Traf3

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 mRNA stability ENSRNOG00000008145 0.02 0.02 9.8e-03 0.01 0.01 0.01 0.01 1.7e-02 1.8e-02 2.6e-02 2.7e-02
2 BLA gene expression ENSRNOG00000008145 0.05 0.05 6.9e-03 0.02 0.04 0.04 0.03 2.1e-02 4.9e-03 3.5e-03 8.3e-03
3 Brain gene expression ENSRNOG00000008145 0.19 0.11 3.6e-14 0.15 0.15 0.14 0.14 5.4e-14 1.6e-13 3.1e-13 3.0e-13
4 Brain intron excision ratio chr6:130206593:130259671 0.03 0.02 2.9e-03 0.02 0.03 0.02 0.02 1.1e-02 2.1e-03 6.0e-03 7.2e-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 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 4
BMI with tail1.03.17.4-0.5-0.9-2.72.0
BMI without tail0.40.81.31.1-1.0-1.00.1
Body weight0.31.43.01.71.00.7-1.1
Epididymis fat weight3.68.512.1-2.8-1.9-3.53.2
Glucose0.61.02.40.31.60.9-0.7
Heart weight0.20.20.8-0.1-0.9-0.30.2
Left kidney weight0.51.32.01.40.51.2-1.3
Right kidney weight0.20.61.01.00.30.8-0.9
Tail length2.67.710.43.11.33.0-3.2
Length with tail2.810.213.92.92.43.7-3.6
Length without tail1.22.74.50.72.11.9-1.4
Liver weight, left3.45.59.53.10.62.2-2.7
Liver weight, right0.10.10.40.6-0.20.1-0.2
Parametrial fat weight0.10.20.70.80.2-0.1-0.5
Retroperitoneal fat weight0.10.30.90.1-0.3-1.00.4
Intraocular pressure0.10.20.4-0.70.0-0.30.3
Extensor digitorum longus weight5.221.026.24.83.05.1-5.1
Soleus weight0.00.10.2-0.4-0.4-0.00.3
Tibialis anterior weight0.31.11.51.20.31.2-1.2
Tibia length0.30.81.90.4-0.11.4-1.1
Number of licking bursts0.50.61.61.3-0.50.4-0.7
Food consumed during 24 hour testing period0.20.20.30.50.30.4-0.5
Times rat made contact with spout0.60.72.10.11.40.7-0.4
Mean time between licks in bursts0.81.11.4-0.9-1.1-1.21.0
Mean num. licks in bursts0.60.81.7-1.31.10.00.5
Std. dev. time between licks in bursts1.21.41.9-1.3-1.4-0.91.1
Water consumed over 24 hours3.84.47.01.72.62.1-1.9
Indifference point 0 sec2.03.24.41.31.82.1-1.9
Indifference point AUC3.03.63.92.01.91.8-1.9
Indifference point function ln k0.20.30.80.2-0.30.9-0.6
Indifference point function log k0.20.30.80.2-0.30.9-0.6
Delay discounting total patch changes 0 sec2.33.74.81.42.12.2-2.0
Delay discounting total patch changes 12 sec3.24.35.81.82.42.0-2.0
Delay discounting total patch changes 18 sec1.52.04.80.62.21.4-0.9
Delay discounting total patch changes 24 sec0.60.71.80.81.40.3-0.5
Delay discounting total patch changes 6 sec2.43.75.02.22.01.5-1.9
Delay discounting time to switch 0 sec8.412.916.9-3.4-2.6-4.14.0
Delay discounting water rate 0 sec14.723.328.64.54.05.3-5.3
Delay discounting water rate 12 sec9.514.319.84.52.53.7-4.1
Delay discounting water rate 18 sec3.64.86.52.01.62.4-2.5
Delay discounting water rate 24 sec3.34.56.42.11.52.2-2.5
Delay discounting water rate 6 sec3.24.66.52.01.42.5-2.5
Locomotor activity0.00.10.2-0.30.40.1-0.1
Locomotor testing distance0.10.20.3-0.60.60.4-0.2
Locomotor testing rearing2.03.15.6-2.4-0.8-1.51.9
Light reinforcement 10.10.20.6-0.30.8-0.20.2
Light reinforcement 21.41.82.3-1.5-1.2-1.31.4
Reaction time number correct1.92.73.61.51.41.9-1.7
Reaction time mean minus median0.10.20.60.2-0.8-0.3-0.0
Reaction time mean minus median AUC0.20.31.1-0.0-1.0-0.30.0
Reaction time num false alarms0.60.81.60.61.30.9-0.7
Reaction time num false alarms AUC0.81.21.40.91.21.2-1.1
Reaction time trials correct on left1.92.73.61.51.41.9-1.7
Reaction time trials on left1.92.73.61.51.41.9-1.7
Reaction time mean0.71.01.9-0.3-1.4-1.10.7
Reaction time mean AUC0.50.71.8-0.2-1.4-0.90.5
Median of all reaction times0.50.71.2-0.4-1.1-0.90.6
Reaction time omissions1.31.83.41.80.31.0-1.6
Reaction time false alarm rate0.10.10.10.20.40.2-0.3
Reaction time premature initiation rate0.81.01.20.91.11.1-1.0
Reaction time premature initiations1.82.63.41.41.51.8-1.6
Std. dev. reaction times0.40.61.80.2-1.4-0.60.1
Reaction time trials completed1.92.73.61.51.41.9-1.7
Reaction time trials AUC2.02.93.81.61.42.0-1.8
Social response proportion0.40.50.60.80.70.5-0.7
Social responses0.20.20.6-0.80.5-0.20.3
Social time0.81.01.31.10.51.1-1.2
Conditioned locomotion0.60.71.60.10.61.3-0.9
Cocaine response after cond. corrected0.70.82.2-0.2-1.5-0.70.6
Cocaine response after cond. not corrected1.41.52.2-0.6-1.4-1.51.2
Cocaine response before conditioning1.72.13.3-1.4-0.2-1.81.8
Saline control response0.81.12.4-1.5-1.0-0.50.9
Condit. Reinf. active minus inactive responses0.60.81.51.20.80.7-0.8
Condit. Reinf. active-inactive response ratio0.50.60.70.80.80.6-0.7
Condit. Reinf. active responses0.10.10.40.60.1-0.1-0.1
Condit. Reinf. inactive responses0.60.71.0-0.6-1.0-0.90.8
Condit. Reinf. lever presses1.11.52.2-0.9-1.1-1.51.3
Condit. Reinf. lever reinforcers received0.00.10.20.50.1-0.1-0.1
Pavlov. Cond. lever latency1.82.52.81.31.61.7-1.7
Pavlov. Cond. magazine entry latency4.04.56.4-1.9-1.6-2.52.4
Pavlov. Cond. change in total contacts3.54.96.1-1.9-2.0-2.52.5
Pavlov. Cond. index score3.85.07.0-1.9-1.7-2.72.5
Pavlov. Cond. latency score3.84.86.6-1.9-1.7-2.62.5
Pavlov. Cond. lever contacts2.33.24.4-1.1-2.1-2.01.8
Pavlov. Cond. magazine entry number3.13.85.51.61.42.4-2.2
Pavlov. Cond. intertrial magazine entries3.84.96.91.52.52.6-2.1
Pavlov. Cond. lever-magazine prob. diff.4.45.77.9-2.1-1.8-2.82.7
Pavlov. Cond. response bias3.04.25.7-1.4-2.1-2.42.2
Conditioned reinforcement - actives1.11.12.00.60.91.4-1.2
Conditioned reinforcement - inactives0.10.20.30.20.20.6-0.5
Conditioned locomotion1.11.42.6-1.6-0.8-0.91.2
Intermittent access intake day 1-15 change1.81.82.3-1.5-1.2-1.11.5
Intermittent access intake escalation2.01.92.5-1.6-1.2-1.21.5
Intermittent access intake escalation 20.30.30.5-0.7-0.5-0.20.5
Intermitt. access day 1 inactive lever presses1.61.72.71.10.71.6-1.5
Intermitt. access day 15 inactive lever presses0.30.40.80.40.00.9-0.7
Intermitt. access escalation Index1.31.12.41.61.10.4-0.9
Intermittent access day 1 total infusions0.20.20.5-0.3-0.4-0.70.5
Intermittent access day 15 total infusions1.51.72.2-1.2-1.0-1.51.5
Intermittent access terminal intake (last 3 days)2.02.22.6-1.2-1.6-1.61.5
Intermittent access total infusions0.70.81.0-0.8-0.8-1.00.9
Intermittent access day 1 locomotion0.90.91.1-0.9-0.8-1.01.0
Intermittent access day 15 total locomotion0.40.40.6-0.7-0.4-0.60.7
Intermittent access total locomotion0.50.60.8-0.9-0.6-0.70.8
Intermittent access standard deviation3.43.64.4-1.9-1.6-1.92.1
Cocaine induced anxiety2.52.83.81.81.01.9-2.0
Post-drug Anxiety2.22.43.11.51.11.7-1.8
Baseline Anxiety1.21.21.7-1.2-0.3-1.31.3
Lifetime Intake0.40.50.6-0.8-0.5-0.70.7
Incentive Sensitization - Responses0.00.00.10.2-0.1-0.2-0.0
Incentive Sensitization - Breakpoint0.00.00.10.3-0.1-0.1-0.1
Progressive ratio test 1 active lever presses0.10.10.3-0.5-0.2-0.20.3
Progressive ratio test 1 breakpoint0.20.20.4-0.7-0.4-0.40.5
Progressive ratio test 1 inactive lever presses1.41.53.00.80.71.7-1.4
Progressive ratio test 2 active lever presses0.00.00.0-0.2-0.2-0.20.1
Progressive ratio test 2 breakpoint0.00.00.0-0.2-0.2-0.20.1
Progressive ratio test 2 inactive lever presses0.50.60.80.80.30.9-0.9
Total sessions with >9 infusions0.40.41.0-1.0-0.2-0.20.6
Short access day 1 total inactive lever presses0.10.10.2-0.4-0.2-0.40.4
Short access day 10 total inactive lever presses0.40.50.90.90.20.6-0.8
Short access day 1 total infusions0.30.30.60.40.80.4-0.4
Short access day 10 total infusions0.50.60.9-0.9-0.5-0.80.8
Short access total infusions0.30.30.5-0.7-0.3-0.50.6
Short access day 1 locomotion1.01.11.5-1.2-0.7-1.01.1
Short access day 10 total locomotion0.70.70.9-0.9-0.8-0.90.9
Short access total locomotion0.20.20.3-0.5-0.2-0.30.5
Compulsive drug intake0.00.00.00.0-0.1-0.20.0
One hour access (0.3 mA shock)0.10.10.3-0.1-0.50.2-0.1
One hour access (shock baseline)0.10.10.2-0.5-0.4-0.10.3
Number of responses in last shaping day0.10.10.3-0.1-0.3-0.50.2
Context. condit. distance diff. score1.21.42.20.51.31.5-1.2
Locomotion velocity, session 10.30.30.40.40.20.7-0.7
Locomotion distance, session 10.10.20.3-0.1-0.5-0.50.5
Locomotion velocity, session 20.10.10.3-0.00.50.10.2
Locomotion distance, session 20.20.30.5-0.1-0.6-0.70.6
Locomotion velocity, session 30.60.71.9-1.40.2-0.40.9
Locomotion distance, session 30.20.20.6-0.8-0.10.10.2
Stereotopy head waving bouts, day 30.20.20.40.40.40.6-0.4
Stereotopy head waving duration, day 30.30.30.50.50.50.7-0.5
Locomotion velocity, session 71.41.64.1-2.00.0-0.71.3
Locomotion distance, session 71.62.04.0-2.0-0.7-1.21.4
Stereotopy head waving bouts, day 70.50.51.20.10.71.1-0.7
Stereotopy head waving duration, day 70.20.30.60.20.50.8-0.4
Locomotion velocity, session 80.10.20.40.00.60.4-0.2
Locomotion distance, session 80.10.10.4-0.7-0.1-0.10.4
Degree of sensitization distance0.10.20.2-0.4-0.1-0.50.4
Degree of sensitization stereotypy0.10.10.3-0.3-0.00.5-0.2
Condit. Reinf. active minus inactive responses0.40.50.9-0.4-0.5-0.90.7
Condit. Reinf. active-inactive response ratio1.92.02.9-1.2-1.2-1.71.5
Condit. Reinf. active responses0.20.20.4-0.4-0.2-0.60.6
Condit. Reinf. inactive responses1.41.72.31.21.21.5-1.4
Incentive salience index mean0.30.40.6-0.4-0.4-0.80.7
Condit. Reinf. lever presses0.10.10.3-0.40.2-0.20.6
Time in familiar zone, hab. session 10.90.91.5-1.1-0.0-0.81.2
Time in novel zone, hab. session 10.20.20.30.5-0.4-0.2-0.4
Total zone transitions, hab. session 10.50.81.0-0.8-0.7-1.01.0
Total locomotion distance, hab. session 10.00.00.0-0.1-0.1-0.00.0
Locomotion velocity, hab. session 10.20.20.40.40.30.6-0.5
Time in familiar zone, hab. session 21.01.11.9-1.40.1-0.91.2
Time in novel zone, hab. session 20.50.51.11.0-0.7-0.1-0.6
Total zone transitions, hab. session 20.50.60.8-0.5-0.9-0.90.8
Total locomotion distance, hab. session 20.30.40.70.7-0.10.6-0.8
Locomotion velocity, hab. session 20.30.50.70.70.10.8-0.8
Novel to familiar place preference ratio0.30.30.7-0.4-0.8-0.50.3
Novelty place preference0.20.20.4-0.3-0.6-0.40.2
Time in novel zone, NPP test0.20.20.4-0.3-0.6-0.30.2
Total zone transitions, NPP test0.10.10.30.4-0.6-0.30.1
Total locomotion distance, NPP test0.10.10.40.1-0.60.2-0.3
Locomotion velocity, NPP test0.10.10.30.2-0.50.3-0.4
Pavlov. Cond. lever latency0.40.50.70.40.60.8-0.8
Pavlov. Cond. magazine entry latency0.81.02.1-1.5-0.4-0.51.2
Pavlov. Cond. change in total contacts0.20.20.5-0.50.1-0.40.7
Pavlov. Cond. index score0.70.91.2-0.9-0.9-0.81.1
Pavlov. Cond. latency score0.30.40.7-0.5-0.7-0.60.8
Pavlov. Cond. lever contacts0.50.61.0-0.6-0.6-0.81.0
Pavlov. Cond. magazine entry number1.01.31.81.30.90.9-1.3
Pavlov. Cond. intertrial magazine entries3.74.55.61.91.82.3-2.4
Pavlov. Cond. lever-magazine prob. diff.0.60.70.9-0.9-0.8-0.61.0
Pavlov. Cond. response bias1.31.62.7-1.6-0.9-0.91.5
Bone: apparent density0.20.30.8-0.9-0.3-0.20.5
Bone surface0.10.10.2-0.4-0.5-0.00.1
Bone volume0.10.20.5-0.7-0.6-0.10.3
Bone: connectivity density0.00.10.2-0.20.40.2-0.1
Bone: cortical apparent density7.09.111.42.52.93.4-3.2
Bone: cortical area0.60.81.90.2-0.11.4-1.2
Bone: cortical porosity0.30.31.0-1.0-0.20.20.4
Bone: cortical porosity0.70.81.5-1.2-0.9-0.40.8
Bone: cortical thickness0.40.72.0-0.1-0.11.4-0.9
Bone: cortical thickness0.30.30.8-0.0-0.20.9-0.7
Bone: cortical tissue density7.39.611.62.72.93.4-3.2
Bone: elastic displacement0.30.30.70.1-0.20.9-0.6
Bone: elastic work0.10.20.4-0.0-0.70.5-0.3
Bone: endosteal estimation0.10.10.20.1-0.4-0.50.2
Bone: endosteal perimeter0.10.20.30.6-0.40.1-0.5
Bone: final force0.20.30.5-0.4-0.30.7-0.6
Bone: final moment0.20.30.7-0.3-0.40.8-0.7
Bone: marrow area0.00.10.20.2-0.4-0.40.1
Bone: maximum diameter0.20.40.60.8-0.40.4-0.7
Bone: maximum force0.20.30.7-0.4-0.20.8-0.6
Bone: maximum moment0.20.30.7-0.4-0.40.8-0.6
Bone: minimum diameter0.50.91.30.70.71.2-1.1
Bone: periosteal estimation0.20.40.70.6-0.40.6-0.8
Bone: periosteal perimeter0.20.30.50.4-0.60.4-0.7
Bone: post-yield work0.70.91.40.60.81.2-1.1
Bone: stiffness0.91.42.60.50.61.6-1.5
Bone: tissue strength0.10.10.1-0.2-0.00.3-0.3
Bone: trabecular number0.10.10.2-0.40.50.10.1
Bone: trabecular spacing0.20.30.90.3-1.0-0.20.0
Bone: trabecular thickness0.10.10.20.30.40.4-0.3
Bone: trabecular tissue density0.40.51.8-0.11.30.4-0.2
Breakpoint value in progressive ratio session0.10.10.2-0.40.40.00.1
Distance traveled before self-admin0.10.10.20.5-0.2-0.3-0.1
Distance traveled after self-admin0.30.40.60.80.00.7-0.7
Delta time in closed arm before/after self-admin0.20.20.5-0.2-0.7-0.30.2
Delta time in open arm before/after self-admin0.90.81.31.11.00.7-0.9
Diff in mean of infusions in LGA sessions0.20.20.5-0.6-0.70.20.2
Extinction: sum of active levers before priming0.00.00.1-0.3-0.1-0.00.1
Active lever presses in extinction session 61.11.11.30.91.01.1-1.1
Delta distance traveled before/after self-admin0.20.20.6-0.8-0.30.20.3
Delta ambulatory time before/after self-admin0.30.30.7-0.20.70.8-0.4
Time in closed arm before self-admin2.12.43.3-1.3-1.3-1.81.7
Time in closed arm after self-admin1.61.72.4-1.0-1.5-1.41.2
Time in open arm before self-admin4.34.55.52.21.62.3-2.3
Time in open arm after self-admin3.33.74.12.01.81.8-2.0
Sum of active levers in priming session hrs 5-60.60.61.0-1.00.8-0.40.7
Time to tail flick, vehicle, before self-admin0.90.91.11.00.90.8-1.0
Time to tail flick, vehicle, after self-admin0.40.41.0-1.0-0.3-0.40.7
Time to tail flick, test, before self-admin0.00.00.10.00.10.3-0.2
Time to tail flick, test, after self-admin1.31.41.81.11.01.3-1.3
Delta time to tail flick, vehicle, before/after SA0.60.61.5-1.2-0.4-0.30.7
Delta time to tail flick, test, before/after SA0.80.71.00.80.70.9-1.0
Ambulatory time before self-admin0.30.31.00.4-1.0-0.4-0.0
Ambulatory time after self-admin0.00.00.1-0.1-0.4-0.10.1
Total heroin consumption1.11.31.90.61.41.3-1.1
Area under the delay curve0.20.20.30.50.6-0.4-0.0
Delay disc. indifference point, 0s delay0.20.20.60.50.70.1-0.3
Delay disc. indifference point, 16s delay0.30.30.90.61.0-0.2-0.1
Delay disc. indifference point, 2s delay0.00.00.10.3-0.0-0.30.0
Delay disc. indifference point, 24s delay0.10.10.30.6-0.1-0.2-0.3
Delay disc. indifference point, 4s delay0.50.51.01.00.80.0-0.5
Delay disc. indifference point, 8s delay0.20.20.40.30.6-0.70.2
Delay discount exponential model param0.20.20.3-0.6-0.60.40.1
Delay discount hyperbolic model param0.10.20.2-0.5-0.50.40.1
Fecal boli incidents, locomotor time 10.50.60.90.0-0.9-0.90.7
Change in fecal boli incidents, locomotor task0.00.00.10.2-0.00.0-0.3
Time >=10cm from walls, locomotor time 10.30.30.5-0.4-0.5-0.70.6
Bouts of movement, locomotor time 10.70.71.0-0.8-1.0-0.70.9
Total resting periods, locomotor time 10.80.81.1-0.9-1.1-0.80.9
Rest time, locomotor task time 10.60.61.21.10.20.6-0.9
Distance moved, locomotor task time 10.91.02.1-1.5-0.2-0.81.1
Vertical activity count, locomotor time 10.40.41.0-0.01.00.6-0.4
Time >=10cm from walls, locomotor time 20.20.20.70.00.00.9-0.5
Bouts of movement, locomotor time 22.22.43.31.80.51.7-1.8
Total resting periods, locomotor time 21.92.13.21.80.51.4-1.7
Rest time, locomotor task time 20.70.81.81.4-0.10.6-1.0
Distance moved, locomotor task time 20.91.12.7-1.60.0-0.61.2
Vertical activity count, locomotor time 20.30.30.6-0.60.50.8-0.1
Weight adjusted by age0.00.00.00.2-0.00.2-0.2
Seeking ratio, delayed vs. immediate footshock1.01.12.30.91.51.0-0.7
Locomotion in novel chamber4.96.08.52.91.32.5-2.8
Locomotion in novel chamber post-restriction0.20.20.40.6-0.7-0.0-0.2
Progressive ratio0.60.71.00.91.00.6-0.8
Food seeking constrained by brief footshock0.91.11.80.60.81.3-1.3
Seeking ratio, punishment vs. effort0.20.20.7-0.8-0.40.20.1
Run reversals in cocaine runway, females0.90.91.3-0.9-0.5-1.11.1
Run reversals in cocaine runway, males0.80.82.00.40.51.4-0.8
Latency to leave start box in cocaine runway0.20.20.3-0.50.3-0.20.6
Latency to leave start box in cocaine runway, F0.20.20.3-0.50.5-0.20.6
Latency to leave start box in cocaine runway, M0.10.10.2-0.4-0.3-0.10.4
Cd content in liver1.11.23.21.8-0.20.3-1.1
Co content in liver0.60.71.00.80.11.0-1.0
Cu content in liver0.70.81.6-0.2-0.9-1.30.8
Fe content in liver0.10.10.3-0.4-0.1-0.50.3
K content in liver0.10.10.20.10.50.5-0.2
Mg content in liver0.20.20.40.20.70.6-0.2
Mn content in liver0.40.51.2-1.10.40.40.5
Na content in liver0.00.00.0-0.10.20.10.1
Rb content in liver0.50.60.90.60.90.8-0.9
Se content in liver0.30.41.11.0-0.5-0.1-0.4
Sr content in liver0.50.51.01.0-0.10.4-0.9
Zn content in liver0.50.61.31.10.10.6-0.8