Xab2

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 pVTA gene expression Xab2 0.04 0.03 4.2e-03 0.02 0.02 0.03 0.03 5.0e-03 5.3e-03 1.5e-03 3.7e-03
2 Adipose gene expression Xab2 0.13 0.07 6.3e-06 0.04 0.04 0.04 0.04 3.6e-05 5.2e-05 6.4e-05 1.5e-05
3 Brain mRNA stability Xab2 0.05 0.03 3.0e-04 0.02 0.04 0.03 0.03 5.2e-03 1.1e-04 1.2e-03 1.6e-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
Bone: apparent density3.05.17.2-2.5-2.71.4
Area under the delay curve2.32.63.71.61.2-1.9
BMI with tail0.72.64.4-1.8-2.1-0.3
BMI without tail2.67.911.6-3.0-3.4-1.7
Body weight8.738.056.4-7.1-7.5-2.7
Weight adjusted by age0.60.91.6-1.3-0.90.6
Bone surface2.85.07.9-2.7-2.80.1
Bone volume1.42.63.8-1.8-2.00.9
Breakpoint value in progressive ratio session0.50.61.40.4-0.4-1.2
Number of licking bursts1.32.14.7-2.2-1.20.4
Context. condit. distance diff. score2.12.64.5-1.2-2.1-1.3
Locomotion velocity, session 10.40.50.70.60.8-0.7
Locomotion distance, session 10.81.01.61.11.3-0.0
Locomotion velocity, session 20.20.30.60.20.4-0.8
Locomotion distance, session 20.50.71.01.01.00.1
Locomotion velocity, session 30.10.10.20.0-0.3-0.4
Locomotion distance, session 30.30.30.8-0.1-0.10.9
Stereotopy head waving bouts, day 32.32.63.9-2.0-2.00.4
Stereotopy head waving duration, day 30.10.10.2-0.20.00.4
Locomotion velocity, session 71.61.73.31.00.9-1.8
Locomotion distance, session 70.50.71.40.70.3-1.2
Stereotopy head waving bouts, day 70.10.10.20.40.4-0.1
Stereotopy head waving duration, day 70.40.50.90.80.9-0.1
Locomotion velocity, session 80.40.51.4-0.2-0.2-1.2
Locomotion distance, session 80.71.11.5-0.6-1.2-1.2
Degree of sensitization distance1.21.21.41.11.0-1.2
Degree of sensitization stereotypy0.40.40.70.80.8-0.3
Conditioned locomotion0.40.51.4-0.20.01.2
Cocaine response after cond. corrected0.10.10.3-0.10.60.2
Cocaine response after cond. not corrected0.10.10.30.20.5-0.2
Cocaine response before conditioning0.40.40.80.6-0.4-0.9
Saline control response3.75.07.6-2.7-2.80.1
Bone: connectivity density4.77.411.7-3.2-3.40.4
Bone: cortical apparent density0.50.70.80.80.8-0.9
Bone: cortical area1.62.43.5-1.1-1.6-1.9
Bone: cortical porosity0.20.20.2-0.4-0.40.5
Bone: cortical porosity0.00.00.10.30.10.2
Bone: cortical thickness1.32.22.7-1.3-1.6-1.5
Bone: cortical thickness1.31.52.3-1.1-1.5-0.9
Bone: cortical tissue density0.50.70.80.80.9-0.7
Condit. Reinf. active minus inactive responses0.80.91.31.11.1-0.5
Condit. Reinf. active-inactive response ratio0.70.70.80.90.8-0.8
Condit. Reinf. active responses0.50.71.31.20.8-0.3
Condit. Reinf. inactive responses0.40.51.31.10.50.0
Incentive salience index mean0.70.81.51.20.9-0.2
Condit. Reinf. lever presses0.40.51.21.10.60.1
Condit. Reinf. active minus inactive responses1.82.34.5-1.0-1.3-2.1
Condit. Reinf. active-inactive response ratio1.31.53.9-0.5-0.6-2.0
Condit. Reinf. active responses1.72.34.2-0.9-1.4-2.1
Condit. Reinf. inactive responses0.30.40.8-0.5-0.9-0.2
Condit. Reinf. lever presses0.20.20.50.0-0.3-0.7
Condit. Reinf. lever reinforcers received1.31.84.0-0.6-1.1-2.0
Conditioned reinforcement - actives2.23.75.4-2.3-2.2-0.8
Conditioned reinforcement - inactives0.71.01.5-1.2-0.90.7
Conditioned locomotion2.12.75.6-1.4-2.4-0.6
Patch foraging indifference point 0 sec1.12.05.7-0.6-0.22.4
Patch foraging indifference point AUC1.21.72.7-1.5-1.60.2
Delay disc. indifference point, 0s delay2.12.36.90.10.2-2.6
Delay disc. indifference point, 16s delay0.60.71.00.80.6-1.0
Delay disc. indifference point, 2s delay4.14.55.62.42.0-2.0
Delay disc. indifference point, 24s delay0.60.70.90.80.9-0.8
Delay disc. indifference point, 4s delay2.02.12.81.71.2-1.5
Delay disc. indifference point, 8s delay0.80.91.61.30.5-1.0
Indifference point function ln k0.00.10.1-0.3-0.10.4
Indifference point function log k0.00.10.1-0.3-0.10.4
Patch foraging total patch changes 0 sec1.42.77.6-0.7-0.22.8
Patch foraging total patch changes 12 sec0.91.12.2-0.8-0.71.5
Patch foraging total patch changes 18 sec1.42.25.1-1.1-0.72.2
Patch foraging total patch changes 24 sec1.01.84.5-0.5-0.72.1
Patch foraging total patch changes 6 sec1.32.04.5-1.0-0.82.1
Patch foraging time to switch 0 sec2.14.46.92.22.6-1.1
Patch foraging water rate 0 sec3.26.78.8-2.8-3.01.8
Patch foraging water rate 12 sec0.40.91.7-0.9-1.30.6
Patch foraging water rate 18 sec0.10.20.20.2-0.5-0.4
Patch foraging water rate 24 sec2.33.25.2-2.0-2.30.4
Patch foraging water rate 6 sec0.71.11.8-0.7-1.40.9
Seeking ratio, delayed vs. immediate footshock1.41.72.90.71.31.7
Distance traveled before self-admin1.01.42.11.41.3-0.5
Distance traveled after self-admin0.10.10.20.40.2-0.2
Extensor digitorum longus weight3.814.725.1-4.1-5.0-1.6
Bone: elastic displacement0.40.40.6-0.8-0.80.1
Bone: elastic work3.24.26.8-2.4-2.6-0.1
Bone: endosteal estimation1.22.64.0-2.0-1.70.8
Bone: endosteal perimeter0.61.22.3-1.2-1.5-0.1
Epididymis fat weight0.00.10.10.30.20.0
Delta time in closed arm before/after self-admin0.50.51.3-0.2-0.1-1.2
Delta time in open arm before/after self-admin2.12.14.32.11.20.8
Diff in mean of infusions in LGA sessions0.10.10.4-0.2-0.6-0.1
Delay discount exponential model param2.83.13.8-2.0-1.41.9
Extinction: sum of active levers before priming0.40.40.90.90.4-0.5
Active lever presses in extinction session 60.10.10.1-0.1-0.40.3
Bone: final force2.53.95.1-2.2-2.3-1.3
Bone: final moment2.03.24.2-2.1-2.0-1.1
Food consumed during 24 hour testing period0.40.60.7-0.8-0.60.9
Glucose1.52.43.31.81.8-0.8
Heart weight0.60.91.6-0.7-1.3-0.8
Delay discount hyperbolic model param2.62.93.5-1.9-1.41.9
Intermittent access intake day 1-15 change1.02.13.6-1.9-1.50.7
Intermittent access intake escalation0.91.93.5-1.9-1.30.6
Intermittent access intake escalation 20.30.40.6-0.7-0.30.7
Intermitt. access day 1 inactive lever presses0.20.91.3-1.1-0.70.9
Intermitt. access day 15 inactive lever presses0.20.40.70.20.70.9
Intermitt. access escalation Index0.20.30.60.80.6-0.2
Intermittent access day 1 total infusions0.40.71.11.00.7-0.6
Intermittent access day 15 total infusions0.00.10.1-0.3-0.2-0.2
Intermittent access terminal intake (last 3 days)0.00.00.1-0.10.2-0.3
Intermittent access total infusions0.40.40.80.60.4-0.9
Intermittent access day 1 locomotion1.01.32.81.70.8-0.6
Intermittent access day 15 total locomotion0.10.10.3-0.1-0.50.0
Intermittent access total locomotion0.40.41.01.00.2-0.5
Intermittent access standard deviation0.30.61.1-0.9-0.21.0
Left kidney weight7.032.450.0-6.8-7.1-0.9
Right kidney weight5.926.740.3-6.2-6.4-1.0
Cocaine induced anxiety0.40.60.90.90.3-1.0
Post-drug Anxiety5.25.67.52.72.4-1.9
Baseline Anxiety3.13.56.31.82.5-1.0
Tail length6.826.536.8-6.0-6.1-2.7
Length with tail12.654.778.2-8.7-8.8-3.2
Length without tail7.524.036.9-6.1-5.9-0.7
Times rat made contact with spout1.01.21.5-1.2-1.1-0.9
Lifetime Intake0.50.60.80.90.7-0.7
Liver weight, left5.38.813.8-3.7-3.11.7
Liver weight, right1.83.24.8-2.2-2.20.2
Locomotor activity2.13.25.1-1.8-2.3-1.2
Locomotor testing distance0.81.42.2-1.5-1.40.5
Locomotor testing rearing0.40.82.3-0.30.11.5
Locomotion in novel chamber1.11.42.2-1.5-1.50.1
Locomotion in novel chamber post-restriction1.32.13.2-1.6-1.8-0.7
Fecal boli incidents, locomotor time 11.72.55.1-1.3-2.3-0.8
Change in fecal boli incidents, locomotor task0.20.20.60.10.80.1
Time >=10cm from walls, locomotor time 11.51.62.71.61.2-0.9
Bouts of movement, locomotor time 10.91.02.2-0.8-1.5-0.3
Total resting periods, locomotor time 10.91.02.3-0.7-1.5-0.5
Rest time, locomotor task time 11.11.33.1-0.8-1.8-0.5
Distance moved, locomotor task time 10.40.61.40.51.2-0.4
Vertical activity count, locomotor time 10.00.10.2-0.10.1-0.5
Time >=10cm from walls, locomotor time 20.50.71.9-0.0-0.5-1.4
Bouts of movement, locomotor time 20.40.61.5-0.5-1.2-0.1
Total resting periods, locomotor time 20.30.51.4-0.5-1.20.1
Rest time, locomotor task time 20.40.41.01.00.60.2
Distance moved, locomotor task time 20.40.51.2-1.1-0.5-0.1
Vertical activity count, locomotor time 22.33.15.1-2.2-2.1-0.2
Light reinforcement 11.02.53.21.81.4-1.5
Light reinforcement 20.10.10.20.20.40.4
Bone: marrow area1.22.53.9-2.0-1.70.9
Bone: maximum diameter0.91.82.7-1.5-1.7-0.5
Bone: maximum force1.93.45.1-2.1-2.3-0.8
Bone: maximum moment1.62.94.3-2.0-2.1-0.6
Mean time between licks in bursts0.61.52.31.11.51.0
Mean num. licks in bursts0.20.40.80.90.3-0.4
Cd content in liver0.20.20.50.1-0.3-0.7
Co content in liver1.92.33.5-1.6-0.91.9
Cu content in liver0.10.10.30.20.20.5
Fe content in liver0.20.30.70.1-0.8-0.5
K content in liver0.10.10.10.30.2-0.3
Mg content in liver0.30.30.5-0.7-0.7-0.1
Mn content in liver0.10.10.3-0.00.50.4
Na content in liver0.40.50.7-0.7-0.8-0.5
Rb content in liver3.23.86.72.62.10.4
Se content in liver0.91.12.80.6-0.3-1.7
Sr content in liver1.00.91.7-1.3-0.70.7
Zn content in liver4.24.77.1-2.7-2.51.0
Bone: minimum diameter0.00.00.0-0.10.0-0.1
Time in familiar zone, hab. session 10.80.81.90.10.71.4
Time in novel zone, hab. session 10.70.71.3-0.6-0.7-1.1
Total zone transitions, hab. session 11.01.42.21.51.3-0.5
Total locomotion distance, hab. session 10.81.11.91.41.0-0.6
Locomotion velocity, hab. session 11.62.24.02.01.5-0.7
Time in familiar zone, hab. session 20.10.10.20.40.50.1
Time in novel zone, hab. session 20.00.00.10.20.2-0.3
Total zone transitions, hab. session 20.30.40.7-0.8-0.5-0.5
Total locomotion distance, hab. session 20.10.10.10.20.4-0.3
Locomotion velocity, hab. session 20.10.10.10.20.3-0.3
Novel to familiar place preference ratio0.10.10.2-0.00.0-0.5
Novelty place preference0.10.10.20.30.3-0.4
Time in novel zone, NPP test0.10.10.20.10.2-0.5
Total zone transitions, NPP test0.10.20.3-0.4-0.2-0.6
Total locomotion distance, NPP test0.50.71.30.70.4-1.1
Locomotion velocity, NPP test0.30.51.20.50.1-1.1
Intraocular pressure1.11.62.8-1.3-1.70.4
Delta distance traveled before/after self-admin0.70.81.2-1.1-0.80.6
Delta ambulatory time before/after self-admin0.20.20.6-0.3-0.00.8
Parametrial fat weight0.00.00.10.20.2-0.2
Pavlov. Cond. lever latency2.22.74.4-2.1-1.90.1
Pavlov. Cond. magazine entry latency0.30.40.70.1-0.7-0.9
Pavlov. Cond. change in total contacts1.81.93.01.70.9-1.4
Pavlov. Cond. index score0.50.61.11.00.5-0.7
Pavlov. Cond. latency score0.81.01.71.30.8-0.8
Pavlov. Cond. lever contacts2.02.44.12.01.8-0.3
Pavlov. Cond. magazine entry number0.30.40.8-0.30.60.9
Pavlov. Cond. intertrial magazine entries0.60.81.00.91.00.7
Pavlov. Cond. lever-magazine prob. diff.0.50.61.11.00.5-0.6
Pavlov. Cond. response bias0.20.30.50.6-0.2-0.7
Pavlov. Cond. lever latency0.60.81.4-0.9-0.31.2
Pavlov. Cond. magazine entry latency2.73.35.12.31.6-1.5
Pavlov. Cond. change in total contacts0.30.50.80.70.2-0.9
Pavlov. Cond. index score1.21.62.51.61.0-1.2
Pavlov. Cond. latency score1.31.72.51.61.0-1.2
Pavlov. Cond. lever contacts0.81.11.71.20.5-1.3
Pavlov. Cond. magazine entry number2.02.43.9-2.0-1.41.2
Pavlov. Cond. intertrial magazine entries0.81.21.8-1.3-1.30.1
Pavlov. Cond. lever-magazine prob. diff.1.41.92.81.71.0-1.3
Pavlov. Cond. response bias1.52.03.11.80.9-1.5
Time in closed arm before self-admin2.12.64.0-2.0-2.00.0
Time in closed arm after self-admin1.81.92.8-1.7-1.6-0.6
Time in open arm before self-admin0.40.40.80.20.6-0.9
Time in open arm after self-admin1.21.32.51.61.20.1
Bone: periosteal estimation1.43.04.4-2.0-2.1-0.6
Bone: periosteal perimeter0.50.91.3-0.4-1.1-1.1
Bone: post-yield work0.10.20.4-0.2-0.60.4
Progressive ratio test 1 active lever presses0.81.01.3-1.1-1.0-0.8
Progressive ratio test 1 breakpoint0.81.01.3-1.1-1.0-0.8
Progressive ratio test 1 inactive lever presses1.11.52.5-1.6-1.30.7
Progressive ratio test 2 active lever presses1.01.11.9-1.4-1.1-0.5
Progressive ratio test 2 breakpoint0.91.01.6-1.3-1.0-0.5
Progressive ratio test 2 inactive lever presses2.64.26.3-2.5-2.40.8
Incentive Sensitization - Responses0.00.00.0-0.10.00.1
Incentive Sensitization - Breakpoint0.00.00.00.00.10.2
Sum of active levers in priming session hrs 5-60.10.10.20.4-0.1-0.4
Progressive ratio0.20.30.50.60.70.2
Food seeking constrained by brief footshock1.82.35.70.60.82.4
Seeking ratio, punishment vs. effort0.40.60.8-0.9-0.90.5
Retroperitoneal fat weight0.41.62.01.41.3-1.1
Reaction time number correct0.91.82.5-1.6-1.41.0
Reaction time mean minus median1.33.18.01.20.0-2.8
Reaction time mean minus median AUC0.61.42.01.40.5-1.4
Reaction time num false alarms0.50.71.30.70.3-1.2
Reaction time num false alarms AUC0.20.30.60.60.1-0.7
Reaction time trials correct on left0.91.82.5-1.6-1.41.0
Reaction time trials on left0.91.72.3-1.5-1.31.0
Reaction time mean3.55.67.32.72.5-1.8
Reaction time mean AUC3.45.57.42.72.5-1.6
Median of all reaction times4.36.19.02.83.0-1.1
Reaction time omissions1.01.52.31.51.1-1.1
Reaction time false alarm rate0.91.21.61.20.6-1.3
Reaction time premature initiation rate0.40.61.30.5-0.3-1.1
Reaction time premature initiations0.20.30.6-0.2-0.8-0.5
Std. dev. reaction times1.93.45.11.91.2-2.3
Reaction time trials completed0.91.72.3-1.5-1.31.0
Reaction time trials AUC0.71.41.6-1.3-1.21.0
Run reversals in cocaine runway, females0.90.91.21.01.10.7
Run reversals in cocaine runway, males0.20.20.5-0.3-0.30.7
Latency to leave start box in cocaine runway0.20.20.40.20.3-0.6
Latency to leave start box in cocaine runway, F0.20.20.4-0.6-0.1-0.4
Latency to leave start box in cocaine runway, M0.30.20.50.70.5-0.2
Std. dev. time between licks in bursts0.10.20.3-0.3-0.6-0.2
Total sessions with >9 infusions0.20.20.40.50.70.1
Short access day 1 total inactive lever presses0.40.51.2-0.5-0.31.1
Short access day 10 total inactive lever presses1.43.34.8-2.2-1.51.7
Short access day 1 total infusions0.91.21.71.11.30.7
Short access day 10 total infusions0.50.60.90.90.90.3
Short access total infusions0.91.22.01.31.4-0.1
Short access day 1 locomotion0.91.21.41.20.9-1.1
Short access day 10 total locomotion0.30.51.5-0.1-0.11.2
Short access total locomotion0.91.01.81.31.1-0.2
One hour access (0.3 mA shock)1.82.03.0-1.7-1.70.5
Compulsive drug intake1.11.31.91.21.40.8
One hour access (shock baseline)1.42.13.5-1.5-1.9-0.9
Social response proportion5.66.47.3-2.2-2.6-2.7
Social responses2.02.64.6-1.5-2.1-0.9
Social time1.72.33.41.91.7-0.8
Soleus weight1.13.25.9-1.9-2.40.2
Bone: stiffness0.71.21.6-0.8-1.1-1.3
Tibialis anterior weight4.816.426.2-4.2-5.1-2.3
Time to tail flick, vehicle, before self-admin1.92.02.71.41.1-1.6
Time to tail flick, vehicle, after self-admin0.10.20.50.20.1-0.7
Time to tail flick, test, before self-admin1.81.83.2-1.8-1.5-0.4
Time to tail flick, test, after self-admin0.60.60.90.80.9-0.7
Delta time to tail flick, vehicle, before/after SA0.10.10.30.0-0.10.6
Delta time to tail flick, test, before/after SA1.51.62.51.61.40.5
Tibia length3.69.916.0-4.0-3.5-1.3
Ambulatory time before self-admin0.50.71.31.20.8-0.5
Ambulatory time after self-admin0.20.20.50.70.4-0.0
Bone: tissue strength1.01.02.6-0.6-0.11.6
Total heroin consumption2.53.05.72.41.6-0.7
Bone: trabecular number2.23.76.0-2.2-2.40.4
Bone: trabecular spacing2.43.14.72.12.20.7
Bone: trabecular thickness2.53.15.9-1.9-2.40.0
Bone: trabecular tissue density2.73.910.90.90.1-3.3
Water consumed over 24 hours2.83.76.3-2.5-2.20.1
Number of responses in last shaping day0.30.30.60.70.60.0