RGD1562683

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 RGD1562683 0.07 0.04 4.8e-07 0.07 0.07 0.06 0.07 7.5e-07 6.8e-07 6.0e-06 8.5e-07
2 PL gene expression RGD1562683 0.03 0.02 9.7e-03 0.01 0.01 0 0 4.1e-02 6.0e-02 1.9e-01 2.4e-01
3 Adipose gene expression RGD1562683 0.03 0.02 4.9e-04 0.03 0.02 0.02 0.02 3.0e-04 1.9e-03 1.6e-03 9.9e-04

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 density0.10.10.4-0.60.2-0.0
Area under the delay curve0.70.81.8-0.21.30.8
BMI with tail0.41.32.8-1.7-0.60.9
BMI without tail0.10.20.3-0.50.5-0.2
Body weight0.00.10.2-0.30.50.1
Weight adjusted by age0.71.01.51.11.2-0.6
Bone surface4.58.29.7-3.1-2.43.0
Bone volume2.34.15.6-2.4-1.62.1
Breakpoint value in progressive ratio session0.30.30.6-0.0-0.80.6
Number of licking bursts0.40.71.10.31.1-0.9
Context. condit. distance diff. score0.20.20.50.20.20.7
Locomotion velocity, session 10.10.10.2-0.1-0.40.1
Locomotion distance, session 11.01.22.1-0.6-1.11.4
Locomotion velocity, session 20.10.20.3-0.0-0.60.4
Locomotion distance, session 20.10.10.3-0.00.30.6
Locomotion velocity, session 34.34.88.4-1.8-2.91.8
Locomotion distance, session 31.01.11.8-1.4-0.90.7
Stereotopy head waving bouts, day 31.31.53.3-0.4-1.8-1.0
Stereotopy head waving duration, day 30.81.02.3-0.4-1.5-0.7
Locomotion velocity, session 71.01.11.21.11.0-1.1
Locomotion distance, session 71.01.32.60.91.6-0.7
Stereotopy head waving bouts, day 72.12.46.1-0.9-2.50.6
Stereotopy head waving duration, day 72.02.45.5-0.8-2.31.0
Locomotion velocity, session 82.93.55.4-1.7-2.31.6
Locomotion distance, session 80.20.41.00.00.21.0
Degree of sensitization distance1.71.82.41.61.5-0.9
Degree of sensitization stereotypy2.62.84.7-1.2-2.21.5
Conditioned locomotion0.91.01.51.20.8-0.9
Cocaine response after cond. corrected0.10.20.30.6-0.40.0
Cocaine response after cond. not corrected0.10.20.50.7-0.10.0
Cocaine response before conditioning0.10.10.2-0.10.30.4
Saline control response1.52.02.6-1.0-1.61.6
Bone: connectivity density0.91.52.5-1.6-0.71.2
Bone: cortical apparent density0.00.00.00.10.2-0.0
Bone: cortical area0.30.40.9-0.0-1.00.5
Bone: cortical porosity0.70.81.30.81.1-0.6
Bone: cortical porosity0.60.60.90.81.0-0.5
Bone: cortical thickness1.62.74.62.10.9-1.6
Bone: cortical thickness0.40.50.80.90.7-0.5
Bone: cortical tissue density0.00.00.00.00.2-0.0
Condit. Reinf. active minus inactive responses0.00.00.10.30.0-0.2
Condit. Reinf. active-inactive response ratio0.30.30.60.80.1-0.6
Condit. Reinf. active responses0.00.00.10.20.10.3
Condit. Reinf. inactive responses0.10.10.1-0.2-0.30.4
Incentive salience index mean0.10.20.30.50.5-0.2
Condit. Reinf. lever presses0.30.40.60.80.7-0.2
Condit. Reinf. active minus inactive responses1.01.33.0-0.7-0.61.7
Condit. Reinf. active-inactive response ratio0.40.41.0-0.40.41.0
Condit. Reinf. active responses1.62.23.0-0.9-1.71.7
Condit. Reinf. inactive responses1.51.94.2-0.7-2.01.0
Condit. Reinf. lever presses0.91.31.8-0.8-1.41.2
Condit. Reinf. lever reinforcers received1.82.53.3-1.1-1.81.8
Conditioned reinforcement - actives1.11.93.21.21.8-1.0
Conditioned reinforcement - inactives2.94.37.92.80.9-2.0
Conditioned locomotion0.30.30.90.90.1-0.3
Patch foraging indifference point 0 sec1.01.93.51.90.3-1.4
Patch foraging indifference point AUC0.91.41.9-0.7-1.41.3
Delay disc. indifference point, 0s delay0.60.60.8-0.50.90.9
Delay disc. indifference point, 16s delay0.10.10.4-0.20.6-0.0
Delay disc. indifference point, 2s delay0.40.40.7-0.70.80.4
Delay disc. indifference point, 24s delay0.80.91.71.01.3-0.3
Delay disc. indifference point, 4s delay0.80.91.4-0.60.91.2
Delay disc. indifference point, 8s delay0.70.82.00.41.40.4
Indifference point function ln k1.01.72.41.51.5-0.8
Indifference point function log k1.01.72.41.51.5-0.8
Patch foraging total patch changes 0 sec0.71.32.61.60.1-1.2
Patch foraging total patch changes 12 sec0.70.92.5-0.1-1.60.5
Patch foraging total patch changes 18 sec0.40.61.4-0.0-1.20.6
Patch foraging total patch changes 24 sec0.40.71.5-0.2-0.81.2
Patch foraging total patch changes 6 sec0.71.13.10.4-1.8-0.3
Patch foraging time to switch 0 sec0.10.20.5-0.70.30.0
Patch foraging water rate 0 sec0.71.43.3-0.8-1.80.5
Patch foraging water rate 12 sec0.71.52.31.50.9-1.1
Patch foraging water rate 18 sec0.10.20.5-0.7-0.30.1
Patch foraging water rate 24 sec0.20.30.50.60.70.2
Patch foraging water rate 6 sec0.00.00.10.30.10.3
Seeking ratio, delayed vs. immediate footshock0.81.01.70.01.1-1.3
Distance traveled before self-admin0.20.30.80.0-0.90.2
Distance traveled after self-admin0.40.50.7-0.90.70.4
Extensor digitorum longus weight3.915.320.3-4.5-3.83.4
Bone: elastic displacement0.50.61.10.60.6-1.0
Bone: elastic work0.10.10.30.2-0.2-0.5
Bone: endosteal estimation3.78.110.2-3.2-2.13.1
Bone: endosteal perimeter2.34.86.3-2.0-2.02.5
Epididymis fat weight0.62.04.3-1.0-0.92.1
Delta time in closed arm before/after self-admin0.70.61.2-0.81.10.2
Delta time in open arm before/after self-admin0.40.40.7-0.7-0.80.3
Diff in mean of infusions in LGA sessions1.62.03.9-0.3-2.01.4
Delay discount exponential model param0.70.71.70.2-1.3-0.7
Extinction: sum of active levers before priming0.40.40.70.3-0.90.6
Active lever presses in extinction session 61.41.41.61.3-1.1-1.2
Bone: final force0.50.71.2-0.5-1.10.8
Bone: final moment0.50.81.3-0.5-1.10.9
Food consumed during 24 hour testing period0.50.71.01.00.4-0.9
Glucose5.28.29.9-2.7-3.12.7
Heart weight0.10.10.4-0.10.7-0.0
Delay discount hyperbolic model param0.70.81.70.3-1.3-0.8
Intermittent access intake day 1-15 change0.61.22.11.50.1-1.2
Intermittent access intake escalation0.50.91.81.30.2-1.0
Intermittent access intake escalation 20.30.40.80.9-0.6-0.2
Intermitt. access day 1 inactive lever presses0.83.25.02.21.6-1.4
Intermitt. access day 15 inactive lever presses0.61.23.41.8-0.5-0.3
Intermitt. access escalation Index0.40.50.80.80.9-0.4
Intermittent access day 1 total infusions0.91.52.01.41.1-1.2
Intermittent access day 15 total infusions2.33.46.42.50.8-1.8
Intermittent access terminal intake (last 3 days)2.02.75.62.41.0-1.2
Intermittent access total infusions2.22.64.42.11.1-1.6
Intermittent access day 1 locomotion2.12.73.91.82.0-1.1
Intermittent access day 15 total locomotion0.71.23.21.8-0.4-0.5
Intermittent access total locomotion2.63.17.12.70.9-1.1
Intermittent access standard deviation0.30.60.90.8-1.0-0.6
Left kidney weight2.210.416.43.04.1-2.5
Right kidney weight2.19.710.43.13.2-3.0
Cocaine induced anxiety0.20.20.40.6-0.2-0.5
Post-drug Anxiety0.50.50.9-0.0-0.71.0
Baseline Anxiety0.30.40.5-0.50.70.6
Tail length1.34.97.02.61.6-2.2
Length with tail0.31.41.91.41.3-0.8
Length without tail0.10.20.4-0.1-0.40.7
Times rat made contact with spout8.19.313.43.72.4-2.9
Lifetime Intake1.62.02.31.51.2-1.5
Liver weight, left6.09.910.43.13.2-3.1
Liver weight, right2.74.75.91.72.3-2.4
Locomotor activity2.03.14.91.92.2-0.9
Locomotor testing distance0.71.31.51.21.2-1.0
Locomotor testing rearing0.30.71.60.61.3-0.2
Locomotion in novel chamber0.10.10.30.5-0.1-0.2
Locomotion in novel chamber post-restriction0.10.20.6-0.7-0.20.1
Fecal boli incidents, locomotor time 10.30.51.40.11.20.2
Change in fecal boli incidents, locomotor task1.81.82.91.71.3-0.8
Time >=10cm from walls, locomotor time 10.40.41.21.10.2-0.1
Bouts of movement, locomotor time 10.10.10.2-0.1-0.50.1
Total resting periods, locomotor time 10.10.10.20.1-0.40.2
Rest time, locomotor task time 11.21.53.6-0.90.31.9
Distance moved, locomotor task time 10.81.23.20.60.1-1.8
Vertical activity count, locomotor time 10.20.61.1-0.0-0.8-1.0
Time >=10cm from walls, locomotor time 20.20.30.6-0.8-0.50.4
Bouts of movement, locomotor time 21.82.95.9-1.1-1.22.4
Total resting periods, locomotor time 20.91.54.0-0.4-0.62.0
Rest time, locomotor task time 20.30.40.60.80.40.6
Distance moved, locomotor task time 20.40.50.9-0.9-0.4-0.7
Vertical activity count, locomotor time 20.60.92.1-1.5-0.60.2
Light reinforcement 10.20.61.0-0.80.41.0
Light reinforcement 23.75.77.7-2.6-1.72.8
Bone: marrow area4.08.810.8-3.3-2.23.3
Bone: maximum diameter1.32.53.0-1.2-1.71.7
Bone: maximum force0.40.71.5-0.7-1.20.6
Bone: maximum moment0.40.71.2-0.6-1.10.7
Mean time between licks in bursts1.22.93.61.71.5-1.9
Mean num. licks in bursts0.71.02.51.6-0.0-0.7
Cd content in liver0.60.71.4-1.2-0.80.3
Co content in liver0.30.40.7-0.50.50.8
Cu content in liver0.30.30.50.60.4-0.7
Fe content in liver0.40.50.90.5-1.0-0.6
K content in liver0.20.20.5-0.7-0.10.3
Mg content in liver0.30.30.7-0.8-0.20.5
Mn content in liver0.60.61.3-0.8-0.21.1
Na content in liver4.14.44.7-1.9-2.22.2
Rb content in liver0.60.71.20.61.1-0.8
Se content in liver0.70.81.70.90.2-1.3
Sr content in liver1.31.11.71.01.3-0.8
Zn content in liver0.00.00.10.10.0-0.3
Bone: minimum diameter4.37.88.9-2.9-3.02.5
Time in familiar zone, hab. session 10.10.10.3-0.10.10.6
Time in novel zone, hab. session 10.30.30.6-0.8-0.6-0.3
Total zone transitions, hab. session 10.71.01.51.21.2-0.4
Total locomotion distance, hab. session 11.01.41.71.31.3-0.9
Locomotion velocity, hab. session 11.11.51.91.31.4-0.9
Time in familiar zone, hab. session 21.21.33.0-0.9-0.21.7
Time in novel zone, hab. session 20.90.92.20.60.2-1.5
Total zone transitions, hab. session 20.50.71.20.71.10.6
Total locomotion distance, hab. session 21.52.04.11.32.0-0.4
Locomotion velocity, hab. session 21.41.83.81.22.0-0.3
Novel to familiar place preference ratio0.20.20.6-0.20.1-0.8
Novelty place preference0.20.20.4-0.60.0-0.5
Time in novel zone, NPP test0.20.20.6-0.7-0.1-0.3
Total zone transitions, NPP test0.20.20.60.30.10.8
Total locomotion distance, NPP test0.20.20.50.40.7-0.2
Locomotion velocity, NPP test0.30.40.70.60.8-0.3
Intraocular pressure0.10.10.2-0.50.1-0.4
Delta distance traveled before/after self-admin1.41.53.5-0.81.90.5
Delta ambulatory time before/after self-admin1.31.63.6-0.91.90.5
Parametrial fat weight3.27.515.1-3.9-1.32.4
Pavlov. Cond. lever latency0.00.00.1-0.30.0-0.1
Pavlov. Cond. magazine entry latency0.50.70.70.80.8-0.8
Pavlov. Cond. change in total contacts0.10.10.20.40.5-0.2
Pavlov. Cond. index score0.10.10.20.40.3-0.4
Pavlov. Cond. latency score0.20.20.20.50.5-0.4
Pavlov. Cond. lever contacts0.00.10.10.3-0.30.0
Pavlov. Cond. magazine entry number0.20.20.3-0.3-0.50.5
Pavlov. Cond. intertrial magazine entries3.33.98.8-1.2-3.01.2
Pavlov. Cond. lever-magazine prob. diff.0.10.10.10.30.2-0.3
Pavlov. Cond. response bias0.20.20.30.60.2-0.5
Pavlov. Cond. lever latency1.11.52.31.01.2-1.5
Pavlov. Cond. magazine entry latency0.10.10.20.4-0.10.4
Pavlov. Cond. change in total contacts0.71.21.9-1.0-0.81.4
Pavlov. Cond. index score0.30.40.6-0.0-0.80.7
Pavlov. Cond. latency score0.10.20.40.2-0.30.6
Pavlov. Cond. lever contacts1.31.82.4-1.1-1.31.6
Pavlov. Cond. magazine entry number0.10.20.50.10.0-0.7
Pavlov. Cond. intertrial magazine entries0.30.40.9-0.5-1.00.4
Pavlov. Cond. lever-magazine prob. diff.0.20.30.50.1-0.60.7
Pavlov. Cond. response bias1.11.52.0-1.0-1.31.4
Time in closed arm before self-admin0.50.61.4-0.6-0.31.2
Time in closed arm after self-admin2.32.53.3-1.81.61.2
Time in open arm before self-admin0.10.10.20.10.4-0.2
Time in open arm after self-admin1.01.13.1-0.2-1.80.3
Bone: periosteal estimation1.83.84.1-1.9-2.02.0
Bone: periosteal perimeter0.91.62.4-0.9-1.51.3
Bone: post-yield work0.71.02.2-0.7-1.50.6
Progressive ratio test 1 active lever presses2.83.53.91.82.0-1.8
Progressive ratio test 1 breakpoint2.63.23.71.71.9-1.7
Progressive ratio test 1 inactive lever presses2.94.25.62.41.4-2.3
Progressive ratio test 2 active lever presses3.84.47.02.71.1-2.3
Progressive ratio test 2 breakpoint3.64.16.62.61.0-2.2
Progressive ratio test 2 inactive lever presses2.54.010.33.20.4-1.3
Incentive Sensitization - Responses1.31.83.81.9-0.2-1.3
Incentive Sensitization - Breakpoint1.51.94.22.0-0.2-1.2
Sum of active levers in priming session hrs 5-60.50.40.80.6-0.9-0.3
Progressive ratio0.20.20.5-0.4-0.70.1
Food seeking constrained by brief footshock1.11.32.21.00.8-1.5
Seeking ratio, punishment vs. effort0.60.81.00.90.8-1.0
Retroperitoneal fat weight1.87.612.7-3.6-1.62.8
Reaction time number correct0.00.10.20.0-0.50.1
Reaction time mean minus median0.20.51.51.20.4-0.0
Reaction time mean minus median AUC0.20.40.90.9-0.40.4
Reaction time num false alarms2.43.35.21.71.4-2.3
Reaction time num false alarms AUC2.13.34.11.51.8-2.0
Reaction time trials correct on left0.00.10.20.0-0.50.1
Reaction time trials on left0.10.10.3-0.0-0.50.2
Reaction time mean0.00.00.0-0.1-0.0-0.2
Reaction time mean AUC0.00.00.00.2-0.2-0.2
Median of all reaction times0.10.10.4-0.6-0.1-0.1
Reaction time omissions0.10.10.30.10.20.5
Reaction time false alarm rate2.33.24.01.41.9-2.0
Reaction time premature initiation rate1.31.83.5-1.3-0.41.9
Reaction time premature initiations0.81.53.0-1.0-0.71.7
Std. dev. reaction times0.30.51.21.10.5-0.4
Reaction time trials completed0.10.10.3-0.0-0.50.2
Reaction time trials AUC0.10.30.6-0.3-0.70.3
Run reversals in cocaine runway, females0.70.71.61.30.7-0.2
Run reversals in cocaine runway, males0.20.20.30.3-0.10.6
Latency to leave start box in cocaine runway0.20.30.4-0.20.60.6
Latency to leave start box in cocaine runway, F0.30.30.9-0.11.00.1
Latency to leave start box in cocaine runway, M0.40.41.0-0.1-0.31.0
Std. dev. time between licks in bursts0.50.61.41.2-0.1-0.7
Total sessions with >9 infusions0.70.91.50.60.8-1.2
Short access day 1 total inactive lever presses1.41.83.01.70.2-1.6
Short access day 10 total inactive lever presses0.10.20.60.1-0.7-0.3
Short access day 1 total infusions1.11.43.20.50.9-1.8
Short access day 10 total infusions0.60.71.20.11.0-1.1
Short access total infusions0.70.91.50.41.0-1.2
Short access day 1 locomotion1.72.13.31.21.2-1.8
Short access day 10 total locomotion0.20.30.9-0.00.31.0
Short access total locomotion0.20.20.40.50.60.1
One hour access (0.3 mA shock)1.92.24.82.20.4-1.3
Compulsive drug intake0.70.81.2-1.0-0.51.1
One hour access (shock baseline)2.43.66.72.60.3-2.0
Social response proportion0.80.91.81.01.3-0.3
Social responses0.70.92.40.61.5-0.2
Social time0.10.10.2-0.2-0.10.5
Soleus weight1.23.75.8-1.8-1.42.4
Bone: stiffness0.00.10.20.0-0.5-0.1
Tibialis anterior weight7.124.232.6-5.7-4.74.2
Time to tail flick, vehicle, before self-admin2.42.45.71.30.2-2.4
Time to tail flick, vehicle, after self-admin0.60.81.3-0.9-0.51.2
Time to tail flick, test, before self-admin1.81.84.60.82.1-0.5
Time to tail flick, test, after self-admin0.90.92.50.41.60.1
Delta time to tail flick, vehicle, before/after SA2.22.14.7-1.1-0.62.2
Delta time to tail flick, test, before/after SA0.00.00.1-0.1-0.30.1
Tibia length0.10.10.20.30.3-0.5
Ambulatory time before self-admin0.60.82.3-0.3-1.50.3
Ambulatory time after self-admin0.50.61.4-1.2-0.00.6
Bone: tissue strength0.50.50.80.70.9-0.6
Total heroin consumption0.60.61.51.20.70.1
Bone: trabecular number0.10.20.3-0.60.10.4
Bone: trabecular spacing3.04.05.32.32.1-1.5
Bone: trabecular thickness0.91.11.8-1.3-1.00.7
Bone: trabecular tissue density1.01.52.61.11.6-0.8
Water consumed over 24 hours0.30.40.80.90.6-0.5
Number of responses in last shaping day2.22.43.91.42.0-1.2