Tent4b

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 gene expression Tent4b 0.04 0.03 3.0e-05 0.04 0.03 0.01 0.03 5.9e-05 1.9e-04 7.3e-03 4.0e-04
2 Eye alternative TSS NM_001401226.1 0.32 0.19 8.0e-03 0.13 0.09 0.08 0.08 5.3e-03 1.7e-02 2.2e-02 2.3e-02
3 Brain mRNA stability Tent4b 0.06 0.04 2.9e-04 0.01 0.04 0.03 0.03 1.3e-02 2.0e-04 1.2e-03 8.8e-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 density1.42.33.1-1.7-1.61.2
Area under the delay curve0.20.20.40.40.7-0.2
BMI with tail1.34.15.72.42.4-0.9
BMI without tail0.10.20.7-0.10.20.8
Body weight0.41.52.71.41.6-0.2
Weight adjusted by age3.13.55.52.22.3-0.2
Bone surface0.81.42.1-1.4-0.81.2
Bone volume2.13.64.7-2.2-1.61.9
Breakpoint value in progressive ratio session0.30.30.6-0.4-0.8-0.3
Number of licking bursts0.30.40.7-0.6-0.8-0.2
Context. condit. distance diff. score5.46.510.02.02.3-3.2
Locomotion velocity, session 10.30.40.4-0.7-0.60.6
Locomotion distance, session 10.30.41.00.3-0.1-1.0
Locomotion velocity, session 20.00.00.10.10.0-0.4
Locomotion distance, session 20.40.61.20.70.3-1.1
Locomotion velocity, session 31.21.52.91.21.7-0.3
Locomotion distance, session 30.30.30.60.40.8-0.4
Stereotopy head waving bouts, day 30.50.61.20.71.1-0.4
Stereotopy head waving duration, day 31.01.21.91.11.4-0.7
Locomotion velocity, session 71.92.13.81.01.2-1.9
Locomotion distance, session 70.60.82.1-0.3-0.3-1.5
Stereotopy head waving bouts, day 70.40.51.10.51.10.2
Stereotopy head waving duration, day 70.40.51.2-0.5-0.01.1
Locomotion velocity, session 82.22.76.10.91.0-2.5
Locomotion distance, session 83.24.710.21.31.4-3.2
Degree of sensitization distance0.40.40.7-0.4-0.5-0.9
Degree of sensitization stereotypy0.50.61.00.61.00.5
Conditioned locomotion0.20.20.3-0.4-0.40.5
Cocaine response after cond. corrected2.02.23.11.81.1-1.5
Cocaine response after cond. not corrected1.31.42.51.61.0-0.9
Cocaine response before conditioning1.61.92.7-1.2-1.21.6
Saline control response1.41.92.2-1.4-1.5-1.2
Bone: connectivity density0.91.52.2-1.5-1.50.4
Bone: cortical apparent density0.20.30.90.30.2-0.9
Bone: cortical area0.20.30.5-0.7-0.30.4
Bone: cortical porosity0.00.00.0-0.1-0.0-0.2
Bone: cortical porosity0.10.10.2-0.5-0.20.2
Bone: cortical thickness0.00.10.2-0.1-0.20.4
Bone: cortical thickness0.10.10.3-0.00.3-0.5
Bone: cortical tissue density0.30.41.00.30.2-1.0
Condit. Reinf. active minus inactive responses1.11.31.81.10.8-1.4
Condit. Reinf. active-inactive response ratio2.12.23.21.51.1-1.8
Condit. Reinf. active responses0.00.00.0-0.2-0.20.0
Condit. Reinf. inactive responses4.45.37.1-2.7-2.02.1
Incentive salience index mean0.20.20.3-0.3-0.6-0.5
Condit. Reinf. lever presses1.31.82.6-1.6-1.50.6
Condit. Reinf. active minus inactive responses0.10.10.10.40.30.1
Condit. Reinf. active-inactive response ratio0.80.92.40.40.11.6
Condit. Reinf. active responses0.00.00.10.00.3-0.2
Condit. Reinf. inactive responses0.81.02.30.20.8-1.5
Condit. Reinf. lever presses0.50.60.80.90.9-0.5
Condit. Reinf. lever reinforcers received0.10.20.40.40.7-0.1
Conditioned reinforcement - actives1.11.11.20.91.0-1.1
Conditioned reinforcement - inactives2.83.16.41.31.2-2.5
Conditioned locomotion0.10.10.20.00.3-0.5
Patch foraging indifference point 0 sec0.91.52.50.71.2-1.6
Patch foraging indifference point AUC1.21.42.1-1.4-1.40.5
Delay disc. indifference point, 0s delay0.91.01.5-1.2-1.20.5
Delay disc. indifference point, 16s delay0.50.50.90.71.0-0.1
Delay disc. indifference point, 2s delay0.50.60.80.50.90.8
Delay disc. indifference point, 24s delay0.00.00.00.10.1-0.0
Delay disc. indifference point, 4s delay0.30.30.80.20.2-0.9
Delay disc. indifference point, 8s delay1.01.01.21.11.1-0.8
Indifference point function ln k1.31.82.71.51.6-0.8
Indifference point function log k1.31.82.71.51.6-0.8
Patch foraging total patch changes 0 sec1.11.82.70.91.4-1.6
Patch foraging total patch changes 12 sec0.91.22.0-0.8-0.9-1.4
Patch foraging total patch changes 18 sec1.41.82.9-1.7-1.5-0.5
Patch foraging total patch changes 24 sec0.81.01.4-1.1-0.5-1.2
Patch foraging total patch changes 6 sec0.20.30.4-0.6-0.3-0.6
Patch foraging time to switch 0 sec0.10.10.4-0.0-0.1-0.6
Patch foraging water rate 0 sec0.20.40.8-0.4-0.40.9
Patch foraging water rate 12 sec0.50.81.1-0.8-0.81.0
Patch foraging water rate 18 sec3.54.77.7-1.7-1.82.8
Patch foraging water rate 24 sec0.20.20.6-0.1-0.30.7
Patch foraging water rate 6 sec3.14.57.1-2.7-2.11.4
Seeking ratio, delayed vs. immediate footshock4.24.86.22.42.5-1.5
Distance traveled before self-admin0.90.91.21.11.00.7
Distance traveled after self-admin1.21.33.8-0.2-0.31.9
Extensor digitorum longus weight0.41.64.3-0.3-0.62.1
Bone: elastic displacement0.10.10.40.00.0-0.6
Bone: elastic work0.00.00.0-0.2-0.10.2
Bone: endosteal estimation0.10.20.20.30.5-0.4
Bone: endosteal perimeter0.40.71.30.30.9-1.1
Epididymis fat weight0.10.30.60.40.4-0.8
Delta time in closed arm before/after self-admin1.11.11.81.31.2-0.2
Delta time in open arm before/after self-admin1.91.83.0-1.7-1.60.1
Diff in mean of infusions in LGA sessions0.60.72.00.20.0-1.4
Delay discount exponential model param0.30.30.5-0.5-0.70.3
Extinction: sum of active levers before priming3.03.04.12.01.9-1.1
Active lever presses in extinction session 60.10.10.10.1-0.20.4
Bone: final force1.72.73.5-1.4-1.61.9
Bone: final moment1.11.82.6-1.1-1.21.6
Food consumed during 24 hour testing period4.65.68.6-2.8-2.90.6
Glucose0.30.51.0-1.0-0.40.5
Heart weight1.52.24.41.42.1-0.3
Delay discount hyperbolic model param0.30.30.5-0.5-0.70.3
Intermittent access intake day 1-15 change2.52.54.2-1.8-2.00.2
Intermittent access intake escalation3.93.96.3-2.3-2.50.4
Intermittent access intake escalation 22.42.33.6-1.7-1.9-0.7
Intermitt. access day 1 inactive lever presses0.40.51.10.50.4-1.0
Intermitt. access day 15 inactive lever presses1.61.73.41.10.8-1.8
Intermitt. access escalation Index0.20.20.3-0.6-0.6-0.2
Intermittent access day 1 total infusions2.73.14.62.02.1-0.8
Intermittent access day 15 total infusions0.00.00.00.10.0-0.1
Intermittent access terminal intake (last 3 days)0.40.50.90.50.5-1.0
Intermittent access total infusions0.30.30.30.50.6-0.5
Intermittent access day 1 locomotion0.70.70.80.80.90.8
Intermittent access day 15 total locomotion0.80.91.60.80.51.3
Intermittent access total locomotion0.60.71.00.80.71.0
Intermittent access standard deviation0.10.10.2-0.4-0.5-0.2
Left kidney weight0.20.50.7-0.6-0.70.8
Right kidney weight0.00.10.20.30.40.0
Cocaine induced anxiety3.84.411.20.91.2-3.3
Post-drug Anxiety1.41.53.30.70.8-1.8
Baseline Anxiety2.32.46.7-0.3-0.72.6
Tail length1.75.26.9-2.6-2.31.8
Length with tail0.10.30.4-0.6-0.30.5
Length without tail1.43.14.22.02.0-1.1
Times rat made contact with spout0.40.40.8-0.6-0.30.9
Lifetime Intake0.30.40.70.50.5-0.8
Liver weight, left0.40.61.80.10.2-1.3
Liver weight, right0.20.30.50.5-0.1-0.7
Locomotor activity0.10.20.30.00.60.5
Locomotor testing distance0.10.10.40.20.6-0.2
Locomotor testing rearing0.71.11.5-1.0-0.9-1.2
Locomotion in novel chamber0.30.30.50.70.6-0.4
Locomotion in novel chamber post-restriction0.20.30.5-0.4-0.40.7
Fecal boli incidents, locomotor time 11.01.11.4-1.2-1.2-0.6
Change in fecal boli incidents, locomotor task0.10.10.3-0.0-0.0-0.6
Time >=10cm from walls, locomotor time 10.50.51.3-0.1-0.21.2
Bouts of movement, locomotor time 10.60.61.0-1.0-1.0-0.0
Total resting periods, locomotor time 10.20.20.4-0.6-0.6-0.2
Rest time, locomotor task time 10.40.40.5-0.6-0.70.5
Distance moved, locomotor task time 10.60.70.90.90.9-0.6
Vertical activity count, locomotor time 10.40.40.7-0.8-0.80.0
Time >=10cm from walls, locomotor time 20.60.71.20.80.31.1
Bouts of movement, locomotor time 20.10.10.10.20.4-0.1
Total resting periods, locomotor time 20.00.00.1-0.20.1-0.3
Rest time, locomotor task time 20.40.40.7-0.7-0.3-0.8
Distance moved, locomotor task time 21.31.52.91.71.30.3
Vertical activity count, locomotor time 20.10.10.2-0.4-0.50.0
Light reinforcement 112.122.033.1-5.8-5.41.8
Light reinforcement 29.913.221.1-4.6-4.01.7
Bone: marrow area0.10.20.30.40.6-0.4
Bone: maximum diameter0.30.50.90.50.9-0.5
Bone: maximum force0.30.60.9-0.6-0.71.0
Bone: maximum moment0.20.30.5-0.3-0.40.7
Mean time between licks in bursts0.40.61.00.40.8-1.0
Mean num. licks in bursts0.30.30.70.20.50.8
Cd content in liver1.21.32.91.00.3-1.7
Co content in liver0.20.20.60.80.20.2
Cu content in liver0.10.10.20.50.2-0.1
Fe content in liver2.02.46.2-0.5-0.92.5
K content in liver0.20.20.40.30.20.7
Mg content in liver0.40.40.70.80.80.1
Mn content in liver0.80.91.61.30.9-0.6
Na content in liver0.60.71.9-0.10.01.4
Rb content in liver1.21.52.1-0.9-1.21.5
Se content in liver2.93.55.1-1.6-1.72.3
Sr content in liver0.00.00.00.1-0.20.1
Zn content in liver3.13.43.82.01.9-1.7
Bone: minimum diameter0.81.51.8-1.2-1.41.1
Time in familiar zone, hab. session 10.40.40.9-0.6-0.90.2
Time in novel zone, hab. session 10.50.50.60.70.80.6
Total zone transitions, hab. session 10.20.20.30.40.5-0.5
Total locomotion distance, hab. session 10.50.70.80.90.8-0.8
Locomotion velocity, hab. session 10.50.70.90.70.8-0.9
Time in familiar zone, hab. session 21.31.31.9-1.4-1.2-0.7
Time in novel zone, hab. session 22.72.74.72.21.80.3
Total zone transitions, hab. session 20.10.10.4-0.20.1-0.6
Total locomotion distance, hab. session 20.10.10.30.10.2-0.6
Locomotion velocity, hab. session 20.00.00.0-0.1-0.1-0.2
Novel to familiar place preference ratio1.01.11.71.31.2-0.1
Novelty place preference0.80.91.41.21.10.0
Time in novel zone, NPP test0.80.91.21.11.10.5
Total zone transitions, NPP test0.10.10.3-0.10.1-0.5
Total locomotion distance, NPP test0.00.10.10.20.30.1
Locomotion velocity, NPP test0.00.00.1-0.00.0-0.3
Intraocular pressure4.86.78.62.92.9-1.8
Delta distance traveled before/after self-admin1.11.21.3-1.1-1.21.0
Delta ambulatory time before/after self-admin1.61.82.5-1.5-1.60.9
Parametrial fat weight0.10.30.7-0.30.1-0.8
Pavlov. Cond. lever latency0.20.20.6-0.00.1-0.8
Pavlov. Cond. magazine entry latency0.20.20.40.50.10.7
Pavlov. Cond. change in total contacts1.51.63.0-0.9-1.01.7
Pavlov. Cond. index score0.10.20.30.50.20.5
Pavlov. Cond. latency score0.10.10.20.50.20.2
Pavlov. Cond. lever contacts0.30.41.2-0.10.01.1
Pavlov. Cond. magazine entry number0.40.51.4-0.2-0.0-1.2
Pavlov. Cond. intertrial magazine entries0.10.10.30.00.2-0.5
Pavlov. Cond. lever-magazine prob. diff.0.20.30.40.70.40.5
Pavlov. Cond. response bias0.91.13.30.10.21.8
Pavlov. Cond. lever latency0.20.20.50.70.3-0.1
Pavlov. Cond. magazine entry latency0.00.00.1-0.2-0.1-0.3
Pavlov. Cond. change in total contacts0.10.10.3-0.2-0.20.5
Pavlov. Cond. index score0.00.00.0-0.2-0.00.2
Pavlov. Cond. latency score0.00.00.0-0.1-0.20.2
Pavlov. Cond. lever contacts0.40.61.0-1.0-0.80.2
Pavlov. Cond. magazine entry number0.00.00.1-0.1-0.20.0
Pavlov. Cond. intertrial magazine entries0.50.60.9-0.9-0.9-0.1
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.1-0.10.2
Pavlov. Cond. response bias0.10.10.3-0.5-0.30.3
Time in closed arm before self-admin3.43.84.6-2.2-1.91.7
Time in closed arm after self-admin1.41.43.3-0.7-0.71.8
Time in open arm before self-admin2.83.03.92.01.8-1.4
Time in open arm after self-admin0.60.60.70.80.8-0.8
Bone: periosteal estimation0.00.00.1-0.30.0-0.0
Bone: periosteal perimeter0.30.50.70.00.9-0.8
Bone: post-yield work0.10.10.3-0.00.5-0.2
Progressive ratio test 1 active lever presses1.11.21.71.31.30.4
Progressive ratio test 1 breakpoint0.80.81.11.01.00.5
Progressive ratio test 1 inactive lever presses0.10.10.20.40.4-0.3
Progressive ratio test 2 active lever presses0.40.40.90.90.6-0.1
Progressive ratio test 2 breakpoint0.50.61.11.00.7-0.3
Progressive ratio test 2 inactive lever presses2.63.03.92.01.7-1.5
Incentive Sensitization - Responses0.30.30.70.3-0.1-0.8
Incentive Sensitization - Breakpoint0.20.20.60.2-0.2-0.8
Sum of active levers in priming session hrs 5-60.30.30.8-0.1-0.2-0.9
Progressive ratio0.10.10.2-0.5-0.20.2
Food seeking constrained by brief footshock2.12.64.3-2.1-1.80.3
Seeking ratio, punishment vs. effort0.70.91.3-1.0-1.10.5
Retroperitoneal fat weight0.92.96.31.11.1-2.5
Reaction time number correct0.60.81.51.21.0-0.2
Reaction time mean minus median0.70.91.30.91.20.8
Reaction time mean minus median AUC0.81.11.71.31.20.4
Reaction time num false alarms4.66.26.72.62.5-2.4
Reaction time num false alarms AUC4.05.55.82.42.4-2.2
Reaction time trials correct on left0.60.81.51.21.0-0.2
Reaction time trials on left0.71.01.71.31.1-0.2
Reaction time mean2.23.16.02.41.80.3
Reaction time mean AUC2.53.46.52.61.90.2
Median of all reaction times2.23.16.12.51.80.1
Reaction time omissions1.62.13.11.81.8-0.5
Reaction time false alarm rate1.82.53.41.41.5-1.8
Reaction time premature initiation rate3.14.26.8-2.6-2.2-0.9
Reaction time premature initiations1.31.82.7-1.6-1.4-1.0
Std. dev. reaction times1.01.42.11.51.40.4
Reaction time trials completed0.71.01.71.31.1-0.2
Reaction time trials AUC0.71.01.71.31.1-0.2
Run reversals in cocaine runway, females0.60.61.11.00.90.0
Run reversals in cocaine runway, males0.10.10.20.30.00.4
Latency to leave start box in cocaine runway0.30.40.60.80.5-0.5
Latency to leave start box in cocaine runway, F0.70.81.31.10.90.6
Latency to leave start box in cocaine runway, M1.61.52.3-1.0-1.2-1.5
Std. dev. time between licks in bursts0.30.30.6-0.6-0.7-0.1
Total sessions with >9 infusions0.50.60.90.90.9-0.3
Short access day 1 total inactive lever presses0.20.20.3-0.5-0.5-0.3
Short access day 10 total inactive lever presses0.60.71.0-0.6-0.8-1.0
Short access day 1 total infusions1.51.62.11.41.5-0.8
Short access day 10 total infusions0.40.41.00.40.4-1.0
Short access total infusions0.10.10.20.20.3-0.5
Short access day 1 locomotion1.51.62.31.51.5-0.4
Short access day 10 total locomotion0.20.30.40.60.6-0.1
Short access total locomotion0.80.91.51.21.1-0.0
One hour access (0.3 mA shock)1.01.23.50.40.2-1.9
Compulsive drug intake0.60.61.0-0.9-1.00.1
One hour access (shock baseline)1.41.62.21.11.1-1.5
Social response proportion0.20.20.30.5-0.10.5
Social responses0.81.02.70.50.3-1.6
Social time0.71.01.6-0.7-1.30.9
Soleus weight0.20.41.2-0.20.4-1.1
Bone: stiffness0.50.71.6-0.5-0.51.3
Tibialis anterior weight0.41.32.01.41.40.2
Time to tail flick, vehicle, before self-admin0.20.20.6-0.1-0.1-0.8
Time to tail flick, vehicle, after self-admin0.80.91.0-0.9-0.9-1.0
Time to tail flick, test, before self-admin0.40.40.60.60.7-0.6
Time to tail flick, test, after self-admin0.50.50.8-0.9-0.60.6
Delta time to tail flick, vehicle, before/after SA0.40.40.5-0.7-0.7-0.5
Delta time to tail flick, test, before/after SA1.71.63.4-0.9-0.71.8
Tibia length0.51.33.7-0.10.61.9
Ambulatory time before self-admin1.11.11.61.31.20.5
Ambulatory time after self-admin1.51.63.3-0.8-1.01.8
Bone: tissue strength0.20.20.50.1-0.70.4
Total heroin consumption0.10.10.20.40.1-0.5
Bone: trabecular number1.42.22.8-1.7-1.61.2
Bone: trabecular spacing1.41.93.41.81.0-1.1
Bone: trabecular thickness3.94.75.7-2.1-1.92.4
Bone: trabecular tissue density0.30.40.70.80.60.2
Water consumed over 24 hours2.32.84.1-1.9-2.00.8
Number of responses in last shaping day4.85.06.22.52.4-1.7