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 Adipose gene expression ENSRNOG00000050547 0.03 0.03 1.1e-03 0.02 0.02 0.01 0.02 1.3e-03 2.3e-03 5.0e-02 4.1e-03
2 Brain gene expression ENSRNOG00000050547 0.04 0.03 4.4e-03 0.03 0.03 0.02 0.03 1.5e-03 1.8e-03 3.9e-03 1.5e-03
3 Liver gene expression ENSRNOG00000050547 0.07 0.05 1.3e-07 0.06 0.05 0.05 0.05 3.7e-07 1.1e-06 5.8e-06 1.3e-06

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
BMI with tail0.10.40.6-0.70.50.6
BMI without tail0.71.42.70.91.7-0.8
Body weight0.93.84.6-2.1-1.62.1
Epididymis fat weight0.30.71.1-1.10.20.9
Glucose0.10.10.2-0.30.40.4
Heart weight0.40.60.9-1.0-0.40.9
Left kidney weight3.710.611.3-3.4-3.03.4
Right kidney weight1.43.94.0-2.0-2.01.9
Tail length0.10.30.50.70.4-0.5
Length with tail1.45.05.7-2.1-2.42.1
Length without tail4.59.811.0-3.3-3.03.0
Liver weight, left3.15.05.7-2.4-2.02.3
Liver weight, right1.42.32.4-1.5-1.51.5
Parametrial fat weight0.10.20.3-0.5-0.20.4
Retroperitoneal fat weight0.92.93.8-1.9-1.11.9
Intraocular pressure0.40.61.70.21.3-0.2
Extensor digitorum longus weight1.03.84.61.82.1-1.9
Soleus weight0.51.51.51.21.2-1.2
Tibialis anterior weight0.10.30.40.60.5-0.6
Tibia length14.139.740.9-6.3-6.26.4
Number of licking bursts0.10.10.2-0.2-0.40.2
Food consumed during 24 hour testing period0.10.10.20.2-0.1-0.4
Times rat made contact with spout0.30.30.40.60.4-0.7
Mean time between licks in bursts0.00.00.0-0.0-0.0-0.1
Mean num. licks in bursts0.70.91.00.91.0-0.9
Std. dev. time between licks in bursts1.82.22.41.61.4-1.4
Water consumed over 24 hours0.40.50.70.80.5-0.8
Indifference point 0 sec0.71.11.21.01.0-1.1
Indifference point AUC2.42.83.31.81.5-1.8
Indifference point function ln k0.20.30.5-0.7-0.10.6
Indifference point function log k0.20.30.5-0.7-0.10.6
Delay discounting total patch changes 0 sec1.01.61.91.21.2-1.4
Delay discounting total patch changes 12 sec3.75.05.32.22.2-2.3
Delay discounting total patch changes 18 sec1.92.52.81.71.5-1.5
Delay discounting total patch changes 24 sec0.00.00.1-0.2-0.30.1
Delay discounting total patch changes 6 sec2.13.23.31.81.8-1.8
Delay discounting time to switch 0 sec0.30.50.9-0.7-0.41.0
Delay discounting water rate 0 sec0.60.91.31.00.8-1.1
Delay discounting water rate 12 sec0.40.51.50.11.2-0.3
Delay discounting water rate 18 sec0.20.30.60.50.8-0.4
Delay discounting water rate 24 sec1.52.03.11.31.8-1.1
Delay discounting water rate 6 sec0.10.10.10.20.4-0.3
Locomotor activity0.10.20.40.1-0.6-0.4
Locomotor testing distance0.00.10.1-0.1-0.3-0.2
Locomotor testing rearing1.01.62.31.40.7-1.5
Light reinforcement 11.83.43.82.01.7-1.8
Light reinforcement 20.10.10.20.30.5-0.2
Reaction time number correct3.65.26.42.22.5-2.1
Reaction time mean minus median0.71.01.1-1.0-1.00.9
Reaction time mean minus median AUC0.91.11.5-1.1-1.20.8
Reaction time num false alarms0.00.00.0-0.1-0.00.1
Reaction time num false alarms AUC0.00.10.10.20.3-0.2
Reaction time trials correct on left3.65.26.42.22.5-2.1
Reaction time trials on left3.65.16.32.22.5-2.0
Reaction time mean0.10.10.2-0.3-0.40.2
Reaction time mean AUC0.00.00.0-0.2-0.20.1
Median of all reaction times0.00.00.1-0.1-0.30.0
Reaction time omissions0.71.01.1-1.0-0.91.1
Reaction time false alarm rate0.60.81.0-0.9-1.00.8
Reaction time premature initiation rate3.14.24.42.02.0-2.1
Reaction time premature initiations6.59.210.42.93.2-2.9
Std. dev. reaction times0.10.20.3-0.5-0.40.3
Reaction time trials completed3.65.16.32.22.5-2.0
Reaction time trials AUC4.36.17.62.42.8-2.2
Social response proportion0.10.10.20.50.3-0.4
Social responses0.20.20.30.6-0.1-0.6
Social time0.30.40.50.70.6-0.7
Conditioned locomotion0.10.10.20.40.3-0.3
Cocaine response after cond. corrected0.30.30.4-0.6-0.30.6
Cocaine response after cond. not corrected0.10.10.2-0.3-0.40.2
Cocaine response before conditioning0.30.40.60.7-0.0-0.7
Saline control response0.30.40.60.8-0.3-0.7
Condit. Reinf. active minus inactive responses0.30.40.8-0.4-0.90.4
Condit. Reinf. active-inactive response ratio0.10.10.3-0.1-0.50.2
Condit. Reinf. active responses0.00.10.10.20.1-0.4
Condit. Reinf. inactive responses0.50.70.90.70.8-0.9
Condit. Reinf. lever presses1.01.42.11.20.8-1.4
Condit. Reinf. lever reinforcers received0.10.20.20.30.4-0.4
Pavlov. Cond. lever latency0.81.11.5-1.0-0.81.2
Pavlov. Cond. magazine entry latency0.10.10.4-0.00.6-0.1
Pavlov. Cond. change in total contacts0.50.71.00.71.0-0.8
Pavlov. Cond. index score0.30.30.50.50.5-0.7
Pavlov. Cond. latency score0.10.10.20.30.3-0.4
Pavlov. Cond. lever contacts0.91.32.11.20.5-1.4
Pavlov. Cond. magazine entry number0.30.30.6-0.4-0.80.5
Pavlov. Cond. intertrial magazine entries0.30.40.70.7-0.3-0.8
Pavlov. Cond. lever-magazine prob. diff.0.30.40.50.60.6-0.7
Pavlov. Cond. response bias0.50.71.00.80.6-1.0
Conditioned reinforcement - actives0.70.70.90.81.0-0.7
Conditioned reinforcement - inactives0.10.10.2-0.3-0.30.5
Conditioned locomotion0.70.91.00.91.0-0.9
Intermittent access intake day 1-15 change0.00.00.10.2-0.20.3
Intermittent access intake escalation0.10.10.10.40.10.1
Intermittent access intake escalation 20.30.30.50.70.5-0.3
Intermitt. access day 1 inactive lever presses2.02.12.6-1.4-1.61.4
Intermitt. access day 15 inactive lever presses0.40.40.60.80.5-0.6
Intermitt. access escalation Index0.50.40.5-0.7-0.70.6
Intermittent access day 1 total infusions0.30.30.5-0.7-0.30.6
Intermittent access day 15 total infusions0.00.00.0-0.1-0.00.2
Intermittent access terminal intake (last 3 days)0.20.20.4-0.5-0.30.6
Intermittent access total infusions0.20.20.4-0.6-0.20.4
Intermittent access day 1 locomotion0.30.30.40.40.7-0.5
Intermittent access day 15 total locomotion0.10.10.1-0.4-0.30.4
Intermittent access total locomotion0.10.10.20.30.4-0.4
Intermittent access standard deviation5.05.46.8-2.2-2.12.6
Cocaine induced anxiety0.20.20.3-0.3-0.60.4
Post-drug Anxiety0.00.00.10.30.0-0.2
Baseline Anxiety0.00.00.0-0.1-0.0-0.1
Lifetime Intake0.30.30.6-0.8-0.20.6
Incentive Sensitization - Responses0.80.81.0-1.0-0.80.9
Incentive Sensitization - Breakpoint1.11.11.2-1.1-1.01.0
Progressive ratio test 1 active lever presses0.10.10.40.10.6-0.3
Progressive ratio test 1 breakpoint0.10.10.4-0.00.6-0.1
Progressive ratio test 1 inactive lever presses0.20.20.4-0.3-0.60.4
Progressive ratio test 2 active lever presses0.10.10.30.00.6-0.2
Progressive ratio test 2 breakpoint0.20.20.40.20.6-0.3
Progressive ratio test 2 inactive lever presses0.00.00.0-0.00.20.1
Total sessions with >9 infusions1.01.11.8-1.3-0.61.1
Short access day 1 total inactive lever presses0.20.30.5-0.7-0.30.4
Short access day 10 total inactive lever presses0.50.60.7-0.7-0.80.8
Short access day 1 total infusions1.21.22.3-1.5-0.70.9
Short access day 10 total infusions1.61.72.9-1.7-0.81.3
Short access total infusions0.30.40.8-0.9-0.10.5
Short access day 1 locomotion0.30.30.6-0.8-0.50.5
Short access day 10 total locomotion0.40.50.6-0.8-0.50.7
Short access total locomotion1.11.11.6-1.3-0.81.0
Compulsive drug intake0.50.51.00.51.0-0.5
One hour access (0.3 mA shock)0.20.20.60.10.8-0.2
One hour access (shock baseline)0.00.00.0-0.1-0.20.2
Number of responses in last shaping day2.62.63.3-1.5-1.81.5
Context. condit. distance diff. score0.20.30.4-0.60.00.7
Locomotion velocity, session 10.70.72.0-0.2-1.40.4
Locomotion distance, session 12.22.93.71.91.2-1.8
Locomotion velocity, session 21.01.21.61.20.6-1.3
Locomotion distance, session 26.18.810.53.22.3-3.2
Locomotion velocity, session 30.20.20.70.0-0.8-0.0
Locomotion distance, session 30.10.10.30.20.5-0.1
Stereotopy head waving bouts, day 31.92.22.6-1.6-1.41.5
Stereotopy head waving duration, day 31.82.22.4-1.6-1.51.4
Locomotion velocity, session 70.10.10.10.40.2-0.2
Locomotion distance, session 73.13.95.01.92.2-1.7
Stereotopy head waving bouts, day 74.14.65.7-2.2-1.92.4
Stereotopy head waving duration, day 75.87.17.9-2.5-2.82.7
Locomotion velocity, session 80.30.30.6-0.4-0.70.5
Locomotion distance, session 82.63.84.21.92.1-1.9
Degree of sensitization distance3.73.74.12.01.8-2.0
Degree of sensitization stereotypy2.02.12.9-1.4-1.21.7
Condit. Reinf. active minus inactive responses0.10.10.30.40.1-0.5
Condit. Reinf. active-inactive response ratio0.30.30.50.60.2-0.7
Condit. Reinf. active responses0.60.71.20.90.3-1.1
Condit. Reinf. inactive responses0.50.60.90.90.5-0.9
Incentive salience index mean0.10.10.10.2-0.2-0.3
Condit. Reinf. lever presses0.10.10.10.3-0.3-0.3
Time in familiar zone, hab. session 10.00.00.00.10.1-0.1
Time in novel zone, hab. session 10.10.10.2-0.4-0.40.3
Total zone transitions, hab. session 12.94.05.32.31.4-2.2
Total locomotion distance, hab. session 11.82.63.31.81.1-1.8
Locomotion velocity, hab. session 12.33.44.32.11.3-2.0
Time in familiar zone, hab. session 20.20.20.60.00.80.0
Time in novel zone, hab. session 20.20.20.5-0.3-0.70.3
Total zone transitions, hab. session 27.49.510.33.22.8-3.2
Total locomotion distance, hab. session 26.18.18.52.82.8-2.9
Locomotion velocity, hab. session 26.28.49.23.02.7-3.0
Novel to familiar place preference ratio2.82.93.11.61.8-1.8
Novelty place preference2.12.22.31.41.5-1.5
Time in novel zone, NPP test2.52.72.91.51.7-1.6
Total zone transitions, NPP test5.17.38.32.82.3-2.9
Total locomotion distance, NPP test7.310.110.93.23.0-3.3
Locomotion velocity, NPP test6.28.89.53.02.8-3.1
Pavlov. Cond. lever latency0.81.02.60.51.6-0.4
Pavlov. Cond. magazine entry latency2.22.94.7-1.4-2.21.4
Pavlov. Cond. change in total contacts0.20.20.30.50.1-0.6
Pavlov. Cond. index score1.72.24.1-1.1-2.01.1
Pavlov. Cond. latency score2.33.05.2-1.4-2.31.3
Pavlov. Cond. lever contacts0.30.30.9-0.2-1.00.1
Pavlov. Cond. magazine entry number3.24.05.71.82.4-1.8
Pavlov. Cond. intertrial magazine entries2.32.83.01.61.7-1.7
Pavlov. Cond. lever-magazine prob. diff.1.21.53.1-0.8-1.80.8
Pavlov. Cond. response bias1.51.83.4-1.1-1.81.0
Bone: apparent density1.42.32.61.61.4-1.5
Bone surface0.20.30.5-0.4-0.70.5
Bone volume0.00.10.10.3-0.0-0.3
Bone: connectivity density2.03.23.41.81.7-1.8
Bone: cortical apparent density1.72.22.41.41.6-1.5
Bone: cortical area2.74.14.2-2.0-2.02.1
Bone: cortical porosity1.81.92.8-1.2-1.71.2
Bone: cortical porosity2.72.93.8-1.6-1.91.6
Bone: cortical thickness0.10.20.2-0.4-0.50.4
Bone: cortical thickness0.10.10.2-0.3-0.50.3
Bone: cortical tissue density1.82.42.61.51.6-1.5
Bone: elastic displacement1.31.41.61.21.1-1.3
Bone: elastic work0.10.20.2-0.5-0.30.5
Bone: endosteal estimation1.12.32.5-1.6-1.41.6
Bone: endosteal perimeter4.59.210.0-2.9-3.23.0
Bone: final force0.81.41.5-1.2-1.21.1
Bone: final moment0.91.51.6-1.3-1.21.1
Bone: marrow area1.12.42.6-1.6-1.41.6
Bone: maximum diameter7.313.413.8-3.6-3.63.7
Bone: maximum force0.91.61.9-1.4-0.91.4
Bone: maximum moment0.91.62.0-1.4-1.01.4
Bone: minimum diameter2.34.36.1-1.9-2.51.8
Bone: periosteal estimation2.85.75.9-2.4-2.32.4
Bone: periosteal perimeter6.410.611.4-3.1-3.43.3
Bone: post-yield work0.60.81.30.81.1-0.7
Bone: stiffness1.42.32.5-1.5-1.41.6
Bone: tissue strength1.01.01.90.61.4-0.8
Bone: trabecular number0.60.91.21.10.7-1.0
Bone: trabecular spacing0.70.91.1-1.0-0.91.0
Bone: trabecular thickness0.91.11.51.10.7-1.2
Bone: trabecular tissue density0.50.71.2-0.7-1.10.7
Breakpoint value in progressive ratio session0.30.40.6-0.80.30.6
Distance traveled before self-admin1.41.52.6-0.9-1.61.0
Distance traveled after self-admin1.51.62.11.11.5-1.3
Delta time in closed arm before/after self-admin0.30.30.4-0.7-0.10.6
Delta time in open arm before/after self-admin1.31.22.11.50.7-1.0
Diff in mean of infusions in LGA sessions0.91.11.5-1.2-0.61.1
Extinction: sum of active levers before priming0.00.00.0-0.1-0.1-0.0
Active lever presses in extinction session 60.40.40.9-0.21.0-0.4
Delta distance traveled before/after self-admin4.04.36.31.82.5-1.9
Delta ambulatory time before/after self-admin4.85.27.71.92.8-2.1
Time in closed arm before self-admin0.00.00.00.1-0.10.1
Time in closed arm after self-admin2.72.83.8-1.8-1.22.0
Time in open arm before self-admin0.20.20.5-0.7-0.10.2
Time in open arm after self-admin0.91.01.21.01.1-1.0
Sum of active levers in priming session hrs 5-60.20.20.3-0.5-0.30.4
Time to tail flick, vehicle, before self-admin0.80.81.21.10.3-1.0
Time to tail flick, vehicle, after self-admin1.61.72.8-1.4-0.61.7
Time to tail flick, test, before self-admin0.30.30.60.5-0.3-0.8
Time to tail flick, test, after self-admin0.80.81.3-1.2-0.60.9
Delta time to tail flick, vehicle, before/after SA0.50.40.8-0.70.10.9
Delta time to tail flick, test, before/after SA1.41.31.9-1.4-0.41.3
Ambulatory time before self-admin2.52.64.3-1.3-2.11.4
Ambulatory time after self-admin0.70.71.20.61.1-0.8
Total heroin consumption2.73.24.1-2.0-1.41.9
Area under the delay curve1.61.72.7-0.9-1.71.3
Delay disc. indifference point, 0s delay1.21.32.9-0.8-1.70.7
Delay disc. indifference point, 16s delay0.20.20.20.50.5-0.3
Delay disc. indifference point, 2s delay1.51.63.8-0.6-1.90.9
Delay disc. indifference point, 24s delay0.10.10.20.30.3-0.4
Delay disc. indifference point, 4s delay1.71.83.5-0.8-1.91.2
Delay disc. indifference point, 8s delay4.04.14.7-1.8-2.22.1
Delay discount exponential model param2.02.23.41.01.8-1.4
Delay discount hyperbolic model param2.02.23.61.01.9-1.4
Fecal boli incidents, locomotor time 10.20.20.40.30.7-0.3
Change in fecal boli incidents, locomotor task0.00.00.10.1-0.2-0.3
Time >=10cm from walls, locomotor time 10.00.00.00.1-0.1-0.1
Bouts of movement, locomotor time 10.00.00.1-0.10.20.2
Total resting periods, locomotor time 10.00.00.10.10.40.1
Rest time, locomotor task time 10.40.40.7-0.8-0.10.7
Distance moved, locomotor task time 10.30.40.60.70.2-0.7
Vertical activity count, locomotor time 11.11.11.61.30.8-1.0
Time >=10cm from walls, locomotor time 20.60.60.90.80.7-0.9
Bouts of movement, locomotor time 20.30.30.5-0.6-0.10.7
Total resting periods, locomotor time 20.30.30.5-0.6-0.10.7
Rest time, locomotor task time 21.21.41.9-1.3-0.81.4
Distance moved, locomotor task time 20.40.40.80.70.2-0.9
Vertical activity count, locomotor time 20.10.10.10.20.2-0.3
Weight adjusted by age0.00.00.1-0.1-0.3-0.0
Seeking ratio, delayed vs. immediate footshock0.40.40.70.80.3-0.7
Locomotion in novel chamber0.60.81.11.00.8-0.8
Locomotion in novel chamber post-restriction0.10.10.1-0.20.30.2
Progressive ratio0.10.20.2-0.50.10.5
Food seeking constrained by brief footshock1.11.31.4-1.1-1.21.1
Seeking ratio, punishment vs. effort0.30.41.0-0.3-1.00.2
Run reversals in cocaine runway, females0.50.50.6-0.6-0.80.8
Run reversals in cocaine runway, males0.30.30.5-0.50.30.7
Latency to leave start box in cocaine runway0.50.51.30.31.1-0.5
Latency to leave start box in cocaine runway, F0.91.01.90.61.4-0.9
Latency to leave start box in cocaine runway, M0.70.71.40.61.2-0.6
Cd content in liver0.70.81.30.71.1-0.7
Co content in liver0.70.91.50.81.2-0.7
Cu content in liver0.00.00.1-0.2-0.30.1
Fe content in liver0.10.10.2-0.2-0.50.2
K content in liver0.10.10.20.50.0-0.5
Mg content in liver2.72.83.21.71.5-1.8
Mn content in liver0.50.60.6-0.8-0.80.8
Na content in liver0.10.20.4-0.1-0.70.1
Rb content in liver2.93.63.81.91.8-2.0
Se content in liver0.60.71.11.00.3-1.0
Sr content in liver0.00.00.0-0.00.10.2
Zn content in liver1.21.32.0-0.9-1.41.0