Gdpd4

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 Liver alternative polyA XM_006229796.5 0.06 0.04 2.0e-05 0 0.01 0.01 0.01 7.7e-02 1.0e-02 1.2e-02 2.0e-02
2 BLA gene expression Gdpd4 0.18 0.12 7.6e-03 0.04 0.02 0.03 0.04 4.6e-03 2.8e-02 7.2e-03 5.4e-03
3 Brain alternative polyA XM_063280972.1 0.03 0.02 3.0e-03 0.03 0.01 0.01 0.02 6.4e-04 1.2e-02 1.5e-02 2.4e-03
4 Liver gene expression Gdpd4 0.45 0.13 2.1e-15 0.1 0.13 0.11 0.11 1.2e-11 7.6e-14 1.6e-12 5.8e-12

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 density0.10.10.20.40.10.20.4
Area under the delay curve0.50.61.6-0.8-0.1-1.3-0.1
BMI with tail1.55.012.11.9-0.33.52.1
BMI without tail1.64.912.91.6-1.13.61.6
Body weight1.56.617.12.1-1.04.12.0
Weight adjusted by age0.20.40.80.1-0.90.50.6
Bone surface0.81.53.1-1.4-1.8-0.9-0.3
Bone volume0.30.51.3-0.6-1.2-0.30.3
Breakpoint value in progressive ratio session0.50.62.00.51.40.20.3
Number of licking bursts3.15.06.62.61.82.32.2
Context. condit. distance diff. score1.92.33.3-1.8-1.6-1.8-0.5
Locomotion velocity, session 10.60.71.8-0.70.3-1.3-0.6
Locomotion distance, session 10.70.91.1-1.1-0.6-1.0-1.0
Locomotion velocity, session 20.50.50.8-0.9-0.5-0.9-0.5
Locomotion distance, session 20.30.51.1-0.6-0.6-0.4-1.0
Locomotion velocity, session 30.30.40.6-0.7-0.6-0.7-0.5
Locomotion distance, session 31.11.22.2-1.4-0.5-1.5-0.6
Stereotopy head waving bouts, day 30.91.11.91.40.71.4-0.2
Stereotopy head waving duration, day 30.40.51.4-0.3-0.6-0.2-1.2
Locomotion velocity, session 70.30.30.70.10.5-0.40.9
Locomotion distance, session 70.30.41.6-0.1-0.1-0.11.3
Stereotopy head waving bouts, day 72.12.34.6-1.4-0.7-1.5-2.1
Stereotopy head waving duration, day 72.22.64.3-1.6-1.4-1.3-2.1
Locomotion velocity, session 83.33.97.3-2.3-1.6-2.7-0.6
Locomotion distance, session 81.72.53.4-1.8-1.5-1.7-1.2
Degree of sensitization distance1.11.11.90.9-0.31.41.2
Degree of sensitization stereotypy4.34.66.0-2.4-1.3-2.3-2.4
Conditioned locomotion0.20.20.3-0.10.5-0.6-0.4
Cocaine response after cond. corrected1.01.23.40.70.90.51.8
Cocaine response after cond. not corrected0.20.20.80.20.4-0.00.9
Cocaine response before conditioning1.41.64.4-0.9-0.7-1.0-2.1
Saline control response1.11.42.7-1.2-1.6-0.2-1.3
Bone: connectivity density0.20.30.9-0.5-0.3-0.9-0.3
Bone: cortical apparent density0.81.11.21.11.10.91.1
Bone: cortical area0.50.81.30.1-1.10.91.1
Bone: cortical porosity0.80.92.0-0.7-0.2-0.9-1.4
Bone: cortical porosity1.01.12.8-0.7-0.1-1.0-1.7
Bone: cortical thickness0.81.42.61.10.51.21.6
Bone: cortical thickness0.20.20.6-0.2-0.20.00.8
Bone: cortical tissue density0.71.01.41.01.20.80.9
Condit. Reinf. active minus inactive responses0.80.91.90.6-0.61.41.0
Condit. Reinf. active-inactive response ratio0.70.71.20.3-1.11.10.5
Condit. Reinf. active responses0.60.81.60.8-0.11.30.9
Condit. Reinf. inactive responses0.10.10.30.40.60.20.3
Incentive salience index mean0.40.51.10.3-0.40.81.1
Condit. Reinf. lever presses0.10.10.2-0.30.0-0.40.4
Condit. Reinf. active minus inactive responses4.05.112.2-2.5-3.5-0.8-1.3
Condit. Reinf. active-inactive response ratio0.60.71.5-1.0-1.2-0.40.3
Condit. Reinf. active responses5.77.918.6-3.0-4.3-1.0-1.8
Condit. Reinf. inactive responses3.64.69.4-2.0-3.1-0.6-2.2
Condit. Reinf. lever presses15.321.131.0-5.3-5.6-3.3-3.9
Condit. Reinf. lever reinforcers received6.48.920.0-3.2-4.5-1.1-1.9
Conditioned reinforcement - actives0.91.52.3-1.5-1.0-1.4-1.1
Conditioned reinforcement - inactives0.20.30.6-0.10.8-0.7-0.5
Conditioned locomotion2.93.76.1-2.2-0.9-2.5-1.8
Patch foraging indifference point 0 sec3.15.88.8-2.5-3.0-1.4-2.4
Patch foraging indifference point AUC0.10.10.2-0.1-0.40.30.5
Delay disc. indifference point, 0s delay0.80.81.3-1.1-1.1-0.7-0.7
Delay disc. indifference point, 16s delay0.50.51.7-0.40.5-1.3-0.1
Delay disc. indifference point, 2s delay1.61.82.0-1.4-1.3-1.4-1.1
Delay disc. indifference point, 24s delay0.91.01.80.81.40.21.2
Delay disc. indifference point, 4s delay1.01.01.6-1.3-1.2-1.0-0.2
Delay disc. indifference point, 8s delay0.30.40.9-0.8-0.2-1.0-0.2
Indifference point function ln k1.32.43.7-1.4-0.9-1.7-1.9
Indifference point function log k1.32.43.7-1.4-0.9-1.7-1.9
Patch foraging total patch changes 0 sec2.64.97.4-2.4-2.7-1.3-2.2
Patch foraging total patch changes 12 sec0.60.82.4-0.7-1.50.3-0.3
Patch foraging total patch changes 18 sec1.32.05.5-1.4-2.3-0.2-0.8
Patch foraging total patch changes 24 sec0.30.41.2-0.6-1.10.4-0.3
Patch foraging total patch changes 6 sec0.81.22.3-1.1-1.5-0.5-1.1
Patch foraging time to switch 0 sec2.24.57.52.52.71.31.5
Patch foraging water rate 0 sec2.14.56.5-2.5-2.5-1.4-1.8
Patch foraging water rate 12 sec1.63.34.3-2.1-1.9-1.5-1.8
Patch foraging water rate 18 sec0.50.81.3-1.1-1.1-0.6-0.5
Patch foraging water rate 24 sec1.31.82.6-1.6-0.8-1.6-1.2
Patch foraging water rate 6 sec0.81.21.6-1.2-0.6-1.2-1.2
Seeking ratio, delayed vs. immediate footshock1.41.73.21.21.50.31.8
Distance traveled before self-admin0.30.30.50.70.50.40.6
Distance traveled after self-admin0.70.92.50.91.60.2-0.3
Extensor digitorum longus weight0.41.43.30.8-0.21.31.8
Bone: elastic displacement0.91.01.71.01.30.31.1
Bone: elastic work1.01.33.00.91.7-0.21.1
Bone: endosteal estimation0.51.13.3-1.0-1.80.1-0.0
Bone: endosteal perimeter1.22.55.4-1.9-2.3-0.8-0.7
Epididymis fat weight1.34.47.82.11.02.82.1
Delta time in closed arm before/after self-admin1.11.02.80.70.40.81.7
Delta time in open arm before/after self-admin1.71.73.3-1.5-1.8-0.4-0.9
Diff in mean of infusions in LGA sessions4.35.38.02.62.81.81.8
Delay discount exponential model param0.50.51.50.80.11.20.2
Extinction: sum of active levers before priming0.10.10.1-0.3-0.30.40.1
Active lever presses in extinction session 63.53.58.1-1.6-0.4-1.8-2.8
Bone: final force0.10.20.60.0-0.30.00.8
Bone: final moment0.10.20.4-0.1-0.50.10.6
Food consumed during 24 hour testing period3.85.27.9-2.4-1.5-2.3-2.8
Glucose0.20.20.9-0.1-0.00.30.9
Heart weight0.30.40.9-0.7-1.0-0.3-0.4
Delay discount hyperbolic model param0.50.61.50.80.31.20.1
Intermittent access intake day 1-15 change1.63.34.5-1.9-1.2-2.1-1.9
Intermittent access intake escalation1.83.75.2-2.1-1.3-2.3-1.9
Intermittent access intake escalation 21.61.82.5-1.4-1.0-1.6-1.4
Intermitt. access day 1 inactive lever presses0.41.74.31.32.10.20.8
Intermitt. access day 15 inactive lever presses0.81.74.01.52.00.40.7
Intermitt. access escalation Index0.00.10.20.20.4-0.10.1
Intermittent access day 1 total infusions0.60.91.5-1.2-0.7-1.2-0.5
Intermittent access day 15 total infusions3.04.47.6-2.4-1.3-2.8-1.7
Intermittent access terminal intake (last 3 days)2.63.45.1-2.0-1.5-2.2-1.5
Intermittent access total infusions1.41.72.3-1.5-1.2-1.5-0.8
Intermittent access day 1 locomotion0.30.41.0-0.6-0.0-1.0-0.4
Intermittent access day 15 total locomotion1.73.04.4-1.7-1.1-2.1-1.9
Intermittent access total locomotion0.91.11.6-1.1-0.9-1.3-1.0
Intermittent access standard deviation0.10.10.3-0.2-0.60.20.0
Left kidney weight0.31.53.70.7-1.31.90.3
Right kidney weight0.31.43.50.5-1.41.90.2
Cocaine induced anxiety1.62.23.41.91.51.21.3
Post-drug Anxiety1.51.62.21.41.50.71.3
Baseline Anxiety0.50.61.1-1.0-0.6-1.0-0.2
Tail length0.62.24.80.5-1.82.20.7
Length with tail0.72.97.21.0-1.52.70.9
Length without tail0.31.12.51.20.51.60.3
Times rat made contact with spout0.40.51.10.90.11.10.3
Lifetime Intake1.82.23.2-1.7-1.2-1.8-1.0
Liver weight, left0.50.91.90.70.11.41.0
Liver weight, right2.54.38.92.20.43.01.9
Locomotor activity0.91.33.4-0.6-1.3-0.2-1.8
Locomotor testing distance0.91.64.2-0.8-2.00.3-1.2
Locomotor testing rearing0.51.12.90.4-1.11.70.0
Locomotion in novel chamber1.31.62.6-1.5-0.5-1.6-1.2
Locomotion in novel chamber post-restriction3.04.86.9-2.6-1.4-2.4-2.1
Fecal boli incidents, locomotor time 11.31.83.6-1.5-1.0-1.9-0.8
Change in fecal boli incidents, locomotor task0.80.81.61.11.30.70.1
Time >=10cm from walls, locomotor time 11.71.83.0-1.7-0.9-0.9-1.6
Bouts of movement, locomotor time 10.30.30.6-0.6-0.4-0.8-0.1
Total resting periods, locomotor time 10.30.30.9-0.5-0.1-1.0-0.1
Rest time, locomotor task time 10.40.40.8-0.40.9-0.9-0.1
Distance moved, locomotor task time 10.40.61.50.1-1.20.70.5
Vertical activity count, locomotor time 10.20.41.4-0.2-1.20.00.2
Time >=10cm from walls, locomotor time 20.50.71.3-1.2-1.1-0.1-0.6
Bouts of movement, locomotor time 20.81.31.8-0.9-1.3-1.2-1.0
Total resting periods, locomotor time 20.61.01.4-0.7-1.1-1.2-0.8
Rest time, locomotor task time 21.01.31.91.41.21.00.9
Distance moved, locomotor task time 21.31.53.2-1.5-1.8-0.4-0.6
Vertical activity count, locomotor time 20.50.61.5-0.8-1.2-0.60.0
Light reinforcement 11.12.83.81.91.41.91.5
Light reinforcement 20.10.10.30.00.20.3-0.5
Bone: marrow area0.40.92.8-0.9-1.70.20.0
Bone: maximum diameter1.01.95.7-1.4-2.4-0.1-0.3
Bone: maximum force0.10.10.3-0.3-0.2-0.30.6
Bone: maximum moment0.10.10.2-0.4-0.4-0.20.4
Mean time between licks in bursts1.22.97.1-1.6-2.7-0.5-1.3
Mean num. licks in bursts2.64.05.1-2.3-1.9-1.9-1.9
Cd content in liver1.41.52.71.00.31.51.7
Co content in liver0.40.51.5-0.7-1.2-0.1-0.1
Cu content in liver0.30.41.10.3-0.51.10.4
Fe content in liver0.00.10.20.10.10.10.4
K content in liver0.20.20.40.40.70.0-0.5
Mg content in liver0.40.41.0-0.40.0-0.6-1.0
Mn content in liver0.60.72.40.51.5-0.4-0.2
Na content in liver1.41.53.5-0.9-0.6-1.2-1.9
Rb content in liver0.00.00.10.1-0.30.20.1
Se content in liver4.04.810.42.33.21.21.4
Sr content in liver0.20.20.3-0.6-0.3-0.5-0.1
Zn content in liver1.01.23.2-1.0-1.8-0.1-0.6
Bone: minimum diameter0.61.21.80.2-1.21.31.1
Time in familiar zone, hab. session 10.10.10.20.10.4-0.00.4
Time in novel zone, hab. session 10.30.30.70.6-0.30.80.5
Total zone transitions, hab. session 10.30.41.2-0.2-0.4-0.4-1.1
Total locomotion distance, hab. session 13.04.39.42.50.53.11.1
Locomotion velocity, hab. session 12.33.37.52.20.32.70.8
Time in familiar zone, hab. session 20.50.51.0-0.8-1.0-0.5-0.4
Time in novel zone, hab. session 20.10.10.10.10.40.00.4
Total zone transitions, hab. session 20.91.22.5-0.9-0.9-0.7-1.6
Total locomotion distance, hab. session 21.72.25.91.70.02.40.6
Locomotion velocity, hab. session 22.02.66.81.80.12.60.7
Novel to familiar place preference ratio0.10.10.2-0.2-0.10.1-0.4
Novelty place preference0.00.00.1-0.2-0.00.1-0.2
Time in novel zone, NPP test0.10.10.2-0.4-0.3-0.2-0.3
Total zone transitions, NPP test0.20.30.8-0.60.0-0.9-0.5
Total locomotion distance, NPP test2.23.15.51.90.92.31.5
Locomotion velocity, NPP test2.94.17.22.31.22.71.6
Intraocular pressure1.52.25.3-1.8-0.7-2.3-0.1
Delta distance traveled before/after self-admin1.01.03.1-0.5-0.1-0.8-1.8
Delta ambulatory time before/after self-admin0.70.92.7-0.60.1-0.8-1.6
Parametrial fat weight0.81.94.71.50.22.20.8
Pavlov. Cond. lever latency0.81.01.31.21.11.10.6
Pavlov. Cond. magazine entry latency1.62.14.7-1.5-2.2-0.7-0.9
Pavlov. Cond. change in total contacts0.60.61.0-1.0-0.9-0.8-0.1
Pavlov. Cond. index score1.21.53.1-1.3-1.8-0.8-0.6
Pavlov. Cond. latency score1.11.43.0-1.3-1.7-0.8-0.6
Pavlov. Cond. lever contacts0.50.61.0-0.8-1.0-0.8-0.3
Pavlov. Cond. magazine entry number1.72.25.11.52.20.80.8
Pavlov. Cond. intertrial magazine entries1.41.73.21.41.81.00.9
Pavlov. Cond. lever-magazine prob. diff.1.01.32.3-1.3-1.5-0.9-0.6
Pavlov. Cond. response bias0.50.71.5-0.8-1.2-0.6-0.3
Pavlov. Cond. lever latency17.323.532.55.75.43.94.1
Pavlov. Cond. magazine entry latency5.16.19.4-3.1-2.3-2.6-1.8
Pavlov. Cond. change in total contacts9.114.620.3-4.5-4.5-2.8-3.2
Pavlov. Cond. index score12.717.024.6-5.0-4.6-3.4-3.3
Pavlov. Cond. latency score11.715.522.4-4.7-4.2-3.4-3.2
Pavlov. Cond. lever contacts15.421.329.6-5.4-5.2-3.6-3.9
Pavlov. Cond. magazine entry number7.28.814.93.92.83.21.6
Pavlov. Cond. intertrial magazine entries0.71.02.70.9-0.81.60.0
Pavlov. Cond. lever-magazine prob. diff.11.815.722.8-4.8-4.4-3.3-3.1
Pavlov. Cond. response bias16.121.931.2-5.6-5.2-3.9-3.7
Time in closed arm before self-admin0.91.11.8-0.9-0.3-1.4-1.4
Time in closed arm after self-admin0.70.71.50.11.2-1.10.4
Time in open arm before self-admin2.02.22.91.71.51.31.4
Time in open arm after self-admin0.50.51.40.1-0.81.20.0
Bone: periosteal estimation0.61.23.3-0.8-1.80.40.7
Bone: periosteal perimeter0.71.23.5-1.0-1.90.0-0.3
Bone: post-yield work0.10.20.5-0.2-0.70.1-0.4
Progressive ratio test 1 active lever presses0.10.20.5-0.20.3-0.7-0.2
Progressive ratio test 1 breakpoint0.10.20.5-0.20.3-0.7-0.1
Progressive ratio test 1 inactive lever presses0.20.30.80.50.9-0.4-0.1
Progressive ratio test 2 active lever presses0.80.91.4-1.2-1.1-1.0-0.2
Progressive ratio test 2 breakpoint0.81.01.5-1.2-1.1-1.1-0.1
Progressive ratio test 2 inactive lever presses0.20.30.6-0.6-0.5-0.8-0.2
Incentive Sensitization - Responses1.21.72.8-1.4-1.7-1.3-0.5
Incentive Sensitization - Breakpoint1.21.62.5-1.4-1.6-1.3-0.5
Sum of active levers in priming session hrs 5-60.20.20.7-0.10.0-0.3-0.9
Progressive ratio0.30.51.1-1.0-0.1-1.1-0.1
Food seeking constrained by brief footshock1.61.93.4-1.3-1.8-0.0-1.6
Seeking ratio, punishment vs. effort0.60.91.60.1-1.31.0-0.9
Retroperitoneal fat weight4.519.139.24.40.96.34.1
Reaction time number correct0.40.82.7-0.20.3-0.4-1.6
Reaction time mean minus median0.41.12.6-0.9-1.6-0.4-0.8
Reaction time mean minus median AUC0.61.52.4-1.1-1.5-0.7-1.3
Reaction time num false alarms3.04.25.62.01.91.92.4
Reaction time num false alarms AUC1.32.13.01.41.61.01.7
Reaction time trials correct on left0.40.82.7-0.20.3-0.4-1.6
Reaction time trials on left0.40.82.8-0.30.3-0.5-1.7
Reaction time mean0.20.30.30.60.20.60.6
Reaction time mean AUC0.30.40.60.70.60.50.8
Median of all reaction times0.40.60.70.80.80.60.8
Reaction time omissions0.10.20.5-0.3-0.7-0.10.3
Reaction time false alarm rate2.23.06.51.41.51.22.5
Reaction time premature initiation rate1.01.34.0-0.1-2.01.20.1
Reaction time premature initiations0.61.13.1-0.3-1.80.6-0.9
Std. dev. reaction times0.20.31.2-0.3-1.10.30.1
Reaction time trials completed0.40.82.8-0.30.3-0.5-1.7
Reaction time trials AUC0.40.72.6-0.20.1-0.3-1.6
Run reversals in cocaine runway, females1.91.93.61.1-0.21.71.9
Run reversals in cocaine runway, males0.50.51.2-0.7-0.3-1.10.1
Latency to leave start box in cocaine runway2.52.94.61.92.21.51.1
Latency to leave start box in cocaine runway, F2.73.14.12.01.61.91.5
Latency to leave start box in cocaine runway, M0.50.41.50.21.2-0.3-0.3
Std. dev. time between licks in bursts0.50.71.2-0.0-1.11.0-0.7
Total sessions with >9 infusions1.82.12.8-1.7-1.3-1.6-1.2
Short access day 1 total inactive lever presses0.30.40.9-0.7-0.1-0.9-0.2
Short access day 10 total inactive lever presses0.61.52.61.61.60.80.5
Short access day 1 total infusions2.43.24.5-2.0-2.1-1.5-1.4
Short access day 10 total infusions0.81.01.8-1.3-0.9-1.1-0.5
Short access total infusions1.92.43.5-1.9-1.3-1.8-1.1
Short access day 1 locomotion3.44.36.1-2.3-1.5-2.5-1.8
Short access day 10 total locomotion0.91.72.2-1.5-1.2-1.4-1.1
Short access total locomotion1.21.42.4-1.1-0.6-1.6-1.3
One hour access (0.3 mA shock)0.80.91.4-1.2-1.1-0.9-0.6
Compulsive drug intake0.20.30.70.50.8-0.2-0.3
One hour access (shock baseline)1.42.13.3-1.8-1.3-1.6-1.0
Social response proportion0.91.01.91.40.81.30.2
Social responses1.52.03.31.60.71.81.2
Social time2.33.15.52.02.41.21.2
Soleus weight0.92.55.01.5-0.22.21.7
Bone: stiffness0.30.41.00.60.30.61.0
Tibialis anterior weight0.10.30.70.2-0.70.80.0
Time to tail flick, vehicle, before self-admin0.10.10.30.2-0.3-0.30.6
Time to tail flick, vehicle, after self-admin1.01.31.7-1.2-1.3-1.1-0.9
Time to tail flick, test, before self-admin1.01.02.5-0.2-0.91.60.9
Time to tail flick, test, after self-admin0.20.20.4-0.1-0.50.40.6
Delta time to tail flick, vehicle, before/after SA1.51.41.9-1.4-1.0-1.0-1.4
Delta time to tail flick, test, before/after SA0.40.40.80.60.9-0.5-0.4
Tibia length1.02.83.7-1.9-1.6-1.5-1.7
Ambulatory time before self-admin0.20.40.90.50.9-0.00.6
Ambulatory time after self-admin0.60.71.90.31.4-0.4-0.7
Bone: tissue strength0.30.30.50.70.70.0-0.2
Total heroin consumption0.10.10.20.20.40.40.0
Bone: trabecular number0.71.11.61.11.20.31.3
Bone: trabecular spacing1.41.83.0-1.4-1.2-1.0-1.7
Bone: trabecular thickness0.91.12.11.00.51.11.4
Bone: trabecular tissue density1.82.65.31.90.92.30.9
Water consumed over 24 hours0.40.61.01.00.90.60.5
Number of responses in last shaping day2.73.04.51.80.72.11.9