Hub : Genes

Pnlip

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 OFC gene expression Pnlip 0.18 0.11 2.4e-03 0.05 0.11 0.09 0.09 2.6e-02 1.6e-03 4.4e-03 3.6e-03
2 pVTA gene expression Pnlip 0.07 0.04 5.3e-05 0.05 0.04 0.04 0.04 8.2e-05 5.3e-04 4.4e-04 4.9e-04
3 Eye gene expression Pnlip 0.48 0.17 1.1e-03 0.1 0.12 0.05 0.08 1.3e-02 6.2e-03 6.8e-02 2.7e-02
4 Brain gene expression Pnlip 0.04 0.03 3.9e-03 0.03 0.03 0.03 0.03 6.9e-04 1.6e-03 8.2e-04 1.3e-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 density2.03.54.31.62.1-1.91.9
Area under the delay curve0.70.81.91.40.5-1.00.4
BMI with tail4.314.822.04.73.7-3.63.3
BMI without tail2.16.39.83.12.5-2.22.1
Body weight5.724.830.95.65.0-4.84.5
Weight adjusted by age0.40.51.81.30.4-0.40.3
Bone surface1.01.72.31.01.5-1.21.5
Bone volume1.83.33.51.91.8-1.71.8
Breakpoint value in progressive ratio session2.63.13.82.01.7-1.91.5
Number of licking bursts0.40.61.10.31.0-0.71.0
Context. condit. distance diff. score0.81.01.6-1.2-0.70.9-1.0
Locomotion velocity, session 10.20.20.3-0.5-0.30.4-0.5
Locomotion distance, session 11.82.32.6-1.5-1.51.6-1.5
Locomotion velocity, session 23.43.94.6-2.1-1.82.1-1.8
Locomotion distance, session 21.31.82.2-1.3-1.31.5-1.2
Locomotion velocity, session 31.21.41.7-1.3-1.11.3-0.9
Locomotion distance, session 32.83.03.2-1.8-1.71.8-1.7
Stereotopy head waving bouts, day 30.10.10.2-0.1-0.40.1-0.2
Stereotopy head waving duration, day 30.10.10.20.40.2-0.40.2
Locomotion velocity, session 70.20.20.3-0.3-0.40.6-0.3
Locomotion distance, session 70.81.01.2-0.9-1.01.1-0.9
Stereotopy head waving bouts, day 70.10.10.10.40.3-0.20.4
Stereotopy head waving duration, day 71.11.31.91.41.0-1.11.1
Locomotion velocity, session 81.01.23.0-1.7-0.51.0-0.8
Locomotion distance, session 83.44.98.3-2.9-1.62.3-1.8
Degree of sensitization distance1.01.01.11.01.0-1.01.0
Degree of sensitization stereotypy0.70.81.00.81.0-0.70.9
Conditioned locomotion0.10.10.20.40.2-0.20.2
Cocaine response after cond. corrected6.57.88.6-2.6-2.92.8-2.8
Cocaine response after cond. not corrected5.36.26.6-2.5-2.62.5-2.5
Cocaine response before conditioning1.01.21.50.71.2-1.11.2
Saline control response0.70.91.1-0.8-0.91.1-1.1
Bone: connectivity density0.81.32.00.61.4-1.11.2
Bone: cortical apparent density5.27.17.7-2.6-2.72.8-2.7
Bone: cortical area2.43.64.32.11.9-1.52.0
Bone: cortical porosity0.50.60.70.50.8-0.80.8
Bone: cortical porosity1.82.02.21.11.5-1.51.5
Bone: cortical thickness0.10.20.40.40.50.00.7
Bone: cortical thickness0.00.10.10.3-0.20.2-0.2
Bone: cortical tissue density5.27.17.5-2.6-2.62.7-2.7
Condit. Reinf. active minus inactive responses0.50.51.6-1.3-0.30.6-0.3
Condit. Reinf. active-inactive response ratio0.10.10.5-0.7-0.00.2-0.0
Condit. Reinf. active responses0.10.20.5-0.70.30.10.3
Condit. Reinf. inactive responses0.20.30.5-0.00.7-0.40.7
Incentive salience index mean0.91.12.7-1.7-0.71.0-0.6
Condit. Reinf. lever presses0.50.81.6-1.3-0.70.8-0.5
Condit. Reinf. active minus inactive responses2.33.03.31.81.7-1.81.6
Condit. Reinf. active-inactive response ratio1.11.31.61.31.1-1.21.0
Condit. Reinf. active responses3.44.74.92.22.2-2.22.0
Condit. Reinf. inactive responses1.41.82.01.31.4-1.31.4
Condit. Reinf. lever presses1.01.41.61.31.3-1.21.0
Condit. Reinf. lever reinforcers received2.33.23.61.71.9-1.81.7
Conditioned reinforcement - actives1.52.63.3-1.5-1.51.8-1.6
Conditioned reinforcement - inactives0.20.30.40.60.6-0.40.5
Conditioned locomotion3.34.45.1-2.0-2.02.3-2.1
Patch foraging indifference point 0 sec0.40.81.41.20.8-0.70.8
Patch foraging indifference point AUC0.81.21.81.41.1-1.00.9
Delay disc. indifference point, 0s delay0.20.20.40.0-0.60.4-0.6
Delay disc. indifference point, 16s delay0.50.51.01.00.5-0.80.4
Delay disc. indifference point, 2s delay0.30.30.70.0-0.80.3-0.8
Delay disc. indifference point, 24s delay1.11.21.41.21.0-1.21.0
Delay disc. indifference point, 4s delay0.20.30.60.80.2-0.60.1
Delay disc. indifference point, 8s delay0.91.02.81.70.5-0.90.3
Indifference point function ln k0.30.50.8-0.9-0.60.6-0.6
Indifference point function log k0.30.50.8-0.9-0.60.6-0.6
Patch foraging total patch changes 0 sec0.61.22.01.41.0-0.91.0
Patch foraging total patch changes 12 sec1.21.52.11.41.3-1.11.2
Patch foraging total patch changes 18 sec2.84.26.32.51.9-1.91.9
Patch foraging total patch changes 24 sec1.62.74.22.01.4-1.51.5
Patch foraging total patch changes 6 sec1.72.53.71.91.6-1.21.5
Patch foraging time to switch 0 sec0.10.20.4-0.4-0.60.3-0.4
Patch foraging water rate 0 sec0.20.30.50.60.7-0.50.5
Patch foraging water rate 12 sec0.92.02.41.41.3-1.31.6
Patch foraging water rate 18 sec0.20.30.4-0.3-0.60.6-0.6
Patch foraging water rate 24 sec0.10.10.20.3-0.30.1-0.5
Patch foraging water rate 6 sec0.00.00.20.40.00.0-0.2
Seeking ratio, delayed vs. immediate footshock2.32.84.3-2.1-1.31.7-1.5
Distance traveled before self-admin4.66.07.6-2.0-2.82.3-2.6
Distance traveled after self-admin2.53.14.2-1.4-1.81.7-2.1
Extensor digitorum longus weight1.24.86.42.51.9-2.32.0
Bone: elastic displacement0.10.10.10.3-0.40.1-0.2
Bone: elastic work0.50.61.1-0.3-1.00.8-0.9
Bone: endosteal estimation0.91.92.61.61.3-1.41.2
Bone: endosteal perimeter1.63.36.42.51.5-1.71.4
Epididymis fat weight11.639.843.46.66.3-6.06.3
Delta time in closed arm before/after self-admin1.31.21.5-1.2-0.91.2-1.0
Delta time in open arm before/after self-admin4.64.54.72.12.1-2.22.1
Diff in mean of infusions in LGA sessions0.81.01.40.91.1-1.20.9
Delay discount exponential model param0.70.81.9-1.4-0.51.0-0.4
Extinction: sum of active levers before priming1.31.51.81.31.2-1.41.0
Active lever presses in extinction session 60.40.40.40.60.6-0.60.6
Bone: final force0.40.60.90.80.9-0.40.9
Bone: final moment0.50.81.00.91.0-0.61.0
Food consumed during 24 hour testing period0.30.41.1-1.1-0.40.6-0.4
Glucose2.03.14.42.11.7-1.71.5
Heart weight1.52.32.91.41.7-1.21.7
Delay discount hyperbolic model param0.60.71.7-1.3-0.40.9-0.3
Intermittent access intake day 1-15 change0.10.20.40.5-0.70.2-0.2
Intermittent access intake escalation0.10.10.40.6-0.40.00.1
Intermittent access intake escalation 20.10.10.30.0-0.40.5-0.3
Intermitt. access day 1 inactive lever presses1.55.56.22.52.3-2.32.3
Intermitt. access day 15 inactive lever presses0.61.31.71.30.9-1.01.3
Intermitt. access escalation Index0.00.00.1-0.20.10.1-0.1
Intermittent access day 1 total infusions0.00.10.10.0-0.40.3-0.1
Intermittent access day 15 total infusions0.10.10.30.5-0.60.2-0.0
Intermittent access terminal intake (last 3 days)0.10.10.40.6-0.3-0.10.1
Intermittent access total infusions0.10.10.20.4-0.40.20.0
Intermittent access day 1 locomotion0.81.11.7-0.2-1.31.0-1.2
Intermittent access day 15 total locomotion0.71.33.21.80.5-1.00.9
Intermittent access total locomotion0.70.81.4-0.1-1.21.0-0.8
Intermittent access standard deviation0.71.43.21.80.7-1.10.8
Left kidney weight0.00.20.40.60.6-0.10.2
Right kidney weight0.00.20.70.80.30.2-0.2
Cocaine induced anxiety2.84.05.8-2.4-1.72.1-1.6
Post-drug Anxiety0.10.10.4-0.60.10.30.0
Baseline Anxiety4.75.45.62.32.3-2.32.4
Tail length0.31.11.21.11.0-1.10.9
Length with tail1.04.34.72.02.2-2.12.0
Length without tail2.99.49.93.03.1-3.13.1
Times rat made contact with spout0.00.00.0-0.20.00.20.0
Lifetime Intake0.10.20.30.1-0.60.5-0.2
Liver weight, left2.64.25.92.41.9-1.91.9
Liver weight, right0.10.10.50.70.2-0.00.1
Locomotor activity0.00.10.10.1-0.30.3-0.2
Locomotor testing distance0.91.62.0-0.7-1.41.4-1.4
Locomotor testing rearing0.30.61.10.1-0.90.6-1.0
Locomotion in novel chamber2.12.73.3-1.8-1.51.7-1.6
Locomotion in novel chamber post-restriction1.93.03.7-1.9-1.71.8-1.6
Fecal boli incidents, locomotor time 10.00.00.10.30.20.10.1
Change in fecal boli incidents, locomotor task0.20.20.6-0.80.2-0.00.1
Time >=10cm from walls, locomotor time 10.20.20.8-0.9-0.10.2-0.1
Bouts of movement, locomotor time 11.71.93.21.81.3-1.31.2
Total resting periods, locomotor time 10.80.91.71.30.8-0.80.7
Rest time, locomotor task time 10.70.81.3-0.7-0.91.2-0.9
Distance moved, locomotor task time 10.10.10.20.40.1-0.50.2
Vertical activity count, locomotor time 10.00.10.2-0.4-0.30.1-0.3
Time >=10cm from walls, locomotor time 20.10.10.4-0.6-0.10.2-0.0
Bouts of movement, locomotor time 20.00.00.10.1-0.2-0.1-0.2
Total resting periods, locomotor time 20.00.10.10.4-0.2-0.2-0.2
Rest time, locomotor task time 20.10.20.20.3-0.50.2-0.5
Distance moved, locomotor task time 20.00.00.1-0.3-0.10.3-0.0
Vertical activity count, locomotor time 20.10.10.2-0.5-0.10.3-0.0
Light reinforcement 10.41.01.4-1.2-1.10.9-0.5
Light reinforcement 21.31.93.3-1.8-1.31.4-1.0
Bone: marrow area0.91.92.51.61.3-1.41.2
Bone: maximum diameter4.17.610.13.22.6-2.62.6
Bone: maximum force0.20.30.50.40.7-0.20.7
Bone: maximum moment0.20.40.70.50.8-0.40.8
Mean time between licks in bursts0.41.11.50.51.2-1.11.2
Mean num. licks in bursts0.71.11.6-0.5-1.21.0-1.2
Cd content in liver5.76.47.2-2.7-2.42.7-2.3
Co content in liver2.32.63.0-1.6-1.61.7-1.5
Cu content in liver0.70.81.2-0.7-0.90.8-1.1
Fe content in liver2.12.63.51.21.9-1.61.7
K content in liver0.00.00.10.3-0.1-0.1-0.2
Mg content in liver0.20.20.30.5-0.5-0.0-0.6
Mn content in liver0.00.10.20.2-0.1-0.0-0.4
Na content in liver0.20.20.50.70.2-0.50.1
Rb content in liver0.20.30.40.50.4-0.60.4
Se content in liver0.10.10.2-0.50.00.2-0.3
Sr content in liver2.82.42.5-1.5-1.61.5-1.6
Zn content in liver2.02.23.2-0.9-1.81.3-1.8
Bone: minimum diameter1.73.14.02.01.7-1.61.7
Time in familiar zone, hab. session 10.10.10.30.1-0.30.0-0.5
Time in novel zone, hab. session 10.90.91.40.71.1-0.81.2
Total zone transitions, hab. session 10.10.10.20.1-0.40.5-0.3
Total locomotion distance, hab. session 10.10.20.3-0.50.50.10.4
Locomotion velocity, hab. session 10.10.20.5-0.70.30.30.2
Time in familiar zone, hab. session 22.22.42.71.41.5-1.61.5
Time in novel zone, hab. session 21.71.72.1-1.2-1.31.4-1.3
Total zone transitions, hab. session 20.10.10.20.3-0.50.3-0.3
Total locomotion distance, hab. session 20.00.00.0-0.10.20.0-0.0
Locomotion velocity, hab. session 20.00.00.0-0.00.10.0-0.0
Novel to familiar place preference ratio0.40.40.70.10.8-0.50.8
Novelty place preference0.30.30.60.20.8-0.50.7
Time in novel zone, NPP test1.01.11.60.61.3-1.01.2
Total zone transitions, NPP test0.00.10.1-0.1-0.30.4-0.2
Total locomotion distance, NPP test0.20.30.8-0.9-0.20.5-0.3
Locomotion velocity, NPP test0.81.22.2-1.5-0.81.1-0.9
Intraocular pressure1.92.83.11.71.8-1.51.7
Delta distance traveled before/after self-admin0.10.10.30.60.4-0.30.1
Delta ambulatory time before/after self-admin0.40.50.70.80.8-0.70.5
Parametrial fat weight11.526.934.05.84.8-4.95.1
Pavlov. Cond. lever latency0.40.60.80.90.7-0.80.5
Pavlov. Cond. magazine entry latency0.00.00.0-0.2-0.1-0.00.2
Pavlov. Cond. change in total contacts0.00.00.0-0.0-0.0-0.1-0.0
Pavlov. Cond. index score0.00.00.0-0.1-0.1-0.00.1
Pavlov. Cond. latency score0.00.00.0-0.2-0.20.2-0.0
Pavlov. Cond. lever contacts0.00.00.0-0.2-0.20.2-0.1
Pavlov. Cond. magazine entry number0.00.00.1-0.3-0.00.2-0.2
Pavlov. Cond. intertrial magazine entries0.20.30.8-0.9-0.20.5-0.3
Pavlov. Cond. lever-magazine prob. diff.0.00.00.1-0.0-0.0-0.10.2
Pavlov. Cond. response bias0.10.10.1-0.3-0.30.2-0.1
Pavlov. Cond. lever latency1.41.92.5-1.2-1.61.3-1.3
Pavlov. Cond. magazine entry latency1.31.62.01.41.2-1.31.1
Pavlov. Cond. change in total contacts1.01.61.81.31.3-1.31.1
Pavlov. Cond. index score1.62.12.31.51.5-1.41.3
Pavlov. Cond. latency score1.41.92.11.51.4-1.41.3
Pavlov. Cond. lever contacts0.70.91.30.91.1-0.90.9
Pavlov. Cond. magazine entry number1.01.21.6-1.3-1.01.2-0.9
Pavlov. Cond. intertrial magazine entries0.00.00.00.20.1-0.00.1
Pavlov. Cond. lever-magazine prob. diff.1.21.61.91.41.3-1.31.1
Pavlov. Cond. response bias1.52.12.71.31.6-1.41.4
Time in closed arm before self-admin0.10.10.20.0-0.30.2-0.5
Time in closed arm after self-admin1.92.12.7-1.3-1.41.4-1.6
Time in open arm before self-admin0.60.61.6-1.3-0.50.6-0.4
Time in open arm after self-admin1.71.92.31.11.4-1.41.5
Bone: periosteal estimation1.43.14.02.01.7-1.51.7
Bone: periosteal perimeter3.45.810.23.22.1-2.12.1
Bone: post-yield work0.40.61.1-0.20.9-0.51.1
Progressive ratio test 1 active lever presses0.40.50.7-0.0-0.80.7-0.8
Progressive ratio test 1 breakpoint0.40.50.7-0.1-0.80.7-0.8
Progressive ratio test 1 inactive lever presses0.20.20.40.60.6-0.40.3
Progressive ratio test 2 active lever presses0.20.20.80.9-0.1-0.2-0.0
Progressive ratio test 2 breakpoint0.20.20.91.0-0.0-0.20.1
Progressive ratio test 2 inactive lever presses0.20.30.50.70.5-0.30.7
Incentive Sensitization - Responses0.70.92.11.40.6-1.00.5
Incentive Sensitization - Breakpoint0.81.12.21.50.7-1.10.6
Sum of active levers in priming session hrs 5-61.31.21.51.11.1-1.21.0
Progressive ratio0.20.40.7-0.8-0.40.6-0.5
Food seeking constrained by brief footshock0.10.10.2-0.3-0.20.1-0.4
Seeking ratio, punishment vs. effort0.10.10.20.5-0.3-0.1-0.4
Retroperitoneal fat weight11.247.754.57.46.9-6.66.8
Reaction time number correct0.61.12.41.50.7-1.00.8
Reaction time mean minus median0.30.71.81.30.4-0.80.5
Reaction time mean minus median AUC0.10.41.21.1-0.3-0.3-0.3
Reaction time num false alarms0.50.71.0-1.0-0.70.9-0.8
Reaction time num false alarms AUC0.60.91.0-1.0-0.91.0-1.0
Reaction time trials correct on left0.61.12.41.50.7-1.00.8
Reaction time trials on left0.71.32.71.60.7-1.10.8
Reaction time mean0.20.41.21.1-0.2-0.5-0.1
Reaction time mean AUC0.20.41.11.1-0.3-0.5-0.2
Median of all reaction times0.20.30.60.8-0.5-0.2-0.5
Reaction time omissions2.23.24.92.21.4-1.81.5
Reaction time false alarm rate1.01.42.6-1.6-0.91.2-1.0
Reaction time premature initiation rate0.50.71.0-0.8-0.71.0-0.9
Reaction time premature initiations0.10.10.20.2-0.20.4-0.5
Std. dev. reaction times0.81.43.51.90.7-1.20.7
Reaction time trials completed0.71.32.71.60.7-1.10.8
Reaction time trials AUC0.61.22.51.60.7-1.00.8
Run reversals in cocaine runway, females0.20.20.30.60.6-0.40.1
Run reversals in cocaine runway, males0.80.81.1-0.9-1.10.9-0.7
Latency to leave start box in cocaine runway0.20.30.60.80.2-0.6-0.1
Latency to leave start box in cocaine runway, F0.20.30.50.60.5-0.70.2
Latency to leave start box in cocaine runway, M0.20.20.30.6-0.4-0.1-0.6
Std. dev. time between licks in bursts0.10.10.5-0.70.30.00.2
Total sessions with >9 infusions0.50.60.8-0.3-0.90.9-0.7
Short access day 1 total inactive lever presses0.10.20.4-0.40.6-0.10.1
Short access day 10 total inactive lever presses0.10.20.40.60.5-0.30.2
Short access day 1 total infusions0.30.40.5-0.5-0.60.7-0.6
Short access day 10 total infusions1.92.42.8-1.2-1.61.6-1.7
Short access total infusions1.01.31.8-0.9-1.21.4-1.0
Short access day 1 locomotion0.10.20.40.2-0.40.3-0.6
Short access day 10 total locomotion0.40.81.2-0.1-1.10.9-1.0
Short access total locomotion2.22.63.4-0.8-1.81.8-1.8
One hour access (0.3 mA shock)1.41.62.31.50.9-1.31.3
Compulsive drug intake1.21.41.80.91.2-1.31.2
One hour access (shock baseline)0.10.10.30.2-0.60.4-0.3
Social response proportion0.50.50.8-0.4-0.80.8-0.9
Social responses0.91.12.01.40.9-0.81.0
Social time0.20.30.50.7-0.5-0.0-0.5
Soleus weight0.51.65.32.30.1-0.90.0
Bone: stiffness0.20.30.60.30.7-0.20.8
Tibialis anterior weight1.13.75.82.41.5-2.11.6
Time to tail flick, vehicle, before self-admin0.00.00.1-0.20.20.20.3
Time to tail flick, vehicle, after self-admin0.10.10.10.20.3-0.20.3
Time to tail flick, test, before self-admin4.04.15.4-1.6-1.92.2-2.3
Time to tail flick, test, after self-admin0.60.60.90.70.9-0.60.9
Delta time to tail flick, vehicle, before/after SA1.41.31.91.40.9-1.30.9
Delta time to tail flick, test, before/after SA1.61.62.31.11.3-1.21.5
Tibia length0.00.10.20.0-0.20.4-0.1
Ambulatory time before self-admin2.84.25.2-1.7-2.32.1-2.1
Ambulatory time after self-admin1.51.72.6-0.9-1.31.3-1.6
Bone: tissue strength0.00.00.10.10.3-0.20.2
Total heroin consumption2.73.24.02.01.7-1.81.6
Bone: trabecular number2.13.54.71.52.2-1.91.9
Bone: trabecular spacing0.10.20.3-0.4-0.50.4-0.3
Bone: trabecular thickness3.03.85.22.31.9-1.81.7
Bone: trabecular tissue density1.01.42.2-0.5-1.41.1-1.5
Water consumed over 24 hours0.30.40.5-0.5-0.60.7-0.6
Number of responses in last shaping day0.30.40.6-0.4-0.60.8-0.6