Gng3

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 ENSRNOG00000019570 0.15 0.08 6.1e-07 0.01 0.07 0.08 0.08 1.5e-02 2.5e-07 8.3e-08 6.0e-08
2 Liver gene expression ENSRNOG00000019570 0.03 0.02 2.1e-03 0.02 0.01 0.01 0.01 3.9e-03 1.0e-02 2.9e-02 1.7e-02
3 NAcc gene expression ENSRNOG00000019570 0.17 0.09 2.9e-06 0.01 0.05 0.04 0.04 3.7e-02 1.9e-04 5.2e-04 1.3e-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
BMI with tail1.75.48.42.92.51.2
BMI without tail1.12.33.41.81.41.2
Body weight1.77.114.22.33.81.4
Epididymis fat weight0.30.81.21.1-1.00.3
Glucose1.21.95.40.3-2.3-0.3
Heart weight1.21.82.11.4-1.31.2
Left kidney weight0.00.10.30.10.1-0.5
Right kidney weight0.20.51.3-0.30.4-1.2
Tail length0.41.12.50.11.60.9
Length with tail0.82.98.00.62.80.7
Length without tail0.61.33.80.42.00.1
Liver weight, left0.20.30.80.1-0.90.4
Liver weight, right0.50.81.41.2-0.20.9
Parametrial fat weight0.61.12.80.1-1.7-0.7
Retroperitoneal fat weight1.13.69.51.2-3.10.3
Intraocular pressure0.40.51.1-1.0-0.4-0.7
Extensor digitorum longus weight2.510.125.51.85.01.1
Soleus weight0.92.67.60.2-2.80.2
Tibialis anterior weight3.612.437.10.46.10.1
Tibia length1.54.25.3-1.52.3-2.3
Number of licking bursts0.00.00.00.0-0.1-0.0
Food consumed during 24 hour testing period0.30.30.5-0.7-0.4-0.6
Times rat made contact with spout0.30.30.80.30.40.9
Mean time between licks in bursts2.43.35.72.00.72.4
Mean num. licks in bursts0.10.10.2-0.0-0.10.4
Std. dev. time between licks in bursts1.51.83.31.3-0.51.8
Water consumed over 24 hours0.20.20.40.10.60.5
Indifference point 0 sec0.30.41.00.41.00.3
Indifference point AUC2.22.63.0-1.51.6-1.7
Indifference point function ln k5.17.38.72.8-2.32.9
Indifference point function log k5.17.38.72.8-2.32.9
Delay discounting total patch changes 0 sec0.40.60.90.60.90.8
Delay discounting total patch changes 12 sec2.73.59.4-0.73.1-0.8
Delay discounting total patch changes 18 sec0.60.80.8-0.90.9-0.8
Delay discounting total patch changes 24 sec2.53.29.00.73.00.3
Delay discounting total patch changes 6 sec0.50.81.80.61.30.4
Delay discounting time to switch 0 sec0.30.50.80.00.9-0.8
Delay discounting water rate 0 sec0.30.50.90.1-0.90.7
Delay discounting water rate 12 sec2.23.34.51.5-1.82.1
Delay discounting water rate 18 sec3.54.67.02.4-1.12.7
Delay discounting water rate 24 sec1.01.42.00.8-1.41.3
Delay discounting water rate 6 sec1.72.43.61.3-1.41.9
Locomotor activity1.32.03.31.1-1.21.8
Locomotor testing distance2.33.86.31.8-1.32.5
Locomotor testing rearing1.11.82.61.0-1.31.6
Light reinforcement 10.10.10.3-0.6-0.30.0
Light reinforcement 21.82.34.6-1.5-0.4-2.1
Reaction time number correct0.40.61.10.60.61.0
Reaction time mean minus median3.14.05.9-2.40.6-2.4
Reaction time mean minus median AUC1.92.44.4-2.10.2-1.6
Reaction time num false alarms1.01.43.11.0-0.41.8
Reaction time num false alarms AUC1.11.53.51.00.11.9
Reaction time trials correct on left0.40.61.10.60.61.0
Reaction time trials on left0.40.61.00.50.61.0
Reaction time mean1.52.03.2-1.8-0.0-1.7
Reaction time mean AUC1.52.03.2-1.8-0.2-1.7
Median of all reaction times0.60.81.2-1.00.2-1.1
Reaction time omissions0.40.61.5-1.20.2-0.5
Reaction time false alarm rate0.50.71.30.8-0.31.2
Reaction time premature initiation rate3.64.85.12.22.32.1
Reaction time premature initiations3.75.36.42.02.52.3
Std. dev. reaction times2.53.45.9-2.4-0.2-2.1
Reaction time trials completed0.40.61.00.50.61.0
Reaction time trials AUC0.40.61.20.70.51.1
Social response proportion0.20.20.30.40.30.6
Social responses0.10.10.2-0.30.10.4
Social time0.10.10.3-0.2-0.20.5
Conditioned locomotion0.20.30.70.30.80.2
Cocaine response after cond. corrected1.41.62.11.5-0.81.4
Cocaine response after cond. not corrected0.91.01.41.2-0.61.1
Cocaine response before conditioning0.80.91.2-1.10.7-1.0
Saline control response1.31.73.40.81.91.0
Condit. Reinf. active minus inactive responses1.01.32.0-1.3-0.5-1.4
Condit. Reinf. active-inactive response ratio2.22.34.7-1.3-0.6-2.2
Condit. Reinf. active responses0.10.10.2-0.50.1-0.4
Condit. Reinf. inactive responses0.81.02.40.80.31.5
Condit. Reinf. lever presses0.40.61.3-0.41.1-0.6
Condit. Reinf. lever reinforcers received0.30.40.5-0.70.4-0.6
Pavlov. Cond. lever latency0.20.20.6-0.2-0.80.1
Pavlov. Cond. magazine entry latency2.02.36.7-0.42.6-0.2
Pavlov. Cond. change in total contacts1.21.62.3-1.01.5-1.3
Pavlov. Cond. index score1.31.74.2-0.52.0-0.8
Pavlov. Cond. latency score1.21.53.8-0.41.9-0.8
Pavlov. Cond. lever contacts0.20.30.6-0.50.8-0.4
Pavlov. Cond. magazine entry number3.13.810.90.5-3.30.6
Pavlov. Cond. intertrial magazine entries0.91.22.4-0.8-1.5-0.6
Pavlov. Cond. lever-magazine prob. diff.1.41.84.7-0.52.2-0.7
Pavlov. Cond. response bias0.71.02.6-0.41.6-0.4
Conditioned reinforcement - actives2.42.42.8-1.6-1.3-1.7
Conditioned reinforcement - inactives0.81.01.7-0.8-0.8-1.3
Conditioned locomotion0.70.82.20.0-1.5-0.6
Intermittent access intake day 1-15 change3.33.35.2-2.3-1.1-1.9
Intermittent access intake escalation2.52.44.0-2.0-0.8-1.6
Intermittent access intake escalation 22.12.13.4-1.90.1-1.7
Intermitt. access day 1 inactive lever presses0.70.71.7-0.4-1.3-0.6
Intermitt. access day 15 inactive lever presses0.20.30.8-0.10.1-0.9
Intermitt. access escalation Index1.41.31.81.3-0.61.3
Intermittent access day 1 total infusions0.80.92.31.5-0.70.2
Intermittent access day 15 total infusions1.61.83.0-0.7-1.7-1.4
Intermittent access terminal intake (last 3 days)0.70.82.0-0.4-0.4-1.4
Intermittent access total infusions0.40.40.80.1-0.7-0.9
Intermittent access day 1 locomotion1.92.04.92.2-0.11.0
Intermittent access day 15 total locomotion0.20.20.50.2-0.2-0.7
Intermittent access total locomotion0.40.40.90.90.0-0.7
Intermittent access standard deviation1.71.92.7-1.6-1.0-1.4
Cocaine induced anxiety0.40.40.5-0.60.6-0.7
Post-drug Anxiety1.01.11.3-1.00.9-1.2
Baseline Anxiety0.40.41.10.31.00.4
Lifetime Intake0.30.30.50.7-0.7-0.2
Incentive Sensitization - Responses0.20.20.6-0.20.3-0.8
Incentive Sensitization - Breakpoint0.30.30.7-0.20.2-0.8
Progressive ratio test 1 active lever presses0.60.61.2-0.4-1.1-0.7
Progressive ratio test 1 breakpoint0.70.81.4-0.6-1.2-0.7
Progressive ratio test 1 inactive lever presses0.50.61.11.00.40.7
Progressive ratio test 2 active lever presses0.80.91.3-0.6-1.0-1.1
Progressive ratio test 2 breakpoint1.41.62.1-0.9-1.5-1.3
Progressive ratio test 2 inactive lever presses0.40.41.0-0.2-0.5-1.0
Total sessions with >9 infusions1.01.11.71.2-1.30.6
Short access day 1 total inactive lever presses0.70.71.31.1-0.80.6
Short access day 10 total inactive lever presses1.41.63.10.8-1.81.0
Short access day 1 total infusions0.70.71.11.1-0.80.7
Short access day 10 total infusions0.90.92.51.6-0.30.5
Short access total infusions1.01.12.51.6-0.50.9
Short access day 1 locomotion1.31.33.11.80.20.9
Short access day 10 total locomotion0.50.61.51.20.10.4
Short access total locomotion1.41.53.41.80.50.9
Compulsive drug intake2.02.04.01.20.72.0
One hour access (0.3 mA shock)1.41.63.7-0.4-1.9-0.9
One hour access (shock baseline)3.74.35.6-1.8-2.0-2.4
Number of responses in last shaping day0.60.61.00.90.01.0
Context. condit. distance diff. score0.81.01.81.3-0.61.0
Locomotion velocity, session 11.31.42.11.40.11.5
Locomotion distance, session 11.51.93.01.70.91.4
Locomotion velocity, session 21.31.53.90.62.00.3
Locomotion distance, session 20.50.70.80.90.60.9
Locomotion velocity, session 31.41.73.61.90.51.1
Locomotion distance, session 30.40.50.80.80.10.9
Stereotopy head waving bouts, day 30.70.82.21.5-0.10.4
Stereotopy head waving duration, day 30.50.61.51.2-0.20.5
Locomotion velocity, session 70.10.10.20.4-0.1-0.1
Locomotion distance, session 70.91.22.11.4-0.41.1
Stereotopy head waving bouts, day 70.40.51.1-0.40.5-1.0
Stereotopy head waving duration, day 70.70.92.60.01.6-0.4
Locomotion velocity, session 80.60.71.40.8-0.01.2
Locomotion distance, session 80.50.71.61.3-0.40.6
Degree of sensitization distance0.60.61.71.3-0.30.4
Degree of sensitization stereotypy1.01.01.4-0.71.2-1.1
Condit. Reinf. active minus inactive responses0.40.51.40.11.20.0
Condit. Reinf. active-inactive response ratio0.20.20.5-0.00.70.2
Condit. Reinf. active responses0.50.61.5-0.11.2-0.6
Condit. Reinf. inactive responses0.30.41.1-0.30.0-1.0
Incentive salience index mean0.70.81.80.71.30.3
Condit. Reinf. lever presses0.50.61.00.91.00.3
Time in familiar zone, hab. session 10.20.20.30.60.20.4
Time in novel zone, hab. session 10.60.61.60.1-1.30.5
Total zone transitions, hab. session 10.10.20.40.10.70.1
Total locomotion distance, hab. session 10.10.10.20.2-0.1-0.4
Locomotion velocity, hab. session 10.10.20.30.10.5-0.5
Time in familiar zone, hab. session 20.50.50.90.0-0.80.9
Time in novel zone, hab. session 20.30.30.70.60.8-0.1
Total zone transitions, hab. session 21.51.92.21.51.41.3
Total locomotion distance, hab. session 20.50.61.21.10.40.7
Locomotion velocity, hab. session 20.30.40.90.90.30.4
Novel to familiar place preference ratio0.90.92.2-0.21.5-0.7
Novelty place preference0.60.61.2-0.31.1-0.8
Time in novel zone, NPP test0.50.51.3-0.11.1-0.6
Total zone transitions, NPP test0.81.22.20.81.50.9
Total locomotion distance, NPP test0.40.50.90.90.50.8
Locomotion velocity, NPP test0.20.20.30.60.40.5
Pavlov. Cond. lever latency0.60.71.7-0.7-1.30.0
Pavlov. Cond. magazine entry latency0.60.71.4-0.21.2-0.9
Pavlov. Cond. change in total contacts1.11.12.2-0.80.7-1.5
Pavlov. Cond. index score0.40.60.9-0.41.0-0.8
Pavlov. Cond. latency score0.20.30.70.00.9-0.4
Pavlov. Cond. lever contacts0.10.10.30.30.5-0.1
Pavlov. Cond. magazine entry number1.11.41.71.2-1.11.3
Pavlov. Cond. intertrial magazine entries0.91.11.9-1.40.3-1.2
Pavlov. Cond. lever-magazine prob. diff.0.60.81.1-0.61.1-0.9
Pavlov. Cond. response bias0.60.81.0-0.61.0-1.0
Bone: apparent density0.20.30.50.70.50.0
Bone surface0.71.22.90.11.7-0.8
Bone volume0.40.61.0-0.01.0-1.0
Bone: connectivity density0.81.22.41.11.50.3
Bone: cortical apparent density0.30.30.8-0.50.9-0.0
Bone: cortical area0.40.61.5-0.21.2-0.6
Bone: cortical porosity0.30.40.8-0.9-0.1-0.6
Bone: cortical porosity0.20.20.5-0.70.2-0.3
Bone: cortical thickness1.32.15.6-0.02.40.8
Bone: cortical thickness0.50.61.00.30.81.0
Bone: cortical tissue density0.30.40.9-0.61.0-0.1
Bone: elastic displacement0.40.40.60.0-0.80.7
Bone: elastic work0.91.21.80.81.01.3
Bone: endosteal estimation0.61.32.60.9-1.6-0.7
Bone: endosteal perimeter1.12.33.7-0.1-1.9-1.8
Bone: final force0.81.33.50.61.9-0.0
Bone: final moment0.71.23.30.61.8-0.0
Bone: marrow area0.71.43.10.9-1.8-0.7
Bone: maximum diameter0.40.71.6-0.40.6-1.3
Bone: maximum force1.01.84.40.92.1-0.3
Bone: maximum moment0.91.64.00.92.0-0.3
Bone: minimum diameter0.40.71.10.7-1.0-0.8
Bone: periosteal estimation0.20.41.10.3-0.1-1.1
Bone: periosteal perimeter0.40.61.6-0.4-0.0-1.3
Bone: post-yield work0.70.92.40.3-0.5-1.5
Bone: stiffness0.50.81.1-0.31.1-1.0
Bone: tissue strength0.20.20.50.1-0.70.3
Bone: trabecular number0.30.50.90.70.9-0.1
Bone: trabecular spacing0.30.40.8-0.0-0.60.9
Bone: trabecular thickness0.60.81.3-0.8-0.6-1.2
Bone: trabecular tissue density1.62.25.7-0.9-2.4-0.3
Breakpoint value in progressive ratio session1.41.62.6-1.21.6-0.9
Distance traveled before self-admin1.21.32.7-0.71.6-0.9
Distance traveled after self-admin0.40.50.8-0.90.3-0.7
Delta time in closed arm before/after self-admin4.54.36.22.41.02.5
Delta time in open arm before/after self-admin2.12.02.3-1.21.5-1.5
Diff in mean of infusions in LGA sessions0.91.02.3-0.71.5-0.2
Extinction: sum of active levers before priming1.31.33.8-0.22.0-0.3
Active lever presses in extinction session 62.32.23.3-1.31.8-1.2
Delta distance traveled before/after self-admin0.50.61.10.3-1.10.7
Delta ambulatory time before/after self-admin0.80.81.70.3-1.30.8
Time in closed arm before self-admin0.60.71.4-0.9-0.1-1.2
Time in closed arm after self-admin0.70.70.80.8-0.90.9
Time in open arm before self-admin2.83.05.21.6-1.12.3
Time in open arm after self-admin0.10.10.1-0.40.30.1
Sum of active levers in priming session hrs 5-64.74.66.5-2.61.2-2.4
Time to tail flick, vehicle, before self-admin0.40.40.70.70.8-0.2
Time to tail flick, vehicle, after self-admin1.21.32.01.40.61.2
Time to tail flick, test, before self-admin2.22.24.52.10.31.4
Time to tail flick, test, after self-admin0.10.10.1-0.2-0.3-0.1
Delta time to tail flick, vehicle, before/after SA0.30.30.70.6-0.00.8
Delta time to tail flick, test, before/after SA2.01.83.8-2.0-0.0-1.3
Ambulatory time before self-admin2.02.12.6-1.21.6-1.4
Ambulatory time after self-admin0.50.50.9-0.70.3-0.9
Total heroin consumption1.61.94.8-0.92.2-0.3
Area under the delay curve0.50.61.11.0-0.00.8
Delay disc. indifference point, 0s delay1.71.83.21.8-0.51.4
Delay disc. indifference point, 16s delay0.10.10.10.30.2-0.1
Delay disc. indifference point, 2s delay0.20.20.40.7-0.50.2
Delay disc. indifference point, 24s delay0.80.81.21.00.21.1
Delay disc. indifference point, 4s delay1.92.03.11.80.51.7
Delay disc. indifference point, 8s delay0.80.81.10.9-0.71.1
Delay discount exponential model param0.50.51.0-1.00.0-0.8
Delay discount hyperbolic model param0.60.61.1-1.1-0.0-0.8
Fecal boli incidents, locomotor time 11.82.03.3-1.6-0.4-1.8
Change in fecal boli incidents, locomotor task2.42.33.31.7-0.91.8
Time >=10cm from walls, locomotor time 11.91.92.7-0.9-1.5-1.7
Bouts of movement, locomotor time 11.82.04.3-2.10.6-1.2
Total resting periods, locomotor time 11.71.93.7-1.90.6-1.3
Rest time, locomotor task time 10.91.02.0-0.8-1.4-0.4
Distance moved, locomotor task time 10.30.30.40.60.60.3
Vertical activity count, locomotor time 10.20.30.70.2-0.80.1
Time >=10cm from walls, locomotor time 21.51.62.5-1.6-0.2-1.5
Bouts of movement, locomotor time 20.50.61.6-0.31.30.1
Total resting periods, locomotor time 20.20.30.7-0.30.8-0.1
Rest time, locomotor task time 21.51.85.2-0.2-2.3-0.2
Distance moved, locomotor task time 20.40.51.0-0.61.0-0.2
Vertical activity count, locomotor time 20.20.20.5-0.1-0.10.7
Weight adjusted by age0.70.72.0-0.11.4-0.5
Seeking ratio, delayed vs. immediate footshock0.10.10.20.4-0.00.4
Locomotion in novel chamber1.51.82.4-0.9-1.5-1.5
Locomotion in novel chamber post-restriction1.21.43.0-0.8-1.7-0.7
Progressive ratio0.10.10.2-0.0-0.0-0.4
Food seeking constrained by brief footshock0.40.40.80.6-0.50.9
Seeking ratio, punishment vs. effort0.70.81.70.8-0.21.3
Run reversals in cocaine runway, females4.34.27.02.70.82.2
Run reversals in cocaine runway, males0.30.30.7-0.3-0.8-0.0
Latency to leave start box in cocaine runway0.20.20.40.6-0.60.1
Latency to leave start box in cocaine runway, F0.00.00.00.10.1-0.1
Latency to leave start box in cocaine runway, M1.21.13.40.2-1.80.0
Cd content in liver0.60.71.2-0.6-1.1-0.7
Co content in liver1.11.22.3-0.1-1.51.2
Cu content in liver0.40.51.00.70.41.0
Fe content in liver0.10.10.3-0.30.1-0.6
K content in liver0.40.40.90.61.0-0.1
Mg content in liver0.50.51.21.10.50.2
Mn content in liver0.70.82.3-0.11.5-0.4
Na content in liver0.50.50.8-0.30.9-0.8
Rb content in liver1.11.42.21.0-1.50.9
Se content in liver1.11.32.8-0.90.5-1.7
Sr content in liver2.52.36.3-0.62.5-0.4
Zn content in liver1.82.05.8-0.12.4-0.5