Rnf39

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 Rnf39 0.04 0.03 2.3e-03 0.01 0.01 0.01 0.01 1.0e-02 8.8e-03 5.7e-02 2.8e-02
2 PL mRNA stability Rnf39 0.05 0.03 4.6e-05 0.04 0.03 0.02 0.04 9.5e-06 1.4e-04 1.2e-03 8.4e-05
3 Brain mRNA stability Rnf39 0.05 0.03 1.2e-05 0.05 0.05 0.05 0.05 8.4e-06 2.3e-05 3.7e-05 2.6e-05
4 pVTA gene expression Rnf39 0.07 0.05 9.5e-04 0.03 0.01 0.04 0.02 1.1e-03 5.8e-02 6.2e-04 4.3e-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 density0.91.62.7-1.0-1.5-1.6-0.8
Area under the delay curve1.62.43.6-0.01.71.9-1.8
BMI with tail0.72.64.5-2.11.71.40.8
BMI without tail0.84.39.6-1.23.12.5-0.2
Body weight3.213.928.51.55.35.00.1
Weight adjusted by age1.02.83.21.51.71.7-1.8
Bone surface0.51.01.91.30.40.4-1.4
Bone volume0.40.82.90.30.20.1-1.7
Breakpoint value in progressive ratio session1.01.95.7-0.8-0.5-0.92.4
Number of licking bursts0.10.31.11.1-0.20.30.2
Context. condit. distance diff. score4.14.97.52.1-2.7-2.31.5
Locomotion velocity, session 10.20.20.90.9-0.2-0.00.0
Locomotion distance, session 10.70.91.3-1.2-1.0-1.00.2
Locomotion velocity, session 20.50.61.90.20.20.61.4
Locomotion distance, session 20.40.61.2-0.3-1.0-1.10.4
Locomotion velocity, session 30.40.51.3-1.2-0.10.20.8
Locomotion distance, session 31.11.22.4-0.5-1.5-1.40.6
Stereotopy head waving bouts, day 31.01.21.91.41.01.10.7
Stereotopy head waving duration, day 30.70.91.51.01.11.20.3
Locomotion velocity, session 72.12.36.10.3-2.5-1.7-0.3
Locomotion distance, session 72.02.55.7-0.5-2.4-2.0-0.2
Stereotopy head waving bouts, day 71.92.23.90.71.62.0-1.3
Stereotopy head waving duration, day 71.92.44.20.71.82.1-1.2
Locomotion velocity, session 82.02.48.93.00.20.50.6
Locomotion distance, session 82.53.65.21.6-2.3-2.31.2
Degree of sensitization distance0.30.31.01.0-0.20.0-0.4
Degree of sensitization stereotypy0.80.91.60.30.91.3-1.1
Conditioned locomotion1.41.73.80.21.72.00.2
Cocaine response after cond. corrected0.30.51.3-0.7-0.4-0.11.2
Cocaine response after cond. not corrected0.40.61.10.70.81.00.6
Cocaine response before conditioning5.06.17.42.32.72.7-2.2
Saline control response1.62.34.5-1.11.41.2-2.1
Bone: connectivity density1.32.03.9-0.1-2.0-2.0-0.6
Bone: cortical apparent density0.60.92.5-1.60.60.5-0.7
Bone: cortical area0.61.02.00.81.40.8-0.8
Bone: cortical porosity0.10.10.3-0.10.40.3-0.5
Bone: cortical porosity0.40.40.50.70.60.5-0.7
Bone: cortical thickness1.32.13.3-1.81.70.9-1.2
Bone: cortical thickness1.21.55.4-2.30.50.1-0.6
Bone: cortical tissue density0.50.72.1-1.40.50.5-0.6
Condit. Reinf. active minus inactive responses0.10.10.10.0-0.3-0.20.3
Condit. Reinf. active-inactive response ratio0.30.40.6-0.80.60.70.1
Condit. Reinf. active responses0.50.71.0-0.3-1.0-1.00.8
Condit. Reinf. inactive responses1.92.54.4-1.1-1.9-2.10.9
Incentive salience index mean1.01.22.80.9-0.9-0.71.7
Condit. Reinf. lever presses3.55.211.31.5-2.0-1.93.4
Condit. Reinf. active minus inactive responses0.71.11.40.91.21.2-0.9
Condit. Reinf. active-inactive response ratio1.21.93.51.11.61.9-0.4
Condit. Reinf. active responses0.10.20.30.6-0.2-0.4-0.4
Condit. Reinf. inactive responses0.61.02.4-0.2-1.1-1.60.1
Condit. Reinf. lever presses1.01.43.00.6-1.5-1.7-0.4
Condit. Reinf. lever reinforcers received0.20.30.50.7-0.4-0.6-0.2
Conditioned reinforcement - actives0.72.99.2-0.81.10.9-3.0
Conditioned reinforcement - inactives0.51.54.3-0.90.80.4-2.1
Conditioned locomotion0.71.13.60.20.60.5-1.9
Patch foraging indifference point 0 sec0.61.75.8-0.8-0.4-0.3-2.4
Patch foraging indifference point AUC0.61.53.30.51.81.3-0.9
Delay disc. indifference point, 0s delay0.91.02.10.61.21.40.6
Delay disc. indifference point, 16s delay2.23.16.8-1.71.31.1-2.6
Delay disc. indifference point, 2s delay1.82.04.50.61.72.1-0.4
Delay disc. indifference point, 24s delay0.91.43.8-0.30.81.1-1.9
Delay disc. indifference point, 4s delay3.03.25.70.82.32.4-1.0
Delay disc. indifference point, 8s delay0.71.13.90.10.40.6-2.0
Indifference point function ln k0.20.61.01.0-1.0-0.50.1
Indifference point function log k0.20.61.01.0-1.0-0.50.1
Patch foraging total patch changes 0 sec0.82.38.2-1.0-0.2-0.2-2.9
Patch foraging total patch changes 12 sec1.01.33.5-1.20.7-0.1-1.9
Patch foraging total patch changes 18 sec0.61.43.8-1.9-0.7-1.0-0.5
Patch foraging total patch changes 24 sec0.93.27.3-2.1-0.6-0.7-2.7
Patch foraging total patch changes 6 sec1.62.77.4-1.60.80.5-2.7
Patch foraging time to switch 0 sec0.31.23.5-1.9-0.5-0.30.9
Patch foraging water rate 0 sec0.51.86.60.60.60.3-2.6
Patch foraging water rate 12 sec0.10.30.8-0.7-0.1-0.1-0.9
Patch foraging water rate 18 sec0.10.20.80.30.10.3-0.9
Patch foraging water rate 24 sec0.30.50.9-0.10.80.5-0.9
Patch foraging water rate 6 sec0.40.61.6-0.80.0-0.4-1.3
Seeking ratio, delayed vs. immediate footshock0.40.61.00.20.80.91.0
Distance traveled before self-admin0.30.81.91.40.2-0.51.0
Distance traveled after self-admin0.61.12.11.10.70.61.4
Extensor digitorum longus weight0.52.14.32.0-0.3-0.0-2.1
Bone: elastic displacement0.50.60.8-0.70.60.9-0.9
Bone: elastic work0.71.02.2-0.31.51.2-0.4
Bone: endosteal estimation2.66.316.24.01.92.30.1
Bone: endosteal perimeter1.53.614.23.8-0.10.10.6
Epididymis fat weight2.512.844.1-6.61.20.4-2.3
Delta time in closed arm before/after self-admin0.30.30.5-0.30.60.7-0.5
Delta time in open arm before/after self-admin0.20.30.60.50.4-0.0-0.8
Diff in mean of infusions in LGA sessions1.73.05.0-1.0-2.2-2.01.5
Delay discount exponential model param1.92.53.70.0-1.7-1.91.9
Extinction: sum of active levers before priming1.32.03.8-1.0-1.1-1.41.9
Active lever presses in extinction session 61.41.44.1-2.00.2-0.41.2
Bone: final force1.32.25.0-0.72.21.7-0.7
Bone: final moment1.21.94.1-0.42.01.5-1.1
Food consumed during 24 hour testing period0.40.91.71.30.90.80.5
Glucose3.04.715.63.9-1.5-0.70.7
Heart weight1.93.15.30.42.12.3-1.5
Delay discount hyperbolic model param1.92.43.90.0-1.7-2.01.7
Intermittent access intake day 1-15 change0.00.00.20.0-0.0-0.00.4
Intermittent access intake escalation0.00.20.3-0.50.50.50.2
Intermittent access intake escalation 20.20.41.61.30.00.0-0.0
Intermitt. access day 1 inactive lever presses0.10.82.01.40.0-0.01.2
Intermitt. access day 15 inactive lever presses0.10.71.31.20.31.0-0.7
Intermitt. access escalation Index1.13.48.8-0.4-1.4-1.63.0
Intermittent access day 1 total infusions0.30.82.2-1.5-0.0-0.3-1.0
Intermittent access day 15 total infusions0.30.82.2-1.50.90.6-0.4
Intermittent access terminal intake (last 3 days)0.81.42.6-1.40.80.7-1.6
Intermittent access total infusions0.91.12.2-1.10.70.6-1.5
Intermittent access day 1 locomotion0.10.20.4-0.50.60.40.1
Intermittent access day 15 total locomotion0.62.24.60.32.12.0-0.4
Intermittent access total locomotion1.41.73.60.11.91.8-0.4
Intermittent access standard deviation0.63.29.7-0.31.40.9-3.1
Left kidney weight1.18.818.11.24.33.8-1.0
Right kidney weight1.712.223.01.64.84.6-1.6
Cocaine induced anxiety0.51.33.01.7-0.8-0.61.0
Post-drug Anxiety1.01.12.21.0-0.9-0.71.5
Baseline Anxiety0.81.43.6-1.9-0.8-0.80.8
Tail length2.212.017.14.14.13.7-0.4
Length with tail4.319.027.55.25.04.7-1.2
Length without tail1.910.117.02.93.94.1-0.3
Times rat made contact with spout1.61.83.1-1.8-1.4-1.50.1
Lifetime Intake0.91.22.2-1.01.00.7-1.5
Liver weight, left2.13.69.33.00.90.72.0
Liver weight, right2.95.010.03.22.02.40.8
Locomotor activity1.82.810.33.20.70.6-0.3
Locomotor testing distance0.61.64.82.2-0.3-0.0-1.2
Locomotor testing rearing0.30.93.21.80.60.20.3
Locomotion in novel chamber0.20.30.60.30.80.3-0.7
Locomotion in novel chamber post-restriction0.30.81.6-0.01.11.3-0.6
Fecal boli incidents, locomotor time 10.20.51.3-0.1-1.1-0.80.1
Change in fecal boli incidents, locomotor task1.01.02.40.21.31.60.1
Time >=10cm from walls, locomotor time 10.70.91.51.20.80.81.0
Bouts of movement, locomotor time 10.60.81.31.1-0.9-0.7-0.8
Total resting periods, locomotor time 10.30.41.21.1-0.4-0.2-0.4
Rest time, locomotor task time 10.61.01.51.20.81.01.0
Distance moved, locomotor task time 10.20.51.8-0.40.1-0.1-1.3
Vertical activity count, locomotor time 10.10.62.0-0.2-0.0-0.4-1.4
Time >=10cm from walls, locomotor time 20.20.61.01.00.70.8-0.3
Bouts of movement, locomotor time 20.41.43.01.71.30.70.4
Total resting periods, locomotor time 20.41.64.42.11.10.60.6
Rest time, locomotor task time 21.62.66.02.4-0.2-0.12.1
Distance moved, locomotor task time 21.31.84.0-1.50.70.6-2.0
Vertical activity count, locomotor time 20.10.30.8-0.90.1-0.3-0.6
Light reinforcement 10.10.40.9-0.70.40.3-1.0
Light reinforcement 21.22.74.61.02.02.1-1.2
Bone: marrow area2.56.015.53.91.92.20.1
Bone: maximum diameter1.12.18.52.90.30.20.2
Bone: maximum force1.02.04.8-0.02.21.6-0.8
Bone: maximum moment1.01.93.90.42.01.4-1.3
Mean time between licks in bursts0.31.76.82.6-0.10.20.3
Mean num. licks in bursts0.41.13.2-1.8-0.4-1.0-0.2
Cd content in liver0.60.72.2-0.7-0.1-0.3-1.5
Co content in liver0.80.91.9-1.40.50.6-1.1
Cu content in liver1.72.04.2-2.1-0.9-1.6-0.6
Fe content in liver0.81.01.7-1.31.01.1-0.1
K content in liver0.60.61.0-0.7-1.0-1.00.3
Mg content in liver0.70.81.10.8-1.0-0.90.8
Mn content in liver2.52.85.32.3-1.4-1.11.7
Na content in liver0.40.51.7-1.30.1-0.0-0.5
Rb content in liver0.30.41.1-0.3-0.7-1.0-0.2
Se content in liver1.21.45.12.30.30.50.6
Sr content in liver0.60.50.70.60.80.50.8
Zn content in liver0.30.30.50.7-0.4-0.7-0.5
Bone: minimum diameter1.32.59.13.00.50.40.8
Time in familiar zone, hab. session 12.32.64.6-2.1-1.6-1.80.4
Time in novel zone, hab. session 12.93.25.52.31.31.4-1.9
Total zone transitions, hab. session 10.50.71.7-0.1-1.3-1.1-0.2
Total locomotion distance, hab. session 10.40.51.0-0.5-1.0-1.00.1
Locomotion velocity, hab. session 10.40.60.7-0.8-0.8-0.80.5
Time in familiar zone, hab. session 20.91.01.3-1.0-0.7-1.21.0
Time in novel zone, hab. session 21.31.42.80.70.81.4-1.7
Total zone transitions, hab. session 20.10.20.5-0.7-0.5-0.20.1
Total locomotion distance, hab. session 20.71.01.9-0.8-1.4-1.10.3
Locomotion velocity, hab. session 20.91.22.2-0.8-1.5-1.40.5
Novel to familiar place preference ratio0.50.72.1-0.40.30.6-1.4
Novelty place preference0.70.92.3-0.20.60.9-1.5
Time in novel zone, NPP test1.01.22.90.00.81.2-1.7
Total zone transitions, NPP test0.71.02.00.1-1.4-1.1-0.8
Total locomotion distance, NPP test0.71.01.6-0.8-1.3-1.1-0.7
Locomotion velocity, NPP test1.21.73.1-1.0-1.8-1.6-0.3
Intraocular pressure0.30.40.70.0-0.8-0.8-0.6
Delta distance traveled before/after self-admin1.11.23.0-0.21.11.7-0.6
Delta ambulatory time before/after self-admin0.50.82.20.11.01.5-0.0
Parametrial fat weight0.51.22.80.11.71.4-0.0
Pavlov. Cond. lever latency1.62.06.0-2.50.8-0.1-1.1
Pavlov. Cond. magazine entry latency2.83.67.71.8-1.4-1.12.8
Pavlov. Cond. change in total contacts1.31.43.41.90.51.30.5
Pavlov. Cond. index score2.93.77.42.3-1.2-0.62.7
Pavlov. Cond. latency score2.53.26.02.4-1.0-0.42.5
Pavlov. Cond. lever contacts1.72.05.82.4-0.60.11.3
Pavlov. Cond. magazine entry number3.13.99.3-1.41.71.2-3.1
Pavlov. Cond. intertrial magazine entries1.01.22.8-1.7-0.2-0.5-1.3
Pavlov. Cond. lever-magazine prob. diff.3.03.87.72.2-1.4-0.82.8
Pavlov. Cond. response bias2.83.57.22.1-1.4-0.62.7
Pavlov. Cond. lever latency0.50.61.10.30.91.10.7
Pavlov. Cond. magazine entry latency0.10.20.30.60.50.40.1
Pavlov. Cond. change in total contacts0.10.20.8-0.20.30.3-0.9
Pavlov. Cond. index score0.10.10.30.4-0.1-0.2-0.5
Pavlov. Cond. latency score0.00.00.20.1-0.0-0.1-0.4
Pavlov. Cond. lever contacts0.30.50.8-0.2-0.7-0.8-0.9
Pavlov. Cond. magazine entry number0.20.30.5-0.3-0.5-0.60.7
Pavlov. Cond. intertrial magazine entries0.51.22.11.2-0.8-0.71.4
Pavlov. Cond. lever-magazine prob. diff.0.10.20.40.4-0.2-0.2-0.6
Pavlov. Cond. response bias0.20.30.40.5-0.6-0.5-0.6
Time in closed arm before self-admin0.10.10.3-0.5-0.1-0.20.3
Time in closed arm after self-admin1.11.32.3-1.51.21.1-0.3
Time in open arm before self-admin0.30.41.00.5-0.4-0.41.0
Time in open arm after self-admin0.80.91.51.2-0.7-0.90.9
Bone: periosteal estimation1.84.28.42.92.11.9-0.5
Bone: periosteal perimeter1.01.96.02.41.00.8-0.0
Bone: post-yield work1.22.17.92.8-0.5-0.60.1
Progressive ratio test 1 active lever presses0.40.72.2-1.50.70.3-0.0
Progressive ratio test 1 breakpoint0.40.72.1-1.40.70.4-0.1
Progressive ratio test 1 inactive lever presses0.61.53.5-1.9-0.1-0.4-1.6
Progressive ratio test 2 active lever presses0.60.83.2-1.80.2-0.2-0.0
Progressive ratio test 2 breakpoint0.70.93.6-1.90.2-0.10.0
Progressive ratio test 2 inactive lever presses0.10.20.5-0.30.50.4-0.7
Incentive Sensitization - Responses0.30.71.4-1.2-0.6-0.80.7
Incentive Sensitization - Breakpoint0.30.81.5-1.2-0.6-0.80.7
Sum of active levers in priming session hrs 5-60.30.30.80.0-0.4-0.40.9
Progressive ratio1.13.46.5-0.82.52.60.5
Food seeking constrained by brief footshock0.00.00.10.10.2-0.0-0.3
Seeking ratio, punishment vs. effort1.12.44.70.6-1.9-2.2-0.8
Retroperitoneal fat weight0.31.32.50.21.61.6-0.6
Reaction time number correct0.31.12.6-1.60.40.7-1.0
Reaction time mean minus median0.63.611.13.30.1-0.11.8
Reaction time mean minus median AUC0.32.28.22.9-0.0-0.10.7
Reaction time num false alarms0.10.10.50.7-0.00.2-0.2
Reaction time num false alarms AUC0.10.20.70.9-0.00.3-0.1
Reaction time trials correct on left0.31.12.6-1.60.40.7-1.0
Reaction time trials on left0.31.02.3-1.50.50.7-1.0
Reaction time mean1.63.411.63.4-0.8-0.71.0
Reaction time mean AUC1.43.311.93.5-0.6-0.50.7
Median of all reaction times1.52.37.62.8-0.9-0.80.6
Reaction time omissions1.62.56.62.6-0.10.11.9
Reaction time false alarm rate0.60.83.21.8-0.3-0.20.2
Reaction time premature initiation rate0.50.71.50.01.11.2-0.5
Reaction time premature initiations0.51.62.9-0.91.31.7-1.0
Std. dev. reaction times1.13.713.23.60.10.01.3
Reaction time trials completed0.31.02.3-1.50.50.7-1.0
Reaction time trials AUC0.31.02.4-1.50.40.7-0.9
Run reversals in cocaine runway, females0.60.72.0-0.6-0.4-0.7-1.4
Run reversals in cocaine runway, males2.12.35.82.41.11.30.5
Latency to leave start box in cocaine runway0.00.00.1-0.1-0.20.3-0.0
Latency to leave start box in cocaine runway, F0.30.41.20.3-1.1-0.6-0.1
Latency to leave start box in cocaine runway, M1.21.12.3-0.61.31.5-0.2
Std. dev. time between licks in bursts1.01.96.72.60.20.31.0
Total sessions with >9 infusions0.50.60.9-1.00.80.7-0.7
Short access day 1 total inactive lever presses0.51.11.71.21.31.00.2
Short access day 10 total inactive lever presses0.31.93.00.5-1.6-1.71.4
Short access day 1 total infusions0.10.20.7-0.4-0.0-0.1-0.8
Short access day 10 total infusions0.40.71.2-0.90.50.6-1.1
Short access total infusions0.71.02.0-0.90.80.7-1.4
Short access day 1 locomotion0.40.71.4-0.4-1.2-0.9-0.5
Short access day 10 total locomotion0.20.81.51.20.90.8-0.5
Short access total locomotion0.10.10.30.10.40.4-0.5
One hour access (0.3 mA shock)0.91.02.4-0.7-1.1-1.60.1
Compulsive drug intake3.14.58.40.6-2.3-2.02.9
One hour access (shock baseline)0.61.54.3-0.51.00.5-2.1
Social response proportion0.20.30.70.80.1-0.3-0.5
Social responses0.10.10.40.10.70.00.0
Social time1.93.06.82.2-0.0-0.52.6
Soleus weight1.54.417.34.20.10.40.3
Bone: stiffness0.20.40.6-0.80.70.20.4
Tibialis anterior weight0.41.33.0-1.5-0.20.0-1.7
Time to tail flick, vehicle, before self-admin2.73.411.30.3-1.0-1.13.4
Time to tail flick, vehicle, after self-admin0.71.44.50.4-0.5-0.92.1
Time to tail flick, test, before self-admin0.10.10.4-0.30.3-0.20.6
Time to tail flick, test, after self-admin1.41.55.60.40.2-0.62.4
Delta time to tail flick, vehicle, before/after SA0.80.93.1-0.50.20.1-1.8
Delta time to tail flick, test, before/after SA0.40.50.9-0.4-0.7-0.81.0
Tibia length1.74.77.92.82.22.40.7
Ambulatory time before self-admin0.10.40.80.70.2-0.40.9
Ambulatory time after self-admin0.71.12.60.80.80.61.6
Bone: tissue strength0.50.51.3-0.11.10.7-0.4
Total heroin consumption0.30.41.10.50.1-0.41.1
Bone: trabecular number0.71.31.6-1.3-1.2-1.2-0.9
Bone: trabecular spacing1.82.75.01.12.22.1-0.0
Bone: trabecular thickness0.91.22.1-0.8-1.4-1.4-0.5
Bone: trabecular tissue density0.71.22.0-0.01.21.1-1.4
Water consumed over 24 hours0.00.10.10.30.20.20.3
Number of responses in last shaping day0.50.71.40.70.30.8-1.2