Grap2

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 BLA mRNA stability Grap2 0.1 0.06 1.4e-04 0.06 0.05 0.03 0.05 5.4e-04 1.3e-03 1.5e-02 7.6e-04
2 BLA gene expression Grap2 0.06 0.04 5.1e-03 0.02 0.03 0.02 0.01 3.4e-02 1.0e-02 4.4e-02 5.3e-02
3 NAcc gene expression Grap2 0.1 0.06 7.1e-08 0.08 0.06 0.06 0.07 4.1e-09 1.3e-07 5.0e-07 1.3e-08
4 Brain mRNA stability Grap2 0.08 0.05 7.9e-05 0.01 0.04 0.03 0.02 3.0e-02 4.5e-05 9.6e-04 4.1e-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 density0.10.10.30.6-0.10.50.1
Area under the delay curve2.02.23.51.4-0.71.9-1.7
BMI with tail1.34.15.9-1.62.1-1.92.4
BMI without tail0.30.72.20.10.3-0.71.5
Body weight1.87.59.3-3.03.0-2.12.6
Weight adjusted by age0.30.40.60.5-0.8-0.2-0.7
Bone surface0.30.51.10.4-0.01.0-0.8
Bone volume0.00.10.20.30.20.4-0.1
Breakpoint value in progressive ratio session0.10.10.30.10.20.50.3
Number of licking bursts1.72.02.71.4-1.31.3-1.7
Context. condit. distance diff. score6.37.512.7-2.61.7-3.62.7
Locomotion velocity, session 10.91.02.50.10.01.2-1.6
Locomotion distance, session 14.76.08.92.4-1.72.5-3.0
Locomotion velocity, session 20.30.30.6-0.70.8-0.00.3
Locomotion distance, session 23.85.39.62.1-1.03.1-2.5
Locomotion velocity, session 30.30.41.5-0.2-0.3-1.20.1
Locomotion distance, session 32.62.84.01.9-2.00.4-1.9
Stereotopy head waving bouts, day 31.01.12.4-1.31.5-0.10.8
Stereotopy head waving duration, day 33.64.46.3-2.52.5-1.01.9
Locomotion velocity, session 70.50.61.3-1.20.5-0.70.4
Locomotion distance, session 70.20.30.6-0.10.30.7-0.7
Stereotopy head waving bouts, day 72.93.34.7-2.21.4-1.81.8
Stereotopy head waving duration, day 73.34.05.8-1.91.1-2.42.3
Locomotion velocity, session 81.41.62.7-1.61.6-0.70.8
Locomotion distance, session 80.60.91.9-0.60.4-1.41.1
Degree of sensitization distance4.34.36.2-2.52.5-0.82.1
Degree of sensitization stereotypy1.92.13.9-1.40.7-2.01.4
Conditioned locomotion0.30.40.8-0.50.4-0.90.6
Cocaine response after cond. corrected0.10.10.3-0.60.40.1-0.0
Cocaine response after cond. not corrected0.10.10.3-0.50.30.00.2
Cocaine response before conditioning0.10.10.30.2-0.5-0.20.3
Saline control response0.30.40.90.1-1.0-0.80.3
Bone: connectivity density0.00.10.20.10.10.5-0.1
Bone: cortical apparent density0.91.22.01.1-1.40.3-1.3
Bone: cortical area1.21.83.8-1.32.0-0.51.1
Bone: cortical porosity2.22.53.5-1.91.5-0.91.8
Bone: cortical porosity3.43.75.8-2.42.0-1.02.0
Bone: cortical thickness0.10.20.7-0.00.80.10.2
Bone: cortical thickness0.20.30.50.40.70.6-0.4
Bone: cortical tissue density0.91.21.91.1-1.40.3-1.3
Condit. Reinf. active minus inactive responses0.40.40.70.4-0.30.8-0.8
Condit. Reinf. active-inactive response ratio0.00.00.1-0.0-0.1-0.3-0.1
Condit. Reinf. active responses1.11.41.81.2-1.21.3-1.0
Condit. Reinf. inactive responses1.72.12.81.6-1.71.4-0.9
Incentive salience index mean0.60.71.10.8-0.61.0-0.9
Condit. Reinf. lever presses0.40.61.10.8-0.61.1-0.6
Condit. Reinf. active minus inactive responses0.91.12.20.10.11.5-1.4
Condit. Reinf. active-inactive response ratio0.50.61.1-0.40.81.0-0.6
Condit. Reinf. active responses0.40.60.9-0.70.60.8-1.0
Condit. Reinf. inactive responses0.10.20.3-0.50.40.0-0.5
Condit. Reinf. lever presses0.40.61.00.8-0.51.0-0.7
Condit. Reinf. lever reinforcers received0.40.60.8-0.70.50.9-0.9
Conditioned reinforcement - actives1.01.02.70.8-0.60.5-1.7
Conditioned reinforcement - inactives1.51.73.31.2-0.41.8-1.4
Conditioned locomotion0.40.51.4-0.61.20.4-0.2
Patch foraging indifference point 0 sec0.10.20.50.6-0.20.70.0
Patch foraging indifference point AUC2.63.06.21.5-0.81.7-2.5
Delay disc. indifference point, 0s delay1.11.22.1-0.91.4-0.31.4
Delay disc. indifference point, 16s delay4.04.05.51.9-1.32.3-2.3
Delay disc. indifference point, 2s delay0.30.40.90.40.20.9-0.6
Delay disc. indifference point, 24s delay2.72.65.21.2-0.51.9-2.3
Delay disc. indifference point, 4s delay0.90.92.30.70.11.5-0.9
Delay disc. indifference point, 8s delay2.62.73.51.8-1.11.9-1.8
Indifference point function ln k3.04.26.0-2.11.2-2.32.4
Indifference point function log k3.04.26.0-2.11.2-2.32.4
Patch foraging total patch changes 0 sec0.20.40.80.9-0.40.8-0.0
Patch foraging total patch changes 12 sec0.10.20.4-0.00.20.6-0.6
Patch foraging total patch changes 18 sec0.70.92.40.50.41.5-0.9
Patch foraging total patch changes 24 sec0.70.91.30.9-0.51.2-1.0
Patch foraging total patch changes 6 sec1.42.14.81.4-0.12.2-1.3
Patch foraging time to switch 0 sec1.01.52.8-1.71.0-0.51.4
Patch foraging water rate 0 sec0.40.72.01.4-0.40.6-0.4
Patch foraging water rate 12 sec0.20.30.70.6-0.90.30.1
Patch foraging water rate 18 sec1.21.62.41.5-0.91.5-1.1
Patch foraging water rate 24 sec0.30.40.7-0.60.4-0.50.8
Patch foraging water rate 6 sec1.21.73.61.5-1.90.4-1.0
Seeking ratio, delayed vs. immediate footshock0.40.40.70.7-0.70.8-0.3
Distance traveled before self-admin0.10.10.20.4-0.00.4-0.1
Distance traveled after self-admin0.60.72.00.10.71.4-0.4
Extensor digitorum longus weight0.31.02.91.7-1.00.10.1
Bone: elastic displacement0.00.00.0-0.1-0.1-0.2-0.1
Bone: elastic work2.33.04.9-1.92.2-0.81.7
Bone: endosteal estimation0.92.03.6-1.91.8-0.31.0
Bone: endosteal perimeter1.93.96.3-2.52.1-1.21.8
Epididymis fat weight3.27.510.1-3.22.4-2.92.3
Delta time in closed arm before/after self-admin0.50.50.8-0.80.9-0.70.1
Delta time in open arm before/after self-admin0.30.20.40.5-0.50.7-0.1
Diff in mean of infusions in LGA sessions0.30.30.80.30.00.7-0.9
Delay discount exponential model param2.32.53.7-1.50.8-1.91.8
Extinction: sum of active levers before priming0.30.30.60.40.00.8-0.6
Active lever presses in extinction session 60.10.10.3-0.40.60.10.3
Bone: final force1.42.36.2-1.42.5-0.21.0
Bone: final moment1.52.46.6-1.42.6-0.11.0
Food consumed during 24 hour testing period1.41.73.8-1.21.9-0.71.1
Glucose0.20.30.6-0.80.20.20.6
Heart weight1.62.33.8-1.21.6-1.11.9
Delay discount hyperbolic model param1.92.03.4-1.40.6-1.81.6
Intermittent access intake day 1-15 change1.31.31.91.4-1.40.4-1.1
Intermittent access intake escalation1.11.11.61.3-1.20.5-0.9
Intermittent access intake escalation 20.50.50.90.9-0.80.3-0.5
Intermitt. access day 1 inactive lever presses0.30.30.6-0.40.80.30.5
Intermitt. access day 15 inactive lever presses0.40.40.70.30.40.9-0.8
Intermitt. access escalation Index0.10.10.30.5-0.40.1-0.2
Intermittent access day 1 total infusions0.50.51.4-0.81.20.4-0.1
Intermittent access day 15 total infusions0.60.61.30.6-0.11.1-1.0
Intermittent access terminal intake (last 3 days)0.30.40.90.4-0.20.7-0.9
Intermittent access total infusions0.40.40.7-0.30.80.8-0.4
Intermittent access day 1 locomotion0.30.41.0-0.61.00.20.3
Intermittent access day 15 total locomotion0.30.30.7-0.60.80.3-0.0
Intermittent access total locomotion0.70.81.9-1.01.40.40.2
Intermittent access standard deviation0.30.40.8-0.50.90.10.6
Left kidney weight7.821.931.7-5.65.2-4.03.6
Right kidney weight8.122.733.0-5.75.7-3.53.6
Cocaine induced anxiety2.63.03.8-1.81.8-1.31.9
Post-drug Anxiety1.21.31.7-1.31.3-0.51.2
Baseline Anxiety1.81.92.21.3-1.41.3-1.5
Tail length0.00.10.20.1-0.4-0.10.1
Length with tail0.51.83.9-2.01.3-0.90.7
Length without tail1.22.76.4-2.51.9-0.80.3
Times rat made contact with spout0.30.30.80.90.30.2-0.5
Lifetime Intake0.70.82.0-0.91.40.60.0
Liver weight, left0.91.52.8-1.30.6-1.71.1
Liver weight, right3.66.011.0-2.81.0-3.32.1
Locomotor activity1.22.02.6-1.61.5-1.21.3
Locomotor testing distance0.00.10.10.3-0.4-0.2-0.1
Locomotor testing rearing1.31.92.7-1.61.2-1.41.3
Locomotion in novel chamber3.44.18.82.5-3.00.3-1.3
Locomotion in novel chamber post-restriction0.40.51.00.9-1.00.3-0.5
Fecal boli incidents, locomotor time 11.01.12.70.70.11.6-1.0
Change in fecal boli incidents, locomotor task0.40.30.7-0.0-0.4-0.8-0.7
Time >=10cm from walls, locomotor time 10.60.61.2-1.01.1-0.10.4
Bouts of movement, locomotor time 10.60.61.0-0.91.0-0.80.3
Total resting periods, locomotor time 10.40.41.0-0.71.0-0.50.3
Rest time, locomotor task time 10.50.51.2-0.81.1-0.20.4
Distance moved, locomotor task time 10.60.61.4-0.60.0-1.20.9
Vertical activity count, locomotor time 10.00.00.2-0.20.1-0.00.4
Time >=10cm from walls, locomotor time 20.10.10.2-0.10.20.4-0.1
Bouts of movement, locomotor time 20.50.60.8-0.90.7-0.60.8
Total resting periods, locomotor time 20.30.30.5-0.70.7-0.20.5
Rest time, locomotor task time 20.50.51.00.5-0.20.9-1.0
Distance moved, locomotor task time 21.11.22.3-0.90.4-1.51.2
Vertical activity count, locomotor time 20.60.60.8-0.90.8-0.60.9
Light reinforcement 10.00.10.1-0.0-0.10.4-0.2
Light reinforcement 21.41.93.8-1.30.5-1.91.5
Bone: marrow area1.02.23.8-2.01.9-0.31.0
Bone: maximum diameter3.46.210.9-2.83.3-1.12.1
Bone: maximum force2.13.69.7-1.83.1-0.31.2
Bone: maximum moment2.23.810.3-1.93.2-0.31.2
Mean time between licks in bursts0.40.61.11.1-1.00.4-0.3
Mean num. licks in bursts1.21.51.8-0.91.3-1.41.2
Cd content in liver0.60.61.70.20.0-1.30.9
Co content in liver0.20.30.50.60.5-0.30.7
Cu content in liver2.83.45.92.4-1.71.8-1.2
Fe content in liver0.70.81.3-1.00.8-0.21.2
K content in liver0.30.30.80.3-0.40.9-0.5
Mg content in liver0.40.41.30.0-0.21.2-0.3
Mn content in liver0.10.20.40.2-0.4-0.7-0.1
Na content in liver1.11.11.41.2-1.11.2-0.7
Rb content in liver0.20.20.40.50.20.6-0.2
Se content in liver1.01.32.51.5-1.6-0.2-0.4
Sr content in liver2.62.46.02.4-1.70.1-0.9
Zn content in liver0.91.01.51.1-1.20.9-0.8
Bone: minimum diameter0.91.62.9-1.71.7-0.20.9
Time in familiar zone, hab. session 10.50.50.80.50.30.8-0.9
Time in novel zone, hab. session 11.61.62.5-1.30.4-1.41.6
Total zone transitions, hab. session 15.17.29.13.0-2.91.7-2.9
Total locomotion distance, hab. session 12.94.16.01.9-2.51.2-2.3
Locomotion velocity, hab. session 13.24.55.72.1-2.31.5-2.4
Time in familiar zone, hab. session 20.40.50.80.6-0.9-0.8-0.1
Time in novel zone, hab. session 20.30.30.6-0.50.80.60.1
Total zone transitions, hab. session 22.53.34.71.8-0.82.2-2.1
Total locomotion distance, hab. session 21.41.93.31.2-0.81.8-1.5
Locomotion velocity, hab. session 22.12.94.91.5-1.02.2-1.8
Novel to familiar place preference ratio1.21.22.2-0.90.8-1.51.1
Novelty place preference1.71.73.5-1.00.9-1.91.3
Time in novel zone, NPP test2.02.04.0-1.11.1-2.01.4
Total zone transitions, NPP test6.08.611.03.2-2.82.2-3.3
Total locomotion distance, NPP test2.63.65.21.9-1.61.7-2.3
Locomotion velocity, NPP test3.14.35.62.1-2.01.8-2.4
Intraocular pressure0.40.61.6-1.30.7-0.50.1
Delta distance traveled before/after self-admin0.30.40.6-0.50.80.6-0.3
Delta ambulatory time before/after self-admin0.50.61.0-0.50.91.0-0.6
Parametrial fat weight0.10.10.4-0.20.2-0.60.3
Pavlov. Cond. lever latency0.30.30.5-0.50.6-0.70.4
Pavlov. Cond. magazine entry latency0.70.81.41.1-0.41.2-0.8
Pavlov. Cond. change in total contacts1.51.63.61.1-0.41.9-1.2
Pavlov. Cond. index score0.20.30.70.3-0.00.9-0.5
Pavlov. Cond. latency score0.10.10.40.2-0.10.7-0.3
Pavlov. Cond. lever contacts0.40.40.90.5-0.60.9-0.5
Pavlov. Cond. magazine entry number0.50.70.9-0.90.5-0.80.9
Pavlov. Cond. intertrial magazine entries1.51.83.51.2-0.71.9-1.3
Pavlov. Cond. lever-magazine prob. diff.0.30.40.80.5-0.30.9-0.7
Pavlov. Cond. response bias0.40.51.10.7-0.31.0-0.7
Pavlov. Cond. lever latency0.30.40.9-0.60.5-1.0-0.0
Pavlov. Cond. magazine entry latency2.02.34.51.6-0.82.1-1.1
Pavlov. Cond. change in total contacts0.71.03.1-0.30.81.8-0.1
Pavlov. Cond. index score1.11.43.01.2-0.81.7-0.8
Pavlov. Cond. latency score1.51.83.81.4-0.81.9-1.0
Pavlov. Cond. lever contacts0.20.30.70.5-0.50.80.1
Pavlov. Cond. magazine entry number0.91.12.2-1.20.4-1.50.7
Pavlov. Cond. intertrial magazine entries0.71.01.6-1.11.3-0.80.6
Pavlov. Cond. lever-magazine prob. diff.1.01.32.81.2-0.71.7-0.7
Pavlov. Cond. response bias0.40.51.70.6-0.21.3-0.1
Time in closed arm before self-admin1.51.64.71.2-0.62.2-0.1
Time in closed arm after self-admin1.01.01.8-1.11.4-0.20.9
Time in open arm before self-admin0.40.51.30.2-0.6-1.1-0.3
Time in open arm after self-admin0.50.51.40.7-1.2-0.3-0.1
Bone: periosteal estimation1.63.36.1-2.12.5-0.61.4
Bone: periosteal perimeter3.55.98.4-2.92.9-1.42.2
Bone: post-yield work0.60.81.40.01.11.2-0.6
Progressive ratio test 1 active lever presses0.50.50.9-0.20.90.9-0.5
Progressive ratio test 1 breakpoint0.30.30.50.00.50.7-0.6
Progressive ratio test 1 inactive lever presses0.20.20.4-0.20.60.50.3
Progressive ratio test 2 active lever presses0.80.81.80.30.01.2-1.3
Progressive ratio test 2 breakpoint0.50.61.10.00.31.0-1.1
Progressive ratio test 2 inactive lever presses1.31.52.71.0-0.51.6-1.4
Incentive Sensitization - Responses0.50.50.80.5-0.80.5-0.9
Incentive Sensitization - Breakpoint0.30.30.60.3-0.60.4-0.8
Sum of active levers in priming session hrs 5-60.00.00.10.2-0.20.20.1
Progressive ratio0.20.20.70.20.00.8-0.2
Food seeking constrained by brief footshock0.30.41.0-0.71.0-0.10.3
Seeking ratio, punishment vs. effort0.20.20.4-0.50.6-0.30.3
Retroperitoneal fat weight4.414.421.7-4.73.5-3.73.2
Reaction time number correct0.91.32.81.1-1.70.0-1.1
Reaction time mean minus median0.10.10.2-0.20.1-0.40.5
Reaction time mean minus median AUC0.91.21.8-1.00.5-1.31.2
Reaction time num false alarms0.00.10.20.0-0.2-0.20.5
Reaction time num false alarms AUC0.10.10.30.3-0.60.00.0
Reaction time trials correct on left0.91.32.81.1-1.70.0-1.1
Reaction time trials on left1.01.43.11.2-1.70.1-1.1
Reaction time mean0.10.10.4-0.3-0.0-0.20.6
Reaction time mean AUC0.10.10.2-0.2-0.1-0.20.4
Median of all reaction times0.00.10.2-0.2-0.20.00.4
Reaction time omissions0.30.50.90.7-0.90.2-0.6
Reaction time false alarm rate0.10.20.5-0.20.3-0.20.7
Reaction time premature initiation rate0.50.71.3-0.71.01.10.4
Reaction time premature initiations0.20.20.7-0.20.30.9-0.0
Std. dev. reaction times0.40.50.7-0.70.4-0.80.8
Reaction time trials completed1.01.43.11.2-1.70.1-1.1
Reaction time trials AUC0.60.92.00.8-1.4-0.1-0.9
Run reversals in cocaine runway, females0.50.41.20.5-1.10.2-0.5
Run reversals in cocaine runway, males0.30.30.90.20.0-0.3-1.0
Latency to leave start box in cocaine runway2.02.13.4-1.50.8-1.91.5
Latency to leave start box in cocaine runway, F0.20.20.6-0.2-0.1-0.70.5
Latency to leave start box in cocaine runway, M3.83.64.7-2.11.4-2.21.9
Std. dev. time between licks in bursts1.01.22.71.0-0.61.7-0.9
Total sessions with >9 infusions1.31.53.3-1.61.80.10.4
Short access day 1 total inactive lever presses1.11.23.2-0.11.21.8-0.5
Short access day 10 total inactive lever presses0.00.00.1-0.00.20.1-0.0
Short access day 1 total infusions0.50.51.2-0.81.10.10.4
Short access day 10 total infusions1.92.14.5-1.72.1-0.31.0
Short access total infusions2.22.55.3-1.92.3-0.11.0
Short access day 1 locomotion0.10.10.2-0.30.50.30.3
Short access day 10 total locomotion0.10.10.50.00.1-0.20.7
Short access total locomotion1.31.42.5-1.31.6-0.41.1
One hour access (0.3 mA shock)1.11.32.01.2-0.81.0-1.4
Compulsive drug intake4.34.36.32.2-2.11.4-2.5
One hour access (shock baseline)0.20.30.4-0.50.7-0.20.6
Social response proportion0.90.92.4-0.70.7-0.61.5
Social responses0.30.40.70.5-0.40.8-0.8
Social time1.62.13.11.3-1.31.8-1.3
Soleus weight0.72.23.71.4-0.91.5-1.9
Bone: stiffness2.03.17.3-1.82.7-0.21.4
Tibialis anterior weight0.93.06.72.6-1.31.5-1.2
Time to tail flick, vehicle, before self-admin0.20.20.40.20.10.4-0.7
Time to tail flick, vehicle, after self-admin0.40.40.80.8-0.90.2-0.4
Time to tail flick, test, before self-admin0.10.10.30.2-0.30.0-0.6
Time to tail flick, test, after self-admin1.21.21.61.2-1.31.0-0.9
Delta time to tail flick, vehicle, before/after SA0.10.10.20.3-0.2-0.20.4
Delta time to tail flick, test, before/after SA1.91.72.61.6-1.61.0-0.8
Tibia length0.41.12.8-1.31.7-0.20.1
Ambulatory time before self-admin0.50.50.91.0-0.70.6-0.6
Ambulatory time after self-admin1.51.73.81.0-0.41.9-1.3
Bone: tissue strength0.10.10.2-0.40.4-0.10.1
Total heroin consumption0.10.10.20.10.30.4-0.5
Bone: trabecular number0.10.10.40.0-0.2-0.60.3
Bone: trabecular spacing0.71.02.7-0.91.60.5-0.0
Bone: trabecular thickness0.20.30.60.1-0.3-0.60.8
Bone: trabecular tissue density0.50.71.31.2-0.70.90.1
Water consumed over 24 hours0.20.20.50.70.50.1-0.2
Number of responses in last shaping day0.91.03.2-0.20.81.80.0