Khdc3

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 Khdc3 0.06 0.04 1.8e-05 0.03 0.05 0.01 0.03 2.0e-04 6.0e-06 6.8e-03 1.3e-04
2 Brain gene expression Khdc3 0.05 0.03 4.3e-05 0.05 0.05 0.04 0.04 3.9e-05 2.3e-05 6.5e-05 6.1e-05
3 BLA gene expression Khdc3 0.12 0.06 5.7e-06 0.08 0.09 0.08 0.08 4.0e-05 1.8e-05 4.8e-05 4.1e-05
4 PL gene expression Khdc3 0.1 0.05 3.3e-10 0.07 0.08 0.08 0.09 1.9e-08 2.7e-09 1.5e-09 1.4e-09

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 density0.10.20.3-0.5-0.4-0.5-0.5
Area under the delay curve0.00.10.1-0.10.20.1-0.4
BMI with tail6.019.524.73.44.95.04.2
BMI without tail1.94.06.50.62.02.32.5
Body weight3.012.516.82.74.14.03.2
Weight adjusted by age5.76.47.42.22.52.72.7
Bone surface0.20.30.40.30.60.60.6
Bone volume0.20.30.40.40.70.60.5
Breakpoint value in progressive ratio session0.00.00.1-0.30.10.10.0
Number of licking bursts2.12.43.4-1.3-1.8-1.7-1.4
Context. condit. distance diff. score0.10.10.40.2-0.2-0.2-0.6
Locomotion velocity, session 11.21.32.50.90.91.01.6
Locomotion distance, session 10.20.30.5-0.7-0.7-0.6-0.0
Locomotion velocity, session 20.20.20.7-0.9-0.00.10.4
Locomotion distance, session 20.30.50.9-1.00.20.40.9
Locomotion velocity, session 30.30.30.8-0.9-0.3-0.10.7
Locomotion distance, session 33.03.34.2-2.1-1.9-1.8-1.3
Stereotopy head waving bouts, day 31.61.93.82.01.11.11.0
Stereotopy head waving duration, day 32.63.15.22.31.61.61.5
Locomotion velocity, session 70.80.91.0-1.0-1.0-1.0-0.9
Locomotion distance, session 71.41.72.5-1.6-1.4-1.3-0.9
Stereotopy head waving bouts, day 71.01.11.90.80.91.01.4
Stereotopy head waving duration, day 71.11.32.40.81.01.11.5
Locomotion velocity, session 80.30.30.7-0.40.40.50.8
Locomotion distance, session 80.50.82.1-1.4-0.7-0.6-0.3
Degree of sensitization distance0.00.00.0-0.1-0.1-0.1-0.1
Degree of sensitization stereotypy0.80.81.50.40.81.01.2
Conditioned locomotion0.10.10.1-0.10.40.4-0.2
Cocaine response after cond. corrected6.47.18.62.92.72.62.4
Cocaine response after cond. not corrected5.05.58.22.92.32.21.9
Cocaine response before conditioning1.11.31.7-1.0-1.1-1.1-1.3
Saline control response0.10.20.60.80.00.10.3
Bone: connectivity density1.62.53.6-1.9-1.6-1.6-1.1
Bone: cortical apparent density0.40.50.7-0.2-0.8-0.8-0.8
Bone: cortical area1.21.74.42.11.21.00.4
Bone: cortical porosity0.60.71.3-0.5-0.7-0.8-1.2
Bone: cortical porosity1.51.62.8-1.0-1.1-1.2-1.7
Bone: cortical thickness0.30.61.00.8-0.5-0.6-1.0
Bone: cortical thickness0.30.30.60.8-0.3-0.4-0.7
Bone: cortical tissue density0.40.60.8-0.3-0.9-0.9-0.8
Condit. Reinf. active minus inactive responses1.61.74.0-2.0-0.9-0.9-1.1
Condit. Reinf. active-inactive response ratio0.50.61.7-0.1-0.4-0.7-1.3
Condit. Reinf. active responses1.41.76.0-2.4-0.7-0.6-0.3
Condit. Reinf. inactive responses1.21.54.9-2.2-0.5-0.10.9
Incentive salience index mean1.01.23.1-1.8-0.6-0.6-1.0
Condit. Reinf. lever presses0.40.61.7-1.3-0.3-0.3-0.7
Condit. Reinf. active minus inactive responses2.02.43.11.21.81.81.5
Condit. Reinf. active-inactive response ratio2.32.42.91.71.71.61.1
Condit. Reinf. active responses0.81.21.80.51.31.31.0
Condit. Reinf. inactive responses0.81.02.5-1.6-0.8-0.7-0.6
Condit. Reinf. lever presses0.20.30.70.5-0.4-0.5-0.8
Condit. Reinf. lever reinforcers received0.60.81.30.51.11.10.7
Conditioned reinforcement - actives0.00.00.2-0.00.10.10.4
Conditioned reinforcement - inactives0.10.10.20.30.10.10.4
Conditioned locomotion0.20.30.8-0.4-0.3-0.4-0.9
Patch foraging indifference point 0 sec0.10.10.30.30.30.30.6
Patch foraging indifference point AUC1.82.15.0-2.2-1.2-1.0-0.8
Delay disc. indifference point, 0s delay1.71.93.9-2.0-1.1-1.1-1.1
Delay disc. indifference point, 16s delay0.10.10.50.2-0.0-0.2-0.7
Delay disc. indifference point, 2s delay0.10.10.1-0.2-0.3-0.4-0.3
Delay disc. indifference point, 24s delay0.10.10.3-0.3-0.3-0.3-0.5
Delay disc. indifference point, 4s delay0.40.40.9-0.6-0.4-0.5-0.9
Delay disc. indifference point, 8s delay0.30.30.50.10.70.70.4
Indifference point function ln k2.53.57.12.71.71.51.4
Indifference point function log k2.53.57.12.71.71.51.4
Patch foraging total patch changes 0 sec0.20.30.60.50.50.50.7
Patch foraging total patch changes 12 sec0.70.91.9-1.4-0.9-0.7-0.5
Patch foraging total patch changes 18 sec0.00.10.1-0.2-0.3-0.3-0.1
Patch foraging total patch changes 24 sec0.60.72.0-1.4-0.7-0.60.0
Patch foraging total patch changes 6 sec0.50.72.6-1.6-0.4-0.20.2
Patch foraging time to switch 0 sec0.71.01.8-0.7-0.9-1.0-1.3
Patch foraging water rate 0 sec2.23.53.91.91.91.82.0
Patch foraging water rate 12 sec3.45.27.71.92.12.22.8
Patch foraging water rate 18 sec0.40.50.90.60.60.60.9
Patch foraging water rate 24 sec0.10.20.3-0.4-0.5-0.40.1
Patch foraging water rate 6 sec0.40.61.10.80.70.61.1
Seeking ratio, delayed vs. immediate footshock1.31.52.10.71.41.41.4
Distance traveled before self-admin0.10.10.20.50.40.2-0.0
Distance traveled after self-admin3.23.56.12.51.81.61.5
Extensor digitorum longus weight6.625.932.53.45.75.75.2
Bone: elastic displacement0.00.00.00.10.20.20.1
Bone: elastic work0.10.10.20.30.1-0.0-0.4
Bone: endosteal estimation2.86.27.22.22.72.62.4
Bone: endosteal perimeter3.57.39.22.23.03.02.5
Epididymis fat weight0.41.02.7-1.6-0.8-0.7-0.1
Delta time in closed arm before/after self-admin0.20.20.80.90.30.3-0.0
Delta time in open arm before/after self-admin1.11.01.7-0.8-1.3-1.2-0.7
Diff in mean of infusions in LGA sessions0.70.81.30.61.11.10.5
Delay discount exponential model param0.00.00.10.1-0.3-0.10.2
Extinction: sum of active levers before priming0.50.51.0-0.4-1.0-0.9-0.5
Active lever presses in extinction session 60.00.00.1-0.2-0.0-0.10.1
Bone: final force1.11.82.31.51.51.40.9
Bone: final moment1.01.52.51.61.41.20.6
Food consumed during 24 hour testing period2.32.86.42.51.31.21.3
Glucose0.71.11.41.21.00.91.1
Heart weight0.20.30.5-0.20.70.70.4
Delay discount hyperbolic model param0.00.00.10.1-0.1-0.00.3
Intermittent access intake day 1-15 change0.20.20.2-0.4-0.5-0.30.5
Intermittent access intake escalation0.20.20.2-0.3-0.5-0.40.4
Intermittent access intake escalation 20.10.10.40.20.20.20.6
Intermitt. access day 1 inactive lever presses0.40.41.51.2-0.2-0.2-0.4
Intermitt. access day 15 inactive lever presses0.10.10.2-0.1-0.3-0.2-0.5
Intermitt. access escalation Index0.40.40.70.20.80.70.4
Intermittent access day 1 total infusions0.30.40.50.6-0.5-0.7-0.7
Intermittent access day 15 total infusions0.30.40.7-0.0-0.8-0.9-0.5
Intermittent access terminal intake (last 3 days)0.20.30.40.3-0.4-0.6-0.7
Intermittent access total infusions0.30.30.80.9-0.4-0.5-0.2
Intermittent access day 1 locomotion0.70.81.20.2-0.9-1.0-1.1
Intermittent access day 15 total locomotion0.40.50.80.5-0.5-0.7-0.9
Intermittent access total locomotion0.20.20.90.9-0.0-0.10.0
Intermittent access standard deviation0.20.30.4-0.0-0.6-0.7-0.4
Left kidney weight2.26.16.92.32.62.62.4
Right kidney weight1.02.83.61.01.91.91.7
Cocaine induced anxiety0.50.51.4-1.2-0.6-0.4-0.5
Post-drug Anxiety3.23.66.6-2.6-1.8-1.6-1.4
Baseline Anxiety1.21.31.9-1.4-1.1-1.2-0.8
Tail length0.41.12.3-1.5-1.1-0.9-0.3
Length with tail0.00.20.30.30.60.40.3
Length without tail2.24.77.52.72.42.11.1
Times rat made contact with spout0.10.10.40.7-0.2-0.1-0.0
Lifetime Intake0.30.30.50.5-0.6-0.7-0.4
Liver weight, left1.32.12.91.51.21.31.7
Liver weight, right2.03.34.81.21.81.92.2
Locomotor activity4.87.68.52.72.92.92.6
Locomotor testing distance3.25.36.02.52.32.32.2
Locomotor testing rearing0.81.21.50.91.11.11.2
Locomotion in novel chamber0.40.50.90.6-0.6-0.7-0.9
Locomotion in novel chamber post-restriction0.30.40.5-0.7-0.4-0.5-0.7
Fecal boli incidents, locomotor time 10.50.51.0-1.0-0.6-0.5-0.8
Change in fecal boli incidents, locomotor task3.93.78.02.81.71.41.5
Time >=10cm from walls, locomotor time 10.70.71.00.71.01.00.6
Bouts of movement, locomotor time 10.10.10.20.10.30.40.3
Total resting periods, locomotor time 10.00.00.10.10.10.20.2
Rest time, locomotor task time 10.20.20.40.4-0.3-0.3-0.6
Distance moved, locomotor task time 10.30.31.0-1.0-0.3-0.30.1
Vertical activity count, locomotor time 10.30.30.9-0.9-0.3-0.3-0.3
Time >=10cm from walls, locomotor time 20.10.10.10.40.20.20.1
Bouts of movement, locomotor time 20.60.61.4-0.10.70.81.2
Total resting periods, locomotor time 20.70.71.50.10.70.91.2
Rest time, locomotor task time 20.20.30.40.6-0.4-0.4-0.6
Distance moved, locomotor task time 20.40.41.5-1.2-0.2-0.10.3
Vertical activity count, locomotor time 21.11.21.9-1.4-1.1-1.1-0.7
Light reinforcement 11.52.73.60.81.91.91.7
Light reinforcement 20.50.61.41.2-0.3-0.6-0.8
Bone: marrow area3.16.67.72.42.82.72.4
Bone: maximum diameter3.56.58.12.82.62.52.1
Bone: maximum force1.11.82.61.31.61.50.9
Bone: maximum moment1.01.72.31.51.51.30.7
Mean time between licks in bursts0.81.21.5-0.7-1.1-1.2-1.2
Mean num. licks in bursts2.63.14.12.01.81.71.5
Cd content in liver0.91.03.3-1.8-0.6-0.5-0.4
Co content in liver0.30.30.7-0.8-0.3-0.3-0.7
Cu content in liver0.30.30.60.20.80.70.3
Fe content in liver1.01.22.0-1.4-1.2-1.0-0.5
K content in liver0.70.71.00.51.01.00.8
Mg content in liver2.42.53.31.11.81.81.5
Mn content in liver0.91.02.71.60.80.7-0.0
Na content in liver1.31.41.61.01.21.31.3
Rb content in liver1.72.13.30.61.51.61.8
Se content in liver0.50.60.9-0.7-0.9-0.9-0.7
Sr content in liver0.90.91.4-1.2-0.8-0.8-0.9
Zn content in liver0.20.20.8-0.0-0.2-0.3-0.9
Bone: minimum diameter0.40.71.51.20.90.7-0.0
Time in familiar zone, hab. session 10.00.00.1-0.2-0.0-0.0-0.3
Time in novel zone, hab. session 10.00.00.10.2-0.2-0.2-0.0
Total zone transitions, hab. session 10.91.22.9-1.7-1.1-0.9-0.1
Total locomotion distance, hab. session 10.40.51.5-1.2-0.6-0.40.3
Locomotion velocity, hab. session 10.20.20.6-0.8-0.2-0.00.6
Time in familiar zone, hab. session 20.10.10.2-0.2-0.4-0.4-0.1
Time in novel zone, hab. session 20.50.51.21.10.60.50.2
Total zone transitions, hab. session 20.81.03.8-1.9-0.5-0.20.1
Total locomotion distance, hab. session 20.50.72.5-1.6-0.10.10.3
Locomotion velocity, hab. session 20.40.62.2-1.5-0.20.00.2
Novel to familiar place preference ratio1.01.01.60.71.31.20.8
Novelty place preference1.31.32.00.91.41.30.9
Time in novel zone, NPP test1.91.92.51.31.61.51.1
Total zone transitions, NPP test0.20.31.1-1.1-0.20.00.4
Total locomotion distance, NPP test0.30.41.1-1.1-0.00.20.8
Locomotion velocity, NPP test0.60.82.8-1.7-0.5-0.20.5
Intraocular pressure0.10.10.3-0.6-0.3-0.2-0.1
Delta distance traveled before/after self-admin4.04.37.02.61.91.81.9
Delta ambulatory time before/after self-admin3.03.36.42.51.61.41.4
Parametrial fat weight0.51.01.6-1.0-1.3-1.2-0.4
Pavlov. Cond. lever latency0.81.03.61.90.50.40.5
Pavlov. Cond. magazine entry latency4.55.89.8-3.1-1.7-1.8-2.6
Pavlov. Cond. change in total contacts1.01.12.7-1.6-0.6-0.6-1.0
Pavlov. Cond. index score3.74.79.4-3.1-1.7-1.6-2.0
Pavlov. Cond. latency score3.03.98.3-2.9-1.5-1.4-1.7
Pavlov. Cond. lever contacts1.21.43.5-1.9-0.7-0.7-0.9
Pavlov. Cond. magazine entry number4.65.89.73.11.81.92.6
Pavlov. Cond. intertrial magazine entries0.20.30.9-0.4-0.00.20.9
Pavlov. Cond. lever-magazine prob. diff.3.34.18.6-2.9-1.5-1.5-1.9
Pavlov. Cond. response bias2.93.56.9-2.6-1.3-1.3-2.0
Pavlov. Cond. lever latency0.81.11.41.10.90.91.2
Pavlov. Cond. magazine entry latency4.34.95.9-1.7-2.4-2.4-2.3
Pavlov. Cond. change in total contacts1.21.61.8-1.3-1.3-1.2-1.3
Pavlov. Cond. index score1.92.52.6-1.5-1.6-1.6-1.6
Pavlov. Cond. latency score1.31.61.9-1.1-1.4-1.3-1.4
Pavlov. Cond. lever contacts0.50.71.0-0.8-0.8-0.7-1.0
Pavlov. Cond. magazine entry number3.64.45.11.82.32.22.1
Pavlov. Cond. intertrial magazine entries0.91.21.41.11.11.11.2
Pavlov. Cond. lever-magazine prob. diff.2.33.03.1-1.6-1.8-1.7-1.8
Pavlov. Cond. response bias2.12.93.4-1.8-1.6-1.6-1.8
Time in closed arm before self-admin0.20.20.5-0.7-0.2-0.3-0.5
Time in closed arm after self-admin0.00.00.00.20.20.10.2
Time in open arm before self-admin2.12.33.51.91.51.41.2
Time in open arm after self-admin0.20.20.70.90.10.10.2
Bone: periosteal estimation2.95.97.02.62.62.42.0
Bone: periosteal perimeter2.94.85.72.12.42.32.0
Bone: post-yield work0.10.20.3-0.20.40.50.5
Progressive ratio test 1 active lever presses0.40.41.01.00.50.40.6
Progressive ratio test 1 breakpoint0.20.20.70.90.20.10.2
Progressive ratio test 1 inactive lever presses0.30.40.60.8-0.6-0.7-0.1
Progressive ratio test 2 active lever presses0.60.60.80.70.90.70.9
Progressive ratio test 2 breakpoint0.80.91.11.01.00.81.0
Progressive ratio test 2 inactive lever presses0.20.30.30.4-0.5-0.6-0.6
Incentive Sensitization - Responses1.31.31.90.81.41.21.1
Incentive Sensitization - Breakpoint0.90.91.50.51.21.00.9
Sum of active levers in priming session hrs 5-60.30.30.60.80.50.50.4
Progressive ratio0.60.61.4-0.8-0.4-0.5-1.2
Food seeking constrained by brief footshock0.60.81.80.40.70.81.4
Seeking ratio, punishment vs. effort2.93.56.81.31.61.82.6
Retroperitoneal fat weight0.10.30.8-0.9-0.4-0.20.2
Reaction time number correct1.42.13.20.81.41.61.8
Reaction time mean minus median0.30.30.5-0.2-0.7-0.7-0.6
Reaction time mean minus median AUC0.70.91.4-0.5-1.2-1.1-0.8
Reaction time num false alarms0.20.20.4-0.4-0.6-0.5-0.2
Reaction time num false alarms AUC0.00.00.2-0.0-0.2-0.00.4
Reaction time trials correct on left1.42.13.20.81.41.61.8
Reaction time trials on left1.42.03.20.71.41.51.8
Reaction time mean2.33.34.2-0.9-2.0-2.1-2.1
Reaction time mean AUC2.43.24.2-1.0-1.9-2.0-2.0
Median of all reaction times3.04.15.4-1.1-2.1-2.3-2.3
Reaction time omissions0.10.10.2-0.5-0.2-0.20.0
Reaction time false alarm rate0.60.81.2-0.5-1.1-1.1-0.8
Reaction time premature initiation rate0.71.01.30.71.01.11.1
Reaction time premature initiations1.92.73.61.01.71.91.9
Std. dev. reaction times1.52.12.7-1.0-1.6-1.7-1.4
Reaction time trials completed1.42.03.20.71.41.51.8
Reaction time trials AUC1.31.82.90.71.31.51.7
Run reversals in cocaine runway, females0.20.20.50.70.10.20.5
Run reversals in cocaine runway, males0.50.41.2-1.10.00.20.7
Latency to leave start box in cocaine runway1.41.51.90.91.41.41.3
Latency to leave start box in cocaine runway, F0.20.30.5-0.00.50.60.7
Latency to leave start box in cocaine runway, M2.01.92.51.11.61.51.3
Std. dev. time between licks in bursts0.10.10.5-0.70.10.1-0.2
Total sessions with >9 infusions0.50.61.61.30.40.40.6
Short access day 1 total inactive lever presses1.51.74.22.10.80.81.1
Short access day 10 total inactive lever presses0.20.30.50.4-0.7-0.6-0.3
Short access day 1 total infusions0.10.10.30.5-0.2-0.2-0.2
Short access day 10 total infusions0.30.30.50.4-0.6-0.7-0.6
Short access total infusions0.50.50.80.5-0.8-0.9-0.7
Short access day 1 locomotion0.20.20.40.60.40.30.4
Short access day 10 total locomotion0.60.72.31.50.30.40.3
Short access total locomotion0.40.40.60.8-0.6-0.6-0.5
One hour access (0.3 mA shock)0.20.20.60.80.50.20.1
Compulsive drug intake0.70.71.61.20.70.60.4
One hour access (shock baseline)0.20.20.4-0.2-0.5-0.6-0.5
Social response proportion0.80.91.61.21.00.90.2
Social responses0.10.10.20.10.40.40.3
Social time0.50.61.11.10.60.60.8
Soleus weight13.840.448.94.57.07.06.6
Bone: stiffness1.52.43.01.21.61.61.7
Tibialis anterior weight13.947.453.66.17.37.26.9
Time to tail flick, vehicle, before self-admin1.31.34.0-2.0-0.9-0.6-0.3
Time to tail flick, vehicle, after self-admin1.51.63.92.01.10.90.6
Time to tail flick, test, before self-admin1.91.83.6-1.9-0.9-1.1-1.3
Time to tail flick, test, after self-admin1.31.41.9-1.0-1.3-1.4-0.9
Delta time to tail flick, vehicle, before/after SA1.71.75.62.40.90.50.1
Delta time to tail flick, test, before/after SA0.60.51.91.40.10.10.5
Tibia length0.31.03.01.70.70.5-0.4
Ambulatory time before self-admin0.20.20.4-0.2-0.4-0.5-0.7
Ambulatory time after self-admin2.93.27.22.71.61.31.2
Bone: tissue strength0.70.71.0-0.2-0.9-1.0-1.0
Total heroin consumption1.01.11.70.21.11.31.3
Bone: trabecular number1.01.62.2-1.5-1.2-1.2-1.1
Bone: trabecular spacing0.10.10.1-0.4-0.3-0.2-0.2
Bone: trabecular thickness0.50.61.91.40.60.50.3
Bone: trabecular tissue density9.212.916.44.13.73.53.0
Water consumed over 24 hours0.10.20.30.5-0.3-0.4-0.5
Number of responses in last shaping day0.30.31.01.00.10.30.2