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 Adipose gene expression ENSRNOG00000011794 0.05 0.04 1.7e-04 0.02 0.01 0.01 0.01 1.3e-03 2.1e-02 2.6e-02 1.5e-02
2 Brain mRNA stability ENSRNOG00000011794 0.12 0.06 7.8e-16 0.17 0.17 0.15 0.17 6.1e-16 1.4e-15 4.9e-14 2.6e-15
3 Liver gene expression ENSRNOG00000011794 0.13 0.09 5.2e-12 0.08 0.08 0.09 0.08 2.3e-09 2.6e-09 5.4e-10 2.1e-09

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 strong Z-scores (below -2 or above 2): lower negative Z-scores are darker blue, higher positive Z-scores are darker red.

Trait Avg chi2 ratio Avg chi2 Max chi2 1 2 3
BMI with tail3.09.711.9-2.92.93.5
BMI without tail2.55.27.1-1.92.22.7
Body weight5.824.627.6-4.55.35.1
Epididymis fat weight0.81.92.9-1.01.41.7
Glucose0.00.10.1-0.30.3-0.2
Heart weight0.20.20.3-0.50.60.3
Left kidney weight5.515.718.7-3.84.33.7
Right kidney weight1.23.65.0-1.72.21.6
Tail length0.61.92.8-1.11.71.4
Length with tail1.65.88.6-2.02.92.2
Length without tail2.14.56.0-2.12.41.8
Liver weight, left4.26.78.4-2.32.92.6
Liver weight, right2.23.64.6-1.92.11.6
Parametrial fat weight0.20.30.70.8-0.5-0.1
Retroperitoneal fat weight0.10.40.80.10.50.9
Intraocular pressure0.30.40.5-0.70.70.2
Extensor digitorum longus weight0.72.93.5-1.61.91.6
Soleus weight4.312.513.0-3.43.63.6
Tibialis anterior weight2.48.18.9-2.83.02.7
Tibia length1.54.15.7-1.71.92.4
Number of licking bursts0.30.40.80.3-0.5-0.9
Food consumed during 24 hour testing period0.10.10.10.4-0.4-0.4
Times rat made contact with spout2.73.13.81.7-1.6-2.0
Mean time between licks in bursts0.50.70.9-0.80.71.0
Mean num. licks in bursts0.30.40.60.8-0.6-0.5
Std. dev. time between licks in bursts0.60.70.9-1.00.60.9
Water consumed over 24 hours2.02.33.11.3-1.5-1.8
Indifference point 0 sec0.10.10.4-0.60.2-0.1
Indifference point AUC0.60.70.8-0.90.90.6
Indifference point function ln k0.60.91.61.0-1.3-0.2
Indifference point function log k0.60.91.61.0-1.3-0.2
Delay discounting total patch changes 0 sec0.10.10.3-0.50.1-0.2
Delay discounting total patch changes 12 sec0.30.40.6-0.80.7-0.2
Delay discounting total patch changes 18 sec0.20.30.6-0.80.6-0.3
Delay discounting total patch changes 24 sec0.60.71.4-0.91.20.1
Delay discounting total patch changes 6 sec0.30.51.2-1.10.6-0.2
Delay discounting time to switch 0 sec0.81.32.20.9-0.9-1.5
Delay discounting water rate 0 sec0.10.20.30.6-0.4-0.2
Delay discounting water rate 12 sec0.10.10.2-0.30.50.3
Delay discounting water rate 18 sec1.62.12.4-1.41.41.5
Delay discounting water rate 24 sec0.40.50.60.6-0.8-0.7
Delay discounting water rate 6 sec0.40.50.80.9-0.6-0.6
Locomotor activity7.311.614.1-3.43.83.1
Locomotor testing distance3.65.96.3-2.42.52.4
Locomotor testing rearing3.55.45.6-2.42.42.3
Light reinforcement 10.40.71.1-1.01.00.4
Light reinforcement 20.40.50.7-0.80.60.7
Reaction time number correct0.20.20.40.5-0.70.0
Reaction time mean minus median0.40.50.9-0.90.50.5
Reaction time mean minus median AUC0.20.20.6-0.80.20.0
Reaction time num false alarms0.71.01.5-0.80.91.2
Reaction time num false alarms AUC1.21.72.9-1.01.11.7
Reaction time trials correct on left0.20.20.40.5-0.70.0
Reaction time trials on left0.20.20.40.5-0.70.1
Reaction time mean0.10.10.2-0.4-0.0-0.4
Reaction time mean AUC0.10.20.4-0.1-0.4-0.6
Median of all reaction times0.10.20.5-0.1-0.3-0.7
Reaction time omissions0.30.51.1-0.30.41.1
Reaction time false alarm rate1.11.62.2-1.11.21.5
Reaction time premature initiation rate2.33.13.41.8-1.6-1.9
Reaction time premature initiations2.13.03.41.9-1.8-1.5
Std. dev. reaction times0.10.10.2-0.50.20.2
Reaction time trials completed0.20.20.40.5-0.70.1
Reaction time trials AUC0.10.10.30.3-0.50.1
Social response proportion0.10.20.20.5-0.2-0.5
Social responses3.03.94.5-1.82.12.0
Social time0.30.50.9-0.50.50.9
Conditioned locomotion1.72.02.61.6-1.5-1.1
Cocaine response after cond. corrected3.84.35.12.1-2.3-1.8
Cocaine response after cond. not corrected4.95.46.12.3-2.5-2.2
Cocaine response before conditioning0.30.40.6-0.60.80.4
Saline control response1.11.43.00.7-0.9-1.7
Condit. Reinf. active minus inactive responses1.92.42.9-1.21.71.6
Condit. Reinf. active-inactive response ratio0.10.10.30.60.00.0
Condit. Reinf. active responses5.57.79.1-2.63.02.6
Condit. Reinf. inactive responses7.59.310.1-3.23.22.8
Condit. Reinf. lever presses1.82.53.1-1.51.81.4
Condit. Reinf. lever reinforcers received5.07.08.4-2.52.92.5
Pavlov. Cond. lever latency0.60.81.30.8-1.1-0.7
Pavlov. Cond. magazine entry latency0.10.10.20.20.40.2
Pavlov. Cond. change in total contacts1.82.63.4-1.31.81.6
Pavlov. Cond. index score0.20.30.7-0.30.80.4
Pavlov. Cond. latency score0.10.10.4-0.00.60.3
Pavlov. Cond. lever contacts1.11.52.3-1.11.51.0
Pavlov. Cond. magazine entry number0.50.61.20.3-1.1-0.7
Pavlov. Cond. intertrial magazine entries0.91.21.41.1-1.2-1.1
Pavlov. Cond. lever-magazine prob. diff.0.20.30.6-0.30.80.4
Pavlov. Cond. response bias1.01.42.1-1.01.51.0
Conditioned reinforcement - actives1.31.31.6-1.01.11.3
Conditioned reinforcement - inactives1.41.61.7-1.21.21.3
Conditioned locomotion1.92.32.7-1.21.61.6
Intermittent access intake day 1-15 change4.54.45.0-2.02.12.2
Intermittent access intake escalation2.92.93.4-1.61.61.8
Intermittent access intake escalation 20.80.81.3-0.70.81.1
Intermitt. access day 1 inactive lever presses4.75.15.6-2.42.32.1
Intermitt. access day 15 inactive lever presses1.41.52.1-1.41.01.2
Intermitt. access escalation Index1.00.91.4-1.01.20.6
Intermittent access day 1 total infusions0.40.50.6-0.80.70.6
Intermittent access day 15 total infusions3.03.43.5-1.91.81.8
Intermittent access terminal intake (last 3 days)1.51.71.7-1.31.31.3
Intermittent access total infusions1.11.21.4-1.11.01.2
Intermittent access day 1 locomotion0.10.10.2-0.10.40.4
Intermittent access day 15 total locomotion0.10.10.30.6-0.20.1
Intermittent access total locomotion0.30.30.5-0.30.70.6
Intermittent access standard deviation7.37.88.5-2.72.82.9
Cocaine induced anxiety0.00.00.00.2-0.1-0.2
Post-drug Anxiety0.50.50.70.7-0.7-0.9
Baseline Anxiety0.00.00.0-0.10.10.2
Lifetime Intake0.40.50.6-0.70.60.8
Incentive Sensitization - Responses0.30.30.6-0.80.50.0
Incentive Sensitization - Breakpoint0.40.40.7-0.80.60.1
Progressive ratio test 1 active lever presses0.20.20.4-0.20.30.6
Progressive ratio test 1 breakpoint0.20.20.5-0.20.40.7
Progressive ratio test 1 inactive lever presses0.91.01.5-0.80.91.2
Progressive ratio test 2 active lever presses0.20.20.3-0.60.40.3
Progressive ratio test 2 breakpoint0.20.30.4-0.60.50.4
Progressive ratio test 2 inactive lever presses0.91.01.7-0.80.91.3
Total sessions with >9 infusions1.92.12.7-1.41.31.6
Short access day 1 total inactive lever presses0.30.40.5-0.40.60.7
Short access day 10 total inactive lever presses3.03.44.6-2.21.81.4
Short access day 1 total infusions0.70.80.8-0.90.90.9
Short access day 10 total infusions0.20.20.3-0.40.40.6
Short access total infusions0.10.10.2-0.30.20.4
Short access day 1 locomotion0.40.40.5-0.50.60.7
Short access day 10 total locomotion3.53.84.2-1.72.12.0
Short access total locomotion2.22.33.4-1.21.41.9
Compulsive drug intake1.91.92.5-1.61.51.0
One hour access (0.3 mA shock)2.83.23.9-2.01.71.7
One hour access (shock baseline)0.70.91.1-0.80.91.1
Number of responses in last shaping day0.40.40.8-0.50.40.9
Context. condit. distance diff. score1.01.22.1-1.01.50.8
Locomotion velocity, session 10.60.60.7-0.80.80.8
Locomotion distance, session 10.00.00.0-0.0-0.00.2
Locomotion velocity, session 22.12.42.91.7-1.7-1.2
Locomotion distance, session 20.50.70.8-0.90.70.8
Locomotion velocity, session 30.81.01.70.7-0.8-1.3
Locomotion distance, session 30.70.71.0-1.01.00.5
Stereotopy head waving bouts, day 30.70.81.01.0-1.0-0.7
Stereotopy head waving duration, day 31.31.61.81.3-1.3-1.1
Locomotion velocity, session 70.91.01.3-1.11.20.7
Locomotion distance, session 70.10.10.2-0.40.5-0.0
Stereotopy head waving bouts, day 70.10.10.20.00.50.4
Stereotopy head waving duration, day 70.30.40.6-0.30.70.8
Locomotion velocity, session 80.40.50.7-0.50.80.8
Locomotion distance, session 81.72.53.7-1.41.91.3
Degree of sensitization distance1.11.11.51.2-1.1-0.9
Degree of sensitization stereotypy1.21.31.7-0.71.31.3
Condit. Reinf. active minus inactive responses0.40.51.01.0-0.4-0.5
Condit. Reinf. active-inactive response ratio0.20.20.40.6-0.2-0.2
Condit. Reinf. active responses0.40.50.91.0-0.5-0.4
Condit. Reinf. inactive responses0.10.10.10.3-0.3-0.2
Incentive salience index mean0.40.50.90.9-0.5-0.7
Condit. Reinf. lever presses0.10.10.20.3-0.4-0.4
Time in familiar zone, hab. session 10.30.30.50.2-0.6-0.7
Time in novel zone, hab. session 10.00.00.0-0.10.20.2
Total zone transitions, hab. session 10.10.10.2-0.50.2-0.1
Total locomotion distance, hab. session 10.10.10.2-0.40.2-0.2
Locomotion velocity, hab. session 10.10.10.2-0.2-0.1-0.4
Time in familiar zone, hab. session 21.11.22.30.7-0.8-1.5
Time in novel zone, hab. session 20.00.00.1-0.20.00.2
Total zone transitions, hab. session 20.70.81.3-1.10.70.9
Total locomotion distance, hab. session 20.10.10.2-0.5-0.1-0.2
Locomotion velocity, hab. session 20.30.30.9-0.90.30.3
Novel to familiar place preference ratio0.00.00.00.20.10.1
Novelty place preference0.00.00.10.00.30.2
Time in novel zone, NPP test0.00.00.00.00.2-0.1
Total zone transitions, NPP test0.10.20.2-0.50.30.4
Total locomotion distance, NPP test0.10.10.2-0.0-0.2-0.4
Locomotion velocity, NPP test0.00.00.00.1-0.0-0.2
Pavlov. Cond. lever latency0.00.10.1-0.10.3-0.3
Pavlov. Cond. magazine entry latency0.00.00.1-0.30.00.1
Pavlov. Cond. change in total contacts0.10.10.10.2-0.40.0
Pavlov. Cond. index score0.10.20.3-0.40.10.5
Pavlov. Cond. latency score0.00.00.1-0.2-0.10.3
Pavlov. Cond. lever contacts0.10.10.20.1-0.50.1
Pavlov. Cond. magazine entry number0.80.91.41.2-0.9-0.8
Pavlov. Cond. intertrial magazine entries8.310.011.03.3-3.1-3.1
Pavlov. Cond. lever-magazine prob. diff.0.10.10.1-0.3-0.00.4
Pavlov. Cond. response bias0.10.20.3-0.50.30.3
Bone: apparent density1.62.62.7-1.61.71.5
Bone surface1.93.33.4-1.81.91.8
Bone volume1.62.72.9-1.61.71.7
Bone: connectivity density0.60.91.0-1.01.00.9
Bone: cortical apparent density0.20.30.70.4-0.3-0.8
Bone: cortical area3.04.55.6-2.12.41.8
Bone: cortical porosity2.12.22.31.5-1.5-1.4
Bone: cortical porosity2.22.42.81.7-1.6-1.3
Bone: cortical thickness1.32.23.6-1.41.91.0
Bone: cortical thickness0.30.30.60.20.8-0.5
Bone: cortical tissue density0.40.50.90.6-0.5-1.0
Bone: elastic displacement0.50.60.80.7-0.8-0.9
Bone: elastic work0.10.10.1-0.3-0.2-0.3
Bone: endosteal estimation2.75.98.2-2.22.12.9
Bone: endosteal perimeter2.44.97.0-2.11.82.6
Bone: final force1.72.83.4-1.71.81.4
Bone: final moment2.33.84.4-2.12.01.7
Bone: marrow area2.86.18.5-2.22.22.9
Bone: maximum diameter3.76.87.0-2.62.62.6
Bone: maximum force2.95.15.4-2.32.32.1
Bone: maximum moment3.76.47.2-2.72.52.4
Bone: minimum diameter1.42.63.0-1.51.71.6
Bone: periosteal estimation4.38.99.9-2.83.03.1
Bone: periosteal perimeter3.76.26.3-2.52.52.5
Bone: post-yield work1.41.83.0-1.11.11.7
Bone: stiffness4.77.58.7-2.63.02.7
Bone: tissue strength2.72.63.2-1.71.21.8
Bone: trabecular number0.71.11.1-1.11.11.0
Bone: trabecular spacing1.11.42.11.4-1.1-0.9
Bone: trabecular thickness0.91.01.3-1.11.10.7
Bone: trabecular tissue density0.40.60.7-0.70.80.9
Breakpoint value in progressive ratio session0.70.81.90.6-0.5-1.4
Distance traveled before self-admin4.24.55.2-2.32.11.9
Distance traveled after self-admin2.93.23.5-1.81.71.9
Delta time in closed arm before/after self-admin0.00.00.10.3-0.1-0.1
Delta time in open arm before/after self-admin0.00.00.10.1-0.2-0.3
Diff in mean of infusions in LGA sessions1.01.21.41.0-1.1-1.2
Extinction: sum of active levers before priming1.31.41.5-1.11.21.1
Active lever presses in extinction session 60.40.40.80.9-0.6-0.4
Delta distance traveled before/after self-admin0.20.20.40.4-0.7-0.3
Delta ambulatory time before/after self-admin0.60.70.90.9-0.9-0.6
Time in closed arm before self-admin2.32.73.4-1.91.71.2
Time in closed arm after self-admin0.10.10.2-0.20.40.4
Time in open arm before self-admin0.80.91.61.3-0.9-0.5
Time in open arm after self-admin1.21.42.21.5-1.1-0.8
Sum of active levers in priming session hrs 5-60.40.40.5-0.70.60.5
Time to tail flick, vehicle, before self-admin0.60.61.2-0.50.51.1
Time to tail flick, vehicle, after self-admin0.20.20.30.5-0.60.1
Time to tail flick, test, before self-admin0.30.30.4-0.70.60.4
Time to tail flick, test, after self-admin0.60.60.8-0.80.90.7
Delta time to tail flick, vehicle, before/after SA0.10.10.10.4-0.2-0.3
Delta time to tail flick, test, before/after SA0.10.10.1-0.30.30.3
Ambulatory time before self-admin2.52.73.1-1.81.61.5
Ambulatory time after self-admin2.02.22.6-1.41.41.6
Total heroin consumption0.10.20.3-0.50.6-0.0
Area under the delay curve1.01.01.5-0.61.21.1
Delay disc. indifference point, 0s delay1.71.82.7-1.01.61.3
Delay disc. indifference point, 16s delay0.70.71.0-0.50.91.0
Delay disc. indifference point, 2s delay1.21.42.3-0.91.51.1
Delay disc. indifference point, 24s delay0.10.10.20.5-0.1-0.1
Delay disc. indifference point, 4s delay1.21.21.5-0.81.21.2
Delay disc. indifference point, 8s delay1.01.11.5-0.51.21.2
Delay discount exponential model param0.90.91.40.5-1.2-1.1
Delay discount hyperbolic model param1.11.21.80.7-1.3-1.2
Fecal boli incidents, locomotor time 12.62.83.5-1.71.91.4
Change in fecal boli incidents, locomotor task2.62.44.22.0-1.5-0.9
Time >=10cm from walls, locomotor time 10.20.20.3-0.30.60.5
Bouts of movement, locomotor time 10.30.30.70.8-0.4-0.2
Total resting periods, locomotor time 10.30.30.80.9-0.4-0.2
Rest time, locomotor task time 11.71.92.21.5-1.4-1.2
Distance moved, locomotor task time 11.61.82.5-1.61.31.1
Vertical activity count, locomotor time 12.52.63.2-1.71.81.2
Time >=10cm from walls, locomotor time 20.00.00.00.1-0.1-0.1
Bouts of movement, locomotor time 21.11.21.31.1-1.1-1.1
Total resting periods, locomotor time 21.92.02.21.5-1.4-1.4
Rest time, locomotor task time 23.13.64.82.2-1.7-1.8
Distance moved, locomotor task time 21.82.13.0-1.71.31.3
Vertical activity count, locomotor time 22.93.24.4-2.11.91.3
Weight adjusted by age0.10.10.20.2-0.3-0.5
Seeking ratio, delayed vs. immediate footshock2.32.73.6-1.91.61.4
Locomotion in novel chamber3.23.95.1-2.31.91.7
Locomotion in novel chamber post-restriction0.50.61.0-0.40.81.0
Progressive ratio0.10.10.40.10.20.6
Food seeking constrained by brief footshock0.20.20.30.4-0.5-0.5
Seeking ratio, punishment vs. effort0.10.10.20.1-0.1-0.4
Run reversals in cocaine runway, females0.10.10.1-0.20.30.2
Run reversals in cocaine runway, males0.30.30.5-0.30.70.4
Latency to leave start box in cocaine runway0.91.01.30.9-1.0-1.1
Latency to leave start box in cocaine runway, F0.10.10.2-0.40.30.1
Latency to leave start box in cocaine runway, M7.47.17.42.7-2.6-2.6
Cd content in liver1.71.81.9-1.41.31.4
Co content in liver0.10.10.20.1-0.5-0.3
Cu content in liver2.02.53.61.1-1.6-1.9
Fe content in liver0.20.30.5-0.70.6-0.0
K content in liver0.00.00.00.1-0.1-0.0
Mg content in liver0.00.00.0-0.10.2-0.1
Mn content in liver2.12.43.2-1.31.81.5
Na content in liver2.22.33.9-1.32.01.2
Rb content in liver0.10.10.20.20.1-0.5
Se content in liver0.60.71.01.0-0.6-0.8
Sr content in liver2.72.53.8-1.31.41.9
Zn content in liver0.20.30.7-0.80.3-0.0