Mta1

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 Mta1 0.02 0.01 7.0e-03 0.01 0.02 0.01 0.02 7.6e-03 2.7e-03 9.7e-03 6.0e-03
2 Brain gene expression Mta1 0.07 0.05 7.5e-03 0.01 0 0.01 0.01 7.1e-02 1.7e-01 5.9e-02 9.0e-02
3 Liver alternative TSS XM_039112879.2 0.03 0.03 1.5e-03 0.01 0.01 0.01 0.01 1.4e-02 1.7e-02 2.2e-02 2.2e-02
4 Liver alternative TSS XM_039112879.2 0.04 0.04 7.2e-04 0.03 0.02 0.02 0.02 7.4e-04 5.5e-03 4.1e-03 4.7e-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 4
Bone: apparent density0.30.61.30.11.20.70.7
Area under the delay curve0.50.61.7-1.3-0.20.60.6
BMI with tail1.24.210.1-2.5-3.20.40.4
BMI without tail0.92.67.0-1.9-2.7-0.0-0.0
Body weight1.14.96.82.60.8-2.5-2.5
Weight adjusted by age0.10.20.40.70.2-0.4-0.4
Bone surface1.42.63.8-1.01.41.91.9
Bone volume1.22.23.2-0.81.31.81.8
Breakpoint value in progressive ratio session0.40.40.70.80.0-0.7-0.7
Number of licking bursts0.81.31.9-1.4-0.11.31.3
Context. condit. distance diff. score1.51.94.31.82.1-0.2-0.2
Locomotion velocity, session 11.92.03.10.7-1.1-1.8-1.8
Locomotion distance, session 12.43.04.6-0.0-2.1-1.9-1.9
Locomotion velocity, session 20.60.71.8-0.4-1.3-0.7-0.7
Locomotion distance, session 22.02.76.2-0.6-2.5-1.5-1.5
Locomotion velocity, session 30.00.00.1-0.2-0.3-0.2-0.2
Locomotion distance, session 30.70.81.3-0.1-1.2-1.0-1.0
Stereotopy head waving bouts, day 30.10.10.20.10.40.30.3
Stereotopy head waving duration, day 30.40.51.10.11.00.70.7
Locomotion velocity, session 70.10.10.20.20.40.20.2
Locomotion distance, session 70.40.50.9-1.0-0.90.30.3
Stereotopy head waving bouts, day 71.41.64.41.42.1-0.1-0.1
Stereotopy head waving duration, day 71.21.54.31.22.10.30.3
Locomotion velocity, session 81.01.22.71.61.1-0.7-0.7
Locomotion distance, session 80.60.91.40.9-0.3-1.2-1.2
Degree of sensitization distance0.40.40.6-0.50.30.80.8
Degree of sensitization stereotypy0.80.82.41.01.60.20.2
Conditioned locomotion1.51.72.51.60.3-1.5-1.5
Cocaine response after cond. corrected0.00.10.10.1-0.1-0.3-0.3
Cocaine response after cond. not corrected1.01.22.8-0.2-1.7-0.9-0.9
Cocaine response before conditioning2.53.09.3-1.4-3.0-0.7-0.7
Saline control response0.00.10.10.30.2-0.2-0.2
Bone: connectivity density0.30.51.50.71.20.00.0
Bone: cortical apparent density2.43.35.22.31.4-1.7-1.7
Bone: cortical area1.62.44.2-0.02.11.61.6
Bone: cortical porosity0.30.30.70.70.80.10.1
Bone: cortical porosity0.10.10.20.40.30.20.2
Bone: cortical thickness0.71.13.21.01.80.30.3
Bone: cortical thickness0.30.30.70.70.8-0.2-0.2
Bone: cortical tissue density2.33.25.02.21.3-1.7-1.7
Condit. Reinf. active minus inactive responses1.01.11.6-0.2-1.3-1.2-1.2
Condit. Reinf. active-inactive response ratio1.11.23.2-0.9-1.8-0.5-0.5
Condit. Reinf. active responses1.31.62.60.6-0.9-1.6-1.6
Condit. Reinf. inactive responses1.41.72.81.70.9-1.2-1.2
Incentive salience index mean1.51.82.90.5-1.2-1.7-1.7
Condit. Reinf. lever presses1.11.62.40.9-0.8-1.6-1.6
Condit. Reinf. active minus inactive responses0.40.50.70.70.1-0.8-0.8
Condit. Reinf. active-inactive response ratio0.10.10.30.30.5-0.0-0.0
Condit. Reinf. active responses0.10.20.2-0.0-0.5-0.5-0.5
Condit. Reinf. inactive responses0.40.61.5-0.5-1.2-0.5-0.5
Condit. Reinf. lever presses1.31.73.4-1.8-1.70.60.6
Condit. Reinf. lever reinforcers received0.30.40.50.0-0.6-0.7-0.7
Conditioned reinforcement - actives0.10.10.20.30.1-0.4-0.4
Conditioned reinforcement - inactives1.72.54.31.0-0.5-2.1-2.1
Conditioned locomotion0.00.10.10.2-0.2-0.3-0.3
Patch foraging indifference point 0 sec4.99.113.63.71.1-3.3-3.3
Patch foraging indifference point AUC5.98.512.03.20.0-3.5-3.5
Delay disc. indifference point, 0s delay0.10.20.40.40.7-0.1-0.1
Delay disc. indifference point, 16s delay0.80.92.1-1.5-0.80.70.7
Delay disc. indifference point, 2s delay2.93.25.2-2.3-0.41.91.9
Delay disc. indifference point, 24s delay0.50.61.2-1.1-1.00.10.1
Delay disc. indifference point, 4s delay0.10.10.5-0.7-0.10.10.1
Delay disc. indifference point, 8s delay0.10.10.5-0.70.00.10.1
Indifference point function ln k0.50.81.70.21.30.90.9
Indifference point function log k0.50.81.70.21.30.90.9
Patch foraging total patch changes 0 sec5.410.115.84.01.2-3.4-3.4
Patch foraging total patch changes 12 sec5.77.411.42.6-0.1-3.4-3.4
Patch foraging total patch changes 18 sec2.94.46.72.10.0-2.6-2.6
Patch foraging total patch changes 24 sec1.72.94.31.6-0.5-2.1-2.1
Patch foraging total patch changes 6 sec6.19.313.03.60.6-3.5-3.5
Patch foraging time to switch 0 sec5.511.219.6-4.4-1.83.33.3
Patch foraging water rate 0 sec7.014.627.95.33.2-3.2-3.2
Patch foraging water rate 12 sec2.45.18.12.81.3-2.3-2.3
Patch foraging water rate 18 sec1.62.54.72.20.9-1.5-1.5
Patch foraging water rate 24 sec2.73.85.52.0-0.4-2.4-2.4
Patch foraging water rate 6 sec1.72.45.22.31.6-1.0-1.0
Seeking ratio, delayed vs. immediate footshock0.40.50.80.5-0.4-0.9-0.9
Distance traveled before self-admin0.60.82.4-0.6-1.5-0.4-0.4
Distance traveled after self-admin0.10.10.20.10.50.20.2
Extensor digitorum longus weight4.517.735.56.04.2-3.0-3.0
Bone: elastic displacement0.50.60.8-0.40.80.90.9
Bone: elastic work0.81.11.5-1.10.31.21.2
Bone: endosteal estimation2.14.66.6-2.30.22.62.6
Bone: endosteal perimeter0.81.82.9-1.10.61.71.7
Epididymis fat weight0.82.75.4-2.3-2.30.10.1
Delta time in closed arm before/after self-admin0.40.41.10.2-1.1-0.4-0.4
Delta time in open arm before/after self-admin0.60.61.11.00.8-0.5-0.5
Diff in mean of infusions in LGA sessions0.91.11.71.00.1-1.3-1.3
Delay discount exponential model param0.40.51.51.20.3-0.4-0.4
Extinction: sum of active levers before priming0.10.10.20.20.50.10.1
Active lever presses in extinction session 61.01.01.51.20.8-1.0-1.0
Bone: final force2.33.75.8-1.11.42.42.4
Bone: final moment2.74.36.5-0.91.82.62.6
Food consumed during 24 hour testing period0.40.61.01.00.6-0.6-0.6
Glucose1.21.93.1-0.41.71.51.5
Heart weight0.30.51.50.51.20.30.3
Delay discount hyperbolic model param0.50.61.71.30.2-0.6-0.6
Intermittent access intake day 1-15 change0.61.22.3-1.5-1.50.30.3
Intermittent access intake escalation0.51.12.4-1.5-1.40.10.1
Intermittent access intake escalation 20.40.40.9-1.0-0.30.50.5
Intermitt. access day 1 inactive lever presses0.31.01.31.10.1-1.1-1.1
Intermitt. access day 15 inactive lever presses1.32.73.41.91.3-1.7-1.7
Intermitt. access escalation Index0.20.30.50.6-0.3-0.7-0.7
Intermittent access day 1 total infusions0.10.10.2-0.1-0.3-0.5-0.5
Intermittent access day 15 total infusions0.40.51.2-1.1-1.0-0.1-0.1
Intermittent access terminal intake (last 3 days)0.40.51.5-1.2-0.7-0.1-0.1
Intermittent access total infusions0.10.10.3-0.5-0.4-0.2-0.2
Intermittent access day 1 locomotion0.40.51.5-0.4-1.2-0.4-0.4
Intermittent access day 15 total locomotion0.61.03.1-0.8-1.8-0.4-0.4
Intermittent access total locomotion0.30.31.1-0.2-1.0-0.3-0.3
Intermittent access standard deviation0.40.91.2-0.0-1.0-1.1-1.1
Left kidney weight1.36.111.33.42.2-2.0-2.0
Right kidney weight1.04.78.52.91.2-2.1-2.1
Cocaine induced anxiety0.71.02.70.71.60.60.6
Post-drug Anxiety1.11.23.41.11.90.20.2
Baseline Anxiety0.00.10.1-0.3-0.30.00.0
Tail length2.710.719.64.43.9-1.9-1.9
Length with tail5.323.142.06.54.6-3.8-3.8
Length without tail3.411.020.14.52.7-2.9-2.9
Times rat made contact with spout0.70.81.30.7-0.1-1.2-1.2
Lifetime Intake0.10.10.4-0.7-0.3-0.0-0.0
Liver weight, left2.13.56.32.51.7-1.6-1.6
Liver weight, right1.22.12.90.6-1.5-1.7-1.7
Locomotor activity0.10.10.20.40.0-0.3-0.3
Locomotor testing distance0.10.10.20.3-0.1-0.4-0.4
Locomotor testing rearing1.01.94.8-1.7-2.20.20.2
Locomotion in novel chamber0.91.22.61.31.6-0.6-0.6
Locomotion in novel chamber post-restriction0.20.20.4-0.40.20.60.6
Fecal boli incidents, locomotor time 10.10.10.2-0.3-0.3-0.4-0.4
Change in fecal boli incidents, locomotor task0.30.30.70.90.4-0.3-0.3
Time >=10cm from walls, locomotor time 14.54.87.12.0-0.9-2.7-2.7
Bouts of movement, locomotor time 10.40.51.4-1.2-0.10.40.4
Total resting periods, locomotor time 10.60.72.0-1.40.10.60.6
Rest time, locomotor task time 10.20.30.9-0.9-0.30.10.1
Distance moved, locomotor task time 10.81.32.1-0.8-0.41.41.4
Vertical activity count, locomotor time 10.00.10.20.0-0.40.30.3
Time >=10cm from walls, locomotor time 21.01.53.21.80.5-1.1-1.1
Bouts of movement, locomotor time 20.81.42.2-0.61.51.21.2
Total resting periods, locomotor time 20.50.91.3-0.61.11.01.0
Rest time, locomotor task time 20.20.20.3-0.3-0.3-0.6-0.6
Distance moved, locomotor task time 20.81.01.6-0.6-0.41.31.3
Vertical activity count, locomotor time 20.10.10.20.5-0.20.40.4
Light reinforcement 10.00.10.10.2-0.4-0.2-0.2
Light reinforcement 20.50.82.3-1.0-1.50.30.3
Bone: marrow area2.14.56.5-2.20.22.52.5
Bone: maximum diameter0.91.62.6-0.80.71.61.6
Bone: maximum force1.52.73.8-0.61.61.91.9
Bone: maximum moment1.83.24.3-0.52.02.12.1
Mean time between licks in bursts0.20.50.7-0.8-0.50.70.7
Mean num. licks in bursts1.52.33.21.70.1-1.8-1.8
Cd content in liver0.20.20.3-0.30.30.50.5
Co content in liver1.21.44.80.52.20.60.6
Cu content in liver0.70.81.7-1.3-1.20.20.2
Fe content in liver0.30.40.9-0.9-1.0-0.1-0.1
K content in liver0.40.40.80.90.4-0.5-0.5
Mg content in liver0.10.10.20.20.40.00.0
Mn content in liver0.60.71.1-0.20.61.01.0
Na content in liver0.60.61.8-0.3-1.3-0.6-0.6
Rb content in liver0.10.20.60.30.70.00.0
Se content in liver0.40.51.1-0.2-1.0-0.6-0.6
Sr content in liver0.80.71.5-0.2-1.2-0.8-0.8
Zn content in liver0.20.20.30.20.4-0.6-0.6
Bone: minimum diameter1.52.85.70.32.41.71.7
Time in familiar zone, hab. session 10.30.30.4-0.10.70.60.6
Time in novel zone, hab. session 10.60.61.9-0.8-1.4-0.1-0.1
Total zone transitions, hab. session 10.30.40.8-0.9-0.80.20.2
Total locomotion distance, hab. session 10.00.00.00.0-0.1-0.2-0.2
Locomotion velocity, hab. session 10.20.30.50.60.2-0.7-0.7
Time in familiar zone, hab. session 20.20.30.60.80.4-0.4-0.4
Time in novel zone, hab. session 20.60.61.3-1.2-0.40.60.6
Total zone transitions, hab. session 21.11.41.8-0.1-1.3-1.4-1.4
Total locomotion distance, hab. session 20.70.91.50.6-0.2-1.2-1.2
Locomotion velocity, hab. session 20.60.81.30.70.1-1.1-1.1
Novel to familiar place preference ratio0.40.51.0-0.9-1.00.00.0
Novelty place preference0.40.51.1-1.0-0.80.30.3
Time in novel zone, NPP test0.20.20.5-0.6-0.7-0.1-0.1
Total zone transitions, NPP test2.84.16.71.3-1.1-2.6-2.6
Total locomotion distance, NPP test1.72.33.81.0-0.7-2.0-2.0
Locomotion velocity, NPP test0.91.32.20.7-0.5-1.5-1.5
Intraocular pressure0.10.20.6-0.70.10.20.2
Delta distance traveled before/after self-admin1.01.11.6-0.11.31.11.1
Delta ambulatory time before/after self-admin1.01.33.30.31.80.90.9
Parametrial fat weight0.20.51.00.3-1.0-0.7-0.7
Pavlov. Cond. lever latency1.51.82.6-0.21.61.51.5
Pavlov. Cond. magazine entry latency0.60.81.1-0.11.11.01.0
Pavlov. Cond. change in total contacts0.10.10.10.2-0.1-0.3-0.3
Pavlov. Cond. index score0.00.00.00.0-0.1-0.1-0.1
Pavlov. Cond. latency score0.00.10.10.0-0.3-0.3-0.3
Pavlov. Cond. lever contacts0.80.92.0-0.3-1.4-0.9-0.9
Pavlov. Cond. magazine entry number0.20.30.4-0.0-0.6-0.6-0.6
Pavlov. Cond. intertrial magazine entries4.04.89.33.12.3-1.5-1.5
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.10.20.20.2
Pavlov. Cond. response bias0.10.10.20.3-0.2-0.4-0.4
Pavlov. Cond. lever latency1.52.14.61.92.1-0.1-0.1
Pavlov. Cond. magazine entry latency2.93.59.7-1.6-3.1-0.9-0.9
Pavlov. Cond. change in total contacts2.43.87.8-2.8-2.31.01.0
Pavlov. Cond. index score2.83.710.0-2.1-3.2-0.4-0.4
Pavlov. Cond. latency score2.83.810.3-1.9-3.2-0.7-0.7
Pavlov. Cond. lever contacts1.82.55.5-2.1-2.30.10.1
Pavlov. Cond. magazine entry number1.92.35.81.82.40.30.3
Pavlov. Cond. intertrial magazine entries1.92.95.42.32.0-1.0-1.0
Pavlov. Cond. lever-magazine prob. diff.3.14.111.0-2.3-3.3-0.4-0.4
Pavlov. Cond. response bias1.82.55.6-2.1-2.40.10.1
Time in closed arm before self-admin3.34.28.5-2.9-1.61.71.7
Time in closed arm after self-admin3.13.36.0-2.5-2.11.21.2
Time in open arm before self-admin3.74.06.12.50.6-2.2-2.2
Time in open arm after self-admin5.86.311.63.41.5-2.4-2.4
Bone: periosteal estimation1.94.16.2-1.41.42.52.5
Bone: periosteal perimeter0.40.81.2-0.40.71.11.1
Bone: post-yield work1.31.95.31.52.30.20.2
Progressive ratio test 1 active lever presses0.10.20.4-0.6-0.6-0.0-0.0
Progressive ratio test 1 breakpoint0.20.20.4-0.6-0.6-0.1-0.1
Progressive ratio test 1 inactive lever presses0.81.21.81.31.1-1.0-1.0
Progressive ratio test 2 active lever presses0.70.82.2-0.6-1.5-0.6-0.6
Progressive ratio test 2 breakpoint0.70.82.2-0.6-1.5-0.6-0.6
Progressive ratio test 2 inactive lever presses0.40.71.1-0.1-0.9-1.0-1.0
Incentive Sensitization - Responses0.60.92.7-0.5-1.7-0.6-0.6
Incentive Sensitization - Breakpoint0.60.82.5-0.5-1.6-0.5-0.5
Sum of active levers in priming session hrs 5-60.50.50.90.90.7-0.5-0.5
Progressive ratio0.81.32.8-1.7-0.11.11.1
Food seeking constrained by brief footshock0.50.61.8-0.21.30.60.6
Seeking ratio, punishment vs. effort0.40.61.21.11.1-0.3-0.3
Retroperitoneal fat weight0.00.10.2-0.3-0.2-0.4-0.4
Reaction time number correct1.52.96.92.22.6-0.1-0.1
Reaction time mean minus median0.00.00.1-0.20.20.20.2
Reaction time mean minus median AUC0.41.01.4-0.41.21.11.1
Reaction time num false alarms1.21.62.81.70.7-1.3-1.3
Reaction time num false alarms AUC0.81.32.71.61.1-0.8-0.8
Reaction time trials correct on left1.52.96.92.22.6-0.1-0.1
Reaction time trials on left1.62.97.02.22.6-0.1-0.1
Reaction time mean1.32.13.1-1.8-0.21.61.6
Reaction time mean AUC0.91.41.9-1.4-0.11.41.4
Median of all reaction times1.62.33.1-1.7-0.21.71.7
Reaction time omissions0.10.10.40.40.60.10.1
Reaction time false alarm rate0.30.40.70.5-0.3-0.8-0.8
Reaction time premature initiation rate0.10.20.30.40.6-0.2-0.2
Reaction time premature initiations0.91.63.71.61.9-0.2-0.2
Std. dev. reaction times0.81.52.0-1.40.21.41.4
Reaction time trials completed1.62.97.02.22.6-0.1-0.1
Reaction time trials AUC1.52.96.52.22.5-0.2-0.2
Run reversals in cocaine runway, females1.81.82.3-1.50.31.51.5
Run reversals in cocaine runway, males0.00.00.1-0.2-0.20.10.1
Latency to leave start box in cocaine runway0.50.61.4-1.2-0.90.20.2
Latency to leave start box in cocaine runway, F0.40.41.1-0.8-1.00.20.2
Latency to leave start box in cocaine runway, M0.20.20.7-0.8-0.3-0.1-0.1
Std. dev. time between licks in bursts0.10.20.30.10.60.40.4
Total sessions with >9 infusions0.60.71.6-1.3-0.50.70.7
Short access day 1 total inactive lever presses0.81.01.60.1-0.9-1.2-1.2
Short access day 10 total inactive lever presses0.30.81.40.6-0.3-1.2-1.2
Short access day 1 total infusions0.10.10.2-0.4-0.2-0.2-0.2
Short access day 10 total infusions0.20.30.9-0.9-0.10.40.4
Short access total infusions0.60.71.7-1.3-0.50.70.7
Short access day 1 locomotion0.40.41.3-1.1-0.70.20.2
Short access day 10 total locomotion0.10.20.5-0.6-0.7-0.1-0.1
Short access total locomotion0.70.81.9-0.5-1.4-0.7-0.7
One hour access (0.3 mA shock)1.21.42.30.8-0.5-1.5-1.5
Compulsive drug intake2.52.94.11.6-0.9-2.0-2.0
One hour access (shock baseline)0.10.10.4-0.30.60.20.2
Social response proportion0.50.60.9-0.8-0.30.90.9
Social responses0.30.40.7-0.8-0.30.60.6
Social time0.20.20.4-0.30.60.50.5
Soleus weight1.44.06.72.60.7-2.1-2.1
Bone: stiffness0.30.51.40.81.20.00.0
Tibialis anterior weight0.51.82.71.60.7-1.4-1.4
Time to tail flick, vehicle, before self-admin2.12.13.41.3-0.3-1.9-1.9
Time to tail flick, vehicle, after self-admin0.10.10.20.3-0.3-0.4-0.4
Time to tail flick, test, before self-admin0.30.31.0-1.0-0.30.40.4
Time to tail flick, test, after self-admin1.81.92.61.60.1-1.6-1.6
Delta time to tail flick, vehicle, before/after SA0.80.81.40.21.20.90.9
Delta time to tail flick, test, before/after SA2.02.13.41.80.3-1.6-1.6
Tibia length0.10.20.50.70.2-0.3-0.3
Ambulatory time before self-admin1.11.64.3-0.5-2.1-0.9-0.9
Ambulatory time after self-admin0.00.10.2-0.2-0.40.00.0
Bone: tissue strength1.21.21.7-0.61.01.31.3
Total heroin consumption3.03.56.32.51.3-1.8-1.8
Bone: trabecular number0.30.51.50.61.20.20.2
Bone: trabecular spacing0.20.30.5-0.4-0.00.70.7
Bone: trabecular thickness0.20.20.30.2-0.5-0.6-0.6
Bone: trabecular tissue density0.00.00.1-0.1-0.40.00.0
Water consumed over 24 hours1.01.42.01.20.0-1.4-1.4
Number of responses in last shaping day0.10.10.2-0.40.40.10.1