Hub : Genes

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 BLA gene expression Gdpd4 0.21 0.13 5.9e-03 0.05 0.03 0.04 0.04 7.4e-04 1.3e-02 3.0e-03 3.8e-03
2 Liver alternative polyA XM_006229796.4 0.14 0.07 3.0e-10 0.07 0.05 0.06 0.06 5.7e-08 1.8e-06 1.0e-07 5.0e-07
3 Liver gene expression Gdpd4 0.47 0.13 1.2e-15 0.1 0.13 0.12 0.11 2.0e-11 7.7e-14 1.5e-13 8.1e-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
Bone: apparent density0.00.00.1-0.2-0.10.2
Area under the delay curve0.10.10.2-0.00.4-0.0
BMI with tail0.51.83.4-0.2-1.81.4
BMI without tail1.53.16.41.1-2.51.3
Body weight0.62.64.90.9-2.21.4
Weight adjusted by age0.70.81.61.3-0.70.6
Bone surface0.71.32.71.61.0-0.5
Bone volume0.30.41.21.10.30.1
Breakpoint value in progressive ratio session0.40.51.1-1.0-0.20.5
Number of licking bursts4.14.85.5-2.0-2.42.2
Context. condit. distance diff. score1.11.32.11.41.2-0.5
Locomotion velocity, session 10.40.40.8-0.40.9-0.5
Locomotion distance, session 10.60.81.30.41.1-1.0
Locomotion velocity, session 20.20.30.50.20.7-0.6
Locomotion distance, session 20.40.61.00.40.7-1.0
Locomotion velocity, session 30.20.20.30.40.6-0.5
Locomotion distance, session 30.60.71.50.41.2-0.6
Stereotopy head waving bouts, day 30.20.30.4-0.5-0.6-0.4
Stereotopy head waving duration, day 30.70.81.50.60.7-1.2
Locomotion velocity, session 70.50.60.9-0.7-0.51.0
Locomotion distance, session 70.70.81.90.2-0.71.4
Stereotopy head waving bouts, day 72.22.54.20.61.7-2.0
Stereotopy head waving duration, day 72.63.24.61.31.8-2.1
Locomotion velocity, session 81.31.52.31.51.5-0.4
Locomotion distance, session 81.11.62.11.31.4-1.1
Degree of sensitization distance1.31.32.30.4-1.51.3
Degree of sensitization stereotypy4.34.76.61.22.6-2.4
Conditioned locomotion0.10.10.2-0.40.4-0.3
Cocaine response after cond. corrected1.82.13.4-1.0-1.31.8
Cocaine response after cond. not corrected0.40.40.8-0.6-0.50.9
Cocaine response before conditioning2.12.54.50.71.6-2.1
Saline control response1.31.72.61.61.0-1.3
Bone: connectivity density0.20.30.60.30.8-0.4
Bone: cortical apparent density0.81.01.2-0.8-1.11.1
Bone: cortical area0.50.71.51.2-0.40.7
Bone: cortical porosity1.71.83.20.61.4-1.8
Bone: cortical porosity1.51.63.20.31.3-1.8
Bone: cortical thickness0.50.81.3-0.3-1.01.1
Bone: cortical thickness0.10.10.40.1-0.10.6
Bone: cortical tissue density0.70.91.1-0.9-1.01.0
Condit. Reinf. active minus inactive responses0.60.71.00.5-1.00.9
Condit. Reinf. active-inactive response ratio0.50.61.21.1-0.60.4
Condit. Reinf. active responses0.40.51.00.0-1.00.8
Condit. Reinf. inactive responses0.20.20.4-0.6-0.40.3
Incentive salience index mean0.50.61.00.3-0.91.0
Condit. Reinf. lever presses0.10.10.2-0.2-0.10.5
Condit. Reinf. active minus inactive responses4.04.911.03.31.4-1.3
Condit. Reinf. active-inactive response ratio0.40.41.11.00.40.2
Condit. Reinf. active responses5.88.017.64.21.7-1.9
Condit. Reinf. inactive responses4.75.810.23.21.5-2.3
Condit. Reinf. lever presses16.722.730.15.54.5-4.2
Condit. Reinf. lever reinforcers received6.59.118.94.42.0-2.1
Conditioned reinforcement - actives2.32.33.71.01.9-1.5
Conditioned reinforcement - inactives0.10.10.2-0.4-0.00.2
Conditioned locomotion1.92.33.71.01.9-1.5
Patch foraging indifference point 0 sec4.36.98.12.82.4-2.6
Patch foraging indifference point AUC0.10.10.20.3-0.30.4
Delay disc. indifference point, 0s delay0.50.50.80.90.6-0.6
Delay disc. indifference point, 16s delay0.20.20.3-0.50.6-0.2
Delay disc. indifference point, 2s delay1.31.51.81.31.2-1.1
Delay disc. indifference point, 24s delay1.21.21.7-1.3-0.71.2
Delay disc. indifference point, 4s delay0.40.41.11.00.4-0.2
Delay disc. indifference point, 8s delay0.20.20.50.20.7-0.2
Indifference point function ln k1.92.73.90.91.8-2.0
Indifference point function log k1.92.73.90.91.8-2.0
Patch foraging total patch changes 0 sec3.55.66.42.52.3-2.3
Patch foraging total patch changes 12 sec0.50.61.71.30.2-0.3
Patch foraging total patch changes 18 sec1.21.63.51.90.8-0.8
Patch foraging total patch changes 24 sec0.20.30.70.90.3-0.3
Patch foraging total patch changes 6 sec0.91.31.41.21.1-1.2
Patch foraging time to switch 0 sec2.94.57.1-2.7-1.91.6
Patch foraging water rate 0 sec2.74.35.32.32.0-1.9
Patch foraging water rate 12 sec2.43.73.92.02.0-1.8
Patch foraging water rate 18 sec0.50.61.11.10.8-0.5
Patch foraging water rate 24 sec1.01.42.50.71.6-1.1
Patch foraging water rate 6 sec0.81.21.80.61.3-1.2
Seeking ratio, delayed vs. immediate footshock1.92.13.1-1.4-1.21.8
Distance traveled before self-admin0.20.20.4-0.4-0.40.6
Distance traveled after self-admin0.50.61.7-1.3-0.10.0
Extensor digitorum longus weight0.41.62.80.1-1.41.7
Bone: elastic displacement1.21.41.6-1.3-0.91.3
Bone: elastic work1.31.63.6-1.9-0.51.1
Bone: endosteal estimation0.51.03.11.80.2-0.1
Bone: endosteal perimeter1.02.14.92.21.0-0.7
Epididymis fat weight1.94.37.8-0.4-2.82.3
Delta time in closed arm before/after self-admin1.51.52.4-0.1-1.41.6
Delta time in open arm before/after self-admin1.61.52.21.51.1-1.1
Diff in mean of infusions in LGA sessions3.94.34.9-2.2-2.11.9
Delay discount exponential model param0.10.10.20.1-0.50.0
Extinction: sum of active levers before priming0.20.20.3-0.3-0.50.6
Active lever presses in extinction session 64.94.87.40.92.5-2.7
Bone: final force0.10.10.20.4-0.00.5
Bone: final moment0.10.20.40.60.10.3
Food consumed during 24 hour testing period4.65.57.91.22.7-2.8
Glucose0.00.10.10.30.30.1
Heart weight0.60.91.21.11.0-0.6
Delay discount hyperbolic model param0.10.10.3-0.2-0.60.2
Intermittent access intake day 1-15 change2.62.63.71.21.9-1.6
Intermittent access intake escalation3.23.24.41.42.1-1.8
Intermittent access intake escalation 20.70.70.80.70.9-0.9
Intermitt. access day 1 inactive lever presses0.40.50.7-0.8-0.70.5
Intermitt. access day 15 inactive lever presses0.10.10.1-0.40.2-0.1
Intermitt. access escalation Index0.00.00.10.10.1-0.3
Intermittent access day 1 total infusions0.30.40.80.90.5-0.2
Intermittent access day 15 total infusions2.42.74.01.42.0-1.4
Intermittent access terminal intake (last 3 days)1.21.41.61.31.3-0.9
Intermittent access total infusions0.40.50.70.80.8-0.4
Intermittent access day 1 locomotion0.00.00.1-0.10.3-0.0
Intermittent access day 15 total locomotion1.71.82.11.31.5-1.3
Intermittent access total locomotion0.40.50.91.00.6-0.5
Intermittent access standard deviation0.00.00.00.00.1-0.1
Left kidney weight0.51.44.12.0-0.1-0.4
Right kidney weight0.30.71.91.4-0.1-0.5
Cocaine induced anxiety2.02.33.1-1.7-1.51.3
Post-drug Anxiety0.40.50.8-0.9-0.50.6
Baseline Anxiety2.42.52.91.71.7-1.4
Tail length1.13.49.43.1-0.8-0.2
Length with tail0.41.63.51.9-1.10.2
Length without tail0.10.30.8-0.9-0.20.4
Times rat made contact with spout0.20.30.7-0.2-0.80.3
Lifetime Intake0.70.81.01.01.0-0.6
Liver weight, left0.40.71.20.0-1.10.9
Liver weight, right2.13.56.8-0.7-2.61.8
Locomotor activity1.32.13.71.21.0-1.9
Locomotor testing distance1.62.74.72.20.9-1.6
Locomotor testing rearing0.40.71.71.3-0.6-0.2
Locomotion in novel chamber1.31.62.50.81.6-1.3
Locomotion in novel chamber post-restriction4.04.97.81.42.8-2.2
Fecal boli incidents, locomotor time 11.01.11.51.11.2-0.7
Change in fecal boli incidents, locomotor task0.90.92.2-1.5-0.60.4
Time >=10cm from walls, locomotor time 12.22.23.10.91.8-1.6
Bouts of movement, locomotor time 10.10.10.20.40.4-0.1
Total resting periods, locomotor time 10.10.10.20.00.5-0.1
Rest time, locomotor task time 10.30.40.8-0.90.5-0.0
Distance moved, locomotor task time 10.70.81.61.3-0.70.4
Vertical activity count, locomotor time 10.50.61.61.3-0.30.1
Time >=10cm from walls, locomotor time 20.80.81.31.10.8-0.7
Bouts of movement, locomotor time 20.90.91.41.20.7-1.0
Total resting periods, locomotor time 20.60.61.01.00.6-0.8
Rest time, locomotor task time 21.11.21.7-1.3-1.00.9
Distance moved, locomotor task time 21.41.63.81.90.7-0.7
Vertical activity count, locomotor time 20.70.72.11.5-0.10.1
Light reinforcement 11.52.73.3-1.6-1.81.5
Light reinforcement 20.10.20.3-0.20.3-0.6
Bone: marrow area0.40.92.61.60.1-0.0
Bone: maximum diameter1.32.36.02.50.8-0.5
Bone: maximum force0.10.10.20.40.40.2
Bone: maximum moment0.10.20.40.60.50.0
Mean time between licks in bursts3.04.28.93.01.2-1.6
Mean num. licks in bursts3.13.73.81.91.9-1.9
Cd content in liver1.61.72.5-0.7-1.51.6
Co content in liver0.30.30.91.0-0.10.3
Cu content in liver0.40.51.31.1-0.3-0.1
Fe content in liver0.20.30.50.4-0.30.7
K content in liver0.20.20.3-0.5-0.5-0.1
Mg content in liver0.20.20.30.40.3-0.5
Mn content in liver0.91.02.6-1.6-0.40.4
Na content in liver1.61.73.30.61.2-1.8
Rb content in liver0.10.20.40.70.2-0.1
Se content in liver2.73.35.9-2.4-1.51.3
Sr content in liver0.00.00.1-0.20.30.2
Zn content in liver4.14.67.82.81.6-1.8
Bone: minimum diameter0.51.01.41.2-0.90.9
Time in familiar zone, hab. session 10.10.10.2-0.3-0.20.4
Time in novel zone, hab. session 10.20.20.40.1-0.70.5
Total zone transitions, hab. session 10.60.81.40.31.0-1.2
Total locomotion distance, hab. session 11.31.94.4-0.6-2.10.9
Locomotion velocity, hab. session 10.91.23.1-0.4-1.80.7
Time in familiar zone, hab. session 20.40.41.01.00.4-0.3
Time in novel zone, hab. session 20.10.10.2-0.4-0.00.3
Total zone transitions, hab. session 21.51.92.80.81.5-1.7
Total locomotion distance, hab. session 20.60.82.1-0.2-1.50.5
Locomotion velocity, hab. session 20.71.02.5-0.3-1.60.6
Novel to familiar place preference ratio0.20.20.30.30.4-0.5
Novelty place preference0.10.10.10.10.3-0.3
Time in novel zone, NPP test0.20.20.20.40.4-0.4
Total zone transitions, NPP test0.20.30.7-0.10.8-0.5
Total locomotion distance, NPP test1.62.23.7-1.0-1.91.4
Locomotion velocity, NPP test2.02.94.7-1.3-2.21.5
Intraocular pressure0.50.61.20.81.10.1
Delta distance traveled before/after self-admin0.50.51.2-0.10.6-1.1
Delta ambulatory time before/after self-admin0.60.71.3-0.30.8-1.2
Parametrial fat weight0.51.12.30.1-1.51.0
Pavlov. Cond. lever latency0.50.71.1-1.1-0.70.6
Pavlov. Cond. magazine entry latency1.41.84.22.00.8-0.8
Pavlov. Cond. change in total contacts0.30.30.70.80.4-0.2
Pavlov. Cond. index score1.21.53.51.90.7-0.7
Pavlov. Cond. latency score1.21.53.41.80.7-0.7
Pavlov. Cond. lever contacts0.30.30.80.90.2-0.2
Pavlov. Cond. magazine entry number1.92.45.4-2.3-1.01.0
Pavlov. Cond. intertrial magazine entries1.41.73.0-1.7-1.20.9
Pavlov. Cond. lever-magazine prob. diff.0.91.12.61.60.6-0.6
Pavlov. Cond. response bias0.30.41.11.00.1-0.2
Pavlov. Cond. lever latency16.021.627.5-5.2-4.64.0
Pavlov. Cond. magazine entry latency4.34.96.42.32.5-1.7
Pavlov. Cond. change in total contacts11.015.219.64.43.8-3.4
Pavlov. Cond. index score12.516.020.74.54.0-3.3
Pavlov. Cond. latency score11.614.517.84.23.9-3.2
Pavlov. Cond. lever contacts17.023.229.85.54.7-4.2
Pavlov. Cond. magazine entry number5.26.38.6-2.9-2.81.6
Pavlov. Cond. intertrial magazine entries0.40.50.90.7-1.0-0.0
Pavlov. Cond. lever-magazine prob. diff.11.614.819.74.43.8-3.2
Pavlov. Cond. response bias16.522.429.55.44.6-4.0
Time in closed arm before self-admin2.12.33.40.61.8-1.9
Time in closed arm after self-admin0.20.30.6-0.80.40.1
Time in open arm before self-admin3.13.44.0-1.7-2.01.9
Time in open arm after self-admin0.20.20.40.3-0.60.3
Bone: periosteal estimation0.61.23.51.90.00.3
Bone: periosteal perimeter0.91.43.51.90.7-0.6
Bone: post-yield work0.40.60.80.60.8-0.9
Progressive ratio test 1 active lever presses0.10.10.2-0.4-0.10.2
Progressive ratio test 1 breakpoint0.10.10.2-0.4-0.20.2
Progressive ratio test 1 inactive lever presses0.00.10.10.40.1-0.1
Progressive ratio test 2 active lever presses1.01.12.61.60.8-0.4
Progressive ratio test 2 breakpoint0.91.02.51.60.6-0.4
Progressive ratio test 2 inactive lever presses0.50.51.21.10.5-0.3
Incentive Sensitization - Responses2.02.04.72.21.0-0.7
Incentive Sensitization - Breakpoint2.02.04.42.11.1-0.8
Sum of active levers in priming session hrs 5-60.10.10.3-0.6-0.1-0.3
Progressive ratio0.10.10.2-0.10.50.2
Food seeking constrained by brief footshock1.62.02.51.61.1-1.5
Seeking ratio, punishment vs. effort0.81.01.61.30.2-1.2
Retroperitoneal fat weight5.819.031.4-1.7-5.64.8
Reaction time number correct0.91.32.5-0.41.1-1.6
Reaction time mean minus median1.01.32.81.70.7-0.9
Reaction time mean minus median AUC1.52.02.61.61.2-1.4
Reaction time num false alarms3.54.85.7-2.0-2.22.4
Reaction time num false alarms AUC2.02.83.1-1.7-1.51.8
Reaction time trials correct on left0.91.32.5-0.41.1-1.6
Reaction time trials on left1.01.42.6-0.41.1-1.6
Reaction time mean0.10.20.30.1-0.50.5
Reaction time mean AUC0.30.30.5-0.3-0.60.7
Median of all reaction times0.30.40.6-0.5-0.70.8
Reaction time omissions0.10.20.30.3-0.40.5
Reaction time false alarm rate3.14.36.6-1.5-2.02.6
Reaction time premature initiation rate1.01.43.61.9-0.6-0.0
Reaction time premature initiations0.81.12.51.60.2-0.9
Std. dev. reaction times0.40.61.71.3-0.2-0.0
Reaction time trials completed1.01.42.6-0.41.1-1.6
Reaction time trials AUC0.81.22.5-0.21.1-1.6
Run reversals in cocaine runway, females3.02.94.40.3-2.12.1
Run reversals in cocaine runway, males0.20.10.30.40.50.2
Latency to leave start box in cocaine runway1.81.93.9-2.0-1.10.8
Latency to leave start box in cocaine runway, F1.41.51.7-1.2-1.31.1
Latency to leave start box in cocaine runway, M0.50.51.2-1.10.2-0.4
Std. dev. time between licks in bursts0.60.71.61.3-0.0-0.7
Total sessions with >9 infusions2.22.42.81.51.7-1.5
Short access day 1 total inactive lever presses0.00.00.0-0.10.10.2
Short access day 10 total inactive lever presses0.10.20.4-0.6-0.2-0.2
Short access day 1 total infusions2.52.63.51.91.5-1.4
Short access day 10 total infusions0.20.20.60.70.4-0.0
Short access total infusions0.40.40.80.90.6-0.4
Short access day 1 locomotion2.93.15.11.12.2-1.8
Short access day 10 total locomotion0.10.20.30.60.2-0.3
Short access total locomotion0.20.20.40.10.5-0.6
One hour access (0.3 mA shock)1.11.32.41.51.0-0.7
Compulsive drug intake0.00.00.00.00.1-0.2
One hour access (shock baseline)1.11.21.51.21.1-0.9
Social response proportion0.50.60.9-1.0-0.90.1
Social responses1.31.72.9-0.9-1.71.1
Social time2.53.36.5-2.5-1.41.2
Soleus weight0.71.93.40.0-1.81.5
Bone: stiffness0.10.20.4-0.0-0.40.7
Tibialis anterior weight0.00.10.40.7-0.1-0.1
Time to tail flick, vehicle, before self-admin0.70.81.2-0.4-1.11.0
Time to tail flick, vehicle, after self-admin1.92.02.41.41.6-1.3
Time to tail flick, test, before self-admin0.30.30.50.4-0.40.7
Time to tail flick, test, after self-admin0.20.20.60.8-0.10.3
Delta time to tail flick, vehicle, before/after SA4.04.05.81.52.4-2.0
Delta time to tail flick, test, before/after SA0.10.10.2-0.40.2-0.4
Tibia length1.23.34.31.42.1-1.9
Ambulatory time before self-admin0.40.40.7-0.8-0.20.7
Ambulatory time after self-admin0.50.61.7-1.30.2-0.2
Bone: tissue strength0.40.40.7-0.80.4-0.5
Total heroin consumption0.00.00.0-0.20.2-0.1
Bone: trabecular number0.71.11.6-1.3-0.81.1
Bone: trabecular spacing1.72.22.81.31.4-1.7
Bone: trabecular thickness0.70.81.4-0.4-0.91.2
Bone: trabecular tissue density0.81.22.5-0.5-1.60.9
Water consumed over 24 hours0.81.02.1-1.4-0.80.5
Number of responses in last shaping day0.40.40.80.3-0.90.6