Pierce2

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 Liver gene expression Pierce2 0.06 0.04 2.1e-07 0.04 0.03 0.04 0.05 1.2e-05 1.7e-04 2.7e-05 6.8e-06
2 PL gene expression Pierce2 0.04 0.04 8.9e-04 0.01 0.03 0.02 0.02 2.4e-02 1.7e-04 1.6e-03 1.2e-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
Bone: apparent density0.10.20.40.3-0.6
Area under the delay curve0.10.20.3-0.10.5
BMI with tail6.121.231.5-5.63.3
BMI without tail1.05.210.1-3.20.6
Body weight3.314.518.3-4.33.3
Weight adjusted by age1.33.85.7-2.41.4
Bone surface0.10.20.3-0.5-0.3
Bone volume0.10.20.3-0.60.1
Breakpoint value in progressive ratio session0.10.20.3-0.2-0.5
Number of licking bursts0.92.63.31.8-1.4
Context. condit. distance diff. score0.20.20.30.30.5
Locomotion velocity, session 10.91.01.5-1.20.7
Locomotion distance, session 10.10.20.20.3-0.5
Locomotion velocity, session 20.60.71.3-0.3-1.1
Locomotion distance, session 20.91.21.9-0.7-1.4
Locomotion velocity, session 31.31.52.9-0.3-1.7
Locomotion distance, session 32.93.34.01.6-2.0
Stereotopy head waving bouts, day 31.21.42.1-0.81.5
Stereotopy head waving duration, day 32.02.43.2-1.31.8
Locomotion velocity, session 70.70.70.80.9-0.8
Locomotion distance, session 71.82.43.51.1-1.9
Stereotopy head waving bouts, day 70.70.81.5-1.20.2
Stereotopy head waving duration, day 70.60.71.4-1.20.1
Locomotion velocity, session 80.60.81.0-0.7-1.0
Locomotion distance, session 81.11.53.00.3-1.7
Degree of sensitization distance0.00.00.10.1-0.3
Degree of sensitization stereotypy0.50.61.2-1.10.0
Conditioned locomotion0.50.51.0-0.31.0
Cocaine response after cond. corrected3.75.65.9-2.32.4
Cocaine response after cond. not corrected3.34.86.0-1.92.5
Cocaine response before conditioning0.50.60.91.0-0.5
Saline control response0.00.00.0-0.20.2
Bone: connectivity density2.03.25.21.1-2.3
Bone: cortical apparent density0.40.61.21.1-0.0
Bone: cortical area2.54.08.0-0.32.8
Bone: cortical porosity0.50.51.01.0-0.1
Bone: cortical porosity0.70.81.51.2-0.4
Bone: cortical thickness1.42.33.41.11.8
Bone: cortical thickness0.60.81.20.61.1
Bone: cortical tissue density0.40.61.21.1-0.2
Condit. Reinf. active minus inactive responses1.21.42.40.6-1.6
Condit. Reinf. active-inactive response ratio0.60.71.01.00.6
Condit. Reinf. active responses2.53.36.5-0.1-2.6
Condit. Reinf. inactive responses4.05.29.6-0.9-3.1
Incentive salience index mean0.70.91.70.3-1.3
Condit. Reinf. lever presses0.40.61.2-0.0-1.1
Condit. Reinf. active minus inactive responses1.01.63.0-1.70.3
Condit. Reinf. active-inactive response ratio1.11.81.9-1.31.4
Condit. Reinf. active responses0.71.02.0-1.40.1
Condit. Reinf. inactive responses0.81.12.20.2-1.5
Condit. Reinf. lever presses0.50.70.90.70.9
Condit. Reinf. lever reinforcers received0.50.71.4-1.20.2
Conditioned reinforcement - actives0.00.00.1-0.10.3
Conditioned reinforcement - inactives0.20.51.0-0.11.0
Conditioned locomotion0.20.20.50.70.1
Patch foraging indifference point 0 sec0.00.10.2-0.40.1
Patch foraging indifference point AUC1.94.58.40.8-2.9
Delay disc. indifference point, 0s delay1.51.72.50.9-1.6
Delay disc. indifference point, 16s delay0.60.81.60.31.2
Delay disc. indifference point, 2s delay0.00.00.10.30.0
Delay disc. indifference point, 24s delay0.00.10.10.20.3
Delay disc. indifference point, 4s delay0.20.20.40.6-0.1
Delay disc. indifference point, 8s delay0.20.30.5-0.70.3
Indifference point function ln k1.95.810.0-1.33.2
Indifference point function log k1.95.810.0-1.33.2
Patch foraging total patch changes 0 sec0.10.20.3-0.60.4
Patch foraging total patch changes 12 sec1.21.72.90.6-1.7
Patch foraging total patch changes 18 sec0.00.10.10.4-0.3
Patch foraging total patch changes 24 sec0.41.22.40.2-1.6
Patch foraging total patch changes 6 sec1.52.54.9-0.1-2.2
Patch foraging time to switch 0 sec0.20.71.31.1-0.4
Patch foraging water rate 0 sec0.72.73.0-1.71.5
Patch foraging water rate 12 sec1.14.56.4-2.51.6
Patch foraging water rate 18 sec0.40.91.3-0.71.1
Patch foraging water rate 24 sec0.10.10.10.1-0.4
Patch foraging water rate 6 sec0.40.70.7-0.80.8
Seeking ratio, delayed vs. immediate footshock0.60.91.8-1.30.1
Distance traveled before self-admin0.00.00.10.3-0.1
Distance traveled after self-admin1.52.73.8-1.32.0
Extensor digitorum longus weight5.120.535.1-5.92.4
Bone: elastic displacement0.00.00.0-0.20.1
Bone: elastic work0.20.20.30.30.6
Bone: endosteal estimation1.63.95.3-2.31.6
Bone: endosteal perimeter2.35.77.7-2.81.9
Epididymis fat weight0.21.22.40.0-1.6
Delta time in closed arm before/after self-admin0.40.40.50.50.7
Delta time in open arm before/after self-admin0.60.71.00.7-1.0
Diff in mean of infusions in LGA sessions0.40.61.2-1.10.3
Delay discount exponential model param0.10.10.30.1-0.5
Extinction: sum of active levers before priming0.10.10.2-0.1-0.4
Active lever presses in extinction session 60.30.30.6-0.8-0.0
Bone: final force1.11.72.7-0.81.7
Bone: final moment1.32.03.8-0.61.9
Food consumed during 24 hour testing period1.22.44.1-0.82.0
Glucose0.20.40.7-0.80.2
Heart weight0.61.01.4-1.2-0.8
Delay discount hyperbolic model param0.10.10.3-0.1-0.5
Intermittent access intake day 1-15 change0.00.20.3-0.50.4
Intermittent access intake escalation0.10.40.6-0.70.6
Intermittent access intake escalation 20.81.31.8-0.91.3
Intermitt. access day 1 inactive lever presses0.11.11.70.71.3
Intermitt. access day 15 inactive lever presses0.21.01.4-0.71.2
Intermitt. access escalation Index0.00.10.1-0.2-0.3
Intermittent access day 1 total infusions0.41.22.31.5-0.0
Intermittent access day 15 total infusions0.20.40.70.9-0.1
Intermittent access terminal intake (last 3 days)0.20.30.30.60.6
Intermittent access total infusions0.40.50.90.90.3
Intermittent access day 1 locomotion0.91.73.31.8-0.5
Intermittent access day 15 total locomotion0.31.01.31.10.8
Intermittent access total locomotion0.20.20.30.30.6
Intermittent access standard deviation0.10.71.40.11.2
Left kidney weight1.310.710.8-3.33.3
Right kidney weight1.17.310.8-3.32.0
Cocaine induced anxiety0.00.10.20.4-0.2
Post-drug Anxiety2.12.42.61.5-1.6
Baseline Anxiety1.52.54.11.0-2.0
Tail length0.52.63.31.3-1.8
Length with tail0.00.10.1-0.10.3
Length without tail1.57.99.8-2.53.1
Times rat made contact with spout0.70.71.40.31.2
Lifetime Intake0.30.40.70.90.0
Liver weight, left2.13.75.8-2.41.2
Liver weight, right1.22.14.0-2.00.6
Locomotor activity4.57.07.7-2.82.5
Locomotor testing distance2.46.06.1-2.42.5
Locomotor testing rearing0.31.22.1-1.40.6
Locomotion in novel chamber0.91.22.30.41.5
Locomotion in novel chamber post-restriction0.10.20.20.4-0.5
Fecal boli incidents, locomotor time 10.30.80.90.9-0.9
Change in fecal boli incidents, locomotor task4.14.37.8-0.92.8
Time >=10cm from walls, locomotor time 10.50.70.7-0.80.8
Bouts of movement, locomotor time 10.00.00.1-0.2-0.1
Total resting periods, locomotor time 10.00.00.0-0.1-0.0
Rest time, locomotor task time 10.50.81.00.71.0
Distance moved, locomotor task time 10.41.12.1-0.2-1.5
Vertical activity count, locomotor time 10.10.71.40.2-1.2
Time >=10cm from walls, locomotor time 20.10.30.5-0.00.7
Bouts of movement, locomotor time 20.20.71.2-1.1-0.5
Total resting periods, locomotor time 20.20.71.3-1.1-0.4
Rest time, locomotor task time 20.40.80.80.90.9
Distance moved, locomotor task time 21.21.63.0-0.5-1.7
Vertical activity count, locomotor time 20.71.52.40.8-1.5
Light reinforcement 10.62.94.6-2.11.1
Light reinforcement 21.12.54.20.92.0
Bone: marrow area1.74.35.4-2.31.8
Bone: maximum diameter3.57.19.5-2.23.1
Bone: maximum force0.71.52.1-0.91.5
Bone: maximum moment0.91.83.1-0.61.8
Mean time between licks in bursts0.10.71.51.2-0.1
Mean num. licks in bursts1.64.46.2-1.62.5
Cd content in liver2.62.94.51.2-2.1
Co content in liver0.50.61.11.1-0.3
Cu content in liver0.10.10.1-0.30.3
Fe content in liver0.20.30.5-0.7-0.2
K content in liver0.70.71.3-1.10.2
Mg content in liver0.60.61.2-1.10.3
Mn content in liver2.83.16.1-0.32.5
Na content in liver2.83.15.9-2.40.5
Rb content in liver0.70.81.6-1.3-0.0
Se content in liver0.10.10.10.3-0.3
Sr content in liver1.31.21.60.9-1.3
Zn content in liver0.10.10.1-0.20.3
Bone: minimum diameter1.12.14.2-0.22.1
Time in familiar zone, hab. session 10.10.10.10.10.4
Time in novel zone, hab. session 10.10.10.10.3-0.1
Total zone transitions, hab. session 10.71.01.90.4-1.4
Total locomotion distance, hab. session 10.60.91.8-0.1-1.3
Locomotion velocity, hab. session 10.30.50.9-0.3-0.9
Time in familiar zone, hab. session 20.10.20.20.4-0.4
Time in novel zone, hab. session 20.80.91.7-0.31.3
Total zone transitions, hab. session 21.11.42.6-0.4-1.6
Total locomotion distance, hab. session 20.81.11.7-0.6-1.3
Locomotion velocity, hab. session 20.60.81.3-0.5-1.2
Novel to familiar place preference ratio0.70.91.5-1.20.5
Novelty place preference0.81.11.7-1.30.6
Time in novel zone, NPP test1.31.52.0-1.41.1
Total zone transitions, NPP test0.30.40.5-0.6-0.7
Total locomotion distance, NPP test0.60.81.0-0.8-1.0
Locomotion velocity, NPP test1.01.52.7-0.5-1.7
Intraocular pressure0.10.20.30.3-0.6
Delta distance traveled before/after self-admin4.24.66.0-1.82.4
Delta ambulatory time before/after self-admin2.64.57.0-1.42.7
Parametrial fat weight1.53.44.52.1-1.5
Pavlov. Cond. lever latency1.31.63.20.21.8
Pavlov. Cond. magazine entry latency2.73.54.21.6-2.1
Pavlov. Cond. change in total contacts0.80.91.60.4-1.3
Pavlov. Cond. index score3.14.06.31.3-2.5
Pavlov. Cond. latency score2.73.45.91.0-2.4
Pavlov. Cond. lever contacts1.11.32.60.2-1.6
Pavlov. Cond. magazine entry number2.93.74.3-1.82.1
Pavlov. Cond. intertrial magazine entries0.91.11.8-0.6-1.4
Pavlov. Cond. lever-magazine prob. diff.3.13.86.31.1-2.5
Pavlov. Cond. response bias1.92.33.41.1-1.8
Pavlov. Cond. lever latency0.20.30.5-0.70.4
Pavlov. Cond. magazine entry latency2.53.66.62.6-0.7
Pavlov. Cond. change in total contacts0.41.01.61.2-0.7
Pavlov. Cond. index score0.91.52.41.6-0.7
Pavlov. Cond. latency score0.61.01.81.4-0.3
Pavlov. Cond. lever contacts0.20.30.60.8-0.3
Pavlov. Cond. magazine entry number2.63.35.6-2.41.1
Pavlov. Cond. intertrial magazine entries0.40.91.8-1.3-0.0
Pavlov. Cond. lever-magazine prob. diff.1.21.83.01.7-0.8
Pavlov. Cond. response bias1.52.13.01.7-1.1
Time in closed arm before self-admin0.00.00.10.1-0.3
Time in closed arm after self-admin0.10.10.10.4-0.0
Time in open arm before self-admin1.11.31.9-0.91.4
Time in open arm after self-admin0.30.40.5-0.40.7
Bone: periosteal estimation2.25.37.1-1.92.7
Bone: periosteal perimeter2.55.05.9-2.02.4
Bone: post-yield work0.10.20.3-0.6-0.3
Progressive ratio test 1 active lever presses0.20.30.50.7-0.5
Progressive ratio test 1 breakpoint0.20.40.50.7-0.5
Progressive ratio test 1 inactive lever presses0.61.63.11.8-0.4
Progressive ratio test 2 active lever presses0.20.30.3-0.40.6
Progressive ratio test 2 breakpoint0.20.20.3-0.40.5
Progressive ratio test 2 inactive lever presses0.20.81.20.61.1
Incentive Sensitization - Responses0.51.51.8-1.01.4
Incentive Sensitization - Breakpoint0.51.21.5-1.01.2
Sum of active levers in priming session hrs 5-60.00.00.0-0.00.0
Progressive ratio0.30.81.00.7-1.0
Food seeking constrained by brief footshock0.30.40.6-0.8-0.4
Seeking ratio, punishment vs. effort1.22.64.7-2.20.7
Retroperitoneal fat weight0.21.01.20.9-1.1
Reaction time number correct0.41.42.7-1.60.3
Reaction time mean minus median0.10.50.50.6-0.7
Reaction time mean minus median AUC0.11.01.01.0-1.0
Reaction time num false alarms0.20.40.60.5-0.8
Reaction time num false alarms AUC0.10.20.4-0.0-0.7
Reaction time trials correct on left0.41.42.7-1.60.3
Reaction time trials on left0.41.42.7-1.60.3
Reaction time mean1.22.74.62.2-0.8
Reaction time mean AUC1.12.64.42.1-0.9
Median of all reaction times2.33.66.72.6-0.8
Reaction time omissions0.20.30.60.1-0.8
Reaction time false alarm rate0.50.81.11.0-0.7
Reaction time premature initiation rate0.40.61.2-1.1-0.2
Reaction time premature initiations0.51.63.2-1.80.1
Std. dev. reaction times0.51.82.31.5-1.1
Reaction time trials completed0.41.42.7-1.60.3
Reaction time trials AUC0.31.22.4-1.50.2
Run reversals in cocaine runway, females0.20.20.4-0.30.6
Run reversals in cocaine runway, males1.51.72.9-0.7-1.7
Latency to leave start box in cocaine runway0.60.91.6-1.30.4
Latency to leave start box in cocaine runway, F0.30.40.4-0.7-0.5
Latency to leave start box in cocaine runway, M4.03.94.2-2.01.9
Std. dev. time between licks in bursts0.10.20.4-0.1-0.6
Total sessions with >9 infusions0.40.50.50.7-0.7
Short access day 1 total inactive lever presses0.51.12.10.31.4
Short access day 10 total inactive lever presses0.00.30.60.80.3
Short access day 1 total infusions0.00.10.20.4-0.1
Short access day 10 total infusions1.11.73.01.7-0.7
Short access total infusions0.81.11.61.3-0.8
Short access day 1 locomotion0.00.00.00.1-0.0
Short access day 10 total locomotion0.10.50.60.60.8
Short access total locomotion0.30.40.80.90.1
One hour access (0.3 mA shock)1.72.03.7-0.51.9
Compulsive drug intake1.62.43.8-1.01.9
One hour access (shock baseline)0.10.20.50.70.0
Social response proportion0.81.01.7-0.61.3
Social responses0.10.10.2-0.50.1
Social time0.30.50.6-0.60.8
Soleus weight10.932.253.5-7.33.3
Bone: stiffness0.51.01.6-1.30.5
Tibialis anterior weight10.235.152.8-7.34.2
Time to tail flick, vehicle, before self-admin2.73.46.50.5-2.5
Time to tail flick, vehicle, after self-admin0.20.51.00.11.0
Time to tail flick, test, before self-admin1.01.11.51.2-0.8
Time to tail flick, test, after self-admin1.51.52.31.5-0.9
Delta time to tail flick, vehicle, before/after SA1.92.03.90.32.0
Delta time to tail flick, test, before/after SA1.01.22.3-0.11.5
Tibia length1.02.95.80.12.4
Ambulatory time before self-admin0.20.50.70.9-0.5
Ambulatory time after self-admin1.72.74.5-0.92.1
Bone: tissue strength0.50.51.01.00.1
Total heroin consumption1.01.21.2-1.1-1.1
Bone: trabecular number1.01.93.00.9-1.7
Bone: trabecular spacing0.00.00.00.10.2
Bone: trabecular thickness0.81.02.1-0.11.4
Bone: trabecular tissue density6.711.715.0-2.93.9
Water consumed over 24 hours0.30.50.60.60.8
Number of responses in last shaping day0.10.10.1-0.30.3