Ptk7

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 Ptk7 0.19 0.09 0.0e+00 0.18 0.18 0.18 0.18 2.7e-19 1.2e-19 2.4e-19 2.8e-19
2 Brain gene expression Ptk7 0.23 0.1 0.0e+00 0.26 0.24 0.25 0.26 1.7e-24 1.1e-22 7.1e-23 2.7e-24
3 Brain mRNA stability Ptk7 0.09 0.06 1.8e-05 0.03 0.03 0.04 0.04 6.9e-04 5.6e-04 6.9e-05 8.6e-05

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 density0.91.53.3-0.90.7-1.8
Area under the delay curve5.45.79.2-2.83.00.2
BMI with tail3.712.015.63.9-3.72.7
BMI without tail10.221.029.05.4-5.02.9
Body weight2.29.413.73.7-3.51.4
Weight adjusted by age0.20.20.30.5-0.60.2
Bone surface1.83.24.1-1.71.6-2.0
Bone volume0.81.42.1-1.11.0-1.4
Breakpoint value in progressive ratio session0.10.10.40.00.10.6
Number of licking bursts2.52.94.81.8-2.2-0.8
Context. condit. distance diff. score0.10.10.10.4-0.4-0.3
Locomotion velocity, session 11.41.63.21.0-0.71.8
Locomotion distance, session 11.72.23.31.8-1.70.7
Locomotion velocity, session 25.26.18.02.8-2.61.9
Locomotion distance, session 21.31.92.41.6-1.41.1
Locomotion velocity, session 31.31.53.11.0-0.71.8
Locomotion distance, session 30.50.61.0-0.71.00.5
Stereotopy head waving bouts, day 31.11.21.61.3-1.30.7
Stereotopy head waving duration, day 32.22.62.91.7-1.61.5
Locomotion velocity, session 70.80.92.20.7-0.31.5
Locomotion distance, session 70.60.82.10.5-0.11.5
Stereotopy head waving bouts, day 70.10.10.20.4-0.5-0.1
Stereotopy head waving duration, day 70.30.30.8-0.30.1-0.9
Locomotion velocity, session 80.60.70.90.9-0.90.6
Locomotion distance, session 80.71.11.71.3-1.10.6
Degree of sensitization distance1.81.82.21.5-1.31.2
Degree of sensitization stereotypy0.60.60.8-0.80.7-0.9
Conditioned locomotion1.41.62.6-1.21.60.9
Cocaine response after cond. corrected0.20.20.3-0.60.5-0.0
Cocaine response after cond. not corrected0.30.30.5-0.70.60.2
Cocaine response before conditioning0.20.30.70.3-0.20.8
Saline control response0.00.00.10.00.10.3
Bone: connectivity density2.13.36.8-1.41.0-2.6
Bone: cortical apparent density0.50.70.9-0.91.0-0.4
Bone: cortical area0.71.11.41.2-0.81.2
Bone: cortical porosity0.10.10.10.3-0.3-0.2
Bone: cortical porosity0.10.10.20.3-0.20.5
Bone: cortical thickness1.01.62.11.5-1.11.2
Bone: cortical thickness0.10.10.2-0.10.1-0.4
Bone: cortical tissue density0.40.60.8-0.90.9-0.4
Condit. Reinf. active minus inactive responses1.41.62.21.4-1.50.7
Condit. Reinf. active-inactive response ratio0.20.20.30.5-0.6-0.1
Condit. Reinf. active responses2.22.63.91.9-2.00.5
Condit. Reinf. inactive responses1.61.92.91.7-1.70.2
Incentive salience index mean2.12.53.31.8-1.71.2
Condit. Reinf. lever presses3.44.56.42.5-2.31.3
Condit. Reinf. active minus inactive responses0.20.20.6-0.1-0.3-0.8
Condit. Reinf. active-inactive response ratio0.80.81.30.6-1.1-0.9
Condit. Reinf. active responses0.00.00.1-0.1-0.1-0.3
Condit. Reinf. inactive responses0.20.20.5-0.00.30.7
Condit. Reinf. lever presses0.40.50.60.7-0.8-0.6
Condit. Reinf. lever reinforcers received0.00.10.1-0.2-0.1-0.4
Conditioned reinforcement - actives0.90.91.1-0.71.01.1
Conditioned reinforcement - inactives1.31.52.61.1-0.81.6
Conditioned locomotion0.00.00.00.10.00.2
Patch foraging indifference point 0 sec0.60.91.31.1-1.10.4
Patch foraging indifference point AUC2.32.65.51.3-0.92.3
Delay disc. indifference point, 0s delay1.11.21.4-1.21.20.9
Delay disc. indifference point, 16s delay7.98.012.4-3.43.5-0.5
Delay disc. indifference point, 2s delay2.02.23.1-1.71.70.7
Delay disc. indifference point, 24s delay1.01.01.4-1.21.0-0.8
Delay disc. indifference point, 4s delay2.72.93.7-1.31.91.8
Delay disc. indifference point, 8s delay3.33.45.6-2.12.40.4
Indifference point function ln k0.30.40.7-0.80.80.2
Indifference point function log k0.30.40.7-0.80.80.2
Patch foraging total patch changes 0 sec0.81.31.81.3-1.30.7
Patch foraging total patch changes 12 sec1.52.02.91.4-1.01.7
Patch foraging total patch changes 18 sec2.12.73.81.6-1.31.9
Patch foraging total patch changes 24 sec1.01.31.51.2-0.91.2
Patch foraging total patch changes 6 sec1.82.63.71.9-1.81.0
Patch foraging time to switch 0 sec5.89.010.7-3.02.7-3.3
Patch foraging water rate 0 sec5.58.816.52.6-1.84.1
Patch foraging water rate 12 sec5.38.110.23.2-2.72.6
Patch foraging water rate 18 sec1.52.02.51.5-1.21.6
Patch foraging water rate 24 sec2.53.54.51.9-1.62.1
Patch foraging water rate 6 sec1.42.15.40.8-0.42.3
Seeking ratio, delayed vs. immediate footshock1.82.12.9-1.71.7-0.7
Distance traveled before self-admin0.20.20.50.50.00.7
Distance traveled after self-admin2.93.34.72.2-2.01.0
Extensor digitorum longus weight0.10.40.40.7-0.50.7
Bone: elastic displacement0.20.20.4-0.60.5-0.2
Bone: elastic work0.10.10.40.1-0.2-0.6
Bone: endosteal estimation0.30.81.2-1.01.1-0.2
Bone: endosteal perimeter0.00.00.00.00.10.1
Epididymis fat weight1.43.15.12.0-2.3-0.5
Delta time in closed arm before/after self-admin0.20.20.60.2-0.3-0.8
Delta time in open arm before/after self-admin0.40.30.4-0.50.60.7
Diff in mean of infusions in LGA sessions0.80.91.80.8-0.61.3
Delay discount exponential model param5.25.58.82.8-3.0-0.2
Extinction: sum of active levers before priming0.10.10.20.1-0.00.4
Active lever presses in extinction session 60.60.61.60.4-0.21.3
Bone: final force0.30.40.70.9-0.60.4
Bone: final moment0.40.70.80.9-0.60.9
Food consumed during 24 hour testing period1.01.21.71.0-0.91.3
Glucose3.65.48.52.7-2.90.4
Heart weight0.91.32.2-1.31.50.3
Delay discount hyperbolic model param4.64.97.92.6-2.8-0.4
Intermittent access intake day 1-15 change0.20.20.50.3-0.10.7
Intermittent access intake escalation0.00.00.00.00.10.1
Intermittent access intake escalation 20.30.30.70.4-0.20.9
Intermitt. access day 1 inactive lever presses1.21.21.71.3-1.30.6
Intermitt. access day 15 inactive lever presses1.51.72.31.5-1.40.8
Intermitt. access escalation Index0.00.00.1-0.10.1-0.2
Intermittent access day 1 total infusions0.40.40.70.7-0.8-0.4
Intermittent access day 15 total infusions0.20.20.30.5-0.5-0.2
Intermittent access terminal intake (last 3 days)0.10.10.20.3-0.3-0.5
Intermittent access total infusions0.20.20.40.2-0.3-0.7
Intermittent access day 1 locomotion0.30.30.50.3-0.5-0.7
Intermittent access day 15 total locomotion0.20.20.40.6-0.50.1
Intermittent access total locomotion0.40.41.3-0.1-0.1-1.1
Intermittent access standard deviation3.43.64.2-2.11.9-1.8
Left kidney weight0.51.43.01.0-0.51.7
Right kidney weight0.51.54.20.50.12.0
Cocaine induced anxiety0.20.20.40.2-0.4-0.6
Post-drug Anxiety0.40.51.3-0.2-0.1-1.2
Baseline Anxiety0.20.20.3-0.50.5-0.1
Tail length1.23.85.82.4-2.30.3
Length with tail0.10.20.30.5-0.4-0.6
Length without tail2.35.06.6-2.62.4-1.6
Times rat made contact with spout3.54.06.72.3-2.60.2
Lifetime Intake0.10.10.2-0.30.3-0.5
Liver weight, left0.71.11.90.9-0.71.4
Liver weight, right0.40.71.01.0-1.00.2
Locomotor activity1.72.74.61.8-2.2-0.5
Locomotor testing distance1.42.44.01.6-2.0-0.7
Locomotor testing rearing3.14.86.02.4-2.51.5
Locomotion in novel chamber0.60.71.2-0.91.10.1
Locomotion in novel chamber post-restriction1.21.41.9-0.91.41.3
Fecal boli incidents, locomotor time 11.11.22.9-0.30.81.7
Change in fecal boli incidents, locomotor task0.10.10.2-0.10.20.5
Time >=10cm from walls, locomotor time 10.91.02.20.7-0.41.5
Bouts of movement, locomotor time 10.10.20.2-0.40.3-0.5
Total resting periods, locomotor time 10.00.00.10.2-0.2-0.2
Rest time, locomotor task time 10.70.71.0-0.81.00.8
Distance moved, locomotor task time 10.30.30.80.1-0.3-0.9
Vertical activity count, locomotor time 10.50.60.7-0.80.7-0.7
Time >=10cm from walls, locomotor time 21.11.12.21.0-0.51.5
Bouts of movement, locomotor time 20.20.30.40.6-0.6-0.3
Total resting periods, locomotor time 20.10.10.30.2-0.3-0.6
Rest time, locomotor task time 20.60.71.0-1.01.0-0.3
Distance moved, locomotor task time 20.80.91.51.1-1.20.0
Vertical activity count, locomotor time 20.10.10.1-0.20.30.3
Light reinforcement 11.93.44.42.1-2.01.4
Light reinforcement 21.62.23.21.7-1.8-0.5
Bone: marrow area0.40.91.3-1.11.2-0.2
Bone: maximum diameter0.40.81.70.8-0.41.3
Bone: maximum force0.10.10.30.1-0.0-0.6
Bone: maximum moment0.00.00.00.10.1-0.0
Mean time between licks in bursts1.92.62.8-1.71.6-1.6
Mean num. licks in bursts0.40.50.6-0.60.80.8
Cd content in liver0.70.81.2-0.91.10.6
Co content in liver0.00.00.00.2-0.20.2
Cu content in liver0.60.71.3-0.50.81.1
Fe content in liver0.50.60.7-0.70.8-0.7
K content in liver2.32.25.4-1.00.6-2.3
Mg content in liver1.61.72.2-1.51.5-0.7
Mn content in liver0.60.61.10.9-1.00.2
Na content in liver0.10.10.10.3-0.20.3
Rb content in liver4.86.08.9-2.93.0-0.9
Se content in liver0.20.30.40.5-0.40.6
Sr content in liver0.90.80.90.9-0.90.9
Zn content in liver3.33.75.7-2.02.41.2
Bone: minimum diameter0.20.40.60.8-0.40.7
Time in familiar zone, hab. session 11.51.42.71.0-0.71.6
Time in novel zone, hab. session 10.90.91.2-1.10.9-0.9
Total zone transitions, hab. session 13.14.36.52.6-2.40.9
Total locomotion distance, hab. session 14.05.77.62.8-2.51.8
Locomotion velocity, hab. session 13.65.16.82.6-2.31.8
Time in familiar zone, hab. session 22.62.62.9-1.61.5-1.7
Time in novel zone, hab. session 20.90.91.70.7-0.61.3
Total zone transitions, hab. session 21.92.53.91.7-2.0-0.9
Total locomotion distance, hab. session 22.12.74.22.0-2.10.1
Locomotion velocity, hab. session 21.62.23.51.7-1.9-0.1
Novel to familiar place preference ratio0.10.10.10.3-0.30.2
Novelty place preference0.00.00.00.1-0.10.1
Time in novel zone, NPP test0.00.00.10.1-0.00.2
Total zone transitions, NPP test4.76.710.13.2-3.10.5
Total locomotion distance, NPP test4.25.88.62.9-2.90.5
Locomotion velocity, NPP test4.46.39.63.0-3.10.2
Intraocular pressure0.60.81.2-1.11.10.1
Delta distance traveled before/after self-admin3.63.96.72.2-2.60.3
Delta ambulatory time before/after self-admin3.03.35.82.0-2.40.3
Parametrial fat weight4.38.412.73.5-3.60.6
Pavlov. Cond. lever latency2.53.24.2-2.01.6-1.7
Pavlov. Cond. magazine entry latency1.62.14.01.2-0.82.0
Pavlov. Cond. change in total contacts2.12.32.91.7-1.31.5
Pavlov. Cond. index score3.13.94.62.1-1.72.1
Pavlov. Cond. latency score2.43.14.21.8-1.32.0
Pavlov. Cond. lever contacts3.44.05.32.3-1.91.8
Pavlov. Cond. magazine entry number2.32.93.5-1.81.4-1.9
Pavlov. Cond. intertrial magazine entries0.70.81.2-1.11.1-0.3
Pavlov. Cond. lever-magazine prob. diff.3.13.84.62.1-1.62.1
Pavlov. Cond. response bias4.25.16.62.6-2.22.0
Pavlov. Cond. lever latency1.52.13.0-1.71.70.6
Pavlov. Cond. magazine entry latency1.01.21.91.4-1.3-0.2
Pavlov. Cond. change in total contacts1.62.13.41.7-1.9-0.5
Pavlov. Cond. index score2.73.55.42.3-2.3-0.2
Pavlov. Cond. latency score3.03.75.72.4-2.3-0.3
Pavlov. Cond. lever contacts1.62.23.31.8-1.8-0.5
Pavlov. Cond. magazine entry number0.40.50.8-0.90.80.4
Pavlov. Cond. intertrial magazine entries0.00.00.10.0-0.10.2
Pavlov. Cond. lever-magazine prob. diff.2.73.45.22.3-2.2-0.3
Pavlov. Cond. response bias0.60.80.91.0-0.9-0.8
Time in closed arm before self-admin0.50.61.2-0.60.2-1.1
Time in closed arm after self-admin1.01.13.0-0.4-0.1-1.7
Time in open arm before self-admin2.62.83.82.0-1.41.6
Time in open arm after self-admin1.41.53.31.0-0.61.8
Bone: periosteal estimation0.20.41.00.4-0.01.0
Bone: periosteal perimeter0.40.71.21.1-0.80.5
Bone: post-yield work0.20.20.7-0.10.1-0.8
Progressive ratio test 1 active lever presses0.80.81.20.9-1.1-0.6
Progressive ratio test 1 breakpoint0.60.61.00.9-1.0-0.3
Progressive ratio test 1 inactive lever presses0.91.01.31.1-1.00.9
Progressive ratio test 2 active lever presses1.11.21.61.3-1.01.0
Progressive ratio test 2 breakpoint1.61.82.51.6-1.31.2
Progressive ratio test 2 inactive lever presses0.50.60.70.9-0.70.7
Incentive Sensitization - Responses1.31.31.61.3-0.91.2
Incentive Sensitization - Breakpoint1.31.31.71.3-1.01.2
Sum of active levers in priming session hrs 5-61.21.22.2-0.61.01.5
Progressive ratio0.40.50.7-0.80.8-0.4
Food seeking constrained by brief footshock0.10.10.10.1-0.2-0.3
Seeking ratio, punishment vs. effort0.40.50.70.8-0.90.4
Retroperitoneal fat weight1.96.17.02.6-2.32.5
Reaction time number correct0.91.43.80.00.52.0
Reaction time mean minus median0.20.30.6-0.40.2-0.8
Reaction time mean minus median AUC0.60.81.6-0.90.5-1.2
Reaction time num false alarms0.60.81.0-1.01.0-0.6
Reaction time num false alarms AUC0.30.50.7-0.80.8-0.2
Reaction time trials correct on left0.91.43.80.00.52.0
Reaction time trials on left0.91.23.50.10.41.9
Reaction time mean1.92.77.5-0.70.2-2.7
Reaction time mean AUC2.22.98.2-0.70.2-2.9
Median of all reaction times1.92.67.4-0.60.1-2.7
Reaction time omissions0.30.50.70.7-0.9-0.4
Reaction time false alarm rate0.91.32.0-1.10.8-1.4
Reaction time premature initiation rate0.81.01.51.2-1.20.5
Reaction time premature initiations1.31.92.91.3-1.01.7
Std. dev. reaction times1.31.84.9-0.70.3-2.2
Reaction time trials completed0.91.23.50.10.41.9
Reaction time trials AUC0.91.44.00.20.32.0
Run reversals in cocaine runway, females0.90.81.11.0-0.71.0
Run reversals in cocaine runway, males0.10.10.30.3-0.10.5
Latency to leave start box in cocaine runway1.92.02.61.6-1.31.3
Latency to leave start box in cocaine runway, F0.10.10.20.5-0.40.3
Latency to leave start box in cocaine runway, M4.74.55.92.4-2.11.7
Std. dev. time between licks in bursts1.41.73.0-1.41.7-0.2
Total sessions with >9 infusions0.10.10.20.00.20.5
Short access day 1 total inactive lever presses0.50.61.60.4-0.11.2
Short access day 10 total inactive lever presses1.31.42.11.2-0.91.4
Short access day 1 total infusions0.30.30.5-0.50.70.4
Short access day 10 total infusions0.30.41.1-0.2-0.0-1.0
Short access total infusions0.40.40.5-0.70.7-0.6
Short access day 1 locomotion0.50.50.9-0.80.9-0.3
Short access day 10 total locomotion2.83.13.7-1.81.6-1.9
Short access total locomotion1.71.82.6-1.61.6-0.4
One hour access (0.3 mA shock)0.40.51.1-0.30.61.1
Compulsive drug intake0.50.51.40.00.11.2
One hour access (shock baseline)0.10.10.20.4-0.4-0.2
Social response proportion1.21.21.4-1.11.2-1.1
Social responses1.92.53.4-1.71.8-1.0
Social time1.62.13.4-0.91.51.8
Soleus weight0.30.81.31.1-1.00.2
Bone: stiffness0.10.10.2-0.10.2-0.4
Tibialis anterior weight0.10.40.60.8-0.70.0
Time to tail flick, vehicle, before self-admin0.10.10.2-0.50.2-0.2
Time to tail flick, vehicle, after self-admin3.94.26.0-1.91.6-2.5
Time to tail flick, test, before self-admin3.23.25.0-2.02.20.6
Time to tail flick, test, after self-admin0.30.30.6-0.80.6-0.2
Delta time to tail flick, vehicle, before/after SA1.01.01.3-0.90.9-1.2
Delta time to tail flick, test, before/after SA1.91.73.20.7-1.2-1.8
Tibia length2.26.28.12.8-2.62.0
Ambulatory time before self-admin0.30.30.80.10.40.9
Ambulatory time after self-admin2.83.04.42.1-2.00.9
Bone: tissue strength0.10.10.1-0.20.30.2
Total heroin consumption0.00.00.10.20.1-0.2
Bone: trabecular number0.81.21.9-1.00.9-1.4
Bone: trabecular spacing1.01.32.41.0-0.81.5
Bone: trabecular thickness1.11.41.9-1.11.0-1.4
Bone: trabecular tissue density1.11.64.60.10.32.2
Water consumed over 24 hours2.42.93.41.8-1.61.6
Number of responses in last shaping day0.40.40.90.5-0.31.0