Tcea3

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 mRNA stability Tcea3 0.18 0.09 0.0e+00 0.23 0.22 0.21 0.22 6.6e-21 2.8e-20 2.5e-19 2.7e-20
2 Liver gene expression Tcea3 0.09 0.06 2.4e-10 0.06 0.07 0.07 0.07 3.3e-07 5.6e-08 4.2e-08 6.1e-08
3 Adipose gene expression Tcea3 0.05 0.04 6.4e-05 0.03 0.03 0.03 0.03 1.0e-04 8.3e-04 8.1e-04 2.0e-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 density1.72.82.9-1.7-1.71.7
Area under the delay curve0.90.91.5-1.2-1.00.6
BMI with tail2.88.99.9-2.9-3.22.9
BMI without tail2.44.96.3-2.2-2.52.0
Body weight5.623.327.6-5.3-4.84.4
Weight adjusted by age0.10.10.20.30.5-0.2
Bone surface2.03.53.6-1.9-1.91.8
Bone volume1.72.93.2-1.7-1.81.6
Breakpoint value in progressive ratio session0.60.71.50.51.2-0.5
Number of licking bursts0.40.40.90.50.9-0.3
Context. condit. distance diff. score1.11.42.1-1.5-1.01.0
Locomotion velocity, session 10.80.81.2-0.8-1.10.8
Locomotion distance, session 10.00.00.10.0-0.4-0.0
Locomotion velocity, session 22.22.52.91.71.3-1.7
Locomotion distance, session 20.60.81.1-0.7-1.11.0
Locomotion velocity, session 30.80.91.50.81.2-0.7
Locomotion distance, session 30.80.91.2-1.0-0.71.1
Stereotopy head waving bouts, day 30.80.91.01.00.8-1.0
Stereotopy head waving duration, day 31.41.71.91.31.2-1.4
Locomotion velocity, session 71.11.21.3-1.2-1.01.1
Locomotion distance, session 70.10.10.2-0.5-0.20.4
Stereotopy head waving bouts, day 70.10.10.2-0.5-0.10.0
Stereotopy head waving duration, day 70.20.30.5-0.7-0.50.3
Locomotion velocity, session 80.40.50.7-0.8-0.70.6
Locomotion distance, session 81.92.83.7-1.9-1.51.5
Degree of sensitization distance1.21.21.51.11.0-1.2
Degree of sensitization stereotypy1.01.11.7-1.3-1.00.8
Conditioned locomotion1.72.02.61.51.1-1.6
Cocaine response after cond. corrected4.04.45.12.32.0-2.1
Cocaine response after cond. not corrected4.95.46.12.52.2-2.3
Cocaine response before conditioning0.40.50.6-0.8-0.60.6
Saline control response0.81.12.00.91.4-0.7
Bone: connectivity density0.61.01.0-1.0-1.01.0
Bone: cortical apparent density0.20.30.60.30.8-0.3
Bone: cortical area3.24.75.6-2.4-2.12.1
Bone: cortical porosity2.12.32.41.51.5-1.6
Bone: cortical porosity2.42.63.01.61.5-1.7
Bone: cortical thickness1.42.33.6-1.9-1.11.4
Bone: cortical thickness0.20.30.6-0.80.4-0.1
Bone: cortical tissue density0.30.40.80.50.9-0.5
Condit. Reinf. active minus inactive responses0.50.50.80.40.8-0.9
Condit. Reinf. active-inactive response ratio0.20.30.40.20.5-0.6
Condit. Reinf. active responses0.30.40.60.50.5-0.8
Condit. Reinf. inactive responses0.00.00.10.3-0.1-0.1
Incentive salience index mean0.40.50.60.50.7-0.8
Condit. Reinf. lever presses0.10.10.20.40.1-0.2
Condit. Reinf. active minus inactive responses2.02.42.9-1.7-1.71.3
Condit. Reinf. active-inactive response ratio0.10.10.3-0.00.3-0.6
Condit. Reinf. active responses5.98.19.1-3.0-2.82.7
Condit. Reinf. inactive responses8.210.110.2-3.2-3.23.2
Condit. Reinf. lever presses2.12.93.1-1.8-1.71.6
Condit. Reinf. lever reinforcers received5.47.58.4-2.9-2.72.6
Conditioned reinforcement - actives1.41.42.0-1.1-1.41.0
Conditioned reinforcement - inactives1.41.62.0-1.2-1.41.2
Conditioned locomotion2.12.53.0-1.6-1.71.3
Patch foraging indifference point 0 sec0.10.10.3-0.2-0.30.6
Patch foraging indifference point AUC0.80.91.0-0.9-1.00.9
Delay disc. indifference point, 0s delay1.51.72.7-1.6-1.30.9
Delay disc. indifference point, 16s delay0.70.70.8-0.9-0.90.7
Delay disc. indifference point, 2s delay1.11.22.3-1.5-0.80.8
Delay disc. indifference point, 24s delay0.10.10.30.10.1-0.5
Delay disc. indifference point, 4s delay1.01.01.5-1.2-1.00.7
Delay disc. indifference point, 8s delay1.01.01.4-1.2-1.20.5
Indifference point function ln k0.70.91.61.30.3-1.0
Indifference point function log k0.70.91.61.30.3-1.0
Patch foraging total patch changes 0 sec0.10.10.2-0.1-0.20.4
Patch foraging total patch changes 12 sec0.30.40.7-0.7-0.30.8
Patch foraging total patch changes 18 sec0.20.30.5-0.6-0.30.7
Patch foraging total patch changes 24 sec0.60.81.4-1.2-0.50.8
Patch foraging total patch changes 6 sec0.40.51.0-0.6-0.41.0
Patch foraging time to switch 0 sec1.01.52.90.91.7-0.9
Patch foraging water rate 0 sec0.10.20.40.40.1-0.7
Patch foraging water rate 12 sec0.10.20.3-0.5-0.50.2
Patch foraging water rate 18 sec1.62.12.7-1.4-1.61.4
Patch foraging water rate 24 sec0.30.50.60.80.5-0.7
Patch foraging water rate 6 sec0.30.50.80.60.5-0.9
Seeking ratio, delayed vs. immediate footshock2.22.63.3-1.6-1.31.8
Distance traveled before self-admin4.44.65.1-2.1-2.12.3
Distance traveled after self-admin2.93.33.6-1.7-1.91.8
Extensor digitorum longus weight0.83.03.5-1.9-1.61.7
Bone: elastic displacement0.50.60.60.80.8-0.8
Bone: elastic work0.00.00.00.20.20.2
Bone: endosteal estimation2.75.98.2-2.1-2.92.2
Bone: endosteal perimeter2.45.07.4-1.8-2.72.1
Epididymis fat weight0.71.72.2-1.4-1.50.9
Delta time in closed arm before/after self-admin0.00.00.10.10.1-0.3
Delta time in open arm before/after self-admin0.10.10.10.20.3-0.3
Diff in mean of infusions in LGA sessions0.91.01.11.10.9-1.0
Delay discount exponential model param0.80.81.41.21.0-0.5
Extinction: sum of active levers before priming1.11.11.5-1.2-0.91.1
Active lever presses in extinction session 60.40.40.60.60.5-0.8
Bone: final force1.93.13.4-1.8-1.61.8
Bone: final moment2.64.24.4-2.0-2.02.1
Food consumed during 24 hour testing period0.10.10.10.40.2-0.4
Glucose0.10.10.1-0.30.40.3
Heart weight0.10.20.3-0.6-0.10.5
Delay discount hyperbolic model param1.01.11.81.31.0-0.6
Intermittent access intake day 1-15 change4.84.75.9-2.1-2.42.0
Intermittent access intake escalation3.13.14.0-1.6-2.01.6
Intermittent access intake escalation 20.90.91.7-0.8-1.30.7
Intermitt. access day 1 inactive lever presses4.95.35.5-2.3-2.22.4
Intermitt. access day 15 inactive lever presses1.51.72.2-1.0-1.51.3
Intermitt. access escalation Index1.11.01.4-1.2-0.81.0
Intermittent access day 1 total infusions0.50.50.7-0.7-0.70.8
Intermittent access day 15 total infusions3.33.74.1-1.8-2.01.9
Intermittent access terminal intake (last 3 days)1.82.02.6-1.3-1.61.3
Intermittent access total infusions1.21.41.8-1.0-1.41.1
Intermittent access day 1 locomotion0.10.10.1-0.4-0.40.2
Intermittent access day 15 total locomotion0.10.10.20.2-0.2-0.5
Intermittent access total locomotion0.30.30.5-0.7-0.60.3
Intermittent access standard deviation7.47.88.5-2.8-2.92.6
Left kidney weight5.314.818.7-4.3-3.53.6
Right kidney weight1.13.25.0-2.2-1.41.7
Cocaine induced anxiety0.10.10.20.10.4-0.2
Post-drug Anxiety0.60.61.00.71.0-0.7
Baseline Anxiety0.00.00.0-0.1-0.20.1
Tail length0.61.82.8-1.7-1.21.0
Length with tail1.55.58.6-2.9-2.02.0
Length without tail2.04.46.0-2.4-1.72.1
Times rat made contact with spout2.52.93.31.61.8-1.7
Lifetime Intake0.60.61.0-0.6-1.00.7
Liver weight, left4.16.68.4-2.9-2.42.3
Liver weight, right2.23.64.6-2.1-1.61.9
Locomotor activity7.411.714.1-3.8-3.13.4
Locomotor testing distance3.76.26.3-2.5-2.52.4
Locomotor testing rearing3.85.96.5-2.4-2.52.4
Locomotion in novel chamber3.34.05.0-1.9-1.82.2
Locomotion in novel chamber post-restriction0.50.60.8-0.8-0.90.6
Fecal boli incidents, locomotor time 12.52.73.5-1.9-1.41.7
Change in fecal boli incidents, locomotor task2.62.54.01.51.1-2.0
Time >=10cm from walls, locomotor time 10.30.30.3-0.6-0.60.5
Bouts of movement, locomotor time 10.30.40.80.40.3-0.9
Total resting periods, locomotor time 10.30.30.70.40.4-0.9
Rest time, locomotor task time 11.71.92.01.41.4-1.3
Distance moved, locomotor task time 11.71.82.5-1.3-1.21.6
Vertical activity count, locomotor time 12.52.73.2-1.8-1.41.7
Time >=10cm from walls, locomotor time 20.00.00.00.10.1-0.0
Bouts of movement, locomotor time 21.51.61.81.11.4-1.3
Total resting periods, locomotor time 22.42.63.01.41.7-1.7
Rest time, locomotor task time 23.23.74.11.72.0-2.0
Distance moved, locomotor task time 22.02.33.1-1.3-1.41.8
Vertical activity count, locomotor time 23.23.54.7-1.9-1.52.2
Light reinforcement 10.40.71.1-1.0-0.50.9
Light reinforcement 20.40.50.6-0.6-0.70.8
Bone: marrow area2.86.18.4-2.2-2.92.3
Bone: maximum diameter3.87.18.0-2.6-2.82.5
Bone: maximum force3.15.45.4-2.3-2.32.3
Bone: maximum moment3.96.87.2-2.5-2.72.6
Mean time between licks in bursts0.50.60.8-0.7-0.90.8
Mean num. licks in bursts0.30.40.60.60.4-0.8
Cd content in liver1.71.92.2-1.3-1.41.5
Co content in liver0.10.10.20.50.2-0.2
Cu content in liver2.02.43.01.61.7-1.3
Fe content in liver0.20.20.4-0.60.00.5
K content in liver0.00.00.00.10.1-0.2
Mg content in liver0.00.00.0-0.20.00.1
Mn content in liver2.12.43.2-1.8-1.41.4
Na content in liver2.22.33.9-2.0-1.21.3
Rb content in liver0.10.10.2-0.10.4-0.0
Se content in liver0.91.11.60.61.3-1.1
Sr content in liver2.92.74.3-1.4-2.11.3
Zn content in liver0.20.30.6-0.3-0.30.8
Bone: minimum diameter1.32.53.0-1.7-1.51.5
Time in familiar zone, hab. session 10.20.20.30.60.6-0.2
Time in novel zone, hab. session 10.00.00.0-0.2-0.10.1
Total zone transitions, hab. session 10.10.10.2-0.2-0.10.5
Total locomotion distance, hab. session 10.10.10.2-0.20.10.5
Locomotion velocity, hab. session 10.00.10.10.10.30.3
Time in familiar zone, hab. session 20.90.91.50.81.2-0.7
Time in novel zone, hab. session 20.00.00.0-0.00.00.1
Total zone transitions, hab. session 20.71.01.3-0.7-1.21.0
Total locomotion distance, hab. session 20.00.10.20.1-0.10.4
Locomotion velocity, hab. session 20.30.40.7-0.3-0.50.9
Novel to familiar place preference ratio0.00.00.0-0.10.2-0.1
Novelty place preference0.00.00.1-0.30.10.1
Time in novel zone, NPP test0.10.10.1-0.20.40.1
Total zone transitions, NPP test0.10.20.3-0.3-0.50.4
Total locomotion distance, NPP test0.00.00.10.20.3-0.0
Locomotion velocity, NPP test0.00.00.00.0-0.0-0.1
Intraocular pressure0.20.30.5-0.7-0.40.6
Delta distance traveled before/after self-admin0.20.20.40.70.3-0.5
Delta ambulatory time before/after self-admin0.60.60.90.90.6-0.8
Parametrial fat weight0.20.40.60.50.5-0.8
Pavlov. Cond. lever latency0.10.10.3-0.30.50.0
Pavlov. Cond. magazine entry latency0.00.00.1-0.0-0.20.3
Pavlov. Cond. change in total contacts0.00.10.10.4-0.1-0.0
Pavlov. Cond. index score0.20.20.4-0.1-0.60.5
Pavlov. Cond. latency score0.10.10.20.1-0.50.2
Pavlov. Cond. lever contacts0.10.10.20.5-0.3-0.1
Pavlov. Cond. magazine entry number0.81.01.30.91.0-1.2
Pavlov. Cond. intertrial magazine entries8.29.910.23.13.2-3.2
Pavlov. Cond. lever-magazine prob. diff.0.10.10.20.0-0.50.3
Pavlov. Cond. response bias0.20.20.3-0.3-0.50.6
Pavlov. Cond. lever latency0.81.11.31.11.1-0.9
Pavlov. Cond. magazine entry latency0.10.10.2-0.4-0.3-0.2
Pavlov. Cond. change in total contacts2.02.83.4-1.8-1.71.4
Pavlov. Cond. index score0.30.40.7-0.8-0.60.3
Pavlov. Cond. latency score0.20.20.4-0.6-0.50.1
Pavlov. Cond. lever contacts1.31.82.3-1.5-1.31.2
Pavlov. Cond. magazine entry number0.50.61.21.10.7-0.4
Pavlov. Cond. intertrial magazine entries1.01.31.41.21.1-1.1
Pavlov. Cond. lever-magazine prob. diff.0.30.40.6-0.8-0.70.4
Pavlov. Cond. response bias1.11.62.1-1.5-1.21.0
Time in closed arm before self-admin2.73.04.1-1.7-1.42.0
Time in closed arm after self-admin0.20.20.2-0.4-0.50.4
Time in open arm before self-admin0.80.91.50.90.6-1.2
Time in open arm after self-admin1.41.52.31.11.0-1.5
Bone: periosteal estimation4.49.110.6-3.0-3.32.8
Bone: periosteal perimeter3.96.47.3-2.5-2.72.5
Bone: post-yield work1.21.72.5-1.1-1.61.1
Progressive ratio test 1 active lever presses0.20.20.6-0.3-0.80.2
Progressive ratio test 1 breakpoint0.30.40.9-0.4-0.90.2
Progressive ratio test 1 inactive lever presses0.80.91.4-0.9-1.20.8
Progressive ratio test 2 active lever presses0.30.30.3-0.4-0.60.6
Progressive ratio test 2 breakpoint0.30.30.4-0.5-0.60.6
Progressive ratio test 2 inactive lever presses0.91.01.7-0.9-1.30.8
Incentive Sensitization - Responses0.30.30.5-0.5-0.30.7
Incentive Sensitization - Breakpoint0.40.40.6-0.6-0.40.8
Sum of active levers in priming session hrs 5-60.30.30.4-0.6-0.30.7
Progressive ratio0.10.10.3-0.2-0.5-0.3
Food seeking constrained by brief footshock0.20.20.30.50.4-0.5
Seeking ratio, punishment vs. effort0.00.00.10.10.30.1
Retroperitoneal fat weight0.10.20.3-0.5-0.5-0.1
Reaction time number correct0.20.20.40.70.1-0.5
Reaction time mean minus median0.30.40.9-0.5-0.41.0
Reaction time mean minus median AUC0.20.20.6-0.2-0.00.8
Reaction time num false alarms0.91.22.0-0.9-1.40.8
Reaction time num false alarms AUC1.31.73.1-1.1-1.81.0
Reaction time trials correct on left0.20.20.40.70.1-0.5
Reaction time trials on left0.20.20.40.70.1-0.5
Reaction time mean0.10.10.30.00.20.5
Reaction time mean AUC0.10.20.30.40.50.1
Median of all reaction times0.10.10.30.30.50.1
Reaction time omissions0.30.40.9-0.4-1.00.3
Reaction time false alarm rate1.21.72.7-1.2-1.61.0
Reaction time premature initiation rate2.02.72.81.61.6-1.7
Reaction time premature initiations2.02.83.21.81.5-1.7
Std. dev. reaction times0.10.10.2-0.2-0.30.5
Reaction time trials completed0.20.20.40.70.1-0.5
Reaction time trials AUC0.10.10.30.50.0-0.3
Run reversals in cocaine runway, females0.10.10.1-0.3-0.30.2
Run reversals in cocaine runway, males0.30.30.5-0.7-0.20.5
Latency to leave start box in cocaine runway1.11.11.71.01.3-0.9
Latency to leave start box in cocaine runway, F0.10.10.1-0.30.10.4
Latency to leave start box in cocaine runway, M7.37.07.22.62.6-2.7
Std. dev. time between licks in bursts0.70.81.1-0.6-1.01.0
Total sessions with >9 infusions1.92.12.8-1.3-1.71.4
Short access day 1 total inactive lever presses0.30.30.5-0.6-0.70.3
Short access day 10 total inactive lever presses3.03.44.3-1.8-1.62.1
Short access day 1 total infusions0.90.91.4-0.9-1.20.8
Short access day 10 total infusions0.20.30.5-0.4-0.70.4
Short access total infusions0.10.10.3-0.2-0.60.3
Short access day 1 locomotion0.40.40.7-0.6-0.80.4
Short access day 10 total locomotion3.53.94.3-2.1-2.11.8
Short access total locomotion2.12.23.2-1.4-1.81.2
One hour access (0.3 mA shock)3.03.53.9-1.7-1.92.0
Compulsive drug intake1.81.82.4-1.5-0.91.6
One hour access (shock baseline)0.91.11.8-0.9-1.30.8
Social response proportion0.20.30.60.20.8-0.4
Social responses2.93.84.5-2.1-1.91.8
Social time0.20.30.3-0.5-0.60.5
Soleus weight4.312.613.6-3.6-3.73.4
Bone: stiffness5.07.88.7-3.0-2.82.6
Tibialis anterior weight2.58.48.9-3.0-2.92.9
Time to tail flick, vehicle, before self-admin0.30.30.6-0.5-0.70.5
Time to tail flick, vehicle, after self-admin0.10.20.30.60.1-0.4
Time to tail flick, test, before self-admin0.30.30.5-0.6-0.40.7
Time to tail flick, test, after self-admin0.60.61.0-0.9-0.41.0
Delta time to tail flick, vehicle, before/after SA0.10.10.10.20.3-0.2
Delta time to tail flick, test, before/after SA0.10.10.1-0.3-0.10.3
Tibia length1.44.05.5-1.9-2.31.7
Ambulatory time before self-admin2.72.82.8-1.6-1.71.7
Ambulatory time after self-admin2.12.32.8-1.4-1.71.5
Bone: tissue strength2.42.33.1-1.2-1.81.5
Total heroin consumption0.20.20.3-0.6-0.00.5
Bone: trabecular number0.81.21.3-1.1-1.11.1
Bone: trabecular spacing1.21.52.11.11.1-1.5
Bone: trabecular thickness0.91.11.4-1.1-0.81.2
Bone: trabecular tissue density0.40.50.7-0.8-0.80.6
Water consumed over 24 hours1.82.22.51.51.6-1.3
Number of responses in last shaping day0.30.30.6-0.4-0.80.4