Pafah1b1

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 Brain gene expression Pafah1b1 0.04 0.03 8.5e-03 0.02 0.01 0.01 0.01 3.2e-03 6.9e-02 3.1e-02 3.2e-02
2 OFC intron excision ratio chr10_60064544_60089877 0.11 0.08 3.1e-03 0.06 0.07 0.02 0.05 1.7e-02 1.0e-02 1.0e-01 3.0e-02
3 Liver mRNA stability Pafah1b1 0.25 0.13 1.2e-09 0.08 0.07 0.07 0.08 2.3e-09 1.0e-08 3.7e-08 4.6e-09

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 density3.05.69.43.11.8-2.0
Area under the delay curve0.50.81.5-1.2-0.50.7
BMI with tail0.82.74.42.11.9-0.5
BMI without tail0.41.94.41.10.2-2.1
Body weight1.14.712.21.1-0.8-3.5
Weight adjusted by age0.41.12.50.91.6-0.2
Bone surface2.95.710.13.22.4-1.2
Bone volume2.95.910.13.22.4-1.3
Breakpoint value in progressive ratio session0.50.92.20.70.1-1.5
Number of licking bursts0.10.20.5-0.7-0.40.1
Context. condit. distance diff. score1.11.32.11.20.7-1.5
Locomotion velocity, session 11.92.13.71.60.3-1.9
Locomotion distance, session 10.60.71.61.30.6-0.3
Locomotion velocity, session 20.60.81.41.20.5-0.8
Locomotion distance, session 21.31.83.61.91.2-0.7
Locomotion velocity, session 34.24.86.3-2.5-2.41.6
Locomotion distance, session 30.40.51.30.30.31.1
Stereotopy head waving bouts, day 30.40.40.8-0.3-0.9-0.7
Stereotopy head waving duration, day 30.10.10.1-0.3-0.30.2
Locomotion velocity, session 71.01.11.81.21.40.1
Locomotion distance, session 71.72.23.81.61.9-0.4
Stereotopy head waving bouts, day 70.50.61.01.00.1-0.9
Stereotopy head waving duration, day 70.70.91.91.40.6-0.7
Locomotion velocity, session 80.40.51.01.00.6-0.3
Locomotion distance, session 81.82.63.61.90.8-1.9
Degree of sensitization distance1.11.22.50.70.8-1.6
Degree of sensitization stereotypy0.80.91.51.20.3-1.1
Conditioned locomotion0.40.40.9-0.4-0.41.0
Cocaine response after cond. corrected0.20.30.7-0.1-0.5-0.8
Cocaine response after cond. not corrected0.30.41.00.2-0.3-1.0
Cocaine response before conditioning0.60.81.31.10.8-0.6
Saline control response0.60.81.61.01.30.0
Bone: connectivity density4.87.613.83.72.3-1.9
Bone: cortical apparent density0.20.30.7-0.20.40.8
Bone: cortical area1.22.03.5-1.9-0.91.3
Bone: cortical porosity0.20.30.50.50.2-0.7
Bone: cortical porosity0.00.00.10.1-0.1-0.4
Bone: cortical thickness4.77.913.0-3.6-2.91.6
Bone: cortical thickness1.51.93.0-1.6-1.70.1
Bone: cortical tissue density0.10.20.4-0.10.40.6
Condit. Reinf. active minus inactive responses0.30.30.6-0.6-0.80.1
Condit. Reinf. active-inactive response ratio3.03.35.2-2.1-2.30.2
Condit. Reinf. active responses0.20.30.40.60.5-0.2
Condit. Reinf. inactive responses3.95.08.42.62.9-0.2
Incentive salience index mean0.30.40.9-0.4-1.0-0.1
Condit. Reinf. lever presses0.40.61.00.3-0.8-1.0
Condit. Reinf. active minus inactive responses0.50.71.40.91.2-0.2
Condit. Reinf. active-inactive response ratio0.10.10.1-0.4-0.2-0.3
Condit. Reinf. active responses1.62.34.71.52.20.1
Condit. Reinf. inactive responses3.45.19.42.33.10.7
Condit. Reinf. lever presses0.81.22.00.31.21.4
Condit. Reinf. lever reinforcers received1.82.65.21.52.30.3
Conditioned reinforcement - actives0.52.13.31.61.8-0.6
Conditioned reinforcement - inactives0.20.61.10.71.1-0.4
Conditioned locomotion0.40.61.5-0.20.41.2
Patch foraging indifference point 0 sec0.10.20.40.70.40.1
Patch foraging indifference point AUC0.20.40.60.00.80.8
Delay disc. indifference point, 0s delay0.20.20.30.50.60.1
Delay disc. indifference point, 16s delay0.40.61.3-1.2-0.10.8
Delay disc. indifference point, 2s delay0.40.51.0-1.0-0.60.2
Delay disc. indifference point, 24s delay0.10.20.3-0.50.10.5
Delay disc. indifference point, 4s delay0.50.51.0-1.0-0.6-0.4
Delay disc. indifference point, 8s delay0.30.51.1-1.1-0.60.2
Indifference point function ln k0.20.71.00.90.2-1.0
Indifference point function log k0.20.71.00.90.2-1.0
Patch foraging total patch changes 0 sec0.10.30.60.80.50.1
Patch foraging total patch changes 12 sec0.50.60.8-0.9-0.90.5
Patch foraging total patch changes 18 sec0.10.30.5-0.7-0.50.2
Patch foraging total patch changes 24 sec0.20.60.9-0.8-0.41.0
Patch foraging total patch changes 6 sec0.30.51.30.20.61.1
Patch foraging time to switch 0 sec0.62.24.5-1.4-2.1-0.2
Patch foraging water rate 0 sec0.31.01.80.81.30.7
Patch foraging water rate 12 sec0.00.10.30.10.3-0.5
Patch foraging water rate 18 sec1.53.34.72.21.9-1.2
Patch foraging water rate 24 sec0.30.40.70.70.80.4
Patch foraging water rate 6 sec0.10.20.5-0.30.30.7
Seeking ratio, delayed vs. immediate footshock0.40.61.4-0.70.11.2
Distance traveled before self-admin1.02.34.2-2.0-0.91.4
Distance traveled after self-admin0.10.30.7-0.8-0.20.3
Extensor digitorum longus weight4.116.427.65.34.3-1.6
Bone: elastic displacement0.30.41.0-0.50.01.0
Bone: elastic work4.45.88.0-2.8-2.31.9
Bone: endosteal estimation0.30.61.30.81.10.0
Bone: endosteal perimeter1.23.06.01.82.50.1
Epididymis fat weight4.120.626.35.03.2-5.1
Delta time in closed arm before/after self-admin0.10.10.2-0.50.30.3
Delta time in open arm before/after self-admin0.30.40.90.90.4-0.2
Diff in mean of infusions in LGA sessions0.50.92.10.80.0-1.5
Delay discount exponential model param0.50.61.41.20.5-0.5
Extinction: sum of active levers before priming2.03.04.12.02.0-1.0
Active lever presses in extinction session 62.12.12.91.71.5-1.1
Bone: final force1.22.03.3-1.6-1.80.5
Bone: final moment1.11.72.5-1.4-1.60.7
Food consumed during 24 hour testing period0.10.30.50.70.4-0.4
Glucose2.43.85.9-2.4-1.22.0
Heart weight0.61.02.11.0-0.2-1.5
Delay discount hyperbolic model param0.60.81.71.30.7-0.5
Intermittent access intake day 1-15 change0.31.63.10.21.31.8
Intermittent access intake escalation0.41.93.70.31.41.9
Intermittent access intake escalation 20.91.53.6-0.10.91.9
Intermitt. access day 1 inactive lever presses0.11.84.3-1.10.22.1
Intermitt. access day 15 inactive lever presses0.10.60.9-0.70.71.0
Intermitt. access escalation Index0.41.42.5-0.1-1.3-1.6
Intermittent access day 1 total infusions0.00.10.2-0.10.5-0.5
Intermittent access day 15 total infusions0.61.43.00.81.70.8
Intermittent access terminal intake (last 3 days)0.71.32.51.21.6-0.1
Intermittent access total infusions0.60.71.80.51.40.2
Intermittent access day 1 locomotion0.10.20.5-0.7-0.1-0.3
Intermittent access day 15 total locomotion0.10.40.8-0.30.60.9
Intermittent access total locomotion0.20.30.6-0.10.80.4
Intermittent access standard deviation0.62.95.60.92.41.5
Left kidney weight1.08.112.9-3.4-3.60.3
Right kidney weight1.17.612.9-3.1-3.6-0.7
Cocaine induced anxiety0.00.00.1-0.10.10.3
Post-drug Anxiety0.60.61.40.2-0.7-1.2
Baseline Anxiety0.71.12.80.6-0.4-1.7
Tail length1.15.911.5-0.4-2.4-3.4
Length with tail1.87.913.2-1.0-3.1-3.6
Length without tail0.42.04.80.1-1.0-2.2
Times rat made contact with spout1.51.72.6-1.6-1.60.4
Lifetime Intake0.40.61.50.41.20.1
Liver weight, left3.86.516.80.4-1.6-4.1
Liver weight, right3.15.414.70.9-0.9-3.8
Locomotor activity0.10.20.50.10.7-0.3
Locomotor testing distance0.00.10.10.00.4-0.2
Locomotor testing rearing0.31.12.31.01.50.2
Locomotion in novel chamber1.92.66.1-0.31.22.5
Locomotion in novel chamber post-restriction0.20.60.80.90.80.5
Fecal boli incidents, locomotor time 10.10.20.4-0.2-0.7-0.1
Change in fecal boli incidents, locomotor task0.40.40.7-0.8-0.80.1
Time >=10cm from walls, locomotor time 10.20.20.20.40.30.5
Bouts of movement, locomotor time 10.00.00.10.30.0-0.2
Total resting periods, locomotor time 10.00.10.10.30.2-0.1
Rest time, locomotor task time 10.10.20.4-0.3-0.00.7
Distance moved, locomotor task time 10.00.10.20.40.5-0.2
Vertical activity count, locomotor time 10.10.61.11.10.8-0.2
Time >=10cm from walls, locomotor time 20.30.71.2-0.8-0.51.1
Bouts of movement, locomotor time 20.00.00.1-0.2-0.0-0.2
Total resting periods, locomotor time 20.00.10.10.10.2-0.3
Rest time, locomotor task time 20.20.30.50.20.7-0.5
Distance moved, locomotor task time 20.20.20.50.20.40.7
Vertical activity count, locomotor time 20.10.20.5-0.3-0.70.2
Light reinforcement 10.00.00.10.20.30.0
Light reinforcement 21.22.74.5-2.1-1.80.3
Bone: marrow area0.20.61.20.81.10.0
Bone: maximum diameter0.40.91.50.41.20.9
Bone: maximum force1.02.03.0-1.7-1.70.6
Bone: maximum moment0.91.72.3-1.5-1.50.8
Mean time between licks in bursts0.10.61.2-0.2-0.8-1.1
Mean num. licks in bursts0.10.20.6-0.4-0.70.1
Cd content in liver1.82.04.01.32.0-0.5
Co content in liver0.10.10.2-0.50.10.3
Cu content in liver0.70.81.5-1.2-0.60.8
Fe content in liver0.50.61.1-0.2-0.8-1.1
K content in liver0.80.81.7-0.8-1.3-0.2
Mg content in liver0.20.30.40.40.60.4
Mn content in liver0.50.50.90.90.80.3
Na content in liver2.12.33.8-2.0-1.50.9
Rb content in liver3.54.06.12.52.4-0.6
Se content in liver0.50.50.8-0.9-0.80.5
Sr content in liver1.11.01.51.21.2-0.3
Zn content in liver0.20.20.50.0-0.3-0.7
Bone: minimum diameter0.51.02.1-1.4-0.9-0.1
Time in familiar zone, hab. session 11.21.32.31.21.50.4
Time in novel zone, hab. session 11.01.11.9-1.1-1.4-0.6
Total zone transitions, hab. session 12.33.35.02.22.2-0.1
Total locomotion distance, hab. session 10.60.91.21.11.1-0.5
Locomotion velocity, hab. session 10.70.91.41.21.1-0.3
Time in familiar zone, hab. session 21.71.92.81.71.6-0.6
Time in novel zone, hab. session 23.94.26.4-2.5-2.40.8
Total zone transitions, hab. session 20.91.12.11.50.8-0.8
Total locomotion distance, hab. session 20.10.10.30.2-0.3-0.6
Locomotion velocity, hab. session 20.10.10.20.1-0.3-0.5
Novel to familiar place preference ratio0.40.61.4-0.10.51.2
Novelty place preference0.10.20.5-0.20.20.7
Time in novel zone, NPP test0.10.10.20.10.30.4
Total zone transitions, NPP test1.31.93.01.71.6-0.3
Total locomotion distance, NPP test0.40.61.20.81.10.1
Locomotion velocity, NPP test0.30.50.90.41.00.6
Intraocular pressure1.42.34.70.72.21.3
Delta distance traveled before/after self-admin1.21.31.81.30.7-1.3
Delta ambulatory time before/after self-admin0.71.21.81.30.6-1.2
Parametrial fat weight4.911.517.33.81.6-4.2
Pavlov. Cond. lever latency0.40.50.80.70.90.4
Pavlov. Cond. magazine entry latency0.40.50.8-0.1-0.8-0.9
Pavlov. Cond. change in total contacts0.50.51.0-1.0-0.80.1
Pavlov. Cond. index score0.50.60.9-0.2-0.9-0.9
Pavlov. Cond. latency score0.70.91.4-0.5-1.2-1.0
Pavlov. Cond. lever contacts0.40.40.7-0.6-0.9-0.3
Pavlov. Cond. magazine entry number0.10.10.4-0.10.30.6
Pavlov. Cond. intertrial magazine entries0.91.12.30.91.50.5
Pavlov. Cond. lever-magazine prob. diff.0.40.40.7-0.2-0.8-0.8
Pavlov. Cond. response bias0.20.30.70.0-0.5-0.8
Pavlov. Cond. lever latency0.60.91.41.10.1-1.2
Pavlov. Cond. magazine entry latency1.01.42.2-1.5-1.40.1
Pavlov. Cond. change in total contacts0.41.11.5-1.2-0.51.2
Pavlov. Cond. index score0.81.21.9-1.4-0.41.2
Pavlov. Cond. latency score0.91.42.1-1.4-0.41.4
Pavlov. Cond. lever contacts0.30.51.0-1.0-0.30.7
Pavlov. Cond. magazine entry number1.11.42.31.51.3-0.5
Pavlov. Cond. intertrial magazine entries1.22.53.61.91.8-0.8
Pavlov. Cond. lever-magazine prob. diff.0.71.11.7-1.3-0.41.2
Pavlov. Cond. response bias0.60.91.8-1.3-0.60.7
Time in closed arm before self-admin0.50.91.61.0-0.5-1.3
Time in closed arm after self-admin0.50.50.9-0.8-1.0-0.2
Time in open arm before self-admin1.61.94.1-2.0-0.61.1
Time in open arm after self-admin0.80.92.0-0.50.61.4
Bone: periosteal estimation0.10.30.6-0.8-0.20.6
Bone: periosteal perimeter0.20.30.5-0.10.70.7
Bone: post-yield work0.30.51.30.5-0.1-1.1
Progressive ratio test 1 active lever presses0.20.31.00.01.0-0.0
Progressive ratio test 1 breakpoint0.20.41.20.11.1-0.1
Progressive ratio test 1 inactive lever presses0.30.91.3-1.10.11.2
Progressive ratio test 2 active lever presses1.42.05.00.92.2-0.3
Progressive ratio test 2 breakpoint1.62.05.11.02.3-0.3
Progressive ratio test 2 inactive lever presses0.30.92.60.11.60.2
Incentive Sensitization - Responses0.82.14.91.02.2-0.6
Incentive Sensitization - Breakpoint0.81.84.21.02.0-0.6
Sum of active levers in priming session hrs 5-61.41.42.11.20.8-1.5
Progressive ratio0.10.40.90.20.31.0
Food seeking constrained by brief footshock0.00.00.0-0.1-0.20.1
Seeking ratio, punishment vs. effort0.40.81.2-1.0-1.1-0.4
Retroperitoneal fat weight0.31.42.70.80.9-1.6
Reaction time number correct0.00.00.10.30.2-0.1
Reaction time mean minus median0.00.10.20.30.30.4
Reaction time mean minus median AUC0.21.32.21.51.3-0.0
Reaction time num false alarms0.71.32.20.61.51.1
Reaction time num false alarms AUC0.51.11.90.51.41.2
Reaction time trials correct on left0.00.00.10.30.2-0.1
Reaction time trials on left0.00.00.10.30.2-0.0
Reaction time mean0.00.00.0-0.1-0.2-0.2
Reaction time mean AUC0.00.10.1-0.3-0.10.3
Median of all reaction times0.10.10.2-0.4-0.4-0.3
Reaction time omissions0.00.10.20.50.00.1
Reaction time false alarm rate0.60.81.20.41.11.0
Reaction time premature initiation rate0.50.70.91.00.8-0.7
Reaction time premature initiations0.30.91.21.11.0-0.6
Std. dev. reaction times0.00.10.30.30.20.5
Reaction time trials completed0.00.00.10.30.2-0.0
Reaction time trials AUC0.00.10.10.30.30.1
Run reversals in cocaine runway, females0.30.30.40.30.60.6
Run reversals in cocaine runway, males1.01.12.10.91.50.6
Latency to leave start box in cocaine runway0.20.30.6-0.4-0.80.1
Latency to leave start box in cocaine runway, F0.60.81.9-0.5-1.4-0.6
Latency to leave start box in cocaine runway, M0.10.10.2-0.00.50.4
Std. dev. time between licks in bursts0.10.30.50.70.50.1
Total sessions with >9 infusions0.60.71.90.41.40.2
Short access day 1 total inactive lever presses0.10.10.20.30.40.4
Short access day 10 total inactive lever presses0.21.33.1-0.8-0.31.8
Short access day 1 total infusions0.30.71.1-0.20.91.1
Short access day 10 total infusions0.61.02.60.31.60.7
Short access total infusions0.30.50.8-0.20.90.7
Short access day 1 locomotion0.61.01.8-1.00.51.3
Short access day 10 total locomotion0.20.81.8-0.70.41.4
Short access total locomotion0.91.32.7-1.00.61.6
One hour access (0.3 mA shock)1.51.73.31.31.8-0.5
Compulsive drug intake0.71.02.20.3-0.9-1.5
One hour access (shock baseline)0.30.71.80.41.30.4
Social response proportion1.62.04.70.6-1.0-2.2
Social responses1.01.32.41.20.1-1.5
Social time1.21.93.11.6-0.1-1.7
Soleus weight2.16.211.82.50.7-3.4
Bone: stiffness0.40.71.80.4-0.5-1.3
Tibialis anterior weight6.321.636.96.14.5-2.7
Time to tail flick, vehicle, before self-admin3.64.47.02.71.8-1.8
Time to tail flick, vehicle, after self-admin0.10.20.40.60.2-0.5
Time to tail flick, test, before self-admin0.60.70.80.7-0.9-0.9
Time to tail flick, test, after self-admin0.30.40.8-0.5-0.9-0.2
Delta time to tail flick, vehicle, before/after SA1.01.02.0-0.9-0.51.4
Delta time to tail flick, test, before/after SA0.40.50.8-0.30.90.8
Tibia length1.12.96.2-1.3-2.5-1.0
Ambulatory time before self-admin1.23.56.5-2.6-1.61.2
Ambulatory time after self-admin0.50.81.2-1.0-1.1-0.4
Bone: tissue strength2.12.22.9-1.7-1.51.1
Total heroin consumption3.44.06.32.11.1-2.5
Bone: trabecular number3.56.511.23.42.0-2.1
Bone: trabecular spacing0.60.91.5-1.1-0.11.2
Bone: trabecular thickness0.30.40.80.90.2-0.5
Bone: trabecular tissue density1.32.23.9-2.0-1.21.1
Water consumed over 24 hours0.71.42.8-1.1-1.7-0.5
Number of responses in last shaping day1.41.84.4-0.70.62.1