Hub : Genes

Atg2a

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 ENSRNOG00000060707 0.05 0.03 4.9e-05 0.03 0.02 0.02 0.03 8.0e-04 1.3e-03 2.2e-03 5.0e-04
2 Brain gene expression ENSRNOG00000060707 0.07 0.04 3.7e-07 0.07 0.05 0.06 0.06 7.1e-07 1.7e-05 4.1e-06 4.7e-06
3 NAcc gene expression ENSRNOG00000060707 0.04 0.03 4.7e-03 0.04 0.03 0.02 0.02 1.2e-03 5.5e-03 1.4e-02 7.6e-03
4 PL mRNA stability ENSRNOG00000060707 0.04 0.02 2.0e-03 0.03 0.03 0.01 0.03 1.5e-03 4.5e-03 4.7e-02 4.3e-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 tail2.37.37.8-2.7-2.8-2.6-2.8
BMI without tail1.73.65.4-1.8-1.5-1.8-2.3
Body weight3.715.717.5-3.9-4.2-3.8-3.9
Epididymis fat weight3.17.27.82.72.62.82.7
Glucose2.03.13.21.71.81.81.8
Heart weight3.14.45.72.12.41.92.0
Left kidney weight0.92.53.01.61.41.71.5
Right kidney weight0.41.21.61.20.61.31.2
Tail length1.13.34.9-1.7-1.5-1.8-2.2
Length with tail2.28.29.2-2.8-3.0-2.9-2.7
Length without tail1.94.26.0-2.1-2.4-2.0-1.5
Liver weight, left0.00.00.10.30.20.20.1
Liver weight, right0.00.00.1-0.10.3-0.1-0.2
Parametrial fat weight2.44.75.52.32.22.31.8
Retroperitoneal fat weight6.120.321.04.54.64.54.5
Intraocular pressure1.62.32.81.61.01.71.7
Extensor digitorum longus weight7.630.634.7-5.5-5.9-5.5-5.3
Soleus weight4.011.713.63.43.73.33.3
Tibialis anterior weight10.636.443.2-5.9-6.6-5.8-5.8
Tibia length0.41.13.3-0.7-1.8-0.5-0.6
Number of licking bursts0.10.20.3-0.3-0.5-0.3-0.3
Food consumed during 24 hour testing period0.00.00.10.2-0.20.20.1
Times rat made contact with spout0.80.91.1-1.0-0.7-1.0-1.1
Mean time between licks in bursts1.41.92.8-1.4-0.7-1.5-1.7
Mean num. licks in bursts0.00.00.20.10.40.1-0.0
Std. dev. time between licks in bursts0.20.20.3-0.50.3-0.5-0.6
Water consumed over 24 hours1.01.21.2-1.1-1.1-1.1-1.1
Indifference point 0 sec0.10.10.10.30.40.20.3
Indifference point AUC2.93.44.4-1.6-2.1-1.5-2.1
Indifference point function ln k6.38.913.52.73.72.62.8
Indifference point function log k6.38.913.52.73.72.62.8
Delay discounting total patch changes 0 sec0.00.00.10.10.3-0.10.1
Delay discounting total patch changes 12 sec4.25.66.6-2.2-2.5-2.2-2.6
Delay discounting total patch changes 18 sec0.40.50.9-0.4-0.8-0.5-0.9
Delay discounting total patch changes 24 sec2.43.03.5-1.6-1.7-1.7-1.9
Delay discounting total patch changes 6 sec0.91.41.6-1.2-1.0-1.3-1.3
Delay discounting time to switch 0 sec1.11.62.6-1.2-1.6-1.1-1.1
Delay discounting water rate 0 sec3.75.86.92.42.62.32.3
Delay discounting water rate 12 sec6.09.013.22.83.62.62.9
Delay discounting water rate 18 sec2.12.84.51.52.11.31.7
Delay discounting water rate 24 sec3.24.45.72.02.41.92.0
Delay discounting water rate 6 sec2.53.76.21.82.51.61.6
Locomotor activity1.21.83.21.21.81.21.1
Locomotor testing distance1.32.24.61.32.21.21.1
Locomotor testing rearing1.21.93.51.21.91.21.1
Light reinforcement 10.10.10.30.30.50.20.2
Light reinforcement 21.92.43.91.51.01.62.0
Reaction time number correct0.40.50.6-0.6-0.7-0.8-0.7
Reaction time mean minus median2.12.84.8-1.4-2.2-1.5-1.4
Reaction time mean minus median AUC1.21.62.6-1.1-1.6-1.2-1.1
Reaction time num false alarms0.10.20.6-0.10.8-0.3-0.3
Reaction time num false alarms AUC0.40.50.9-0.70.0-0.9-0.9
Reaction time trials correct on left0.40.50.6-0.6-0.7-0.8-0.7
Reaction time trials on left0.50.60.7-0.7-0.8-0.8-0.8
Reaction time mean0.10.10.20.2-0.20.20.4
Reaction time mean AUC0.10.10.30.3-0.20.30.6
Median of all reaction times0.20.30.70.60.20.50.8
Reaction time omissions1.01.42.1-1.2-1.4-1.1-0.8
Reaction time false alarm rate0.10.10.5-0.10.7-0.2-0.2
Reaction time premature initiation rate4.35.86.8-2.5-2.0-2.6-2.4
Reaction time premature initiations5.98.49.5-3.0-2.6-3.1-2.9
Std. dev. reaction times0.40.61.3-0.5-1.2-0.7-0.4
Reaction time trials completed0.50.60.7-0.7-0.8-0.8-0.8
Reaction time trials AUC0.30.40.5-0.6-0.6-0.7-0.7
Social response proportion0.80.81.2-0.9-1.1-0.8-0.9
Social responses0.40.50.7-0.6-0.6-0.7-0.8
Social time0.60.80.9-0.9-0.9-0.9-0.9
Conditioned locomotion1.82.22.4-1.5-1.5-1.5-1.3
Cocaine response after cond. corrected0.80.91.90.81.40.70.8
Cocaine response after cond. not corrected0.60.71.50.71.20.60.6
Cocaine response before conditioning0.30.40.8-0.5-0.9-0.5-0.7
Saline control response4.76.36.5-2.5-2.4-2.5-2.5
Condit. Reinf. active minus inactive responses0.50.60.90.80.40.91.0
Condit. Reinf. active-inactive response ratio1.92.02.81.50.91.51.7
Condit. Reinf. active responses0.00.00.10.1-0.20.20.3
Condit. Reinf. inactive responses0.60.81.0-0.9-0.7-0.9-1.0
Condit. Reinf. lever presses1.11.53.3-1.0-1.8-0.9-0.9
Condit. Reinf. lever reinforcers received0.10.10.4-0.2-0.6-0.10.0
Pavlov. Cond. lever latency0.20.30.80.40.90.30.3
Pavlov. Cond. magazine entry latency3.23.74.6-1.8-2.1-1.8-1.9
Pavlov. Cond. change in total contacts0.71.02.9-0.7-1.7-0.5-0.4
Pavlov. Cond. index score1.41.93.6-1.2-1.9-1.1-1.1
Pavlov. Cond. latency score1.11.42.8-1.0-1.7-0.9-0.9
Pavlov. Cond. lever contacts0.20.30.8-0.4-0.9-0.3-0.3
Pavlov. Cond. magazine entry number5.16.39.22.43.02.32.2
Pavlov. Cond. intertrial magazine entries1.11.41.71.21.31.21.1
Pavlov. Cond. lever-magazine prob. diff.1.92.54.4-1.4-2.1-1.3-1.3
Pavlov. Cond. response bias1.11.53.0-1.1-1.7-1.0-1.0
Conditioned reinforcement - actives0.60.60.90.80.50.81.0
Conditioned reinforcement - inactives8.29.310.13.12.83.23.1
Conditioned locomotion10.412.413.73.53.43.53.7
Intermittent access intake day 1-15 change1.21.21.51.20.91.21.0
Intermittent access intake escalation1.01.01.31.10.91.10.9
Intermittent access intake escalation 20.40.40.60.70.40.80.6
Intermitt. access day 1 inactive lever presses2.93.23.31.81.71.81.8
Intermitt. access day 15 inactive lever presses4.04.45.12.11.82.22.3
Intermitt. access escalation Index2.52.23.31.41.81.31.3
Intermittent access day 1 total infusions6.67.58.42.72.62.72.9
Intermittent access day 15 total infusions11.112.413.23.63.33.63.6
Intermittent access terminal intake (last 3 days)8.28.99.73.02.73.13.1
Intermittent access total infusions6.77.48.32.72.52.82.9
Intermittent access day 1 locomotion4.04.14.62.02.11.92.0
Intermittent access day 15 total locomotion7.07.47.92.82.62.82.7
Intermittent access total locomotion8.49.510.03.22.93.23.1
Intermittent access standard deviation1.81.92.21.31.21.41.5
Cocaine induced anxiety0.00.00.00.1-0.00.10.0
Post-drug Anxiety0.91.01.5-1.0-1.2-0.9-0.8
Baseline Anxiety2.52.62.8-1.7-1.6-1.7-1.5
Lifetime Intake5.46.16.82.42.32.52.6
Incentive Sensitization - Responses1.11.11.21.10.91.11.1
Incentive Sensitization - Breakpoint1.51.51.71.31.01.31.3
Progressive ratio test 1 active lever presses4.14.24.92.01.92.02.2
Progressive ratio test 1 breakpoint3.73.84.41.91.81.92.1
Progressive ratio test 1 inactive lever presses1.41.51.81.11.31.11.2
Progressive ratio test 2 active lever presses6.87.27.92.72.42.72.8
Progressive ratio test 2 breakpoint7.98.89.53.02.83.03.1
Progressive ratio test 2 inactive lever presses12.013.815.03.73.53.83.9
Total sessions with >9 infusions2.02.22.41.41.51.41.6
Short access day 1 total inactive lever presses4.75.25.92.32.22.22.4
Short access day 10 total inactive lever presses3.23.54.81.82.21.71.7
Short access day 1 total infusions3.13.33.91.81.81.72.0
Short access day 10 total infusions1.92.12.61.41.41.41.6
Short access total infusions1.51.72.11.21.31.21.4
Short access day 1 locomotion2.32.53.11.51.71.51.5
Short access day 10 total locomotion1.71.92.11.41.51.41.3
Short access total locomotion1.41.41.71.21.31.11.2
Compulsive drug intake4.54.45.4-2.2-1.7-2.2-2.3
One hour access (0.3 mA shock)12.915.015.43.93.83.93.9
One hour access (shock baseline)13.515.717.64.03.54.04.2
Number of responses in last shaping day1.21.21.51.11.21.01.1
Context. condit. distance diff. score1.41.72.81.31.71.30.9
Locomotion velocity, session 10.20.20.3-0.5-0.1-0.6-0.3
Locomotion distance, session 10.60.81.1-1.0-0.8-1.1-0.7
Locomotion velocity, session 23.03.53.8-1.9-1.9-1.9-1.7
Locomotion distance, session 20.91.31.8-1.3-1.0-1.3-0.9
Locomotion velocity, session 30.10.10.30.20.40.10.6
Locomotion distance, session 30.00.00.00.10.20.10.2
Stereotopy head waving bouts, day 30.30.30.60.40.80.30.7
Stereotopy head waving duration, day 30.60.71.10.70.90.71.1
Locomotion velocity, session 70.50.50.60.60.80.60.8
Locomotion distance, session 70.00.00.1-0.20.3-0.2-0.0
Stereotopy head waving bouts, day 70.40.40.60.70.30.80.7
Stereotopy head waving duration, day 70.50.61.3-0.6-1.1-0.6-0.7
Locomotion velocity, session 81.51.82.2-1.5-1.1-1.5-1.4
Locomotion distance, session 80.10.10.20.30.50.30.3
Degree of sensitization distance0.00.00.0-0.10.1-0.1-0.0
Degree of sensitization stereotypy0.10.10.5-0.1-0.7-0.0-0.2
Condit. Reinf. active minus inactive responses0.20.20.2-0.5-0.4-0.5-0.5
Condit. Reinf. active-inactive response ratio0.00.00.0-0.2-0.2-0.2-0.2
Condit. Reinf. active responses0.00.00.0-0.0-0.1-0.00.0
Condit. Reinf. inactive responses0.20.20.30.50.30.50.5
Incentive salience index mean0.30.40.4-0.6-0.6-0.6-0.6
Condit. Reinf. lever presses0.20.20.4-0.4-0.6-0.4-0.4
Time in familiar zone, hab. session 10.30.30.30.50.60.50.3
Time in novel zone, hab. session 10.00.00.1-0.10.3-0.10.1
Total zone transitions, hab. session 10.50.81.0-0.9-1.0-0.9-0.6
Total locomotion distance, hab. session 10.30.40.70.50.60.50.8
Locomotion velocity, hab. session 10.00.00.20.10.10.10.4
Time in familiar zone, hab. session 20.30.30.7-0.50.2-0.5-0.8
Time in novel zone, hab. session 20.00.00.10.0-0.30.00.3
Total zone transitions, hab. session 21.41.82.2-1.5-1.4-1.5-1.0
Total locomotion distance, hab. session 20.00.00.1-0.20.0-0.30.1
Locomotion velocity, hab. session 20.10.10.30.10.20.10.5
Novel to familiar place preference ratio0.50.51.4-0.4-1.2-0.3-0.6
Novelty place preference0.20.20.6-0.1-0.8-0.0-0.3
Time in novel zone, NPP test0.10.10.4-0.1-0.6-0.0-0.4
Total zone transitions, NPP test2.23.23.9-1.8-2.0-1.8-1.5
Total locomotion distance, NPP test0.10.10.2-0.4-0.3-0.40.0
Locomotion velocity, NPP test0.10.10.1-0.4-0.3-0.40.1
Pavlov. Cond. lever latency0.20.30.40.50.60.50.6
Pavlov. Cond. magazine entry latency0.10.20.3-0.3-0.5-0.3-0.4
Pavlov. Cond. change in total contacts0.10.10.10.3-0.20.40.4
Pavlov. Cond. index score0.10.10.2-0.2-0.5-0.2-0.3
Pavlov. Cond. latency score0.10.10.1-0.2-0.3-0.2-0.3
Pavlov. Cond. lever contacts0.00.00.1-0.2-0.1-0.2-0.3
Pavlov. Cond. magazine entry number0.10.10.40.20.70.10.2
Pavlov. Cond. intertrial magazine entries0.91.11.31.11.01.21.0
Pavlov. Cond. lever-magazine prob. diff.0.20.30.6-0.5-0.8-0.4-0.5
Pavlov. Cond. response bias0.00.00.1-0.1-0.4-0.1-0.1
Bone: apparent density0.20.30.4-0.5-0.6-0.5-0.6
Bone surface2.74.77.7-2.0-2.8-1.9-1.9
Bone volume0.61.02.3-0.7-1.5-0.7-0.8
Bone: connectivity density1.72.73.3-1.6-1.8-1.6-1.7
Bone: cortical apparent density0.30.40.5-0.7-0.6-0.7-0.7
Bone: cortical area0.40.51.1-0.6-1.0-0.6-0.5
Bone: cortical porosity0.10.10.1-0.2-0.3-0.3-0.1
Bone: cortical porosity0.60.70.7-0.8-0.8-0.9-0.7
Bone: cortical thickness3.15.15.3-2.2-2.2-2.3-2.3
Bone: cortical thickness1.11.31.5-1.2-0.8-1.2-1.2
Bone: cortical tissue density0.50.60.7-0.8-0.7-0.8-0.8
Bone: elastic displacement0.50.51.30.51.10.50.5
Bone: elastic work1.31.72.1-1.4-0.9-1.5-1.4
Bone: endosteal estimation1.12.32.71.51.31.51.6
Bone: endosteal perimeter1.93.84.82.01.52.12.2
Bone: final force2.54.25.6-2.0-2.4-2.0-1.8
Bone: final moment2.23.74.9-1.9-2.2-1.9-1.7
Bone: marrow area1.12.32.71.51.41.51.6
Bone: maximum diameter0.10.10.30.1-0.60.20.2
Bone: maximum force2.34.06.3-1.9-2.5-1.8-1.7
Bone: maximum moment2.03.55.3-1.8-2.3-1.7-1.6
Bone: minimum diameter1.01.82.21.41.21.31.5
Bone: periosteal estimation0.20.30.50.60.10.60.7
Bone: periosteal perimeter0.00.10.10.1-0.30.20.3
Bone: post-yield work0.20.20.40.3-0.60.40.6
Bone: stiffness1.72.74.7-1.5-2.2-1.5-1.3
Bone: tissue strength0.00.00.10.2-0.10.20.3
Bone: trabecular number0.10.20.5-0.2-0.7-0.2-0.3
Bone: trabecular spacing0.00.10.20.00.5-0.0-0.0
Bone: trabecular thickness0.70.91.01.00.91.01.0
Bone: trabecular tissue density4.05.55.72.42.42.42.3
Breakpoint value in progressive ratio session2.52.73.4-1.6-1.8-1.7-1.5
Distance traveled before self-admin0.30.40.9-0.5-0.9-0.5-0.4
Distance traveled after self-admin0.10.10.2-0.2-0.5-0.10.0
Delta time in closed arm before/after self-admin0.50.50.7-0.8-0.1-0.8-0.8
Delta time in open arm before/after self-admin0.10.10.20.3-0.20.40.3
Diff in mean of infusions in LGA sessions0.30.30.5-0.5-0.6-0.5-0.7
Extinction: sum of active levers before priming4.24.24.8-2.0-2.2-2.0-2.0
Active lever presses in extinction session 62.12.02.8-1.2-1.7-1.3-1.4
Delta distance traveled before/after self-admin0.00.00.1-0.00.30.10.1
Delta ambulatory time before/after self-admin0.00.00.1-0.30.2-0.1-0.0
Time in closed arm before self-admin0.00.00.10.2-0.20.30.2
Time in closed arm after self-admin0.00.00.1-0.10.3-0.00.1
Time in open arm before self-admin0.10.10.5-0.10.7-0.2-0.2
Time in open arm after self-admin0.10.10.10.30.30.20.2
Sum of active levers in priming session hrs 5-60.50.51.3-0.4-1.2-0.4-0.4
Time to tail flick, vehicle, before self-admin0.50.50.5-0.6-0.7-0.7-0.7
Time to tail flick, vehicle, after self-admin2.62.84.4-1.6-1.3-1.6-2.1
Time to tail flick, test, before self-admin0.40.40.70.50.90.50.6
Time to tail flick, test, after self-admin0.00.00.0-0.2-0.2-0.2-0.1
Delta time to tail flick, vehicle, before/after SA0.90.91.4-0.9-0.7-0.9-1.2
Delta time to tail flick, test, before/after SA1.11.01.4-0.9-1.2-0.9-0.9
Ambulatory time before self-admin0.10.10.4-0.1-0.7-0.0-0.0
Ambulatory time after self-admin0.40.50.80.70.30.80.9
Total heroin consumption5.66.77.6-2.6-2.8-2.6-2.4
Area under the delay curve0.00.00.1-0.10.1-0.1-0.3
Delay disc. indifference point, 0s delay0.10.10.20.10.50.1-0.3
Delay disc. indifference point, 16s delay1.11.11.31.11.01.11.1
Delay disc. indifference point, 2s delay0.00.10.10.30.30.20.0
Delay disc. indifference point, 24s delay0.10.10.1-0.20.2-0.4-0.3
Delay disc. indifference point, 4s delay0.10.10.4-0.20.3-0.2-0.6
Delay disc. indifference point, 8s delay0.10.10.3-0.3-0.0-0.4-0.5
Delay discount exponential model param0.10.10.20.2-0.10.20.4
Delay discount hyperbolic model param0.10.10.20.2-0.00.20.5
Fecal boli incidents, locomotor time 10.20.20.40.5-0.20.60.3
Change in fecal boli incidents, locomotor task0.30.30.6-0.6-0.0-0.7-0.5
Time >=10cm from walls, locomotor time 11.41.41.71.20.81.31.2
Bouts of movement, locomotor time 11.21.32.8-0.9-1.7-0.9-0.9
Total resting periods, locomotor time 10.70.71.9-0.6-1.4-0.6-0.6
Rest time, locomotor task time 11.41.51.81.31.11.31.2
Distance moved, locomotor task time 10.10.10.1-0.4-0.1-0.3-0.4
Vertical activity count, locomotor time 11.51.51.71.21.31.21.2
Time >=10cm from walls, locomotor time 20.00.00.10.1-0.30.10.2
Bouts of movement, locomotor time 20.40.40.5-0.6-0.7-0.5-0.7
Total resting periods, locomotor time 20.10.10.2-0.3-0.5-0.3-0.4
Rest time, locomotor task time 22.52.93.21.71.61.81.8
Distance moved, locomotor task time 21.11.31.4-1.2-1.1-1.2-1.1
Vertical activity count, locomotor time 20.00.00.1-0.30.2-0.2-0.1
Weight adjusted by age2.12.33.3-1.4-1.8-1.4-1.5
Seeking ratio, delayed vs. immediate footshock0.00.10.10.10.00.20.4
Locomotion in novel chamber6.47.98.82.92.42.93.0
Locomotion in novel chamber post-restriction3.74.44.72.12.02.22.0
Progressive ratio2.12.43.5-1.5-1.9-1.4-1.3
Food seeking constrained by brief footshock0.30.40.6-0.7-0.4-0.6-0.8
Seeking ratio, punishment vs. effort1.21.53.11.11.81.00.8
Run reversals in cocaine runway, females1.01.01.3-1.1-0.6-1.1-1.2
Run reversals in cocaine runway, males0.20.20.30.50.50.50.4
Latency to leave start box in cocaine runway0.10.10.10.20.20.30.2
Latency to leave start box in cocaine runway, F0.00.00.00.1-0.00.1-0.1
Latency to leave start box in cocaine runway, M0.00.00.10.10.30.10.2
Cd content in liver1.92.12.61.61.21.51.4
Co content in liver0.60.71.60.71.30.60.5
Cu content in liver0.20.30.3-0.5-0.6-0.5-0.5
Fe content in liver0.10.10.1-0.2-0.4-0.3-0.2
K content in liver1.61.61.8-1.2-1.3-1.2-1.3
Mg content in liver0.10.10.1-0.3-0.3-0.2-0.2
Mn content in liver1.72.03.3-1.2-1.8-1.3-1.1
Na content in liver0.90.91.4-0.9-1.2-0.9-0.8
Rb content in liver1.41.82.21.31.51.21.3
Se content in liver0.30.40.60.70.00.70.8
Sr content in liver3.33.03.8-1.7-1.9-1.6-1.7
Zn content in liver1.11.21.5-1.1-1.2-1.1-1.0