RGD1559600

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 intron excision ratio chr1_173974388_173985543 0.5 0.3 1.1e-04 0.02 0.01 0.01 0.02 1.1e-03 1.3e-02 1.2e-02 5.2e-03
2 Liver intron excision ratio chr1_173974388_173987413 0.39 0.33 3.3e-03 0 -0 0 0.01 1.1e-01 7.8e-01 2.9e-01 5.8e-02
3 Adipose gene expression RGD1559600 0.24 0.1 0.0e+00 0.16 0.18 0.17 0.17 1.3e-17 2.4e-19 7.1e-19 8.9e-19
4 Brain gene expression RGD1559600 0.05 0.04 5.4e-03 0.01 0.01 0.02 0.01 4.7e-02 3.2e-02 1.2e-02 3.3e-02

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 density0.71.11.7-1.3-1.21.1-0.0
Area under the delay curve0.10.10.10.40.2-0.30.2
BMI with tail1.75.48.4-2.9-2.62.60.1
BMI without tail5.511.418.2-4.3-3.93.40.9
Body weight1.66.810.7-3.3-3.12.21.3
Weight adjusted by age0.10.20.4-0.1-0.20.4-0.7
Bone surface0.81.43.0-1.3-1.70.50.8
Bone volume1.22.03.5-1.7-1.91.20.4
Breakpoint value in progressive ratio session0.60.71.70.61.3-0.70.2
Number of licking bursts4.25.08.12.92.5-2.3-0.3
Context. condit. distance diff. score0.40.51.21.10.6-0.6-0.5
Locomotion velocity, session 10.10.10.40.0-0.60.1-0.1
Locomotion distance, session 10.50.71.3-0.8-1.10.9-0.2
Locomotion velocity, session 20.00.00.00.2-0.1-0.20.0
Locomotion distance, session 21.41.93.4-1.6-1.81.20.5
Locomotion velocity, session 30.30.41.0-0.5-1.00.40.4
Locomotion distance, session 30.80.91.9-0.3-1.2-0.31.4
Stereotopy head waving bouts, day 30.40.41.00.61.0-0.5-0.3
Stereotopy head waving duration, day 30.20.30.70.40.8-0.2-0.4
Locomotion velocity, session 72.22.55.4-0.7-2.3-0.32.0
Locomotion distance, session 70.60.81.20.8-0.6-1.01.1
Stereotopy head waving bouts, day 70.50.61.3-1.1-0.60.60.6
Stereotopy head waving duration, day 71.82.24.1-2.0-1.61.30.8
Locomotion velocity, session 80.10.10.2-0.1-0.50.00.4
Locomotion distance, session 80.10.20.6-0.0-0.80.3-0.1
Degree of sensitization distance1.21.22.30.91.20.1-1.5
Degree of sensitization stereotypy2.22.44.2-2.1-1.71.11.2
Conditioned locomotion1.11.33.70.1-0.3-1.11.9
Cocaine response after cond. corrected0.20.20.40.60.4-0.3-0.3
Cocaine response after cond. not corrected0.10.10.2-0.0-0.40.00.2
Cocaine response before conditioning2.02.44.1-1.7-2.00.61.5
Saline control response0.20.30.80.30.90.1-0.6
Bone: connectivity density0.30.51.0-0.8-1.00.60.2
Bone: cortical apparent density0.50.71.31.01.1-0.6-0.3
Bone: cortical area2.64.06.5-2.6-2.41.80.8
Bone: cortical porosity0.70.81.3-1.1-1.10.50.7
Bone: cortical porosity0.20.30.4-0.5-0.60.10.6
Bone: cortical thickness1.22.03.5-1.9-1.51.60.2
Bone: cortical thickness0.30.30.8-0.7-0.20.9-0.3
Bone: cortical tissue density0.50.71.31.01.1-0.6-0.3
Condit. Reinf. active minus inactive responses0.10.10.30.40.5-0.3-0.2
Condit. Reinf. active-inactive response ratio0.00.00.10.10.1-0.20.3
Condit. Reinf. active responses0.30.40.60.50.70.0-0.8
Condit. Reinf. inactive responses0.50.61.60.50.70.4-1.3
Incentive salience index mean0.00.00.10.1-0.2-0.30.2
Condit. Reinf. lever presses0.20.20.50.5-0.1-0.70.4
Condit. Reinf. active minus inactive responses1.01.22.9-0.20.21.3-1.7
Condit. Reinf. active-inactive response ratio1.61.74.60.51.00.9-2.2
Condit. Reinf. active responses0.40.51.0-0.4-0.21.0-1.0
Condit. Reinf. inactive responses1.41.83.0-1.2-1.70.11.6
Condit. Reinf. lever presses0.81.11.6-1.3-1.01.3-0.3
Condit. Reinf. lever reinforcers received0.20.30.8-0.10.20.7-0.9
Conditioned reinforcement - actives0.60.61.5-1.2-0.30.90.2
Conditioned reinforcement - inactives0.20.30.7-0.30.80.4-0.2
Conditioned locomotion0.50.61.8-0.40.1-0.51.4
Patch foraging indifference point 0 sec0.61.01.7-1.3-0.21.3-0.8
Patch foraging indifference point AUC1.21.42.5-0.8-0.21.6-1.5
Delay disc. indifference point, 0s delay0.80.91.3-0.9-1.10.41.2
Delay disc. indifference point, 16s delay3.23.35.72.12.4-1.4-0.9
Delay disc. indifference point, 2s delay2.83.25.6-2.0-2.41.60.6
Delay disc. indifference point, 24s delay2.01.92.91.61.7-1.4-0.1
Delay disc. indifference point, 4s delay0.10.10.2-0.1-0.10.5-0.4
Delay disc. indifference point, 8s delay0.30.30.9-0.3-0.5-0.20.9
Indifference point function ln k0.60.81.4-1.2-0.80.50.9
Indifference point function log k0.60.81.4-1.2-0.80.50.9
Patch foraging total patch changes 0 sec0.91.42.4-1.5-0.11.5-1.0
Patch foraging total patch changes 12 sec0.20.30.5-0.6-0.10.7-0.6
Patch foraging total patch changes 18 sec0.30.30.9-0.10.60.4-0.9
Patch foraging total patch changes 24 sec0.81.01.5-0.9-0.31.2-1.2
Patch foraging total patch changes 6 sec1.92.97.3-0.01.51.4-2.7
Patch foraging time to switch 0 sec2.84.38.82.10.6-3.01.9
Patch foraging water rate 0 sec0.20.30.6-0.7-0.20.8-0.2
Patch foraging water rate 12 sec0.81.22.4-1.3-0.61.6-0.5
Patch foraging water rate 18 sec0.10.20.5-0.4-0.30.7-0.1
Patch foraging water rate 24 sec0.20.30.5-0.5-0.50.7-0.0
Patch foraging water rate 6 sec0.71.02.2-0.30.71.2-1.5
Seeking ratio, delayed vs. immediate footshock0.10.10.40.2-0.0-0.1-0.6
Distance traveled before self-admin0.10.10.2-0.3-0.50.20.1
Distance traveled after self-admin0.70.82.0-0.8-1.40.70.0
Extensor digitorum longus weight3.915.326.9-4.5-5.21.93.2
Bone: elastic displacement0.40.40.80.40.9-0.0-0.8
Bone: elastic work0.30.30.5-0.7-0.70.6-0.2
Bone: endosteal estimation1.22.54.5-1.8-2.10.91.1
Bone: endosteal perimeter0.81.73.2-1.3-1.80.31.3
Epididymis fat weight0.71.63.1-1.5-0.71.7-0.7
Delta time in closed arm before/after self-admin0.80.81.70.5-0.1-1.11.3
Delta time in open arm before/after self-admin2.92.85.7-1.5-0.72.4-1.7
Diff in mean of infusions in LGA sessions1.92.15.40.41.40.9-2.3
Delay discount exponential model param0.10.10.2-0.5-0.20.4-0.2
Extinction: sum of active levers before priming0.30.30.50.70.7-0.3-0.5
Active lever presses in extinction session 60.20.20.4-0.20.60.4-0.5
Bone: final force4.57.212.0-3.5-3.02.80.5
Bone: final moment3.86.110.1-3.2-2.72.60.3
Food consumed during 24 hour testing period1.51.83.0-1.7-1.31.6-0.2
Glucose0.30.40.8-0.40.30.8-0.9
Heart weight0.71.02.0-0.10.91.1-1.4
Delay discount hyperbolic model param0.00.00.1-0.20.10.1-0.2
Intermittent access intake day 1-15 change0.20.20.50.40.7-0.30.4
Intermittent access intake escalation0.20.20.40.40.6-0.20.1
Intermittent access intake escalation 20.50.51.11.00.8-0.4-0.3
Intermitt. access day 1 inactive lever presses0.10.10.30.20.6-0.00.3
Intermitt. access day 15 inactive lever presses1.01.11.5-1.2-1.10.61.2
Intermitt. access escalation Index1.21.12.3-1.0-0.61.5-0.9
Intermittent access day 1 total infusions0.80.91.8-1.3-1.00.80.5
Intermittent access day 15 total infusions0.30.30.6-0.8-0.10.70.2
Intermittent access terminal intake (last 3 days)0.30.30.6-0.8-0.00.80.1
Intermittent access total infusions1.11.22.6-1.6-0.81.20.6
Intermittent access day 1 locomotion0.90.91.7-1.1-0.41.3-0.7
Intermittent access day 15 total locomotion1.71.83.6-0.11.91.0-1.6
Intermittent access total locomotion1.61.83.7-1.20.41.9-1.4
Intermittent access standard deviation0.20.20.4-0.3-0.40.60.1
Left kidney weight3.18.713.8-3.7-3.33.10.6
Right kidney weight3.18.713.5-3.7-3.52.90.7
Cocaine induced anxiety0.91.02.90.60.80.5-1.7
Post-drug Anxiety1.31.43.80.90.90.4-2.0
Baseline Anxiety0.30.30.6-0.6-0.80.30.2
Tail length1.95.89.0-3.0-2.92.11.1
Length with tail0.41.52.6-1.3-1.60.61.1
Length without tail0.61.22.51.20.7-1.60.7
Times rat made contact with spout1.61.82.7-1.5-1.70.71.3
Lifetime Intake1.71.93.8-2.0-1.21.40.8
Liver weight, left0.10.10.2-0.3-0.40.4-0.1
Liver weight, right0.20.40.9-0.3-0.8-0.10.9
Locomotor activity0.00.00.10.20.2-0.20.3
Locomotor testing distance0.10.20.4-0.50.10.7-0.4
Locomotor testing rearing0.10.10.30.50.5-0.2-0.2
Locomotion in novel chamber1.01.22.3-0.8-0.11.3-1.5
Locomotion in novel chamber post-restriction1.92.35.41.01.70.5-2.3
Fecal boli incidents, locomotor time 10.80.81.90.70.1-1.41.0
Change in fecal boli incidents, locomotor task0.90.81.6-0.7-0.11.3-1.1
Time >=10cm from walls, locomotor time 11.01.01.9-1.4-1.10.90.5
Bouts of movement, locomotor time 12.72.94.62.12.0-1.1-1.3
Total resting periods, locomotor time 12.83.15.42.32.0-1.6-0.7
Rest time, locomotor task time 12.02.24.81.50.2-2.21.4
Distance moved, locomotor task time 12.52.75.7-1.7-0.32.4-1.4
Vertical activity count, locomotor time 13.94.18.6-2.2-0.72.9-1.6
Time >=10cm from walls, locomotor time 23.03.25.0-2.2-2.01.01.6
Bouts of movement, locomotor time 20.40.40.9-0.1-0.8-0.41.0
Total resting periods, locomotor time 20.60.61.1-0.3-1.1-0.41.0
Rest time, locomotor task time 20.00.10.1-0.0-0.3-0.20.3
Distance moved, locomotor task time 20.40.50.9-1.0-0.50.9-0.0
Vertical activity count, locomotor time 20.91.02.1-1.0-0.11.5-0.8
Light reinforcement 10.10.30.50.40.70.0-0.6
Light reinforcement 20.10.20.3-0.20.50.5-0.5
Bone: marrow area1.02.23.9-1.7-2.00.81.1
Bone: maximum diameter1.42.64.2-2.0-1.91.40.6
Bone: maximum force3.66.29.9-3.2-3.02.40.4
Bone: maximum moment3.05.18.3-2.9-2.62.30.3
Mean time between licks in bursts0.00.00.10.10.2-0.1-0.0
Mean num. licks in bursts6.27.512.2-3.5-3.22.61.0
Cd content in liver3.64.07.42.32.7-1.4-1.2
Co content in liver1.01.22.40.71.40.4-1.6
Cu content in liver0.91.12.0-0.50.11.4-1.4
Fe content in liver1.01.22.01.21.20.1-1.4
K content in liver0.20.20.3-0.20.30.5-0.6
Mg content in liver0.10.10.30.30.6-0.2-0.0
Mn content in liver0.30.30.7-0.5-0.6-0.20.8
Na content in liver3.74.07.1-2.2-2.70.91.7
Rb content in liver1.82.34.70.61.80.8-2.2
Se content in liver0.10.10.3-0.2-0.30.6-0.4
Sr content in liver0.40.30.6-0.8-0.60.50.4
Zn content in liver1.82.03.4-1.9-1.71.30.4
Bone: minimum diameter1.73.25.6-2.1-2.41.01.2
Time in familiar zone, hab. session 11.61.53.50.61.30.6-1.9
Time in novel zone, hab. session 13.83.79.5-0.8-1.9-1.03.1
Total zone transitions, hab. session 12.53.55.4-2.1-1.92.3-0.6
Total locomotion distance, hab. session 14.56.39.5-3.0-2.53.1-0.8
Locomotion velocity, hab. session 13.75.39.0-2.5-1.93.0-1.4
Time in familiar zone, hab. session 20.30.30.7-0.6-0.30.8-0.4
Time in novel zone, hab. session 20.00.00.10.20.1-0.2-0.1
Total zone transitions, hab. session 22.02.63.8-1.9-1.61.9-0.6
Total locomotion distance, hab. session 22.53.24.7-2.1-1.82.2-0.8
Locomotion velocity, hab. session 22.93.95.4-2.3-2.02.3-0.7
Novel to familiar place preference ratio0.80.81.80.61.4-0.2-1.0
Novelty place preference0.70.71.60.71.3-0.2-0.9
Time in novel zone, NPP test0.80.81.70.61.3-0.1-1.0
Total zone transitions, NPP test1.52.13.2-1.8-1.51.70.1
Total locomotion distance, NPP test1.41.93.3-1.6-1.21.8-0.7
Locomotion velocity, NPP test1.11.52.6-1.4-1.11.6-0.6
Intraocular pressure0.10.10.3-0.2-0.6-0.10.4
Delta distance traveled before/after self-admin0.70.71.5-0.9-1.20.60.4
Delta ambulatory time before/after self-admin0.60.71.5-0.9-1.20.60.3
Parametrial fat weight2.75.39.7-2.6-1.83.1-1.1
Pavlov. Cond. lever latency0.81.01.90.21.20.6-1.4
Pavlov. Cond. magazine entry latency1.21.53.4-1.1-1.80.11.3
Pavlov. Cond. change in total contacts2.02.15.00.0-1.4-1.22.2
Pavlov. Cond. index score1.01.22.4-0.4-1.4-0.61.6
Pavlov. Cond. latency score0.70.91.8-0.4-1.3-0.41.3
Pavlov. Cond. lever contacts1.31.52.9-0.4-1.6-0.61.7
Pavlov. Cond. magazine entry number1.41.73.70.41.50.8-1.9
Pavlov. Cond. intertrial magazine entries1.31.63.20.81.80.2-1.6
Pavlov. Cond. lever-magazine prob. diff.1.11.32.5-0.6-1.6-0.41.5
Pavlov. Cond. response bias1.92.35.1-0.4-1.7-1.02.3
Pavlov. Cond. lever latency0.70.91.41.20.9-1.20.2
Pavlov. Cond. magazine entry latency1.51.73.41.50.6-1.80.9
Pavlov. Cond. change in total contacts0.60.82.10.10.80.8-1.5
Pavlov. Cond. index score0.00.00.10.30.2-0.1-0.2
Pavlov. Cond. latency score0.00.00.00.2-0.0-0.20.0
Pavlov. Cond. lever contacts0.70.91.5-1.2-1.01.1-0.0
Pavlov. Cond. magazine entry number1.51.82.9-1.7-1.41.50.2
Pavlov. Cond. intertrial magazine entries1.82.33.6-1.9-1.71.70.3
Pavlov. Cond. lever-magazine prob. diff.0.10.10.20.50.3-0.4-0.1
Pavlov. Cond. response bias0.00.00.1-0.1-0.00.2-0.3
Time in closed arm before self-admin0.80.91.4-1.2-0.71.2-0.5
Time in closed arm after self-admin0.60.61.20.71.1-0.3-0.7
Time in open arm before self-admin2.12.24.02.01.4-1.70.1
Time in open arm after self-admin0.70.81.4-0.9-0.91.2-0.5
Bone: periosteal estimation2.45.07.9-2.8-2.81.71.2
Bone: periosteal perimeter1.22.03.5-1.7-1.91.00.7
Bone: post-yield work1.52.03.5-1.9-1.51.60.0
Progressive ratio test 1 active lever presses0.40.41.0-1.0-0.30.80.1
Progressive ratio test 1 breakpoint0.30.40.8-0.9-0.30.70.2
Progressive ratio test 1 inactive lever presses0.91.02.5-1.6-0.31.00.6
Progressive ratio test 2 active lever presses0.50.61.1-1.1-0.40.31.0
Progressive ratio test 2 breakpoint0.60.71.4-1.2-0.30.41.1
Progressive ratio test 2 inactive lever presses0.40.51.1-1.00.30.50.7
Incentive Sensitization - Responses1.31.33.9-1.0-0.3-0.42.0
Incentive Sensitization - Breakpoint1.31.34.0-1.1-0.3-0.22.0
Sum of active levers in priming session hrs 5-60.10.10.10.30.3-0.3-0.0
Progressive ratio0.40.51.2-0.00.70.4-1.1
Food seeking constrained by brief footshock1.11.32.51.31.6-0.9-0.6
Seeking ratio, punishment vs. effort0.30.30.90.1-0.5-0.40.9
Retroperitoneal fat weight0.51.52.9-0.50.41.6-1.7
Reaction time number correct0.81.11.71.30.9-1.30.4
Reaction time mean minus median0.30.50.8-0.60.10.9-0.9
Reaction time mean minus median AUC0.50.61.1-0.40.60.9-1.0
Reaction time num false alarms0.91.21.81.31.3-0.7-0.9
Reaction time num false alarms AUC0.60.91.51.21.0-0.7-0.7
Reaction time trials correct on left0.81.11.71.30.9-1.30.4
Reaction time trials on left0.81.11.71.30.9-1.30.4
Reaction time mean0.40.50.9-0.4-0.30.9-0.9
Reaction time mean AUC0.10.20.3-0.1-0.20.5-0.5
Median of all reaction times0.20.30.5-0.2-0.40.7-0.7
Reaction time omissions0.20.30.70.70.2-0.80.2
Reaction time false alarm rate0.10.10.30.40.4-0.1-0.5
Reaction time premature initiation rate1.62.13.5-1.3-1.8-0.11.9
Reaction time premature initiations1.31.84.7-0.5-1.2-1.02.2
Std. dev. reaction times0.40.61.0-0.6-0.21.0-0.9
Reaction time trials completed0.81.11.71.30.9-1.30.4
Reaction time trials AUC0.60.81.31.20.8-1.10.4
Run reversals in cocaine runway, females4.03.98.7-2.1-2.91.50.6
Run reversals in cocaine runway, males0.10.10.20.00.5-0.40.3
Latency to leave start box in cocaine runway0.40.50.9-0.10.70.7-1.0
Latency to leave start box in cocaine runway, F0.10.10.20.30.4-0.40.2
Latency to leave start box in cocaine runway, M1.00.92.0-0.30.71.1-1.4
Std. dev. time between licks in bursts0.20.20.5-0.10.30.5-0.7
Total sessions with >9 infusions4.55.08.0-2.8-2.71.51.7
Short access day 1 total inactive lever presses0.20.30.8-0.5-0.00.10.9
Short access day 10 total inactive lever presses0.40.41.00.71.0-0.40.1
Short access day 1 total infusions1.11.21.9-1.4-1.10.71.1
Short access day 10 total infusions2.12.34.1-2.0-1.60.81.4
Short access total infusions2.52.85.4-2.3-1.61.51.0
Short access day 1 locomotion0.30.40.6-0.8-0.50.10.8
Short access day 10 total locomotion1.51.73.5-1.4-0.91.9-0.8
Short access total locomotion2.12.24.4-1.8-0.72.1-0.9
One hour access (0.3 mA shock)1.82.14.3-1.6-1.02.1-0.8
Compulsive drug intake0.10.10.1-0.10.20.3-0.3
One hour access (shock baseline)0.30.30.80.00.40.7-0.9
Social response proportion0.70.81.80.21.00.5-1.3
Social responses0.60.81.90.71.4-0.4-0.8
Social time0.60.71.60.91.3-0.7-0.5
Soleus weight1.64.77.4-2.7-2.32.5-0.1
Bone: stiffness3.04.87.9-2.8-2.52.30.2
Tibialis anterior weight5.318.330.8-5.6-5.13.71.7
Time to tail flick, vehicle, before self-admin0.10.10.2-0.2-0.50.3-0.2
Time to tail flick, vehicle, after self-admin0.60.61.01.00.5-1.00.5
Time to tail flick, test, before self-admin0.50.51.0-0.8-0.3-0.01.0
Time to tail flick, test, after self-admin0.30.30.60.80.3-0.80.2
Delta time to tail flick, vehicle, before/after SA0.10.10.20.40.2-0.30.1
Delta time to tail flick, test, before/after SA0.10.10.20.4-0.1-0.1-0.3
Tibia length0.20.41.10.20.60.5-1.1
Ambulatory time before self-admin0.00.00.1-0.1-0.00.1-0.2
Ambulatory time after self-admin0.80.92.9-0.7-1.70.50.2
Bone: tissue strength0.10.10.2-0.0-0.4-0.20.1
Total heroin consumption0.30.30.60.60.8-0.50.2
Bone: trabecular number0.50.81.3-1.1-0.91.0-0.2
Bone: trabecular spacing0.70.91.51.00.8-1.20.7
Bone: trabecular thickness2.83.36.0-1.7-0.92.5-1.9
Bone: trabecular tissue density0.10.10.2-0.20.10.4-0.3
Water consumed over 24 hours1.31.63.40.7-0.3-1.61.8
Number of responses in last shaping day0.50.50.9-0.5-0.9-0.10.9