Syngr2

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 Brain gene expression Syngr2 0.03 0.03 8.5e-03 0.01 0.01 0.01 0.01 3.7e-02 4.3e-02 4.1e-02 8.4e-02
2 Liver gene expression Syngr2 0.06 0.05 1.7e-07 0.05 0.05 0.04 0.04 3.7e-06 5.1e-06 8.0e-06 9.8e-06
3 Adipose gene expression Syngr2 0.03 0.02 1.5e-03 0.02 0.01 0.01 0.01 2.3e-03 9.2e-03 4.6e-02 1.1e-02
4 NAcc gene expression Syngr2 0.06 0.07 2.7e-03 0 0.01 0.02 0.02 7.9e-02 2.5e-03 2.0e-04 9.5e-04

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 density0.61.02.30.4-1.51.20.4
Area under the delay curve1.11.32.3-0.61.1-1.2-1.5
BMI with tail0.51.73.7-1.21.1-0.61.9
BMI without tail0.51.43.70.9-0.60.91.9
Body weight0.73.15.1-2.02.3-1.70.5
Weight adjusted by age0.10.20.8-0.2-0.1-0.0-0.9
Bone surface1.52.87.9-1.30.8-1.0-2.8
Bone volume0.51.03.1-0.80.1-0.2-1.8
Breakpoint value in progressive ratio session0.70.92.1-0.90.8-0.2-1.4
Number of licking bursts0.00.10.1-0.00.3-0.20.3
Context. condit. distance diff. score0.50.61.0-0.70.8-0.6-1.0
Locomotion velocity, session 10.20.20.4-0.50.4-0.6-0.1
Locomotion distance, session 12.93.73.81.9-1.91.92.0
Locomotion velocity, session 20.60.71.10.6-1.00.90.9
Locomotion distance, session 27.19.912.32.7-3.53.33.0
Locomotion velocity, session 30.10.10.20.50.1-0.2-0.1
Locomotion distance, session 30.60.62.10.6-0.10.21.4
Stereotopy head waving bouts, day 32.32.74.0-2.01.5-1.5-1.6
Stereotopy head waving duration, day 32.32.73.9-1.91.3-1.3-2.0
Locomotion velocity, session 70.10.20.30.4-0.30.3-0.5
Locomotion distance, session 72.43.04.21.8-1.92.11.0
Stereotopy head waving bouts, day 75.15.76.3-2.52.5-2.5-2.1
Stereotopy head waving duration, day 76.17.38.5-2.92.6-2.7-2.6
Locomotion velocity, session 80.70.92.5-0.80.4-0.5-1.6
Locomotion distance, session 82.23.24.51.7-2.02.11.2
Degree of sensitization distance2.72.74.31.6-2.02.1-0.2
Degree of sensitization stereotypy2.12.33.0-1.51.7-1.7-1.0
Conditioned locomotion0.20.20.40.6-0.50.60.0
Cocaine response after cond. corrected0.20.30.6-0.80.5-0.5-0.3
Cocaine response after cond. not corrected0.10.10.3-0.30.1-0.2-0.5
Cocaine response before conditioning0.40.50.60.8-0.70.6-0.6
Saline control response0.70.92.11.4-0.90.8-0.1
Bone: connectivity density1.11.73.11.1-1.81.60.1
Bone: cortical apparent density2.23.06.20.8-1.71.62.5
Bone: cortical area3.24.98.4-2.92.4-2.4-0.3
Bone: cortical porosity1.92.03.4-1.81.1-1.3-1.3
Bone: cortical porosity3.03.24.5-2.11.6-1.7-1.8
Bone: cortical thickness2.13.512.1-1.00.6-0.73.5
Bone: cortical thickness1.21.55.3-0.20.5-0.52.3
Bone: cortical tissue density2.23.05.80.8-1.71.62.4
Condit. Reinf. active minus inactive responses0.10.20.20.5-0.40.4-0.3
Condit. Reinf. active-inactive response ratio0.40.40.80.1-0.80.6-0.9
Condit. Reinf. active responses0.70.91.61.3-0.90.90.4
Condit. Reinf. inactive responses1.01.22.31.5-0.80.81.1
Incentive salience index mean0.10.10.10.3-0.20.1-0.4
Condit. Reinf. lever presses0.10.20.50.7-0.40.40.2
Condit. Reinf. active minus inactive responses0.20.30.9-0.10.1-0.3-0.9
Condit. Reinf. active-inactive response ratio0.10.10.30.00.1-0.2-0.5
Condit. Reinf. active responses0.20.20.40.4-0.70.5-0.4
Condit. Reinf. inactive responses0.70.91.40.9-1.21.20.2
Condit. Reinf. lever presses1.01.42.21.1-1.51.4-0.0
Condit. Reinf. lever reinforcers received0.20.30.50.3-0.70.7-0.1
Conditioned reinforcement - actives0.30.61.60.4-0.40.61.3
Conditioned reinforcement - inactives0.10.20.6-0.10.00.00.8
Conditioned locomotion0.81.11.80.7-0.91.01.4
Patch foraging indifference point 0 sec0.61.11.91.4-1.21.00.4
Patch foraging indifference point AUC1.31.83.92.0-1.41.20.0
Delay disc. indifference point, 0s delay0.30.30.4-0.50.6-0.5-0.7
Delay disc. indifference point, 16s delay0.10.20.30.4-0.20.6-0.2
Delay disc. indifference point, 2s delay0.60.71.4-0.20.8-1.2-0.8
Delay disc. indifference point, 24s delay0.10.10.10.1-0.40.3-0.2
Delay disc. indifference point, 4s delay1.11.21.7-0.61.1-1.2-1.3
Delay disc. indifference point, 8s delay3.74.35.6-1.62.1-2.2-2.4
Indifference point function ln k0.50.92.5-1.00.2-0.11.6
Indifference point function log k0.50.92.5-1.00.2-0.11.6
Patch foraging total patch changes 0 sec0.81.52.41.5-1.41.20.6
Patch foraging total patch changes 12 sec3.44.47.92.8-2.02.11.1
Patch foraging total patch changes 18 sec1.72.65.32.3-1.51.6-0.5
Patch foraging total patch changes 24 sec0.50.82.80.40.2-0.5-1.7
Patch foraging total patch changes 6 sec1.82.73.51.9-1.71.81.1
Patch foraging time to switch 0 sec0.20.40.5-0.60.7-0.4-0.6
Patch foraging water rate 0 sec0.51.02.21.5-0.90.80.4
Patch foraging water rate 12 sec0.51.13.2-0.0-0.41.01.8
Patch foraging water rate 18 sec0.10.20.50.1-0.50.70.3
Patch foraging water rate 24 sec1.01.32.11.3-1.21.40.5
Patch foraging water rate 6 sec0.40.62.30.2-0.30.21.5
Seeking ratio, delayed vs. immediate footshock0.10.10.20.4-0.40.10.2
Distance traveled before self-admin0.20.30.6-0.20.6-0.8-0.2
Distance traveled after self-admin0.81.02.00.8-1.21.4-0.1
Extensor digitorum longus weight1.24.97.92.2-1.71.92.8
Bone: elastic displacement2.42.76.11.1-1.41.32.5
Bone: elastic work0.70.91.6-1.20.5-0.51.3
Bone: endosteal estimation3.16.917.7-1.91.8-1.7-4.2
Bone: endosteal perimeter7.816.631.4-3.73.3-3.3-5.6
Epididymis fat weight0.10.30.4-0.60.6-0.10.6
Delta time in closed arm before/after self-admin0.50.41.50.4-0.10.2-1.2
Delta time in open arm before/after self-admin1.21.21.71.0-0.81.31.2
Diff in mean of infusions in LGA sessions2.22.76.3-1.31.3-1.0-2.5
Delay discount exponential model param1.51.72.60.8-1.31.41.6
Extinction: sum of active levers before priming0.00.00.1-0.3-0.10.00.3
Active lever presses in extinction session 60.00.00.1-0.0-0.2-0.00.2
Bone: final force1.21.94.3-2.11.3-1.3-0.1
Bone: final moment1.32.25.2-2.31.3-1.3-0.2
Food consumed during 24 hour testing period0.30.41.30.4-0.40.1-1.2
Glucose0.71.11.8-1.41.3-0.60.6
Heart weight1.01.52.2-1.01.5-0.91.4
Delay discount hyperbolic model param1.51.72.30.7-1.31.51.5
Intermittent access intake day 1-15 change0.10.20.4-0.10.5-0.6-0.2
Intermittent access intake escalation0.00.10.2-0.10.2-0.40.1
Intermittent access intake escalation 20.10.10.2-0.10.4-0.4-0.0
Intermitt. access day 1 inactive lever presses0.20.71.1-1.00.8-0.9-0.6
Intermitt. access day 15 inactive lever presses0.10.20.40.6-0.40.20.2
Intermitt. access escalation Index0.40.62.1-0.20.3-0.3-1.4
Intermittent access day 1 total infusions0.20.30.6-0.70.4-0.10.7
Intermittent access day 15 total infusions0.10.10.40.1-0.20.20.6
Intermittent access terminal intake (last 3 days)0.20.20.4-0.70.6-0.4-0.0
Intermittent access total infusions0.20.20.6-0.80.3-0.30.3
Intermittent access day 1 locomotion0.50.60.80.4-0.80.90.9
Intermittent access day 15 total locomotion0.10.20.8-0.20.1-0.20.9
Intermittent access total locomotion0.20.20.7-0.2-0.20.20.8
Intermittent access standard deviation3.67.59.7-3.03.1-3.0-1.6
Left kidney weight1.15.07.4-2.72.7-2.0-1.1
Right kidney weight0.31.52.4-1.61.5-1.20.6
Cocaine induced anxiety0.00.10.1-0.10.4-0.30.1
Post-drug Anxiety0.30.31.10.30.1-0.01.0
Baseline Anxiety0.00.10.10.2-0.30.30.1
Tail length0.10.41.00.8-0.10.1-1.0
Length with tail0.93.95.3-1.82.3-1.9-1.8
Length without tail2.27.19.7-3.13.1-2.8-1.1
Times rat made contact with spout0.10.20.40.6-0.40.40.0
Lifetime Intake0.30.30.9-1.00.4-0.20.3
Liver weight, left1.32.13.4-1.91.5-1.3-1.0
Liver weight, right1.11.92.0-1.31.4-1.4-1.3
Locomotor activity0.10.10.40.0-0.6-0.20.2
Locomotor testing distance0.10.10.2-0.3-0.40.3-0.4
Locomotor testing rearing0.51.12.51.2-1.60.80.3
Locomotion in novel chamber0.81.01.60.9-0.90.9-1.3
Locomotion in novel chamber post-restriction0.81.24.0-0.70.4-0.4-2.0
Fecal boli incidents, locomotor time 10.00.10.2-0.1-0.10.40.2
Change in fecal boli incidents, locomotor task0.00.00.20.1-0.1-0.00.4
Time >=10cm from walls, locomotor time 10.30.31.2-0.1-0.20.0-1.1
Bouts of movement, locomotor time 10.20.31.10.00.10.01.0
Total resting periods, locomotor time 10.30.41.40.10.00.21.2
Rest time, locomotor task time 10.60.71.1-1.10.9-0.60.7
Distance moved, locomotor task time 10.30.40.80.9-0.70.4-0.5
Vertical activity count, locomotor time 10.61.43.81.9-1.10.90.3
Time >=10cm from walls, locomotor time 20.40.60.90.5-0.90.81.0
Bouts of movement, locomotor time 20.20.40.6-0.80.7-0.4-0.4
Total resting periods, locomotor time 20.30.40.7-0.80.8-0.3-0.6
Rest time, locomotor task time 21.31.62.1-1.41.5-1.1-1.1
Distance moved, locomotor task time 20.81.01.81.0-1.00.41.4
Vertical activity count, locomotor time 20.40.61.30.9-0.40.21.1
Light reinforcement 11.74.16.92.6-1.81.91.7
Light reinforcement 20.30.51.41.2-0.20.60.3
Bone: marrow area3.16.817.5-1.91.8-1.7-4.2
Bone: maximum diameter9.618.021.5-4.64.1-4.1-4.2
Bone: maximum force1.62.86.5-2.51.5-1.5-0.5
Bone: maximum moment1.73.07.4-2.71.5-1.5-0.5
Mean time between licks in bursts0.00.10.1-0.3-0.30.20.3
Mean num. licks in bursts0.30.40.70.6-0.80.80.2
Cd content in liver1.11.21.80.7-1.01.21.3
Co content in liver0.00.00.1-0.3-0.10.20.1
Cu content in liver0.10.10.2-0.30.3-0.4-0.4
Fe content in liver0.60.72.70.1-0.1-0.2-1.6
K content in liver0.50.50.90.7-1.00.6-0.2
Mg content in liver2.52.54.31.5-2.11.70.7
Mn content in liver0.10.10.2-0.3-0.1-0.2-0.4
Na content in liver0.20.20.6-0.1-0.50.1-0.8
Rb content in liver1.61.92.41.4-1.61.41.1
Se content in liver0.91.01.81.3-1.30.8-0.2
Sr content in liver0.20.20.6-0.3-0.10.30.8
Zn content in liver0.10.10.2-0.20.5-0.5-0.2
Bone: minimum diameter3.87.010.1-2.82.2-2.3-3.2
Time in familiar zone, hab. session 10.10.10.20.5-0.00.10.4
Time in novel zone, hab. session 10.30.30.5-0.70.1-0.4-0.6
Total zone transitions, hab. session 12.12.94.01.5-2.01.91.3
Total locomotion distance, hab. session 12.02.93.21.8-1.71.71.5
Locomotion velocity, hab. session 12.73.94.12.0-2.02.01.8
Time in familiar zone, hab. session 20.00.10.10.2-0.10.20.3
Time in novel zone, hab. session 20.40.40.7-0.80.4-0.5-0.7
Total zone transitions, hab. session 25.87.49.52.4-3.03.12.2
Total locomotion distance, hab. session 26.58.59.42.8-3.03.12.7
Locomotion velocity, hab. session 26.79.09.93.0-3.13.12.8
Novel to familiar place preference ratio1.61.72.71.1-1.61.50.8
Novelty place preference1.11.22.00.9-1.41.30.6
Time in novel zone, NPP test1.51.62.51.0-1.61.50.8
Total zone transitions, NPP test4.36.27.82.5-2.82.71.9
Total locomotion distance, NPP test8.111.011.23.3-3.33.33.3
Locomotion velocity, NPP test6.89.59.83.1-3.13.03.1
Intraocular pressure0.20.20.40.6-0.10.5-0.6
Delta distance traveled before/after self-admin1.61.73.50.9-1.41.90.7
Delta ambulatory time before/after self-admin1.62.04.21.0-1.72.00.4
Parametrial fat weight0.00.00.10.00.30.1-0.1
Pavlov. Cond. lever latency0.20.20.50.3-0.40.4-0.7
Pavlov. Cond. magazine entry latency2.12.63.1-1.61.5-1.6-1.7
Pavlov. Cond. change in total contacts0.60.61.90.0-0.50.51.4
Pavlov. Cond. index score0.81.11.3-1.11.1-1.1-0.7
Pavlov. Cond. latency score1.11.41.9-1.21.3-1.4-0.7
Pavlov. Cond. lever contacts0.10.20.5-0.10.2-0.20.7
Pavlov. Cond. magazine entry number2.22.83.41.8-1.61.71.5
Pavlov. Cond. intertrial magazine entries1.72.02.71.6-1.41.51.1
Pavlov. Cond. lever-magazine prob. diff.0.50.60.8-0.90.8-0.9-0.5
Pavlov. Cond. response bias1.01.31.8-1.41.1-1.2-0.7
Pavlov. Cond. lever latency0.70.91.4-1.01.2-1.10.6
Pavlov. Cond. magazine entry latency0.10.10.20.2-0.10.30.4
Pavlov. Cond. change in total contacts0.40.70.90.9-0.90.90.5
Pavlov. Cond. index score0.30.40.50.7-0.60.70.1
Pavlov. Cond. latency score0.10.20.20.5-0.40.5-0.2
Pavlov. Cond. lever contacts1.01.41.81.3-1.41.3-0.3
Pavlov. Cond. magazine entry number0.10.20.3-0.50.3-0.5-0.4
Pavlov. Cond. intertrial magazine entries0.71.12.90.7-0.70.6-1.7
Pavlov. Cond. lever-magazine prob. diff.0.20.30.40.7-0.60.7-0.0
Pavlov. Cond. response bias0.81.11.51.2-1.11.20.4
Time in closed arm before self-admin0.40.51.8-0.20.4-0.31.3
Time in closed arm after self-admin0.91.01.3-1.21.1-1.0-0.6
Time in open arm before self-admin0.10.10.4-0.3-0.3-0.0-0.6
Time in open arm after self-admin0.80.92.00.7-1.01.40.2
Bone: periosteal estimation4.18.710.0-3.22.8-2.7-3.1
Bone: periosteal perimeter7.713.316.2-4.03.7-3.7-3.1
Bone: post-yield work0.10.20.4-0.2-0.50.60.3
Progressive ratio test 1 active lever presses0.10.20.40.1-0.40.60.3
Progressive ratio test 1 breakpoint0.10.20.40.1-0.40.60.3
Progressive ratio test 1 inactive lever presses0.00.00.0-0.20.1-0.1-0.1
Progressive ratio test 2 active lever presses0.50.61.30.2-0.70.71.1
Progressive ratio test 2 breakpoint0.40.51.20.2-0.60.61.1
Progressive ratio test 2 inactive lever presses0.10.10.5-0.20.1-0.00.7
Incentive Sensitization - Responses0.30.40.5-0.70.5-0.50.6
Incentive Sensitization - Breakpoint0.30.40.6-0.80.6-0.60.6
Sum of active levers in priming session hrs 5-60.30.30.8-0.90.3-0.5-0.2
Progressive ratio0.10.20.4-0.60.5-0.30.2
Food seeking constrained by brief footshock1.21.52.3-1.41.4-1.5-0.2
Seeking ratio, punishment vs. effort0.10.10.3-0.20.3-0.6-0.4
Retroperitoneal fat weight0.10.30.80.10.5-0.3-0.9
Reaction time number correct1.93.75.42.2-2.12.30.6
Reaction time mean minus median0.10.30.4-0.50.6-0.60.3
Reaction time mean minus median AUC0.20.40.7-0.60.7-0.9-0.5
Reaction time num false alarms0.10.10.30.40.2-0.5-0.2
Reaction time num false alarms AUC0.10.10.20.5-0.1-0.2-0.2
Reaction time trials correct on left1.93.75.42.2-2.12.30.6
Reaction time trials on left2.03.75.42.2-2.02.30.5
Reaction time mean0.00.00.1-0.3-0.1-0.10.3
Reaction time mean AUC0.10.10.3-0.1-0.20.10.6
Median of all reaction times0.00.00.1-0.3-0.1-0.10.2
Reaction time omissions0.81.22.0-0.71.4-1.1-1.0
Reaction time false alarm rate0.50.81.6-0.70.9-1.3-0.5
Reaction time premature initiation rate3.24.56.11.5-2.22.12.5
Reaction time premature initiations4.37.69.72.5-3.03.12.4
Std. dev. reaction times0.00.10.3-0.1-0.0-0.00.6
Reaction time trials completed2.03.75.42.2-2.02.30.5
Reaction time trials AUC2.34.56.42.4-2.32.50.8
Run reversals in cocaine runway, females0.70.71.3-0.11.1-1.2-0.4
Run reversals in cocaine runway, males0.30.30.5-0.60.6-0.00.7
Latency to leave start box in cocaine runway0.30.30.60.3-0.40.70.7
Latency to leave start box in cocaine runway, F0.50.60.90.7-0.70.90.7
Latency to leave start box in cocaine runway, M0.10.10.3-0.1-0.20.30.6
Std. dev. time between licks in bursts1.72.33.31.7-1.81.70.2
Total sessions with >9 infusions1.31.53.5-1.91.3-0.9-0.2
Short access day 1 total inactive lever presses1.21.63.1-1.81.2-1.1-0.9
Short access day 10 total inactive lever presses0.30.81.7-0.50.6-1.0-1.3
Short access day 1 total infusions0.91.22.9-1.71.0-0.9-0.3
Short access day 10 total infusions1.82.33.9-2.01.4-1.2-1.4
Short access total infusions0.60.72.0-1.40.8-0.5-0.1
Short access day 1 locomotion0.50.61.4-1.20.7-0.6-0.0
Short access day 10 total locomotion0.51.01.5-1.21.1-1.0-0.5
Short access total locomotion1.51.83.6-1.91.4-1.3-0.2
One hour access (0.3 mA shock)0.30.40.90.3-0.50.50.9
Compulsive drug intake0.40.50.60.7-0.60.80.8
One hour access (shock baseline)0.00.00.0-0.20.2-0.20.0
Social response proportion0.30.31.00.6-0.2-0.21.0
Social responses0.30.40.90.6-0.5-0.10.9
Social time0.50.61.80.6-0.40.51.3
Soleus weight1.02.86.71.5-1.01.32.6
Bone: stiffness1.42.24.4-2.11.5-1.5-0.2
Tibialis anterior weight0.30.92.70.5-0.40.71.6
Time to tail flick, vehicle, before self-admin0.70.71.70.6-0.70.71.3
Time to tail flick, vehicle, after self-admin1.21.52.6-1.31.6-1.40.3
Time to tail flick, test, before self-admin0.90.91.41.2-1.21.00.0
Time to tail flick, test, after self-admin1.81.82.4-1.51.5-1.4-0.9
Delta time to tail flick, vehicle, before/after SA1.11.01.4-0.81.2-1.2-0.9
Delta time to tail flick, test, before/after SA2.62.73.6-1.81.9-1.9-0.5
Tibia length11.531.841.3-5.56.4-6.2-4.1
Ambulatory time before self-admin0.60.91.9-0.51.2-1.4-0.2
Ambulatory time after self-admin0.50.61.30.5-0.81.1-0.0
Bone: tissue strength0.60.60.9-0.3-1.00.90.8
Total heroin consumption3.23.85.0-2.21.8-1.6-2.1
Bone: trabecular number0.20.30.70.2-0.80.5-0.1
Bone: trabecular spacing0.20.20.60.00.8-0.4-0.3
Bone: trabecular thickness0.20.30.7-0.0-0.90.60.2
Bone: trabecular tissue density0.10.20.30.60.5-0.4-0.2
Water consumed over 24 hours0.40.51.01.0-0.70.70.3
Number of responses in last shaping day1.61.82.7-1.61.4-1.5-0.3