s delay0.20.20.30.6-0.30.3-0.4
Delay disc. indifference point, 2s delay3.74.15.72.1-1.32.1-2.4
Delay disc. indifference point, 24s delay1.41.31.71.3-1.11.1-1.1
Delay disc. indifference point, 4s delay0.60.60.80.8-0.50.8-0.9
Delay disc. indifference point, 8s delay2.32.42.61.6-1.51.6-1.4
Indifference point function ln k0.40.60.70.8-0.80.8-0.7
Indifference point function log k0.40.60.70.8-0.80.8-0.7
Patch foraging total patch changes 0 sec0.10.10.20.3-0.20.3-0.4
Patch foraging total patch changes 12 sec0.60.80.90.8-1.00.9-0.8
Patch foraging total patch changes 18 sec1.01.21.4-1.20.9-1.21.2
Patch foraging total patch changes 24 sec0.10.10.1-0.20.3-0.40.2
Patch foraging total patch changes 6 sec0.20.30.5-0.50.5-0.70.5
Patch foraging time to switch 0 sec0.20.30.6-0.10.80.2-0.5
Patch foraging water rate 0 sec1.01.63.41.1-1.81.1-0.6
Patch foraging water rate 12 sec3.45.37.12.4-2.72.2-1.9
Patch foraging water rate 18 sec1.82.45.71.4-2.41.3-0.7
Patch foraging water rate 24 sec3.34.58.02.0-2.82.0-1.4
Patch foraging water rate 6 sec0.40.61.80.7-1.30.5-0.1
Seeking ratio, delayed vs. immediate footshock4.45.15.8-2.22.0-2.42.4
Distance traveled before self-admin0.30.30.40.6-0.20.5-0.7
Distance traveled after self-admin0.70.80.8-0.90.9-0.90.9
Extensor digitorum longus weight5.421.324.14.5-4.44.9-4.6
Bone: elastic displacement0.10.20.4-0.20.3-0.60.3
Bone: elastic work0.30.30.50.7-0.40.5-0.7
Bone: endosteal estimation0.10.20.20.4-0.30.4-0.5
Bone: endosteal perimeter0.51.01.3-1.11.1-0.90.9
Epididymis fat weight0.20.40.6-0.70.4-0.60.8
Delta time in closed arm before/after self-admin3.63.55.51.8-2.41.8-1.4
Delta time in open arm before/after self-admin0.70.61.00.9-0.40.8-1.0
Diff in mean of infusions in LGA sessions1.92.12.5-1.51.2-1.51.6
Delay discount exponential model param2.32.42.8-1.71.3-1.61.6
Extinction: sum of active levers before priming0.50.50.9-0.80.2-0.60.9
Active lever presses in extinction session 62.52.42.7-1.51.4-1.61.6
Bone: final force0.81.21.81.1-0.71.2-1.4
Bone: final moment0.61.01.51.0-0.71.0-1.2
Food consumed during 24 hour testing period1.11.31.91.4-1.11.1-1.0
Glucose1.82.73.41.8-1.41.6-1.7
Heart weight0.00.00.10.0-0.2-0.20.3
Delay discount hyperbolic model param2.93.13.5-1.91.4-1.81.9
Intermittent access intake day 1-15 change4.94.96.4-2.31.7-2.22.5
Intermittent access intake escalation3.13.14.9-1.91.0-1.72.2
Intermittent access intake escalation 24.03.96.0-2.11.1-2.02.5
Intermitt. access day 1 inactive lever presses0.10.10.30.1-0.50.30.0
Intermitt. access day 15 inactive lever presses0.20.30.5-0.60.3-0.50.7
Intermitt. access escalation Index0.10.10.20.00.4-0.1-0.2
Intermittent access day 1 total infusions0.00.00.00.1-0.00.2-0.2
Intermittent access day 15 total infusions1.01.11.8-1.10.6-1.01.3
Intermittent access terminal intake (last 3 days)0.70.81.0-1.00.7-0.81.0
Intermittent access total infusions0.10.10.1-0.30.1-0.20.4
Intermittent access day 1 locomotion0.20.30.4-0.50.3-0.50.6
Intermittent access day 15 total locomotion3.03.24.1-1.91.4-1.82.0
Intermittent access total locomotion0.91.11.2-1.10.9-1.01.1
Intermittent access standard deviation1.31.42.2-1.30.6-1.21.5
Left kidney weight0.10.20.4-0.30.6-0.50.3
Right kidney weight1.23.34.0-1.81.5-2.02.0
Cocaine induced anxiety1.51.72.6-1.21.6-1.31.0
Post-drug Anxiety1.51.72.4-1.31.6-1.31.0
Baseline Anxiety0.10.10.2-0.0-0.40.00.2
Tail length2.26.89.4-2.81.9-2.53.1
Length with tail1.96.97.7-2.72.3-2.62.8
Length without tail0.40.91.5-1.01.2-0.90.6
Times rat made contact with spout0.91.01.51.1-1.20.9-0.7
Lifetime Intake0.00.00.1-0.20.1-0.10.3
Liver weight, left2.23.54.01.9-1.72.0-1.9
Liver weight, right0.91.52.01.2-0.91.4-1.4
Locomotor activity4.47.17.5-2.72.7-2.72.5
Locomotor testing distance2.33.94.1-2.02.0-2.01.9
Locomotor testing rearing0.10.10.30.3-0.60.3-0.1
Locomotion in novel chamber0.00.00.10.2-0.2-0.30.2
Locomotion in novel chamber post-restriction0.40.50.9-0.80.3-0.70.9
Fecal boli incidents, locomotor time 11.92.02.51.4-1.31.6-1.4
Change in fecal boli incidents, locomotor task0.20.20.2-0.40.4-0.40.4
Time >=10cm from walls, locomotor time 10.20.20.40.50.20.4-0.7
Bouts of movement, locomotor time 10.10.10.2-0.30.1-0.20.5
Total resting periods, locomotor time 10.20.20.4-0.50.3-0.40.6
Rest time, locomotor task time 10.70.81.0-1.00.9-0.70.9
Distance moved, locomotor task time 10.20.30.60.60.10.3-0.8
Vertical activity count, locomotor time 11.11.21.51.2-1.20.9-1.0
Time >=10cm from walls, locomotor time 22.42.62.81.6-1.51.7-1.6
Bouts of movement, locomotor time 21.51.62.3-1.11.5-1.31.1
Total resting periods, locomotor time 21.51.62.3-1.11.5-1.31.0
Rest time, locomotor task time 21.01.21.4-1.01.2-1.11.0
Distance moved, locomotor task time 20.91.11.20.9-1.11.1-1.1
Vertical activity count, locomotor time 21.71.92.51.2-1.61.5-1.2
Light reinforcement 17.313.313.9-3.73.4-3.73.7
Light reinforcement 22.83.74.1-2.01.9-2.01.8
Bone: marrow area0.10.20.20.4-0.30.5-0.5
Bone: maximum diameter1.32.53.0-1.61.7-1.51.4
Bone: maximum force1.01.72.11.2-1.01.4-1.5
Bone: maximum moment0.81.31.71.2-0.91.2-1.3
Mean time between licks in bursts3.14.35.5-2.21.5-2.22.3
Mean num. licks in bursts0.00.00.00.10.10.0-0.0
Cd content in liver0.20.20.30.5-0.30.3-0.6
Co content in liver0.50.50.8-0.90.5-0.70.8
Cu content in liver0.10.10.5-0.30.7-0.2-0.0
Fe content in liver0.10.10.3-0.6-0.10.10.3
K content in liver0.80.81.3-1.11.2-0.60.5
Mg content in liver0.60.61.2-0.91.1-0.60.3
Mn content in liver3.94.56.2-2.32.5-1.91.6
Na content in liver0.20.20.2-0.40.50.3-0.4
Rb content in liver0.10.10.4-0.10.6-0.0-0.3
Se content in liver0.60.71.1-1.10.8-0.60.8
Sr content in liver0.30.20.60.4-0.80.4-0.2
Zn content in liver0.30.30.8-0.3-0.4-0.50.9
Bone: minimum diameter0.00.10.2-0.40.4-0.10.2
Time in familiar zone, hab. session 11.11.01.7-1.00.5-1.11.3
Time in novel zone, hab. session 10.40.40.70.6-0.00.6-0.8
Total zone transitions, hab. session 12.84.05.4-2.02.3-1.91.7
Total locomotion distance, hab. session 14.15.98.2-2.62.9-2.22.0
Locomotion velocity, hab. session 14.86.98.9-2.83.0-2.42.2
Time in familiar zone, hab. session 23.23.35.6-1.61.1-1.92.4
Time in novel zone, hab. session 22.82.84.21.8-1.01.7-2.1
Total zone transitions, hab. session 21.11.43.7-0.81.9-1.00.4
Total locomotion distance, hab. session 23.24.36.4-1.92.5-2.01.8
Locomotion velocity, hab. session 23.85.18.2-2.02.9-2.21.8
Novel to familiar place preference ratio1.92.03.41.4-0.61.5-1.9
Novelty place preference1.01.01.91.0-0.31.1-1.4
Time in novel zone, NPP test1.31.42.31.2-0.51.3-1.5
Total zone transitions, NPP test0.81.22.6-0.91.6-1.00.6
Total locomotion distance, NPP test0.81.12.5-1.11.6-0.80.5
Locomotion velocity, NPP test1.21.63.2-1.21.8-1.10.8
Intraocular pressure0.81.12.21.1-1.50.7-0.5
Delta distance traveled before/after self-admin1.81.92.3-1.51.2-1.41.5
Delta ambulatory time before/after self-admin2.22.42.8-1.71.4-1.51.6
Parametrial fat weight0.10.30.5-0.50.2-0.40.7
Pavlov. Cond. lever latency0.70.91.51.2-1.20.5-0.6
Pavlov. Cond. magazine entry latency3.54.55.9-2.41.7-1.92.3
Pavlov. Cond. change in total contacts0.50.50.9-1.00.7-0.40.6
Pavlov. Cond. index score1.72.13.2-1.81.5-1.11.3
Pavlov. Cond. latency score2.12.63.9-2.01.8-1.21.4
Pavlov. Cond. lever contacts1.21.42.4-1.41.5-0.80.8
Pavlov. Cond. magazine entry number1.31.62.41.6-1.11.0-1.3
Pavlov. Cond. intertrial magazine entries0.10.10.40.3-0.60.00.0
Pavlov. Cond. lever-magazine prob. diff.2.12.63.8-1.91.6-1.31.6
Pavlov. Cond. response bias1.92.33.3-1.81.3-1.31.6
Pavlov. Cond. lever latency0.20.30.50.7-0.30.6-0.7
Pavlov. Cond. magazine entry latency0.30.40.5-0.70.4-0.50.7
Pavlov. Cond. change in total contacts0.20.20.4-0.40.2-0.60.6
Pavlov. Cond. index score0.30.40.6-0.70.3-0.60.8
Pavlov. Cond. latency score0.30.40.6-0.70.4-0.70.7
Pavlov. Cond. lever contacts0.10.20.4-0.5-0.0-0.40.6
Pavlov. Cond. magazine entry number0.50.70.91.0-0.60.7-0.9
Pavlov. Cond. intertrial magazine entries0.81.01.31.0-1.20.9-0.8
Pavlov. Cond. lever-magazine prob. diff.0.40.50.7-0.80.4-0.70.8
Pavlov. Cond. response bias0.60.81.3-0.90.3-0.91.2
Time in closed arm before self-admin0.10.10.40.00.60.1-0.4
Time in closed arm after self-admin0.00.00.0-0.1-0.1-0.00.1
Time in open arm before self-admin0.30.30.5-0.60.3-0.60.7
Time in open arm after self-admin0.91.01.11.1-0.91.0-1.0
Bone: periosteal estimation0.10.10.30.20.10.3-0.5
Bone: periosteal perimeter0.30.50.9-0.80.9-0.50.5
Bone: post-yield work0.60.81.10.7-0.91.1-0.8
Progressive ratio test 1 active lever presses0.30.30.40.5-0.70.5-0.3
Progressive ratio test 1 breakpoint0.30.30.50.6-0.70.6-0.4
Progressive ratio test 1 inactive lever presses0.00.00.0-0.10.2-0.20.2
Progressive ratio test 2 active lever presses0.00.00.10.0-0.30.10.1
Progressive ratio test 2 breakpoint0.10.10.1-0.30.1-0.20.3
Progressive ratio test 2 inactive lever presses0.10.10.2-0.40.4-0.20.3
Incentive Sensitization - Responses0.00.00.10.1-0.40.20.1
Incentive Sensitization - Breakpoint0.00.00.1-0.0-0.20.10.2
Sum of active levers in priming session hrs 5-60.00.00.0-0.10.2-0.10.0
Progressive ratio0.10.10.20.2-0.30.4-0.3
Food seeking constrained by brief footshock0.91.11.4-1.11.2-0.91.0
Seeking ratio, punishment vs. effort0.50.70.9-0.80.9-0.80.7
Retroperitoneal fat weight0.30.91.00.9-0.91.0-0.9
Reaction time number correct2.13.04.51.7-2.11.6-1.3
Reaction time mean minus median0.20.30.5-0.60.2-0.50.7
Reaction time mean minus median AUC0.10.10.3-0.40.5-0.30.2
Reaction time num false alarms0.81.01.90.7-1.41.1-0.7
Reaction time num false alarms AUC1.01.42.60.9-1.61.3-0.9
Reaction time trials correct on left2.13.04.51.7-2.11.6-1.3
Reaction time trials on left2.02.94.31.7-2.11.6-1.3
Reaction time mean0.00.00.00.20.1-0.1-0.2
Reaction time mean AUC0.00.00.10.20.0-0.0-0.3
Median of all reaction times0.10.20.30.5-0.10.3-0.6
Reaction time omissions0.30.40.6-0.30.6-0.80.5
Reaction time false alarm rate0.10.10.1-0.1-0.30.4-0.3
Reaction time premature initiation rate0.30.40.8-0.50.2-0.80.9
Reaction time premature initiations0.20.30.90.4-0.90.00.3
Std. dev. reaction times0.00.10.1-0.30.1-0.30.3
Reaction time trials completed2.02.94.31.7-2.11.6-1.3
Reaction time trials AUC2.23.25.01.8-2.21.7-1.3
Run reversals in cocaine runway, females0.50.50.6-0.70.7-0.70.8
Run reversals in cocaine runway, males2.02.02.2-1.41.3-1.51.4
Latency to leave start box in cocaine runway1.51.62.3-1.21.5-1.40.9
Latency to leave start box in cocaine runway, F0.50.51.5-0.41.2-0.7-0.0
Latency to leave start box in cocaine runway, M1.11.11.9-1.10.3-1.01.4
Std. dev. time between licks in bursts0.80.91.0-1.00.9-1.00.9
Total sessions with >9 infusions0.00.00.10.00.20.0-0.1
Short access day 1 total inactive lever presses0.10.10.2-0.40.4-0.30.4
Short access day 10 total inactive lever presses0.00.00.00.2-0.20.2-0.1
Short access day 1 total infusions0.70.71.1-0.91.1-0.80.7
Short access day 10 total infusions0.00.00.10.1-0.30.20.1
Short access total infusions0.00.00.0-0.10.2-0.00.1
Short access day 1 locomotion1.41.51.6-1.21.3-1.21.2
Short access day 10 total locomotion2.42.73.7-1.81.1-1.71.9
Short access total locomotion0.80.81.0-1.00.8-0.91.0
One hour access (0.3 mA shock)0.20.20.20.3-0.40.5-0.4
Compulsive drug intake0.60.61.10.8-0.30.8-1.0
One hour access (shock baseline)0.10.10.20.0-0.50.20.1
Social response proportion1.51.62.0-1.21.4-1.41.1
Social responses7.79.910.6-3.32.9-3.23.2
Social time0.30.30.60.7-0.20.6-0.8
Soleus weight8.825.729.45.2-4.35.2-5.4
Bone: stiffness2.03.24.31.6-1.42.1-2.0
Tibialis anterior weight1.03.64.61.8-1.62.1-2.0
Time to tail flick, vehicle, before self-admin1.21.21.8-1.01.4-1.10.9
Time to tail flick, vehicle, after self-admin0.10.10.3-0.0-0.60.20.2
Time to tail flick, test, before self-admin0.70.71.2-0.71.1-0.80.6
Time to tail flick, test, after self-admin0.60.60.7-0.80.8-0.80.7
Delta time to tail flick, vehicle, before/after SA1.51.52.51.0-1.61.3-0.8
Delta time to tail flick, test, before/after SA0.10.10.1-0.2-0.3-0.00.3
Tibia length0.61.82.3-1.31.0-1.41.5
Ambulatory time before self-admin0.30.30.50.6-0.30.5-0.7
Ambulatory time after self-admin0.40.40.5-0.60.7-0.70.6
Bone: tissue strength1.11.11.71.1-0.71.0-1.3
Total heroin consumption1.92.32.6-1.51.3-1.61.6
Bone: trabecular number1.82.73.9-1.72.0-1.61.3
Bone: trabecular spacing2.93.86.51.9-2.51.8-1.3
Bone: trabecular thickness1.92.25.4-1.22.3-1.40.5
Bone: trabecular tissue density1.72.52.51.6-1.51.6-1.6
Water consumed over 24 hours0.30.30.60.7-0.20.5-0.7
Number of responses in last shaping day0.10.10.2-0.40.2-0.20.3