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 2.9e-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 7.5e-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 2.5e-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 4.4e-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 density1.01.62.7-1.01.51.60.9
Area under the delay curve2.12.43.6-0.0-1.7-1.91.8
BMI with tail0.72.64.5-2.1-1.7-1.4-0.8
BMI without tail1.44.39.6-1.2-3.1-2.50.2
Body weight3.213.928.51.5-5.3-5.0-0.1
Weight adjusted by age1.82.83.11.5-1.7-1.71.8
Bone surface0.61.01.91.3-0.4-0.41.4
Bone volume0.40.83.00.3-0.2-0.11.7
Breakpoint value in progressive ratio session1.61.95.8-0.80.50.9-2.4
Number of licking bursts0.20.31.11.10.2-0.3-0.3
Context. condit. distance diff. score4.04.97.52.12.72.3-1.5
Locomotion velocity, session 10.20.20.90.90.20.0-0.0
Locomotion distance, session 10.70.91.3-1.21.01.0-0.2
Locomotion velocity, session 20.50.61.90.2-0.2-0.6-1.4
Locomotion distance, session 20.40.61.2-0.31.01.1-0.3
Locomotion velocity, session 30.40.51.3-1.20.1-0.2-0.7
Locomotion distance, session 31.11.22.4-0.51.51.4-0.6
Stereotopy head waving bouts, day 31.01.21.91.4-1.0-1.1-0.7
Stereotopy head waving duration, day 30.80.91.51.0-1.1-1.2-0.3
Locomotion velocity, session 72.12.36.10.32.51.70.3
Locomotion distance, session 72.02.55.7-0.52.42.00.3
Stereotopy head waving bouts, day 71.92.23.90.7-1.6-2.01.3
Stereotopy head waving duration, day 72.02.44.20.7-1.8-2.11.2
Locomotion velocity, session 82.02.48.93.0-0.2-0.5-0.7
Locomotion distance, session 82.43.55.21.62.32.3-1.2
Degree of sensitization distance0.30.31.01.00.2-0.00.4
Degree of sensitization stereotypy0.90.91.60.3-0.9-1.31.1
Conditioned locomotion1.41.73.80.2-1.7-2.0-0.2
Cocaine response after cond. corrected0.40.51.3-0.70.40.1-1.2
Cocaine response after cond. not corrected0.50.61.10.7-0.8-1.0-0.6
Cocaine response before conditioning5.16.17.42.3-2.7-2.72.2
Saline control response1.72.24.3-1.1-1.4-1.22.1
Bone: connectivity density1.32.03.9-0.12.02.00.6
Bone: cortical apparent density0.60.92.5-1.6-0.6-0.50.6
Bone: cortical area0.61.02.00.8-1.4-0.80.7
Bone: cortical porosity0.10.10.3-0.1-0.4-0.30.5
Bone: cortical porosity0.40.40.50.7-0.6-0.50.7
Bone: cortical thickness1.32.13.3-1.8-1.7-0.91.1
Bone: cortical thickness1.31.55.4-2.3-0.5-0.10.6
Bone: cortical tissue density0.50.72.1-1.4-0.5-0.50.5
Condit. Reinf. active minus inactive responses0.10.10.10.00.30.2-0.3
Condit. Reinf. active-inactive response ratio0.30.40.6-0.8-0.6-0.7-0.2
Condit. Reinf. active responses0.50.71.0-0.31.01.0-0.8
Condit. Reinf. inactive responses2.02.54.4-1.11.92.1-0.8
Incentive salience index mean1.01.22.80.90.90.7-1.7
Condit. Reinf. lever presses3.75.211.11.52.01.9-3.3
Condit. Reinf. active minus inactive responses0.81.11.40.9-1.2-1.20.9
Condit. Reinf. active-inactive response ratio1.61.93.51.1-1.6-1.90.4
Condit. Reinf. active responses0.10.20.30.60.20.40.4
Condit. Reinf. inactive responses0.71.02.4-0.21.11.6-0.1
Condit. Reinf. lever presses1.01.53.00.61.51.70.5
Condit. Reinf. lever reinforcers received0.20.30.50.70.40.60.2
Conditioned reinforcement - actives1.72.99.1-0.8-1.1-0.93.0
Conditioned reinforcement - inactives1.01.54.3-0.9-0.8-0.42.1
Conditioned locomotion0.81.13.50.2-0.6-0.51.9
Patch foraging indifference point 0 sec0.91.76.1-0.80.40.32.5
Patch foraging indifference point AUC1.01.53.30.5-1.8-1.30.9
Delay disc. indifference point, 0s delay1.01.02.10.6-1.2-1.4-0.7
Delay disc. indifference point, 16s delay2.83.16.6-1.7-1.3-1.12.6
Delay disc. indifference point, 2s delay1.82.04.50.6-1.7-2.10.4
Delay disc. indifference point, 24s delay1.31.43.7-0.3-0.8-1.11.9
Delay disc. indifference point, 4s delay3.03.25.70.8-2.3-2.41.0
Delay disc. indifference point, 8s delay0.91.13.80.1-0.4-0.62.0
Indifference point function ln k0.30.61.01.01.00.5-0.1
Indifference point function log k0.30.61.01.01.00.5-0.1
Patch foraging total patch changes 0 sec1.32.48.4-1.00.20.22.9
Patch foraging total patch changes 12 sec1.01.43.6-1.2-0.70.11.9
Patch foraging total patch changes 18 sec0.91.43.8-1.90.71.00.6
Patch foraging total patch changes 24 sec1.93.27.5-2.10.60.72.7
Patch foraging total patch changes 6 sec1.82.87.5-1.6-0.8-0.52.7
Patch foraging time to switch 0 sec0.61.23.5-1.90.50.3-1.0
Patch foraging water rate 0 sec0.91.96.80.6-0.6-0.32.6
Patch foraging water rate 12 sec0.20.30.8-0.70.10.10.9
Patch foraging water rate 18 sec0.20.20.80.3-0.1-0.30.9
Patch foraging water rate 24 sec0.30.50.9-0.1-0.8-0.50.9
Patch foraging water rate 6 sec0.40.61.6-0.8-0.00.41.3
Seeking ratio, delayed vs. immediate footshock0.50.61.00.2-0.8-0.9-1.0
Distance traveled before self-admin0.60.81.91.4-0.20.5-1.0
Distance traveled after self-admin0.91.12.21.1-0.7-0.6-1.5
Extensor digitorum longus weight0.52.14.32.00.30.02.1
Bone: elastic displacement0.50.60.7-0.7-0.6-0.90.9
Bone: elastic work0.71.02.2-0.3-1.5-1.20.4
Bone: endosteal estimation2.96.316.24.0-1.9-2.3-0.1
Bone: endosteal perimeter1.73.614.23.80.1-0.1-0.5
Epididymis fat weight3.712.844.1-6.6-1.2-0.42.3
Delta time in closed arm before/after self-admin0.30.30.5-0.3-0.6-0.70.6
Delta time in open arm before/after self-admin0.20.20.50.5-0.40.00.7
Diff in mean of infusions in LGA sessions2.53.05.0-1.02.22.0-1.5
Delay discount exponential model param2.22.53.70.01.71.9-1.8
Extinction: sum of active levers before priming1.82.03.8-1.01.11.4-2.0
Active lever presses in extinction session 61.41.44.1-2.0-0.20.4-1.2
Bone: final force1.42.25.0-0.7-2.2-1.70.7
Bone: final moment1.21.94.1-0.4-2.0-1.51.1
Food consumed during 24 hour testing period0.60.91.71.3-0.9-0.8-0.5
Glucose3.04.715.63.91.50.7-0.7
Heart weight2.03.15.30.4-2.1-2.31.5
Delay discount hyperbolic model param2.22.43.90.01.72.0-1.7
Intermittent access intake day 1-15 change0.00.00.20.00.00.0-0.4
Intermittent access intake escalation0.10.20.3-0.5-0.5-0.5-0.2
Intermittent access intake escalation 20.40.41.61.3-0.0-0.00.0
Intermitt. access day 1 inactive lever presses0.20.92.01.4-0.00.0-1.2
Intermitt. access day 15 inactive lever presses0.40.71.31.2-0.3-1.00.7
Intermitt. access escalation Index2.43.48.8-0.41.41.6-3.0
Intermittent access day 1 total infusions0.50.82.2-1.50.00.31.0
Intermittent access day 15 total infusions0.60.82.2-1.5-0.9-0.60.4
Intermittent access terminal intake (last 3 days)1.11.42.6-1.4-0.8-0.71.6
Intermittent access total infusions0.91.12.2-1.1-0.7-0.61.5
Intermittent access day 1 locomotion0.20.20.4-0.5-0.6-0.4-0.1
Intermittent access day 15 total locomotion1.22.24.60.3-2.1-2.00.3
Intermittent access total locomotion1.41.73.60.1-1.9-1.80.4
Intermittent access standard deviation1.53.29.7-0.3-1.4-0.93.1
Left kidney weight1.98.818.11.2-4.3-3.81.0
Right kidney weight2.712.123.01.6-4.8-4.61.5
Cocaine induced anxiety0.91.33.01.70.80.6-1.0
Post-drug Anxiety1.11.12.21.00.90.7-1.5
Baseline Anxiety1.21.33.6-1.90.80.8-0.7
Tail length3.112.017.14.1-4.1-3.70.4
Length with tail4.419.027.55.2-5.0-4.71.1
Length without tail3.110.117.02.9-3.9-4.10.2
Times rat made contact with spout1.61.83.1-1.81.41.5-0.2
Lifetime Intake1.01.22.2-1.0-1.0-0.71.5
Liver weight, left2.23.79.33.0-0.9-0.7-2.0
Liver weight, right2.95.110.03.2-2.0-2.4-0.9
Locomotor activity1.82.810.33.2-0.7-0.60.3
Locomotor testing distance0.91.64.82.20.30.01.2
Locomotor testing rearing0.50.93.21.8-0.6-0.2-0.3
Locomotion in novel chamber0.20.30.60.3-0.8-0.30.7
Locomotion in novel chamber post-restriction0.50.81.6-0.0-1.1-1.30.6
Fecal boli incidents, locomotor time 10.30.51.3-0.11.10.8-0.1
Change in fecal boli incidents, locomotor task1.01.02.40.2-1.3-1.6-0.2
Time >=10cm from walls, locomotor time 10.90.91.51.2-0.8-0.8-1.0
Bouts of movement, locomotor time 10.70.81.31.10.90.70.8
Total resting periods, locomotor time 10.40.41.21.10.40.20.4
Rest time, locomotor task time 10.81.11.51.2-0.8-1.0-1.0
Distance moved, locomotor task time 10.30.51.9-0.4-0.10.11.4
Vertical activity count, locomotor time 10.20.62.1-0.20.00.41.4
Time >=10cm from walls, locomotor time 20.40.61.01.0-0.7-0.80.2
Bouts of movement, locomotor time 20.91.43.01.7-1.3-0.7-0.4
Total resting periods, locomotor time 20.91.64.42.1-1.1-0.6-0.7
Rest time, locomotor task time 22.12.66.02.40.20.1-2.1
Distance moved, locomotor task time 21.51.84.2-1.5-0.7-0.62.1
Vertical activity count, locomotor time 20.20.30.8-0.9-0.10.30.7
Light reinforcement 10.20.40.9-0.7-0.4-0.31.0
Light reinforcement 21.82.74.61.0-2.0-2.11.2
Bone: marrow area2.86.015.53.9-1.9-2.2-0.2
Bone: maximum diameter1.22.18.52.9-0.3-0.2-0.2
Bone: maximum force1.12.04.8-0.0-2.2-1.60.7
Bone: maximum moment1.11.93.90.4-2.0-1.41.2
Mean time between licks in bursts0.71.76.82.60.1-0.2-0.4
Mean num. licks in bursts0.71.13.2-1.80.41.00.3
Cd content in liver0.60.72.2-0.70.10.31.5
Co content in liver0.80.91.9-1.4-0.5-0.61.1
Cu content in liver1.72.04.2-2.10.91.60.6
Fe content in liver0.81.01.7-1.3-1.0-1.10.1
K content in liver0.70.61.0-0.71.01.0-0.3
Mg content in liver0.80.81.10.81.00.9-0.8
Mn content in liver2.52.85.32.31.41.1-1.7
Na content in liver0.50.51.7-1.3-0.10.00.5
Rb content in liver0.40.41.1-0.30.71.00.2
Se content in liver1.21.45.12.3-0.3-0.5-0.6
Sr content in liver0.60.50.70.6-0.8-0.5-0.8
Zn content in liver0.30.30.50.70.40.70.5
Bone: minimum diameter1.42.59.13.0-0.5-0.4-0.8
Time in familiar zone, hab. session 12.72.64.6-2.11.61.8-0.4
Time in novel zone, hab. session 13.23.25.52.3-1.3-1.41.9
Total zone transitions, hab. session 10.50.71.7-0.11.31.10.2
Total locomotion distance, hab. session 10.40.51.0-0.51.01.0-0.1
Locomotion velocity, hab. session 10.40.60.7-0.80.80.8-0.5
Time in familiar zone, hab. session 20.91.01.3-1.00.71.2-1.0
Time in novel zone, hab. session 21.41.42.80.7-0.8-1.41.7
Total zone transitions, hab. session 20.10.20.5-0.70.50.2-0.1
Total locomotion distance, hab. session 20.71.01.9-0.81.41.1-0.2
Locomotion velocity, hab. session 20.91.22.2-0.81.51.4-0.5
Novel to familiar place preference ratio0.60.72.1-0.4-0.3-0.61.4
Novelty place preference0.80.92.3-0.2-0.6-0.91.5
Time in novel zone, NPP test1.11.22.90.0-0.8-1.21.7
Total zone transitions, NPP test0.71.02.00.11.41.10.9
Total locomotion distance, NPP test0.71.01.6-0.81.31.10.7
Locomotion velocity, NPP test1.21.73.1-1.01.81.60.3
Intraocular pressure0.30.40.70.00.80.80.6
Delta distance traveled before/after self-admin1.11.23.0-0.2-1.1-1.70.6
Delta ambulatory time before/after self-admin0.60.82.20.1-1.0-1.50.0
Parametrial fat weight0.51.22.80.1-1.7-1.40.0
Pavlov. Cond. lever latency1.62.06.0-2.5-0.80.11.1
Pavlov. Cond. magazine entry latency2.83.67.71.81.41.1-2.8
Pavlov. Cond. change in total contacts1.31.43.41.9-0.5-1.3-0.5
Pavlov. Cond. index score2.93.77.32.31.20.6-2.7
Pavlov. Cond. latency score2.53.26.02.41.00.4-2.4
Pavlov. Cond. lever contacts1.72.05.82.40.6-0.1-1.3
Pavlov. Cond. magazine entry number3.13.99.3-1.4-1.7-1.23.1
Pavlov. Cond. intertrial magazine entries1.01.22.8-1.70.20.51.3
Pavlov. Cond. lever-magazine prob. diff.3.03.87.72.21.40.8-2.8
Pavlov. Cond. response bias2.83.57.22.11.40.6-2.7
Pavlov. Cond. lever latency0.50.61.10.3-0.9-1.1-0.7
Pavlov. Cond. magazine entry latency0.20.20.30.6-0.5-0.4-0.1
Pavlov. Cond. change in total contacts0.20.20.8-0.2-0.3-0.30.9
Pavlov. Cond. index score0.10.10.20.40.10.20.5
Pavlov. Cond. latency score0.00.00.10.10.00.10.4
Pavlov. Cond. lever contacts0.40.50.8-0.20.70.80.9
Pavlov. Cond. magazine entry number0.20.30.4-0.30.50.6-0.7
Pavlov. Cond. intertrial magazine entries0.81.12.01.20.80.7-1.4
Pavlov. Cond. lever-magazine prob. diff.0.10.20.40.40.20.20.6
Pavlov. Cond. response bias0.20.30.40.50.60.50.6
Time in closed arm before self-admin0.10.10.3-0.50.10.2-0.3
Time in closed arm after self-admin1.21.32.3-1.5-1.2-1.10.3
Time in open arm before self-admin0.40.40.90.50.40.4-1.0
Time in open arm after self-admin0.80.91.51.20.70.9-0.9
Bone: periosteal estimation2.04.28.42.9-2.1-1.90.5
Bone: periosteal perimeter1.11.96.02.4-1.0-0.80.0
Bone: post-yield work1.42.17.92.80.50.6-0.0
Progressive ratio test 1 active lever presses0.60.72.2-1.5-0.7-0.30.0
Progressive ratio test 1 breakpoint0.60.72.1-1.4-0.7-0.40.1
Progressive ratio test 1 inactive lever presses1.11.53.5-1.90.10.41.6
Progressive ratio test 2 active lever presses0.70.83.2-1.8-0.20.20.0
Progressive ratio test 2 breakpoint0.80.93.6-1.9-0.20.1-0.0
Progressive ratio test 2 inactive lever presses0.10.20.5-0.3-0.5-0.40.7
Incentive Sensitization - Responses0.50.71.4-1.20.60.8-0.7
Incentive Sensitization - Breakpoint0.60.81.5-1.20.60.8-0.7
Sum of active levers in priming session hrs 5-60.30.30.80.00.40.4-0.9
Progressive ratio2.23.46.5-0.8-2.5-2.6-0.5
Food seeking constrained by brief footshock0.00.00.10.1-0.20.00.3
Seeking ratio, punishment vs. effort1.72.44.70.61.92.20.8
Retroperitoneal fat weight0.31.32.50.2-1.6-1.60.6
Reaction time number correct0.61.12.6-1.6-0.4-0.71.1
Reaction time mean minus median1.53.711.13.3-0.10.1-1.9
Reaction time mean minus median AUC0.92.28.22.90.00.1-0.8
Reaction time num false alarms0.10.10.50.70.0-0.20.1
Reaction time num false alarms AUC0.10.20.70.90.0-0.30.1
Reaction time trials correct on left0.61.12.6-1.6-0.4-0.71.1
Reaction time trials on left0.51.02.3-1.5-0.5-0.71.0
Reaction time mean2.23.411.63.40.80.7-1.0
Reaction time mean AUC2.13.311.93.50.60.5-0.8
Median of all reaction times1.72.47.62.80.90.8-0.6
Reaction time omissions1.72.66.62.60.1-0.1-1.9
Reaction time false alarm rate0.60.83.21.80.30.2-0.2
Reaction time premature initiation rate0.50.71.50.0-1.1-1.20.5
Reaction time premature initiations0.91.62.9-0.9-1.3-1.71.0
Std. dev. reaction times2.03.713.23.6-0.1-0.0-1.3
Reaction time trials completed0.51.02.3-1.5-0.5-0.71.0
Reaction time trials AUC0.51.02.4-1.5-0.4-0.71.0
Run reversals in cocaine runway, females0.70.72.0-0.60.40.71.4
Run reversals in cocaine runway, males2.32.35.82.4-1.1-1.3-0.6
Latency to leave start box in cocaine runway0.00.00.1-0.10.2-0.30.1
Latency to leave start box in cocaine runway, F0.40.41.20.31.10.60.2
Latency to leave start box in cocaine runway, M1.21.12.3-0.6-1.3-1.50.2
Std. dev. time between licks in bursts1.41.96.72.6-0.2-0.3-0.9
Total sessions with >9 infusions0.50.60.9-1.0-0.8-0.70.7
Short access day 1 total inactive lever presses0.81.11.71.2-1.3-1.0-0.2
Short access day 10 total inactive lever presses0.81.93.00.51.61.7-1.4
Short access day 1 total infusions0.20.20.7-0.40.00.10.8
Short access day 10 total infusions0.50.71.2-0.9-0.5-0.61.1
Short access total infusions0.81.02.0-0.9-0.8-0.71.4
Short access day 1 locomotion0.50.71.4-0.41.20.90.5
Short access day 10 total locomotion0.40.81.51.2-0.9-0.80.5
Short access total locomotion0.10.10.20.1-0.4-0.40.5
One hour access (0.3 mA shock)0.91.02.4-0.71.11.6-0.1
Compulsive drug intake3.84.68.50.62.32.0-2.9
One hour access (shock baseline)1.01.54.4-0.5-1.0-0.52.1
Social response proportion0.20.30.70.8-0.10.30.5
Social responses0.10.10.40.1-0.7-0.0-0.0
Social time2.33.17.12.20.00.5-2.7
Soleus weight1.54.417.34.2-0.1-0.4-0.4
Bone: stiffness0.20.40.6-0.8-0.7-0.2-0.4
Tibialis anterior weight0.41.33.0-1.50.2-0.01.7
Time to tail flick, vehicle, before self-admin3.23.311.00.31.01.1-3.3
Time to tail flick, vehicle, after self-admin1.11.44.50.40.50.9-2.1
Time to tail flick, test, before self-admin0.10.10.3-0.3-0.30.2-0.6
Time to tail flick, test, after self-admin1.51.55.50.4-0.20.6-2.4
Delta time to tail flick, vehicle, before/after SA0.90.83.0-0.5-0.2-0.11.7
Delta time to tail flick, test, before/after SA0.50.50.9-0.40.70.8-1.0
Tibia length1.74.77.92.8-2.2-2.4-0.7
Ambulatory time before self-admin0.30.40.80.7-0.20.4-0.9
Ambulatory time after self-admin0.91.12.70.8-0.8-0.6-1.7
Bone: tissue strength0.50.51.3-0.1-1.1-0.70.4
Total heroin consumption0.30.41.20.5-0.10.4-1.1
Bone: trabecular number0.81.31.6-1.31.21.20.9
Bone: trabecular spacing2.02.65.01.1-2.2-2.10.0
Bone: trabecular thickness0.91.22.1-0.81.41.40.5
Bone: trabecular tissue density0.81.22.0-0.0-1.2-1.11.4
Water consumed over 24 hours0.10.10.10.3-0.2-0.2-0.4
Number of responses in last shaping day0.60.71.50.7-0.3-0.81.2