Gde1

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 gene expression ENSRNOG00000050445 0.09 0.05 3.7e-03 0.04 0.04 0.05 0.04 2.5e-03 4.4e-03 1.8e-03 5.0e-03
2 Brain gene expression ENSRNOG00000050445 0.17 0.07 5.7e-13 0.1 0.12 0.12 0.12 8.4e-10 6.3e-11 4.8e-11 5.7e-11
3 Liver gene expression ENSRNOG00000050445 0.32 0.12 0.0e+00 0.15 0.2 0.2 0.2 3.7e-16 1.5e-21 1.4e-21 4.8e-22
4 NAcc gene expression ENSRNOG00000050445 0.09 0.05 5.5e-04 0.05 0.02 0.02 0.03 2.3e-04 8.3e-03 6.1e-03 3.3e-03
5 PL gene expression ENSRNOG00000050445 0.16 0.09 6.3e-07 0.09 0.08 0.08 0.07 4.0e-07 1.0e-06 1.1e-06 4.8e-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 4 5
BMI with tail2.89.012.62.93.5-3.03.12.4
BMI without tail7.615.922.43.84.7-3.84.13.4
Body weight1.98.111.32.43.4-3.02.82.7
Epididymis fat weight1.22.94.31.82.0-0.72.11.6
Glucose0.20.30.70.60.20.60.20.9
Heart weight0.20.20.60.40.00.50.20.8
Left kidney weight2.57.18.82.53.0-2.92.22.6
Right kidney weight2.98.110.42.63.2-3.22.32.9
Tail length2.06.18.02.22.8-2.32.32.8
Length with tail0.20.91.70.51.0-1.10.61.3
Length without tail1.12.43.4-1.8-1.81.0-1.8-1.2
Liver weight, left0.40.61.30.70.9-0.31.20.5
Liver weight, right0.40.71.30.41.1-1.01.1-0.3
Parametrial fat weight3.05.87.52.72.6-1.52.42.7
Retroperitoneal fat weight1.34.37.42.32.00.62.72.1
Intraocular pressure0.20.30.60.30.6-0.50.80.4
Extensor digitorum longus weight2.07.927.31.22.7-5.20.91.7
Soleus weight1.54.27.01.82.0-2.31.22.6
Tibialis anterior weight4.114.225.72.94.1-5.12.53.8
Tibia length0.10.20.60.4-0.00.40.10.8
Number of licking bursts6.98.211.9-2.4-3.41.8-3.3-3.0
Food consumed during 24 hour testing period0.91.12.80.61.0-1.70.41.0
Times rat made contact with spout0.81.04.3-0.30.2-2.1-0.7-0.0
Mean time between licks in bursts0.10.20.7-0.3-0.2-0.1-0.1-0.8
Mean num. licks in bursts6.07.29.92.03.1-2.82.52.8
Std. dev. time between licks in bursts0.20.30.50.50.6-0.40.7-0.2
Water consumed over 24 hours3.33.96.4-2.1-2.1-0.3-2.5-2.1
Indifference point 0 sec1.72.74.01.81.50.12.02.0
Indifference point AUC0.70.81.31.00.8-1.00.51.1
Indifference point function ln k0.20.20.30.40.6-0.20.60.6
Indifference point function log k0.20.20.30.40.6-0.20.60.6
Delay discounting total patch changes 0 sec2.03.24.82.01.60.22.22.1
Delay discounting total patch changes 12 sec0.40.60.90.80.8-0.50.90.7
Delay discounting total patch changes 18 sec0.10.10.30.5-0.10.20.10.5
Delay discounting total patch changes 24 sec1.51.82.81.61.3-0.41.41.7
Delay discounting total patch changes 6 sec1.11.73.41.40.41.41.11.8
Delay discounting time to switch 0 sec2.84.27.9-2.4-1.90.9-1.7-2.8
Delay discounting water rate 0 sec0.30.50.80.90.8-0.40.70.7
Delay discounting water rate 12 sec2.33.45.72.11.8-0.31.92.4
Delay discounting water rate 18 sec0.91.21.91.21.10.31.41.2
Delay discounting water rate 24 sec0.40.51.20.70.7-0.50.21.1
Delay discounting water rate 6 sec0.20.30.80.80.10.40.00.9
Locomotor activity0.10.20.70.30.5-0.10.80.2
Locomotor testing distance0.61.01.71.11.0-0.31.31.0
Locomotor testing rearing0.40.61.60.60.70.31.30.4
Light reinforcement 10.30.51.20.40.50.81.10.4
Light reinforcement 20.60.71.60.80.80.51.30.7
Reaction time number correct0.40.51.4-0.5-0.61.2-0.1-0.8
Reaction time mean minus median0.10.10.30.60.3-0.30.00.3
Reaction time mean minus median AUC0.30.30.60.80.30.70.40.4
Reaction time num false alarms1.52.13.6-1.3-1.80.3-1.9-1.2
Reaction time num false alarms AUC1.01.42.2-1.1-1.40.3-1.5-1.2
Reaction time trials correct on left0.40.51.4-0.5-0.61.2-0.1-0.8
Reaction time trials on left0.40.51.4-0.4-0.61.2-0.0-0.8
Reaction time mean0.50.71.11.11.0-0.30.80.8
Reaction time mean AUC0.30.40.60.70.8-0.10.70.5
Median of all reaction times0.50.71.11.01.0-0.40.90.7
Reaction time omissions0.20.30.8-0.2-0.10.60.2-0.9
Reaction time false alarm rate0.81.12.3-1.0-1.1-0.5-1.5-0.8
Reaction time premature initiation rate0.60.83.50.10.6-1.9-0.00.5
Reaction time premature initiations0.20.31.1-0.40.1-1.1-0.2-0.2
Std. dev. reaction times0.40.61.01.00.8-0.20.70.9
Reaction time trials completed0.40.51.4-0.4-0.61.2-0.0-0.8
Reaction time trials AUC0.20.31.0-0.3-0.41.00.0-0.6
Social response proportion0.50.51.00.70.41.00.90.3
Social responses0.30.41.3-0.1-0.31.10.2-0.7
Social time0.70.92.5-0.7-1.01.6-0.5-0.6
Conditioned locomotion1.01.22.4-1.5-0.90.0-0.9-1.6
Cocaine response after cond. corrected0.30.30.5-0.5-0.70.4-0.7-0.5
Cocaine response after cond. not corrected0.00.00.1-0.1-0.0-0.4-0.2-0.0
Cocaine response before conditioning1.11.43.70.61.3-1.90.70.8
Saline control response0.10.20.30.40.10.60.50.3
Condit. Reinf. active minus inactive responses2.02.54.41.91.70.02.11.4
Condit. Reinf. active-inactive response ratio1.41.52.71.51.00.71.61.0
Condit. Reinf. active responses1.21.62.81.41.5-0.31.71.1
Condit. Reinf. inactive responses0.40.51.90.00.7-1.40.30.2
Condit. Reinf. lever presses1.92.63.81.71.9-1.01.91.3
Condit. Reinf. lever reinforcers received0.91.22.51.21.20.11.60.8
Pavlov. Cond. lever latency1.11.52.1-1.3-1.50.7-1.4-1.1
Pavlov. Cond. magazine entry latency1.82.13.9-1.6-1.40.7-1.3-2.0
Pavlov. Cond. change in total contacts0.91.21.61.30.71.11.21.1
Pavlov. Cond. index score0.00.10.10.20.10.30.3-0.3
Pavlov. Cond. latency score0.00.00.10.10.10.10.1-0.3
Pavlov. Cond. lever contacts1.31.92.71.51.6-0.81.61.1
Pavlov. Cond. magazine entry number1.51.82.51.11.4-1.61.01.5
Pavlov. Cond. intertrial magazine entries2.93.75.21.92.3-1.82.01.6
Pavlov. Cond. lever-magazine prob. diff.0.10.10.3-0.0-0.10.50.1-0.5
Pavlov. Cond. response bias0.30.30.70.70.70.10.80.2
Conditioned reinforcement - actives0.30.31.00.50.60.10.31.0
Conditioned reinforcement - inactives0.40.40.8-0.4-0.60.7-0.9-0.4
Conditioned locomotion0.10.20.3-0.6-0.20.4-0.4-0.2
Intermittent access intake day 1-15 change2.52.53.8-1.6-1.80.3-1.9-1.8
Intermittent access intake escalation2.01.93.0-1.3-1.60.2-1.7-1.5
Intermittent access intake escalation 22.72.73.6-1.9-1.80.2-1.9-1.7
Intermitt. access day 1 inactive lever presses0.20.20.4-0.4-0.50.1-0.6-0.2
Intermitt. access day 15 inactive lever presses0.20.31.2-0.10.4-1.1-0.2-0.0
Intermitt. access escalation Index0.50.50.60.70.7-0.80.60.6
Intermittent access day 1 total infusions2.62.94.01.92.0-0.31.81.9
Intermittent access day 15 total infusions0.20.20.40.60.40.10.20.4
Intermittent access terminal intake (last 3 days)0.20.20.30.60.50.10.40.6
Intermittent access total infusions1.51.62.41.41.5-0.21.31.5
Intermittent access day 1 locomotion3.23.35.22.32.0-0.21.81.9
Intermittent access day 15 total locomotion0.80.83.50.7-0.21.90.20.4
Intermittent access total locomotion2.73.05.52.31.70.51.91.7
Intermittent access standard deviation0.20.20.6-0.8-0.1-0.5-0.5-0.2
Cocaine induced anxiety0.10.10.20.4-0.10.2-0.1-0.4
Post-drug Anxiety0.20.20.70.4-0.20.80.00.3
Baseline Anxiety0.30.31.20.00.4-0.20.21.1
Lifetime Intake2.52.84.11.72.0-0.51.71.9
Incentive Sensitization - Responses0.10.10.30.10.60.30.50.3
Incentive Sensitization - Breakpoint0.20.20.40.20.60.30.60.4
Progressive ratio test 1 active lever presses1.31.42.61.61.4-0.01.21.0
Progressive ratio test 1 breakpoint1.21.22.21.51.30.01.11.0
Progressive ratio test 1 inactive lever presses0.90.92.11.51.1-0.50.70.7
Progressive ratio test 2 active lever presses0.91.01.61.01.30.21.11.1
Progressive ratio test 2 breakpoint0.91.01.61.01.20.31.11.1
Progressive ratio test 2 inactive lever presses0.70.81.31.10.90.40.90.8
Total sessions with >9 infusions3.74.16.41.82.5-2.01.62.1
Short access day 1 total inactive lever presses0.20.20.40.50.50.30.40.7
Short access day 10 total inactive lever presses0.91.01.5-0.9-1.20.7-1.2-0.9
Short access day 1 total infusions1.92.13.31.11.8-0.51.51.8
Short access day 10 total infusions1.71.92.91.61.7-1.01.11.3
Short access total infusions3.94.36.22.12.5-0.92.12.4
Short access day 1 locomotion0.30.30.70.40.7-0.00.50.8
Short access day 10 total locomotion3.13.45.02.22.2-1.11.91.6
Short access total locomotion5.35.47.22.62.6-0.22.52.7
Compulsive drug intake1.01.02.01.01.0-0.11.40.9
One hour access (0.3 mA shock)3.44.05.92.42.3-0.92.11.9
One hour access (shock baseline)0.10.10.30.3-0.00.5-0.20.1
Number of responses in last shaping day0.60.61.10.61.1-0.70.70.8
Context. condit. distance diff. score0.20.20.9-0.1-0.21.00.1-0.4
Locomotion velocity, session 10.10.10.4-0.5-0.3-0.1-0.6-0.0
Locomotion distance, session 11.11.42.01.11.4-0.71.41.3
Locomotion velocity, session 20.30.30.7-0.8-0.70.2-0.7-0.2
Locomotion distance, session 21.11.62.61.01.4-1.60.91.4
Locomotion velocity, session 30.20.20.30.20.6-0.50.60.6
Locomotion distance, session 30.40.51.1-0.8-0.2-1.1-0.5-0.6
Stereotopy head waving bouts, day 30.20.31.3-0.1-0.41.10.1-0.0
Stereotopy head waving duration, day 30.20.31.10.2-0.11.00.40.3
Locomotion velocity, session 70.60.62.5-0.10.7-1.60.2-0.1
Locomotion distance, session 70.50.60.8-0.9-0.5-0.7-0.8-0.9
Stereotopy head waving bouts, day 70.40.50.80.60.7-0.10.90.9
Stereotopy head waving duration, day 71.72.12.91.31.7-1.11.71.3
Locomotion velocity, session 80.00.00.10.00.1-0.1-0.00.3
Locomotion distance, session 80.10.20.40.40.6-0.30.50.4
Degree of sensitization distance0.40.40.70.80.10.90.30.7
Degree of sensitization stereotypy1.11.21.50.81.2-1.11.11.1
Condit. Reinf. active minus inactive responses0.10.10.40.30.20.60.30.1
Condit. Reinf. active-inactive response ratio0.10.10.30.30.50.30.5-0.0
Condit. Reinf. active responses0.10.10.30.20.10.60.20.1
Condit. Reinf. inactive responses0.00.00.10.2-0.00.20.10.2
Incentive salience index mean0.00.00.10.00.3-0.20.0-0.3
Condit. Reinf. lever presses0.30.41.1-0.6-0.2-0.4-0.4-1.1
Time in familiar zone, hab. session 10.40.41.00.2-0.61.0-0.60.3
Time in novel zone, hab. session 10.50.50.9-0.30.7-1.00.8-0.2
Total zone transitions, hab. session 12.23.25.11.81.9-1.51.32.3
Total locomotion distance, hab. session 15.98.512.13.03.2-2.22.53.5
Locomotion velocity, hab. session 15.57.910.43.03.1-1.92.63.2
Time in familiar zone, hab. session 20.30.30.40.70.5-0.60.20.7
Time in novel zone, hab. session 20.10.10.20.00.10.40.4-0.0
Total zone transitions, hab. session 22.43.14.51.82.0-1.21.62.1
Total locomotion distance, hab. session 23.14.16.42.02.1-1.61.62.5
Locomotion velocity, hab. session 23.44.66.52.22.3-1.91.72.5
Novel to familiar place preference ratio0.60.61.1-0.5-1.00.8-1.0-0.5
Novelty place preference0.90.91.7-0.7-1.20.7-1.3-0.6
Time in novel zone, NPP test0.50.60.9-0.4-1.00.8-0.9-0.4
Total zone transitions, NPP test1.42.02.91.31.6-1.31.21.7
Total locomotion distance, NPP test1.52.13.51.41.4-1.40.91.9
Locomotion velocity, NPP test1.11.62.81.21.2-1.30.71.7
Pavlov. Cond. lever latency0.70.92.1-0.1-1.01.5-0.70.8
Pavlov. Cond. magazine entry latency2.12.74.61.22.1-2.11.80.1
Pavlov. Cond. change in total contacts1.11.23.5-0.70.4-1.9-0.1-1.4
Pavlov. Cond. index score1.11.43.10.41.4-1.71.1-0.8
Pavlov. Cond. latency score1.01.32.70.51.4-1.61.2-0.6
Pavlov. Cond. lever contacts1.11.33.50.21.2-1.90.8-0.9
Pavlov. Cond. magazine entry number0.91.23.4-0.0-1.11.8-0.80.8
Pavlov. Cond. intertrial magazine entries0.60.83.10.0-0.71.8-0.10.5
Pavlov. Cond. lever-magazine prob. diff.1.41.83.80.61.6-2.01.3-0.6
Pavlov. Cond. response bias1.11.44.1-0.21.0-2.00.5-1.2
Bone: apparent density0.81.31.71.11.3-1.10.91.3
Bone surface0.50.92.50.51.1-1.60.50.7
Bone volume1.11.93.21.11.5-1.80.91.3
Bone: connectivity density0.40.71.10.71.1-0.90.80.5
Bone: cortical apparent density0.71.01.4-1.0-1.20.8-1.1-0.7
Bone: cortical area2.23.45.51.52.0-2.41.21.9
Bone: cortical porosity1.31.42.41.21.4-0.61.50.9
Bone: cortical porosity0.90.92.10.91.1-0.11.40.6
Bone: cortical thickness0.91.53.11.01.0-1.50.41.8
Bone: cortical thickness0.30.41.30.1-0.2-0.3-0.61.1
Bone: cortical tissue density0.71.01.3-1.0-1.20.8-1.1-0.7
Bone: elastic displacement0.30.31.2-0.1-0.51.1-0.30.3
Bone: elastic work0.20.20.60.30.5-0.40.20.7
Bone: endosteal estimation1.12.34.91.01.8-2.21.30.7
Bone: endosteal perimeter0.51.04.10.20.8-2.00.2-0.2
Bone: final force3.96.49.92.12.8-3.11.92.4
Bone: final moment3.65.97.52.12.7-2.72.02.5
Bone: marrow area0.92.04.40.91.7-2.11.20.6
Bone: maximum diameter1.52.84.71.41.9-2.21.41.4
Bone: maximum force2.95.08.61.82.5-2.91.52.2
Bone: maximum moment2.64.56.21.82.4-2.51.62.2
Bone: minimum diameter1.12.04.81.01.6-2.21.00.9
Bone: periosteal estimation2.04.28.31.52.3-2.91.51.6
Bone: periosteal perimeter1.11.93.21.11.6-1.81.30.9
Bone: post-yield work3.64.97.02.42.7-1.22.61.9
Bone: stiffness1.93.06.81.31.7-2.60.71.7
Bone: tissue strength0.10.10.3-0.4-0.2-0.3-0.5-0.2
Bone: trabecular number0.40.70.90.80.8-0.90.51.0
Bone: trabecular spacing0.50.62.0-0.6-0.50.7-0.0-1.4
Bone: trabecular thickness4.04.89.62.52.1-0.61.93.1
Bone: trabecular tissue density0.00.00.1-0.0-0.2-0.0-0.20.2
Breakpoint value in progressive ratio session0.80.94.1-0.1-0.52.00.2-0.2
Distance traveled before self-admin0.10.10.6-0.0-0.2-0.1-0.80.1
Distance traveled after self-admin0.80.93.00.50.7-1.7-0.10.7
Delta time in closed arm before/after self-admin1.01.02.5-1.6-0.7-0.3-0.7-1.2
Delta time in open arm before/after self-admin3.53.35.72.41.7-1.21.62.0
Diff in mean of infusions in LGA sessions0.80.92.31.30.01.50.50.5
Extinction: sum of active levers before priming0.40.40.6-0.6-0.70.4-0.6-0.7
Active lever presses in extinction session 60.40.40.80.60.40.90.60.3
Delta distance traveled before/after self-admin0.91.01.70.71.2-1.31.00.7
Delta ambulatory time before/after self-admin0.70.81.60.60.9-1.20.70.7
Time in closed arm before self-admin0.91.01.91.41.2-0.60.71.1
Time in closed arm after self-admin0.40.51.8-0.3-0.51.4-0.20.1
Time in open arm before self-admin2.22.43.7-1.9-1.71.2-1.2-1.7
Time in open arm after self-admin0.80.93.30.80.7-1.80.30.4
Sum of active levers in priming session hrs 5-60.30.30.80.30.40.40.90.1
Time to tail flick, vehicle, before self-admin0.20.20.8-0.5-0.0-0.9-0.00.1
Time to tail flick, vehicle, after self-admin1.01.11.6-1.1-0.81.2-0.6-1.2
Time to tail flick, test, before self-admin0.50.50.7-0.7-0.6-0.8-0.8-0.5
Time to tail flick, test, after self-admin2.52.65.2-1.7-1.40.0-1.7-2.3
Delta time to tail flick, vehicle, before/after SA0.20.20.70.20.30.80.4-0.2
Delta time to tail flick, test, before/after SA0.20.20.7-0.2-0.00.1-0.2-0.8
Ambulatory time before self-admin0.20.20.8-0.1-0.20.2-0.90.2
Ambulatory time after self-admin0.80.93.10.60.7-1.8-0.20.8
Total heroin consumption0.50.62.00.50.41.40.7-0.0
Area under the delay curve0.40.40.7-0.8-0.80.6-0.7-0.1
Delay disc. indifference point, 0s delay0.50.61.5-0.4-0.3-1.2-1.1-0.1
Delay disc. indifference point, 16s delay3.23.37.4-1.5-2.12.7-1.2-1.0
Delay disc. indifference point, 2s delay2.22.45.61.31.5-2.40.81.5
Delay disc. indifference point, 24s delay3.83.64.6-1.9-2.12.1-1.7-1.6
Delay disc. indifference point, 4s delay0.20.20.4-0.4-0.50.1-0.70.6
Delay disc. indifference point, 8s delay0.40.40.9-0.9-0.6-0.0-0.8-0.1
Delay discount exponential model param0.40.40.70.80.8-0.60.60.2
Delay discount hyperbolic model param0.20.20.30.60.6-0.30.5-0.1
Fecal boli incidents, locomotor time 10.40.51.3-0.30.00.90.3-1.1
Change in fecal boli incidents, locomotor task1.91.85.41.00.90.31.22.3
Time >=10cm from walls, locomotor time 10.30.30.80.60.6-0.90.10.4
Bouts of movement, locomotor time 11.71.93.0-0.8-1.51.7-0.9-1.7
Total resting periods, locomotor time 12.32.63.7-1.3-1.71.9-1.0-1.9
Rest time, locomotor task time 12.93.15.7-2.4-1.60.5-2.0-1.8
Distance moved, locomotor task time 13.53.86.22.51.7-1.12.02.2
Vertical activity count, locomotor time 13.03.14.82.21.4-1.91.02.1
Time >=10cm from walls, locomotor time 21.01.13.10.51.2-1.80.00.9
Bouts of movement, locomotor time 20.50.51.10.30.7-0.80.6-1.1
Total resting periods, locomotor time 20.60.60.90.50.9-0.90.8-0.8
Rest time, locomotor task time 20.10.10.2-0.10.20.40.20.4
Distance moved, locomotor task time 20.50.62.0-0.0-0.1-1.4-0.9-0.0
Vertical activity count, locomotor time 20.50.51.30.30.1-1.2-0.80.7
Weight adjusted by age0.91.01.91.31.2-0.51.40.1
Seeking ratio, delayed vs. immediate footshock0.10.10.20.50.30.00.00.1
Locomotion in novel chamber2.12.64.32.11.9-0.11.81.4
Locomotion in novel chamber post-restriction1.01.21.71.20.61.11.31.0
Progressive ratio0.50.51.00.70.40.70.71.0
Food seeking constrained by brief footshock1.11.42.2-0.9-1.51.5-1.2-0.7
Seeking ratio, punishment vs. effort0.20.20.6-0.3-0.2-0.4-0.4-0.8
Run reversals in cocaine runway, females3.13.07.51.21.6-2.70.81.7
Run reversals in cocaine runway, males0.50.51.0-0.5-0.90.4-1.0-0.6
Latency to leave start box in cocaine runway0.50.61.20.60.21.10.70.9
Latency to leave start box in cocaine runway, F0.10.10.5-0.0-0.00.70.4-0.2
Latency to leave start box in cocaine runway, M0.70.61.70.5-0.01.10.31.3
Cd content in liver2.12.39.6-0.3-1.33.1-0.1-0.5
Co content in liver0.50.51.70.1-0.41.30.10.9
Cu content in liver1.01.22.41.40.90.01.01.5
Fe content in liver0.70.91.6-0.6-1.31.0-1.2-0.3
K content in liver0.20.20.30.50.5-0.10.60.2
Mg content in liver0.30.30.90.30.50.31.0-0.4
Mn content in liver0.20.20.7-0.40.2-0.8-0.2-0.4
Na content in liver2.22.39.00.31.5-3.00.50.1
Rb content in liver1.31.63.60.90.41.91.31.4
Se content in liver0.20.20.4-0.2-0.2-0.6-0.5-0.4
Sr content in liver0.50.40.80.70.8-0.90.50.4
Zn content in liver2.62.94.01.72.0-1.91.71.1