Thop1

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 PL mRNA stability Thop1 0.05 0.04 9.3e-05 0.03 0.02 0.03 0.03 1.1e-04 1.0e-03 4.4e-04 3.8e-04
2 Adipose gene expression Thop1 0.05 0.04 2.2e-04 0.01 0.02 0.01 0.02 9.1e-03 1.9e-03 1.5e-02 6.1e-03
3 IL mRNA stability Thop1 0.15 0.11 5.5e-03 0.03 0.03 0.03 0.02 6.5e-02 7.4e-02 5.9e-02 9.9e-02
4 pVTA gene expression Thop1 0.05 0.04 8.1e-03 0.05 0.04 0.04 0.04 4.1e-03 9.0e-03 6.1e-03 9.6e-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 density0.30.61.31.10.5-0.60.6
Area under the delay curve2.02.22.6-1.3-1.4-1.61.6
BMI with tail6.721.822.9-4.7-4.8-4.64.6
BMI without tail2.55.16.6-2.6-2.5-2.02.0
Body weight1.24.95.2-2.2-2.3-2.22.2
Weight adjusted by age0.40.40.8-0.9-0.8-0.20.3
Bone surface1.01.74.72.21.3-0.30.3
Bone volume1.01.74.72.21.3-0.30.3
Breakpoint value in progressive ratio session5.35.86.82.22.32.6-2.5
Number of licking bursts0.10.10.4-0.6-0.40.00.0
Context. condit. distance diff. score0.30.40.4-0.6-0.6-0.60.6
Locomotion velocity, session 10.80.81.71.31.00.6-0.6
Locomotion distance, session 10.20.30.90.90.6-0.10.1
Locomotion velocity, session 23.84.57.02.62.31.6-1.6
Locomotion distance, session 21.62.24.12.01.80.9-0.9
Locomotion velocity, session 36.27.27.62.62.72.8-2.8
Locomotion distance, session 30.00.00.00.0-0.00.2-0.2
Stereotopy head waving bouts, day 34.85.76.42.52.52.2-2.2
Stereotopy head waving duration, day 35.66.77.22.62.72.5-2.5
Locomotion velocity, session 70.80.91.11.01.00.8-0.8
Locomotion distance, session 70.10.10.3-0.5-0.4-0.00.0
Stereotopy head waving bouts, day 70.10.10.30.60.3-0.20.2
Stereotopy head waving duration, day 70.30.41.01.00.80.1-0.1
Locomotion velocity, session 80.70.82.01.41.10.3-0.3
Locomotion distance, session 80.10.10.30.50.40.1-0.1
Degree of sensitization distance0.40.40.5-0.6-0.6-0.70.7
Degree of sensitization stereotypy1.61.82.6-0.9-1.1-1.61.6
Conditioned locomotion2.02.34.0-2.0-1.7-1.11.1
Cocaine response after cond. corrected5.56.28.4-2.9-2.7-2.12.1
Cocaine response after cond. not corrected6.06.69.0-3.0-2.8-2.22.2
Cocaine response before conditioning0.50.60.91.00.80.7-0.7
Saline control response0.10.10.2-0.4-0.3-0.20.1
Bone: connectivity density0.30.50.80.5-0.0-0.90.9
Bone: cortical apparent density1.01.31.4-1.1-1.1-1.21.2
Bone: cortical area0.50.81.5-0.2-0.5-1.21.2
Bone: cortical porosity0.60.71.01.00.90.7-0.7
Bone: cortical porosity0.10.10.30.60.4-0.10.1
Bone: cortical thickness1.11.82.5-1.0-1.2-1.61.6
Bone: cortical thickness0.00.10.1-0.3-0.10.2-0.2
Bone: cortical tissue density0.70.90.9-0.9-0.9-1.01.0
Condit. Reinf. active minus inactive responses4.14.64.92.12.22.1-2.1
Condit. Reinf. active-inactive response ratio2.12.32.81.21.41.7-1.7
Condit. Reinf. active responses3.64.45.52.32.31.9-1.9
Condit. Reinf. inactive responses0.81.01.81.31.20.6-0.6
Incentive salience index mean2.32.83.61.91.81.4-1.4
Condit. Reinf. lever presses0.20.30.80.90.6-0.30.3
Condit. Reinf. active minus inactive responses2.32.83.71.31.51.9-1.9
Condit. Reinf. active-inactive response ratio0.20.30.4-0.4-0.00.7-0.6
Condit. Reinf. active responses2.33.23.31.71.81.8-1.8
Condit. Reinf. inactive responses1.41.72.41.61.41.0-1.1
Condit. Reinf. lever presses2.43.24.11.41.62.0-2.0
Condit. Reinf. lever reinforcers received1.72.42.91.41.51.7-1.7
Conditioned reinforcement - actives2.52.52.91.51.71.6-1.5
Conditioned reinforcement - inactives0.70.81.4-1.2-0.9-0.60.7
Conditioned locomotion8.29.910.23.13.23.2-3.1
Patch foraging indifference point 0 sec0.20.30.4-0.5-0.4-0.60.6
Patch foraging indifference point AUC1.01.21.41.01.01.2-1.2
Delay disc. indifference point, 0s delay6.67.39.7-2.0-2.4-3.13.1
Delay disc. indifference point, 16s delay0.10.10.2-0.3-0.3-0.40.4
Delay disc. indifference point, 2s delay5.56.17.3-2.1-2.3-2.72.7
Delay disc. indifference point, 24s delay0.50.50.6-0.7-0.8-0.70.7
Delay disc. indifference point, 4s delay1.01.01.6-0.6-0.8-1.31.2
Delay disc. indifference point, 8s delay1.11.11.5-1.2-1.2-0.90.9
Indifference point function ln k0.20.30.3-0.5-0.6-0.60.6
Indifference point function log k0.20.30.3-0.5-0.6-0.60.6
Patch foraging total patch changes 0 sec0.10.20.3-0.5-0.4-0.50.5
Patch foraging total patch changes 12 sec0.40.51.0-1.0-0.8-0.50.4
Patch foraging total patch changes 18 sec0.91.21.30.91.21.2-1.1
Patch foraging total patch changes 24 sec0.10.10.10.20.30.2-0.3
Patch foraging total patch changes 6 sec0.10.20.30.40.60.4-0.4
Patch foraging time to switch 0 sec1.62.53.5-1.1-1.3-1.91.8
Patch foraging water rate 0 sec0.10.10.3-0.3-0.10.5-0.5
Patch foraging water rate 12 sec1.01.52.7-1.6-1.5-0.80.8
Patch foraging water rate 18 sec0.40.50.7-0.8-0.30.8-0.8
Patch foraging water rate 24 sec0.71.02.6-1.6-1.10.1-0.1
Patch foraging water rate 6 sec0.40.61.2-0.00.31.1-1.1
Seeking ratio, delayed vs. immediate footshock5.26.07.02.72.62.3-2.3
Distance traveled before self-admin0.20.20.3-0.1-0.4-0.50.5
Distance traveled after self-admin1.11.21.81.31.11.0-1.0
Extensor digitorum longus weight4.718.422.2-4.7-4.6-3.93.9
Bone: elastic displacement0.30.40.40.60.60.6-0.6
Bone: elastic work0.10.20.3-0.1-0.3-0.60.6
Bone: endosteal estimation0.20.40.7-0.2-0.4-0.80.8
Bone: endosteal perimeter0.30.71.61.21.00.4-0.4
Epididymis fat weight0.20.40.70.40.40.8-0.8
Delta time in closed arm before/after self-admin1.31.23.4-1.8-1.2-0.20.1
Delta time in open arm before/after self-admin1.31.21.6-0.9-1.0-1.21.3
Diff in mean of infusions in LGA sessions1.61.82.11.41.31.4-1.2
Delay discount exponential model param1.81.92.31.21.41.5-1.5
Extinction: sum of active levers before priming1.11.11.90.50.91.4-1.3
Active lever presses in extinction session 63.33.24.02.01.91.7-1.6
Bone: final force1.11.82.8-0.7-1.1-1.71.7
Bone: final moment0.91.42.3-0.6-0.9-1.51.5
Food consumed during 24 hour testing period0.50.60.6-0.8-0.8-0.80.8
Glucose1.21.82.1-1.4-1.4-1.31.3
Heart weight0.40.50.80.50.50.9-0.9
Delay discount hyperbolic model param2.62.83.31.51.61.8-1.8
Intermittent access intake day 1-15 change6.76.77.82.22.62.8-2.7
Intermittent access intake escalation6.26.18.41.62.32.9-2.8
Intermittent access intake escalation 27.77.710.12.12.63.2-3.1
Intermitt. access day 1 inactive lever presses0.40.50.80.50.50.9-0.8
Intermitt. access day 15 inactive lever presses0.40.40.60.50.60.8-0.7
Intermitt. access escalation Index0.30.30.50.1-0.1-0.70.7
Intermittent access day 1 total infusions0.10.10.3-0.1-0.2-0.40.5
Intermittent access day 15 total infusions1.61.82.40.91.41.5-1.4
Intermittent access terminal intake (last 3 days)1.01.11.31.11.11.1-1.0
Intermittent access total infusions0.10.10.20.20.40.4-0.3
Intermittent access day 1 locomotion0.20.30.30.50.50.5-0.4
Intermittent access day 15 total locomotion3.43.74.21.81.92.0-1.9
Intermittent access total locomotion1.01.21.41.21.11.1-0.9
Intermittent access standard deviation3.03.24.11.51.82.0-1.9
Left kidney weight0.10.20.40.60.50.0-0.0
Right kidney weight1.54.35.02.22.12.0-1.9
Cocaine induced anxiety1.01.22.61.61.10.7-0.7
Post-drug Anxiety0.70.71.91.40.90.3-0.4
Baseline Anxiety0.00.00.1-0.30.00.2-0.2
Tail length3.29.611.02.73.03.3-3.3
Length with tail2.17.68.42.92.82.7-2.6
Length without tail0.10.30.80.90.60.0-0.0
Times rat made contact with spout0.20.30.6-0.8-0.6-0.30.2
Lifetime Intake0.00.00.10.20.30.2-0.0
Liver weight, left2.64.15.0-2.2-2.2-1.81.8
Liver weight, right1.72.82.9-1.5-1.7-1.71.7
Locomotor activity3.75.98.52.92.72.0-2.0
Locomotor testing distance2.23.75.02.22.11.6-1.7
Locomotor testing rearing0.00.00.10.10.10.3-0.3
Locomotion in novel chamber0.40.50.80.40.50.8-0.9
Locomotion in novel chamber post-restriction0.70.90.90.90.90.9-0.9
Fecal boli incidents, locomotor time 12.02.22.9-1.7-1.6-1.31.3
Change in fecal boli incidents, locomotor task0.50.51.01.00.80.3-0.3
Time >=10cm from walls, locomotor time 10.30.30.6-0.1-0.3-0.70.7
Bouts of movement, locomotor time 10.10.20.20.40.40.4-0.4
Total resting periods, locomotor time 10.20.30.40.60.50.5-0.4
Rest time, locomotor task time 10.20.20.40.70.50.3-0.3
Distance moved, locomotor task time 10.30.40.7-0.2-0.4-0.80.8
Vertical activity count, locomotor time 10.00.10.1-0.3-0.3-0.10.1
Time >=10cm from walls, locomotor time 21.21.21.7-1.3-1.2-1.01.0
Bouts of movement, locomotor time 20.50.51.11.00.90.4-0.4
Total resting periods, locomotor time 20.50.51.11.00.80.3-0.4
Rest time, locomotor task time 20.60.71.21.10.90.6-0.5
Distance moved, locomotor task time 20.81.01.4-1.2-1.1-0.80.8
Vertical activity count, locomotor time 20.90.91.6-1.3-1.1-0.60.7
Light reinforcement 15.710.311.23.23.33.1-3.1
Light reinforcement 21.72.32.71.51.71.5-1.4
Bone: marrow area0.20.40.7-0.2-0.5-0.80.8
Bone: maximum diameter0.81.52.91.71.50.7-0.7
Bone: maximum force1.22.13.0-0.9-1.2-1.71.7
Bone: maximum moment1.01.72.5-0.8-1.0-1.61.6
Mean time between licks in bursts3.95.56.42.12.32.5-2.5
Mean num. licks in bursts0.00.00.00.0-0.1-0.20.1
Cd content in liver0.20.20.2-0.3-0.4-0.50.5
Co content in liver0.60.70.90.60.70.9-0.9
Cu content in liver0.10.10.20.30.0-0.50.5
Fe content in liver0.00.00.1-0.2-0.00.2-0.2
K content in liver0.10.10.30.50.3-0.20.2
Mg content in liver0.10.10.40.60.3-0.20.2
Mn content in liver1.41.63.71.91.50.5-0.5
Na content in liver0.91.01.4-0.7-0.8-1.21.2
Rb content in liver0.30.40.8-0.0-0.3-0.90.9
Se content in liver0.20.20.30.50.50.4-0.4
Sr content in liver0.10.10.2-0.5-0.20.3-0.3
Zn content in liver1.92.13.50.61.01.9-1.9
Bone: minimum diameter0.10.10.20.40.2-0.30.3
Time in familiar zone, hab. session 12.12.02.41.21.31.5-1.5
Time in novel zone, hab. session 10.90.91.5-0.5-0.7-1.21.2
Total zone transitions, hab. session 10.91.32.41.61.40.7-0.7
Total locomotion distance, hab. session 11.31.94.02.01.60.6-0.6
Locomotion velocity, hab. session 11.62.34.22.11.81.0-1.0
Time in familiar zone, hab. session 26.26.48.02.12.32.8-2.8
Time in novel zone, hab. session 24.54.55.9-1.6-1.9-2.42.4
Total zone transitions, hab. session 20.30.40.80.2-0.1-0.90.9
Total locomotion distance, hab. session 20.81.12.01.41.20.7-0.7
Locomotion velocity, hab. session 20.81.12.21.51.30.6-0.6
Novel to familiar place preference ratio3.53.65.1-1.3-1.7-2.22.2
Novelty place preference2.02.13.0-0.9-1.2-1.71.7
Time in novel zone, NPP test2.32.43.4-1.0-1.4-1.81.8
Total zone transitions, NPP test0.10.10.10.20.1-0.40.4
Total locomotion distance, NPP test0.10.10.20.30.1-0.50.5
Locomotion velocity, NPP test0.10.10.40.60.4-0.20.2
Intraocular pressure0.10.20.3-0.6-0.30.5-0.5
Delta distance traveled before/after self-admin1.61.71.81.41.41.3-1.2
Delta ambulatory time before/after self-admin1.81.92.41.51.51.3-1.2
Parametrial fat weight0.61.11.21.10.91.1-1.1
Pavlov. Cond. lever latency0.10.10.2-0.5-0.20.3-0.3
Pavlov. Cond. magazine entry latency2.63.43.71.71.81.9-1.9
Pavlov. Cond. change in total contacts0.10.10.10.30.30.2-0.2
Pavlov. Cond. index score0.40.50.90.90.80.5-0.5
Pavlov. Cond. latency score0.40.61.11.10.90.4-0.4
Pavlov. Cond. lever contacts0.20.20.70.80.5-0.10.1
Pavlov. Cond. magazine entry number0.60.70.8-0.8-0.9-0.80.8
Pavlov. Cond. intertrial magazine entries0.10.10.2-0.20.10.4-0.4
Pavlov. Cond. lever-magazine prob. diff.0.80.91.41.21.10.8-0.8
Pavlov. Cond. response bias1.01.21.31.11.21.1-1.1
Pavlov. Cond. lever latency1.01.31.4-1.2-1.2-1.11.1
Pavlov. Cond. magazine entry latency0.70.81.11.00.90.8-0.8
Pavlov. Cond. change in total contacts1.01.31.61.01.11.2-1.3
Pavlov. Cond. index score1.11.41.51.21.21.2-1.2
Pavlov. Cond. latency score1.01.31.51.21.21.1-1.1
Pavlov. Cond. lever contacts0.91.21.40.91.01.2-1.2
Pavlov. Cond. magazine entry number1.11.31.7-1.3-1.2-1.01.0
Pavlov. Cond. intertrial magazine entries0.50.71.1-1.1-0.8-0.70.7
Pavlov. Cond. lever-magazine prob. diff.1.11.41.61.31.21.2-1.2
Pavlov. Cond. response bias2.12.83.31.51.61.8-1.8
Time in closed arm before self-admin0.80.91.7-0.3-0.7-1.21.3
Time in closed arm after self-admin0.00.00.0-0.1-0.00.1-0.2
Time in open arm before self-admin1.31.41.81.01.01.2-1.3
Time in open arm after self-admin0.60.70.8-0.8-0.9-0.80.8
Bone: periosteal estimation0.30.71.4-0.0-0.4-1.21.2
Bone: periosteal perimeter0.20.30.91.00.7-0.10.1
Bone: post-yield work0.70.91.0-0.9-0.9-1.01.0
Progressive ratio test 1 active lever presses0.10.20.2-0.4-0.4-0.30.4
Progressive ratio test 1 breakpoint0.20.20.3-0.4-0.5-0.40.5
Progressive ratio test 1 inactive lever presses0.00.00.00.20.10.00.1
Progressive ratio test 2 active lever presses0.20.20.40.20.40.6-0.5
Progressive ratio test 2 breakpoint0.30.30.40.50.60.6-0.5
Progressive ratio test 2 inactive lever presses0.10.10.10.40.30.2-0.1
Incentive Sensitization - Responses0.30.30.60.20.40.7-0.7
Incentive Sensitization - Breakpoint0.40.40.60.30.50.8-0.7
Sum of active levers in priming session hrs 5-60.00.00.0-0.2-0.00.00.1
Progressive ratio0.30.30.6-0.8-0.7-0.20.2
Food seeking constrained by brief footshock0.10.10.10.30.30.2-0.3
Seeking ratio, punishment vs. effort0.10.20.30.60.50.1-0.1
Retroperitoneal fat weight0.41.31.5-1.2-1.2-1.11.1
Reaction time number correct0.70.91.8-1.3-1.1-0.60.6
Reaction time mean minus median0.91.11.21.11.11.0-1.0
Reaction time mean minus median AUC0.20.20.70.80.5-0.20.1
Reaction time num false alarms0.10.10.3-0.6-0.3-0.10.1
Reaction time num false alarms AUC0.20.30.8-0.9-0.5-0.10.1
Reaction time trials correct on left0.70.91.8-1.3-1.1-0.60.6
Reaction time trials on left0.60.91.7-1.3-1.1-0.60.6
Reaction time mean0.10.10.30.60.2-0.30.3
Reaction time mean AUC0.10.10.20.50.2-0.40.4
Median of all reaction times0.30.40.70.1-0.3-0.80.9
Reaction time omissions0.20.30.50.60.70.5-0.5
Reaction time false alarm rate0.00.00.0-0.2-0.0-0.10.1
Reaction time premature initiation rate1.01.31.70.91.01.3-1.3
Reaction time premature initiations0.50.61.20.20.41.1-1.1
Std. dev. reaction times0.30.40.80.90.70.4-0.4
Reaction time trials completed0.60.91.7-1.3-1.1-0.60.6
Reaction time trials AUC0.60.91.9-1.4-1.1-0.50.5
Run reversals in cocaine runway, females0.60.61.01.00.80.5-0.6
Run reversals in cocaine runway, males1.31.22.01.41.20.9-0.9
Latency to leave start box in cocaine runway1.31.42.71.71.40.7-0.6
Latency to leave start box in cocaine runway, F0.40.51.01.00.5-0.50.6
Latency to leave start box in cocaine runway, M3.02.94.11.21.52.0-2.0
Std. dev. time between licks in bursts1.01.12.01.41.20.7-0.7
Total sessions with >9 infusions0.10.10.40.60.2-0.20.3
Short access day 1 total inactive lever presses0.00.00.00.00.20.2-0.2
Short access day 10 total inactive lever presses0.10.10.2-0.00.10.4-0.5
Short access day 1 total infusions0.20.20.50.70.50.00.1
Short access day 10 total infusions0.00.00.0-0.10.10.00.1
Short access total infusions0.10.10.10.30.1-0.20.3
Short access day 1 locomotion0.80.91.51.11.20.7-0.5
Short access day 10 total locomotion4.04.55.41.82.12.3-2.2
Short access total locomotion1.01.01.51.21.10.9-0.7
One hour access (0.3 mA shock)0.30.30.5-0.7-0.4-0.50.7
Compulsive drug intake0.90.91.1-1.0-0.9-1.00.9
One hour access (shock baseline)0.00.00.1-0.20.10.3-0.1
Social response proportion0.70.81.31.10.90.7-0.7
Social responses8.210.613.53.73.33.0-3.0
Social time0.70.91.1-1.0-1.0-0.90.8
Soleus weight9.026.327.6-5.0-5.3-5.15.1
Bone: stiffness3.14.86.0-1.8-2.0-2.42.4
Tibialis anterior weight1.03.33.6-1.7-1.9-1.81.8
Time to tail flick, vehicle, before self-admin0.70.71.41.21.00.5-0.4
Time to tail flick, vehicle, after self-admin0.10.20.40.0-0.10.5-0.6
Time to tail flick, test, before self-admin0.40.41.11.00.60.10.0
Time to tail flick, test, after self-admin0.20.30.60.80.60.2-0.3
Delta time to tail flick, vehicle, before/after SA0.60.61.3-1.1-1.1-0.30.2
Delta time to tail flick, test, before/after SA0.20.20.4-0.20.10.5-0.6
Tibia length1.02.73.11.51.61.8-1.8
Ambulatory time before self-admin0.10.20.2-0.2-0.4-0.50.5
Ambulatory time after self-admin0.60.71.21.10.80.7-0.7
Bone: tissue strength1.81.72.2-1.1-1.2-1.51.5
Total heroin consumption2.12.53.11.81.61.5-1.4
Bone: trabecular number0.91.53.21.81.40.7-0.7
Bone: trabecular spacing0.91.13.0-1.7-1.2-0.10.1
Bone: trabecular thickness0.81.02.51.60.8-0.70.7
Bone: trabecular tissue density2.33.34.7-2.2-1.9-1.61.6
Water consumed over 24 hours0.50.61.0-0.3-0.5-1.01.0
Number of responses in last shaping day0.30.30.60.80.50.4-0.4