Hub : Genes

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 0.04 0.04 9.9e-03 0.02 0.01 0.01 0.01 5.1e-03 4.1e-02 5.4e-02 2.4e-02
2 Liver gene expression Syngr2 0.06 0.04 6.0e-07 0.05 0.04 0.04 0.04 4.1e-06 1.2e-05 2.1e-05 1.5e-05
3 Adipose gene expression Syngr2 0.03 0.02 1.5e-03 0.02 0.01 0.01 0.01 2.5e-03 9.2e-03 4.0e-02 1.0e-02

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 density0.91.52.4-0.61.5-1.3
Area under the delay curve1.21.31.70.7-1.31.3
BMI with tail0.10.30.40.6-0.6-0.4
BMI without tail0.91.83.8-1.10.8-1.9
Body weight0.73.04.41.7-2.11.3
Weight adjusted by age0.00.00.10.40.00.0
Bone surface0.50.81.71.3-0.50.7
Bone volume0.10.10.30.50.30.1
Breakpoint value in progressive ratio session0.30.40.70.8-0.6-0.1
Number of licking bursts0.00.00.10.0-0.20.2
Context. condit. distance diff. score0.30.30.50.7-0.7-0.2
Locomotion velocity, session 10.70.82.20.3-0.41.5
Locomotion distance, session 12.32.94.2-2.01.8-1.1
Locomotion velocity, session 20.70.81.6-0.71.3-0.6
Locomotion distance, session 25.67.810.5-2.73.2-2.4
Locomotion velocity, session 30.20.30.5-0.50.00.7
Locomotion distance, session 30.40.40.7-0.80.1-0.8
Stereotopy head waving bouts, day 32.22.63.71.9-1.51.3
Stereotopy head waving duration, day 32.42.94.32.1-1.41.6
Locomotion velocity, session 70.10.10.2-0.50.2-0.4
Locomotion distance, session 73.13.95.7-1.71.7-2.4
Stereotopy head waving bouts, day 74.24.75.72.3-2.41.8
Stereotopy head waving duration, day 76.27.58.02.8-2.72.7
Locomotion velocity, session 80.30.30.50.7-0.50.5
Locomotion distance, session 82.63.84.9-1.71.9-2.2
Degree of sensitization distance2.92.94.0-1.42.0-1.6
Degree of sensitization stereotypy1.92.12.91.4-1.71.1
Conditioned locomotion0.10.10.1-0.40.3-0.3
Cocaine response after cond. corrected0.30.30.60.8-0.60.2
Cocaine response after cond. not corrected0.10.10.10.3-0.20.3
Cocaine response before conditioning0.30.40.5-0.70.7-0.0
Saline control response0.50.61.3-1.10.70.2
Bone: connectivity density1.42.23.3-1.01.8-1.5
Bone: cortical apparent density1.31.82.5-0.71.5-1.6
Bone: cortical area3.24.86.92.6-2.11.8
Bone: cortical porosity2.32.53.21.7-1.21.8
Bone: cortical porosity3.33.64.22.0-1.62.1
Bone: cortical thickness0.20.30.80.9-0.40.2
Bone: cortical thickness0.10.10.20.4-0.30.3
Bone: cortical tissue density1.41.82.6-0.71.5-1.6
Condit. Reinf. active minus inactive responses0.20.20.3-0.50.5-0.3
Condit. Reinf. active-inactive response ratio0.20.20.5-0.00.7-0.5
Condit. Reinf. active responses0.81.01.7-1.31.1-0.4
Condit. Reinf. inactive responses1.01.22.7-1.70.9-0.3
Incentive salience index mean0.10.10.1-0.30.30.1
Condit. Reinf. lever presses0.10.20.3-0.50.30.4
Condit. Reinf. active minus inactive responses0.30.41.00.3-0.41.0
Condit. Reinf. active-inactive response ratio0.10.10.30.0-0.20.5
Condit. Reinf. active responses0.00.10.1-0.20.40.1
Condit. Reinf. inactive responses0.50.70.9-0.80.9-0.7
Condit. Reinf. lever presses1.01.42.1-1.11.4-0.9
Condit. Reinf. lever reinforcers received0.10.10.2-0.20.4-0.3
Conditioned reinforcement - actives0.70.71.0-0.90.7-1.0
Conditioned reinforcement - inactives0.20.20.20.5-0.50.2
Conditioned locomotion0.81.01.6-0.80.9-1.3
Patch foraging indifference point 0 sec0.91.42.0-1.41.1-0.9
Patch foraging indifference point AUC2.73.14.3-2.11.8-1.4
Delay disc. indifference point, 0s delay0.50.50.60.8-0.70.7
Delay disc. indifference point, 16s delay0.20.20.3-0.60.3-0.6
Delay disc. indifference point, 2s delay0.70.81.60.2-0.91.3
Delay disc. indifference point, 24s delay0.10.10.2-0.20.4-0.3
Delay disc. indifference point, 4s delay1.21.21.90.7-1.21.4
Delay disc. indifference point, 8s delay3.83.94.81.6-2.12.2
Indifference point function ln k0.40.51.21.1-0.60.3
Indifference point function log k0.40.51.21.1-0.60.3
Patch foraging total patch changes 0 sec1.21.92.6-1.61.4-1.1
Patch foraging total patch changes 12 sec4.86.28.6-2.92.3-2.2
Patch foraging total patch changes 18 sec2.53.25.0-2.21.5-1.5
Patch foraging total patch changes 24 sec0.10.10.2-0.4-0.10.3
Patch foraging total patch changes 6 sec2.43.53.8-1.91.8-1.9
Patch foraging time to switch 0 sec0.30.50.90.7-1.00.3
Patch foraging water rate 0 sec0.81.32.1-1.51.1-0.7
Patch foraging water rate 12 sec0.30.51.50.10.3-1.2
Patch foraging water rate 18 sec0.20.30.7-0.10.4-0.9
Patch foraging water rate 24 sec1.62.23.5-1.41.1-1.9
Patch foraging water rate 6 sec0.00.10.1-0.20.3-0.3
Seeking ratio, delayed vs. immediate footshock0.20.30.5-0.60.7-0.1
Distance traveled before self-admin0.91.01.50.7-1.01.2
Distance traveled after self-admin1.11.21.6-0.81.3-1.1
Extensor digitorum longus weight1.14.55.4-2.31.9-2.1
Bone: elastic displacement1.11.31.6-0.91.3-1.2
Bone: elastic work0.40.51.11.0-0.50.2
Bone: endosteal estimation1.12.52.91.7-1.61.5
Bone: endosteal perimeter4.79.811.73.4-3.03.0
Epididymis fat weight0.20.40.80.7-0.90.0
Delta time in closed arm before/after self-admin0.30.20.40.4-0.60.4
Delta time in open arm before/after self-admin1.21.21.7-1.31.0-0.9
Diff in mean of infusions in LGA sessions1.21.31.71.3-1.11.0
Delay discount exponential model param1.61.72.3-0.81.4-1.5
Extinction: sum of active levers before priming0.00.00.10.30.00.1
Active lever presses in extinction session 60.10.10.1-0.00.4-0.3
Bone: final force1.21.93.31.8-1.11.1
Bone: final moment1.32.23.92.0-1.11.1
Food consumed during 24 hour testing period0.10.10.2-0.30.4-0.2
Glucose0.20.30.40.6-0.4-0.6
Heart weight0.40.50.80.8-0.90.3
Delay discount hyperbolic model param1.61.72.4-0.81.4-1.6
Intermittent access intake day 1-15 change0.10.10.1-0.2-0.30.3
Intermittent access intake escalation0.10.10.2-0.4-0.10.1
Intermittent access intake escalation 20.30.30.7-0.80.3-0.3
Intermitt. access day 1 inactive lever presses2.12.32.71.7-1.41.5
Intermitt. access day 15 inactive lever presses0.30.40.6-0.80.6-0.4
Intermitt. access escalation Index0.60.50.60.8-0.60.7
Intermittent access day 1 total infusions0.30.30.60.8-0.60.3
Intermittent access day 15 total infusions0.00.00.00.1-0.20.1
Intermittent access terminal intake (last 3 days)0.20.30.40.5-0.60.4
Intermittent access total infusions0.20.20.40.6-0.40.3
Intermittent access day 1 locomotion0.30.40.7-0.30.5-0.8
Intermittent access day 15 total locomotion0.10.10.10.4-0.40.3
Intermittent access total locomotion0.10.10.2-0.20.4-0.5
Intermittent access standard deviation5.45.76.82.2-2.62.4
Left kidney weight3.39.211.33.1-3.42.6
Right kidney weight1.33.53.81.9-1.91.8
Cocaine induced anxiety0.10.10.20.4-0.40.4
Post-drug Anxiety0.10.10.2-0.50.2-0.4
Baseline Anxiety0.00.00.0-0.10.1-0.0
Tail length0.20.71.2-1.10.5-0.8
Length with tail1.13.84.61.7-2.12.0
Length without tail4.29.39.53.1-3.03.0
Times rat made contact with spout0.40.40.4-0.60.7-0.6
Lifetime Intake0.30.40.70.8-0.60.3
Liver weight, left3.25.16.72.6-2.31.7
Liver weight, right1.21.92.41.2-1.51.3
Locomotor activity0.10.10.2-0.00.40.5
Locomotor testing distance0.10.10.30.50.20.3
Locomotor testing rearing1.01.62.3-1.31.5-0.8
Locomotion in novel chamber0.50.70.8-0.90.8-0.8
Locomotion in novel chamber post-restriction0.10.10.30.6-0.2-0.0
Fecal boli incidents, locomotor time 10.10.10.2-0.10.3-0.4
Change in fecal boli incidents, locomotor task0.10.10.1-0.30.30.0
Time >=10cm from walls, locomotor time 10.00.00.00.10.10.0
Bouts of movement, locomotor time 10.00.00.1-0.0-0.20.3
Total resting periods, locomotor time 10.00.00.0-0.1-0.10.1
Rest time, locomotor task time 10.50.50.70.8-0.70.5
Distance moved, locomotor task time 10.50.50.7-0.80.7-0.5
Vertical activity count, locomotor time 11.61.73.2-1.81.0-0.9
Time >=10cm from walls, locomotor time 20.60.60.9-0.50.9-0.9
Bouts of movement, locomotor time 20.40.40.60.8-0.70.4
Total resting periods, locomotor time 20.40.50.80.9-0.70.4
Rest time, locomotor task time 21.51.71.91.3-1.41.2
Distance moved, locomotor task time 20.50.60.8-0.80.9-0.5
Vertical activity count, locomotor time 20.30.30.7-0.80.3-0.2
Light reinforcement 12.24.05.7-2.41.8-1.8
Light reinforcement 20.30.51.1-1.00.2-0.5
Bone: marrow area1.22.63.01.7-1.61.5
Bone: maximum diameter8.114.918.04.2-3.73.6
Bone: maximum force1.42.54.72.2-1.41.0
Bone: maximum moment1.62.75.32.3-1.41.0
Mean time between licks in bursts0.00.00.00.20.1-0.1
Mean num. licks in bursts0.60.70.9-0.60.9-0.9
Cd content in liver0.60.61.1-0.50.7-1.0
Co content in liver0.60.71.5-0.30.7-1.2
Cu content in liver0.00.00.10.1-0.10.3
Fe content in liver0.10.10.10.2-0.20.4
K content in liver0.10.10.2-0.20.5-0.1
Mg content in liver2.32.43.2-1.11.8-1.6
Mn content in liver0.40.50.60.7-0.80.7
Na content in liver0.20.20.30.5-0.10.6
Rb content in liver3.03.84.1-1.92.0-2.0
Se content in liver0.60.81.2-1.11.0-0.3
Sr content in liver0.00.00.10.3-0.2-0.1
Zn content in liver1.71.82.31.5-1.01.5
Bone: minimum diameter2.75.16.42.5-1.82.3
Time in familiar zone, hab. session 10.10.10.2-0.40.1-0.1
Time in novel zone, hab. session 10.20.20.40.6-0.30.1
Total zone transitions, hab. session 12.33.24.8-1.62.2-1.5
Total locomotion distance, hab. session 11.82.63.3-1.71.8-1.2
Locomotion velocity, hab. session 12.33.24.1-2.02.0-1.3
Time in familiar zone, hab. session 20.30.30.9-0.3-0.0-0.9
Time in novel zone, hab. session 20.50.50.80.9-0.30.8
Total zone transitions, hab. session 26.28.110.3-2.63.2-2.7
Total locomotion distance, hab. session 26.18.18.5-2.82.9-2.8
Locomotion velocity, hab. session 26.28.49.2-2.93.0-2.7
Novel to familiar place preference ratio2.32.43.1-1.01.8-1.7
Novelty place preference1.71.72.3-0.81.5-1.5
Time in novel zone, NPP test2.02.12.7-1.01.6-1.6
Total zone transitions, NPP test4.97.08.3-2.72.9-2.3
Total locomotion distance, NPP test7.710.512.4-3.53.3-2.9
Locomotion velocity, NPP test6.59.210.9-3.33.1-2.7
Intraocular pressure0.30.51.0-0.60.2-1.0
Delta distance traveled before/after self-admin2.62.83.5-1.31.9-1.7
Delta ambulatory time before/after self-admin3.13.44.3-1.42.1-2.0
Parametrial fat weight0.00.10.1-0.1-0.40.1
Pavlov. Cond. lever latency0.91.13.0-0.40.4-1.7
Pavlov. Cond. magazine entry latency2.53.25.61.5-1.42.4
Pavlov. Cond. change in total contacts0.10.10.3-0.00.60.1
Pavlov. Cond. index score1.82.34.51.1-1.12.1
Pavlov. Cond. latency score2.43.15.81.2-1.32.4
Pavlov. Cond. lever contacts0.40.41.30.1-0.11.1
Pavlov. Cond. magazine entry number3.54.45.8-2.01.8-2.4
Pavlov. Cond. intertrial magazine entries2.22.72.8-1.61.7-1.6
Pavlov. Cond. lever-magazine prob. diff.1.41.73.60.9-0.81.9
Pavlov. Cond. response bias1.82.24.11.3-1.02.0
Pavlov. Cond. lever latency0.81.11.51.0-1.20.9
Pavlov. Cond. magazine entry latency0.20.20.5-0.10.1-0.7
Pavlov. Cond. change in total contacts0.60.81.1-0.80.8-1.1
Pavlov. Cond. index score0.40.50.5-0.70.7-0.7
Pavlov. Cond. latency score0.20.20.2-0.40.4-0.5
Pavlov. Cond. lever contacts1.01.42.1-1.31.4-0.7
Pavlov. Cond. magazine entry number0.40.50.80.7-0.50.9
Pavlov. Cond. intertrial magazine entries0.40.50.7-0.90.80.3
Pavlov. Cond. lever-magazine prob. diff.0.40.60.6-0.70.7-0.8
Pavlov. Cond. response bias0.60.91.0-1.01.0-0.7
Time in closed arm before self-admin0.00.00.1-0.2-0.10.2
Time in closed arm after self-admin3.33.43.81.7-2.01.9
Time in open arm before self-admin0.40.40.80.9-0.20.6
Time in open arm after self-admin0.80.81.0-0.81.0-0.9
Bone: periosteal estimation3.16.38.22.9-2.42.2
Bone: periosteal perimeter6.611.012.93.6-3.33.1
Bone: post-yield work0.40.61.1-0.10.7-1.1
Progressive ratio test 1 active lever presses0.10.10.3-0.10.3-0.5
Progressive ratio test 1 breakpoint0.10.10.20.10.1-0.5
Progressive ratio test 1 inactive lever presses0.20.20.20.4-0.40.4
Progressive ratio test 2 active lever presses0.10.10.2-0.00.2-0.4
Progressive ratio test 2 breakpoint0.10.10.3-0.10.3-0.5
Progressive ratio test 2 inactive lever presses0.00.00.00.1-0.1-0.1
Incentive Sensitization - Responses0.70.70.80.9-0.90.8
Incentive Sensitization - Breakpoint1.01.01.11.0-1.00.9
Sum of active levers in priming session hrs 5-60.50.50.91.0-0.40.6
Progressive ratio0.20.20.20.5-0.50.4
Food seeking constrained by brief footshock1.21.52.41.0-1.11.6
Seeking ratio, punishment vs. effort0.10.20.40.2-0.20.6
Retroperitoneal fat weight0.61.93.81.0-1.91.0
Reaction time number correct4.05.87.1-2.52.1-2.7
Reaction time mean minus median0.50.70.90.6-0.91.0
Reaction time mean minus median AUC0.60.71.10.7-0.81.0
Reaction time num false alarms0.10.10.2-0.5-0.10.2
Reaction time num false alarms AUC0.10.10.4-0.60.2-0.1
Reaction time trials correct on left4.05.87.1-2.52.1-2.7
Reaction time trials on left4.05.77.0-2.52.0-2.6
Reaction time mean0.10.10.20.4-0.20.4
Reaction time mean AUC0.00.00.00.2-0.10.1
Median of all reaction times0.10.10.10.3-0.00.3
Reaction time omissions0.50.71.10.6-1.10.8
Reaction time false alarm rate0.60.91.60.7-0.81.2
Reaction time premature initiation rate2.63.54.4-1.52.1-2.0
Reaction time premature initiations5.98.410.1-2.52.9-3.2
Std. dev. reaction times0.10.10.20.3-0.30.4
Reaction time trials completed4.05.77.0-2.52.0-2.6
Reaction time trials AUC4.76.78.0-2.72.2-2.8
Run reversals in cocaine runway, females0.50.50.9-0.0-0.80.9
Run reversals in cocaine runway, males0.20.20.50.3-0.70.2
Latency to leave start box in cocaine runway0.30.30.6-0.10.5-0.8
Latency to leave start box in cocaine runway, F0.80.91.2-0.70.9-1.1
Latency to leave start box in cocaine runway, M0.40.30.5-0.30.6-0.7
Std. dev. time between licks in bursts1.92.32.8-1.71.4-1.5
Total sessions with >9 infusions1.11.22.11.5-1.10.5
Short access day 1 total inactive lever presses0.30.30.80.9-0.40.1
Short access day 10 total inactive lever presses0.60.70.70.8-0.80.8
Short access day 1 total infusions1.11.22.21.5-0.90.7
Short access day 10 total infusions1.71.93.01.7-1.31.0
Short access total infusions0.30.40.90.9-0.50.1
Short access day 1 locomotion0.30.30.60.8-0.50.4
Short access day 10 total locomotion0.40.40.70.8-0.70.4
Short access total locomotion1.01.01.71.3-1.00.6
One hour access (0.3 mA shock)0.10.10.2-0.10.2-0.4
Compulsive drug intake0.30.30.4-0.60.5-0.6
One hour access (shock baseline)0.00.00.00.1-0.20.1
Social response proportion0.20.20.4-0.60.4-0.1
Social responses0.20.30.5-0.70.6-0.0
Social time0.40.60.8-0.90.7-0.7
Soleus weight0.61.92.5-1.61.2-1.3
Bone: stiffness1.82.83.71.9-1.61.5
Tibialis anterior weight0.10.40.4-0.60.6-0.6
Time to tail flick, vehicle, before self-admin0.80.81.2-1.11.0-0.4
Time to tail flick, vehicle, after self-admin1.92.12.81.4-1.71.2
Time to tail flick, test, before self-admin0.50.50.9-0.90.8-0.2
Time to tail flick, test, after self-admin0.70.70.80.9-0.90.7
Delta time to tail flick, vehicle, before/after SA0.50.40.80.7-0.90.3
Delta time to tail flick, test, before/after SA1.61.42.11.4-1.30.6
Tibia length12.836.140.95.3-6.46.3
Ambulatory time before self-admin1.71.82.90.8-1.41.7
Ambulatory time after self-admin0.40.50.7-0.30.8-0.8
Bone: tissue strength0.80.81.7-0.00.8-1.3
Total heroin consumption3.13.65.22.3-1.91.4
Bone: trabecular number0.30.51.0-0.41.0-0.5
Bone: trabecular spacing0.40.61.10.2-1.00.8
Bone: trabecular thickness0.60.71.5-0.21.2-0.7
Bone: trabecular tissue density0.40.61.2-0.4-0.71.1
Water consumed over 24 hours0.60.70.9-0.90.8-0.7
Number of responses in last shaping day2.32.42.41.5-1.51.6