Ckb

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 NAcc gene expression Ckb 0.03 0.02 9.8e-04 0.02 0.02 0.02 0.02 1.7e-03 1.0e-03 1.0e-03 2.0e-03
2 PL gene expression Ckb 0.05 0.04 8.6e-06 0.05 0.05 0.05 0.04 8.0e-06 4.6e-06 7.8e-06 1.5e-05
3 Adipose gene expression Ckb 0.24 0.18 2.1e-11 0.09 0.09 0.08 0.09 5.2e-10 2.7e-10 1.3e-09 6.9e-10
4 Adipose mRNA stability Ckb 0.31 0.22 7.4e-03 0.01 0.01 0.01 0.01 1.4e-02 7.1e-03 6.4e-02 2.0e-02

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 density0.00.00.1-0.2-0.2-0.20.0
Area under the delay curve0.30.30.9-0.3-0.3-0.60.9
BMI with tail2.78.79.1-2.9-2.9-3.03.0
BMI without tail0.51.01.3-1.1-1.1-1.00.6
Body weight0.10.20.40.60.60.4-0.0
Weight adjusted by age0.00.00.00.10.10.1-0.1
Bone surface0.00.10.3-0.2-0.20.1-0.5
Bone volume0.00.00.1-0.2-0.2-0.0-0.3
Breakpoint value in progressive ratio session0.00.00.2-0.1-0.10.1-0.4
Number of licking bursts0.10.20.30.30.30.4-0.6
Context. condit. distance diff. score1.92.32.41.51.51.6-1.6
Locomotion velocity, session 10.70.71.70.50.60.8-1.3
Locomotion distance, session 10.20.20.4-0.7-0.6-0.3-0.3
Locomotion velocity, session 20.20.30.9-0.0-0.1-0.40.9
Locomotion distance, session 20.20.30.4-0.7-0.6-0.40.1
Locomotion velocity, session 30.20.20.2-0.4-0.4-0.40.5
Locomotion distance, session 30.10.10.30.10.20.3-0.5
Stereotopy head waving bouts, day 30.10.10.20.40.40.4-0.3
Stereotopy head waving duration, day 30.20.20.30.50.50.4-0.2
Locomotion velocity, session 70.50.61.2-0.5-0.6-0.81.1
Locomotion distance, session 70.70.91.0-1.0-1.0-1.00.9
Stereotopy head waving bouts, day 70.70.81.11.11.10.9-0.5
Stereotopy head waving duration, day 70.20.20.40.60.60.4-0.1
Locomotion velocity, session 80.10.20.20.40.40.4-0.3
Locomotion distance, session 80.10.10.3-0.1-0.10.2-0.5
Degree of sensitization distance0.30.30.5-0.3-0.4-0.50.7
Degree of sensitization stereotypy0.20.20.20.50.50.4-0.4
Conditioned locomotion1.01.21.51.21.21.1-0.8
Cocaine response after cond. corrected0.40.50.6-0.7-0.7-0.70.5
Cocaine response after cond. not corrected1.71.92.1-1.4-1.4-1.41.3
Cocaine response before conditioning2.63.13.2-1.7-1.7-1.81.8
Saline control response0.10.20.3-0.5-0.5-0.40.3
Bone: connectivity density0.00.00.10.20.20.2-0.1
Bone: cortical apparent density7.59.911.63.43.43.2-2.6
Bone: cortical area2.23.36.21.31.41.8-2.5
Bone: cortical porosity0.00.00.00.00.0-0.00.0
Bone: cortical porosity0.20.20.2-0.5-0.5-0.40.2
Bone: cortical thickness1.93.15.61.31.41.8-2.4
Bone: cortical thickness1.41.72.81.01.01.3-1.7
Bone: cortical tissue density7.610.011.73.43.43.2-2.6
Condit. Reinf. active minus inactive responses0.40.50.6-0.8-0.7-0.70.5
Condit. Reinf. active-inactive response ratio2.22.42.7-1.7-1.6-1.61.3
Condit. Reinf. active responses0.20.30.4-0.4-0.4-0.50.6
Condit. Reinf. inactive responses1.82.22.31.51.51.5-1.4
Incentive salience index mean0.40.40.5-0.7-0.7-0.60.5
Condit. Reinf. lever presses0.10.10.2-0.3-0.4-0.40.4
Condit. Reinf. active minus inactive responses0.30.30.40.60.60.6-0.4
Condit. Reinf. active-inactive response ratio0.40.40.40.60.60.6-0.6
Condit. Reinf. active responses0.00.10.2-0.1-0.1-0.20.4
Condit. Reinf. inactive responses0.70.91.0-0.9-0.9-1.01.0
Condit. Reinf. lever presses1.62.22.3-1.5-1.5-1.51.4
Condit. Reinf. lever reinforcers received0.10.10.3-0.1-0.1-0.30.5
Conditioned reinforcement - actives1.91.92.11.51.41.4-1.1
Conditioned reinforcement - inactives0.30.40.40.60.60.6-0.5
Conditioned locomotion0.70.80.9-0.9-0.9-0.90.9
Patch foraging indifference point 0 sec2.23.65.52.32.31.8-0.8
Patch foraging indifference point AUC2.22.63.11.81.81.6-1.2
Delay disc. indifference point, 0s delay0.00.10.10.30.30.10.3
Delay disc. indifference point, 16s delay0.10.10.4-0.2-0.2-0.40.6
Delay disc. indifference point, 2s delay0.10.10.1-0.2-0.2-0.30.3
Delay disc. indifference point, 24s delay0.00.00.0-0.2-0.2-0.1-0.2
Delay disc. indifference point, 4s delay0.10.10.30.30.3-0.00.5
Delay disc. indifference point, 8s delay0.70.71.8-0.5-0.5-0.81.3
Indifference point function ln k0.50.60.70.80.80.8-0.7
Indifference point function log k0.50.60.70.80.80.8-0.7
Patch foraging total patch changes 0 sec2.43.86.02.52.41.8-0.6
Patch foraging total patch changes 12 sec2.43.14.92.22.11.6-0.6
Patch foraging total patch changes 18 sec0.91.12.01.41.30.90.1
Patch foraging total patch changes 24 sec0.10.20.40.40.40.00.6
Patch foraging total patch changes 6 sec1.21.83.01.71.71.2-0.2
Patch foraging time to switch 0 sec10.215.817.6-4.2-4.2-4.03.4
Patch foraging water rate 0 sec16.226.031.35.65.65.1-4.0
Patch foraging water rate 12 sec8.412.914.53.83.83.6-3.1
Patch foraging water rate 18 sec4.96.57.02.62.62.6-2.4
Patch foraging water rate 24 sec4.15.86.02.42.42.4-2.4
Patch foraging water rate 6 sec4.05.97.02.72.62.4-1.9
Seeking ratio, delayed vs. immediate footshock0.40.51.00.50.50.7-1.0
Distance traveled before self-admin0.10.10.3-0.1-0.1-0.30.5
Distance traveled after self-admin0.50.60.70.70.70.8-0.8
Extensor digitorum longus weight5.822.723.54.84.84.8-4.6
Bone: elastic displacement0.81.01.40.90.91.0-1.2
Bone: elastic work0.50.61.50.40.50.8-1.2
Bone: endosteal estimation0.10.30.4-0.7-0.6-0.50.1
Bone: endosteal perimeter0.10.20.7-0.1-0.00.3-0.8
Epididymis fat weight4.610.711.2-3.3-3.3-3.33.2
Delta time in closed arm before/after self-admin0.10.10.1-0.2-0.2-0.20.2
Delta time in open arm before/after self-admin0.40.40.40.70.70.6-0.6
Diff in mean of infusions in LGA sessions0.00.00.00.20.20.2-0.1
Delay discount exponential model param0.20.30.70.20.30.5-0.8
Extinction: sum of active levers before priming0.00.00.0-0.0-0.00.0-0.1
Active lever presses in extinction session 61.31.31.31.11.11.2-1.2
Bone: final force0.91.53.40.70.81.2-1.8
Bone: final moment1.11.84.20.80.81.3-2.0
Food consumed during 24 hour testing period0.20.20.30.40.40.5-0.6
Glucose0.71.01.41.21.21.0-0.6
Heart weight0.10.10.4-0.1-0.1-0.30.6
Delay discount hyperbolic model param0.30.30.70.30.30.5-0.8
Intermittent access intake day 1-15 change1.21.21.3-1.1-1.1-1.10.9
Intermittent access intake escalation1.31.31.5-1.2-1.2-1.11.0
Intermittent access intake escalation 20.10.10.1-0.3-0.3-0.1-0.2
Intermitt. access day 1 inactive lever presses2.32.52.91.71.71.6-1.3
Intermitt. access day 15 inactive lever presses0.70.71.01.01.00.8-0.5
Intermitt. access escalation Index0.20.20.30.50.50.4-0.1
Intermittent access day 1 total infusions0.50.60.7-0.7-0.7-0.80.8
Intermittent access day 15 total infusions1.92.12.2-1.4-1.5-1.51.4
Intermittent access terminal intake (last 3 days)2.32.52.8-1.5-1.5-1.61.7
Intermittent access total infusions1.01.11.6-0.9-0.9-1.11.3
Intermittent access day 1 locomotion1.11.11.3-1.0-1.0-1.11.1
Intermittent access day 15 total locomotion0.30.30.4-0.6-0.6-0.50.4
Intermittent access total locomotion0.50.50.5-0.7-0.7-0.70.7
Intermittent access standard deviation3.33.53.8-2.0-2.0-1.91.7
Left kidney weight0.41.11.71.31.31.0-0.4
Right kidney weight0.20.40.70.80.80.6-0.2
Cocaine induced anxiety2.83.23.51.91.91.8-1.6
Post-drug Anxiety2.42.72.81.71.71.7-1.5
Baseline Anxiety1.41.51.7-1.3-1.3-1.21.1
Tail length3.19.49.73.13.13.1-3.0
Length with tail3.713.715.43.93.93.7-3.2
Length without tail1.32.94.12.02.01.6-0.9
Times rat made contact with spout0.20.30.40.60.60.5-0.4
Lifetime Intake0.50.61.0-0.6-0.7-0.81.0
Liver weight, left3.75.96.82.32.32.5-2.6
Liver weight, right0.00.10.20.10.1-0.20.5
Locomotor activity0.10.10.10.40.30.10.3
Locomotor testing distance0.20.30.50.70.70.40.3
Locomotor testing rearing2.23.56.4-1.4-1.4-1.92.5
Locomotion in novel chamber4.65.76.62.62.62.4-2.0
Locomotion in novel chamber post-restriction0.20.20.7-0.3-0.30.1-0.8
Fecal boli incidents, locomotor time 11.11.22.0-1.4-1.4-0.90.1
Change in fecal boli incidents, locomotor task0.10.10.20.40.40.10.5
Time >=10cm from walls, locomotor time 10.50.50.5-0.7-0.7-0.70.7
Bouts of movement, locomotor time 10.70.81.2-1.1-1.1-0.80.3
Total resting periods, locomotor time 10.80.91.3-1.1-1.1-0.90.5
Rest time, locomotor task time 10.30.30.50.50.50.6-0.7
Distance moved, locomotor task time 10.70.81.8-0.5-0.6-0.91.3
Vertical activity count, locomotor time 10.40.40.70.80.80.6-0.2
Time >=10cm from walls, locomotor time 20.60.60.70.80.80.8-0.6
Bouts of movement, locomotor time 22.62.83.91.51.51.7-2.0
Total resting periods, locomotor time 21.92.02.61.31.31.4-1.6
Rest time, locomotor task time 20.40.50.80.60.60.7-0.9
Distance moved, locomotor task time 20.50.61.4-0.5-0.5-0.71.2
Vertical activity count, locomotor time 20.50.50.60.80.80.7-0.6
Light reinforcement 10.10.10.4-0.1-0.1-0.30.6
Light reinforcement 20.91.22.1-1.4-1.4-0.90.1
Bone: marrow area0.10.20.4-0.6-0.6-0.40.1
Bone: maximum diameter0.30.51.40.30.40.7-1.2
Bone: maximum force0.81.43.10.70.81.2-1.8
Bone: maximum moment0.91.53.60.70.81.2-1.9
Mean time between licks in bursts0.81.21.4-1.2-1.2-1.10.9
Mean num. licks in bursts0.00.00.10.10.0-0.10.3
Cd content in liver0.70.71.40.60.70.9-1.2
Co content in liver0.80.91.01.01.01.0-0.9
Cu content in liver0.91.11.3-1.1-1.1-1.00.9
Fe content in liver0.10.10.1-0.3-0.3-0.30.2
K content in liver0.10.10.10.30.30.3-0.1
Mg content in liver0.00.10.10.30.20.10.3
Mn content in liver0.00.00.10.10.1-0.00.2
Na content in liver0.00.00.0-0.1-0.1-0.0-0.0
Rb content in liver0.40.50.80.90.90.7-0.2
Se content in liver0.20.20.7-0.3-0.20.1-0.8
Sr content in liver0.70.71.40.50.60.8-1.2
Zn content in liver0.30.30.50.50.50.6-0.7
Bone: minimum diameter0.81.41.81.11.11.2-1.3
Time in familiar zone, hab. session 11.41.32.8-0.7-0.8-1.11.7
Time in novel zone, hab. session 10.30.30.9-0.2-0.20.2-0.9
Total zone transitions, hab. session 10.40.50.8-0.9-0.9-0.70.3
Total locomotion distance, hab. session 10.00.00.00.10.20.2-0.2
Locomotion velocity, hab. session 10.40.50.60.80.80.8-0.7
Time in familiar zone, hab. session 21.61.73.9-0.8-0.8-1.32.0
Time in novel zone, hab. session 20.30.31.1-0.1-0.10.3-1.0
Total zone transitions, hab. session 20.40.50.9-0.9-0.9-0.5-0.1
Total locomotion distance, hab. session 20.71.01.80.70.81.0-1.3
Locomotion velocity, hab. session 21.01.32.20.90.91.2-1.5
Novel to familiar place preference ratio0.20.20.3-0.6-0.6-0.3-0.1
Novelty place preference0.10.10.2-0.5-0.4-0.3-0.0
Time in novel zone, NPP test0.10.10.2-0.4-0.4-0.2-0.1
Total zone transitions, NPP test0.10.10.3-0.4-0.4-0.0-0.5
Total locomotion distance, NPP test0.30.41.20.20.20.6-1.1
Locomotion velocity, NPP test0.30.51.30.20.30.6-1.1
Intraocular pressure0.00.10.1-0.3-0.3-0.30.2
Delta distance traveled before/after self-admin0.10.10.30.10.10.3-0.6
Delta ambulatory time before/after self-admin0.70.81.30.70.80.9-1.1
Parametrial fat weight0.00.10.2-0.0-0.00.2-0.5
Pavlov. Cond. lever latency0.70.90.90.90.91.0-1.0
Pavlov. Cond. magazine entry latency0.50.70.8-0.8-0.8-0.80.9
Pavlov. Cond. change in total contacts0.50.51.0-0.5-0.6-0.71.0
Pavlov. Cond. index score0.81.11.2-1.1-1.1-1.00.9
Pavlov. Cond. latency score0.50.70.7-0.9-0.9-0.80.8
Pavlov. Cond. lever contacts0.91.11.1-1.0-1.0-1.01.0
Pavlov. Cond. magazine entry number1.11.31.41.21.21.2-1.1
Pavlov. Cond. intertrial magazine entries5.46.56.82.62.62.6-2.4
Pavlov. Cond. lever-magazine prob. diff.0.50.60.8-0.9-0.9-0.80.6
Pavlov. Cond. response bias1.21.51.5-1.2-1.2-1.21.2
Pavlov. Cond. lever latency1.92.53.11.81.81.6-1.2
Pavlov. Cond. magazine entry latency4.95.76.0-2.5-2.5-2.42.2
Pavlov. Cond. change in total contacts4.35.96.1-2.4-2.4-2.52.4
Pavlov. Cond. index score5.16.67.0-2.6-2.6-2.62.4
Pavlov. Cond. latency score5.06.26.6-2.6-2.6-2.52.3
Pavlov. Cond. lever contacts2.53.44.4-2.1-2.1-1.81.3
Pavlov. Cond. magazine entry number4.65.66.02.32.32.4-2.4
Pavlov. Cond. intertrial magazine entries4.35.67.12.72.62.4-1.7
Pavlov. Cond. lever-magazine prob. diff.5.97.57.7-2.8-2.8-2.82.6
Pavlov. Cond. response bias3.95.35.9-2.4-2.4-2.32.0
Time in closed arm before self-admin2.83.13.6-1.9-1.9-1.81.5
Time in closed arm after self-admin1.81.92.0-1.3-1.3-1.41.4
Time in open arm before self-admin4.34.75.72.42.42.2-1.7
Time in open arm after self-admin2.62.93.61.91.91.7-1.3
Bone: periosteal estimation0.50.92.50.40.50.9-1.6
Bone: periosteal perimeter0.40.72.00.30.40.7-1.4
Bone: post-yield work1.01.41.61.31.21.2-1.0
Progressive ratio test 1 active lever presses0.10.10.2-0.1-0.2-0.30.4
Progressive ratio test 1 breakpoint0.20.20.4-0.3-0.3-0.50.7
Progressive ratio test 1 inactive lever presses2.52.83.11.81.81.7-1.4
Progressive ratio test 2 active lever presses0.10.10.2-0.1-0.1-0.20.4
Progressive ratio test 2 breakpoint0.10.10.2-0.1-0.1-0.20.5
Progressive ratio test 2 inactive lever presses0.60.71.01.01.00.8-0.4
Incentive Sensitization - Responses0.00.00.1-0.1-0.1-0.20.3
Incentive Sensitization - Breakpoint0.00.00.1-0.0-0.0-0.10.2
Sum of active levers in priming session hrs 5-60.10.10.2-0.4-0.4-0.40.3
Progressive ratio0.60.71.00.70.70.8-1.0
Food seeking constrained by brief footshock2.43.04.01.51.61.8-2.0
Seeking ratio, punishment vs. effort0.10.10.10.30.30.3-0.3
Retroperitoneal fat weight0.10.50.7-0.9-0.8-0.70.3
Reaction time number correct2.13.04.42.12.11.6-0.8
Reaction time mean minus median0.10.10.2-0.4-0.4-0.2-0.1
Reaction time mean minus median AUC0.10.10.2-0.4-0.4-0.2-0.3
Reaction time num false alarms0.50.71.21.11.10.7-0.0
Reaction time num false alarms AUC0.91.31.91.41.41.1-0.5
Reaction time trials correct on left2.13.04.42.12.11.6-0.8
Reaction time trials on left2.13.04.32.12.01.6-0.8
Reaction time mean0.71.01.4-1.2-1.2-1.00.5
Reaction time mean AUC0.50.60.9-1.0-1.0-0.70.3
Median of all reaction times0.50.70.9-0.9-1.0-0.80.5
Reaction time omissions1.21.62.51.11.11.3-1.6
Reaction time false alarm rate0.10.10.10.30.30.2-0.1
Reaction time premature initiation rate0.70.91.01.01.00.9-0.8
Reaction time premature initiations1.92.73.51.91.81.6-1.1
Std. dev. reaction times0.20.30.6-0.8-0.7-0.4-0.3
Reaction time trials completed2.13.04.32.12.01.6-0.8
Reaction time trials AUC2.23.14.72.22.11.7-0.7
Run reversals in cocaine runway, females1.21.21.2-1.1-1.1-1.11.1
Run reversals in cocaine runway, males1.01.01.01.01.01.0-1.0
Latency to leave start box in cocaine runway0.50.51.3-0.3-0.4-0.71.2
Latency to leave start box in cocaine runway, F0.60.61.8-0.3-0.4-0.71.3
Latency to leave start box in cocaine runway, M0.10.10.1-0.3-0.3-0.30.4
Std. dev. time between licks in bursts0.50.60.9-0.9-0.9-0.70.3
Total sessions with >9 infusions0.10.20.4-0.2-0.2-0.40.6
Short access day 1 total inactive lever presses0.20.20.4-0.2-0.2-0.40.7
Short access day 10 total inactive lever presses0.30.30.40.60.60.6-0.5
Short access day 1 total infusions0.10.10.20.50.50.3-0.1
Short access day 10 total infusions0.70.71.2-0.7-0.7-0.91.1
Short access total infusions0.30.40.7-0.5-0.5-0.60.8
Short access day 1 locomotion1.11.22.1-0.9-0.9-1.11.4
Short access day 10 total locomotion0.70.81.0-0.8-0.8-0.91.0
Short access total locomotion0.20.20.4-0.3-0.3-0.40.7
One hour access (0.3 mA shock)0.00.00.10.30.30.20.0
Compulsive drug intake0.00.00.0-0.1-0.1-0.10.0
One hour access (shock baseline)0.00.00.1-0.1-0.1-0.20.3
Social response proportion0.20.20.30.50.50.30.2
Social responses0.10.10.2-0.2-0.2-0.30.4
Social time0.81.11.11.01.01.0-1.1
Soleus weight0.00.10.1-0.2-0.2-0.30.4
Bone: stiffness2.54.06.51.61.72.0-2.5
Tibialis anterior weight0.31.01.11.01.01.0-0.8
Time to tail flick, vehicle, before self-admin0.70.81.00.80.80.9-1.0
Time to tail flick, vehicle, after self-admin0.30.30.7-0.4-0.4-0.60.8
Time to tail flick, test, before self-admin0.00.00.10.30.30.2-0.0
Time to tail flick, test, after self-admin1.61.71.81.31.31.3-1.2
Delta time to tail flick, vehicle, before/after SA0.20.20.5-0.3-0.3-0.40.7
Delta time to tail flick, test, before/after SA1.11.01.30.91.01.0-1.1
Tibia length0.72.03.51.11.11.4-1.9
Ambulatory time before self-admin0.20.20.6-0.2-0.2-0.50.8
Ambulatory time after self-admin0.00.00.0-0.1-0.1-0.1-0.0
Bone: tissue strength0.40.41.00.30.40.6-1.0
Total heroin consumption1.51.82.61.21.21.4-1.6
Bone: trabecular number0.00.00.00.20.20.00.2
Bone: trabecular spacing0.00.10.1-0.2-0.2-0.0-0.3
Bone: trabecular thickness0.10.10.20.40.40.4-0.4
Bone: trabecular tissue density0.10.20.30.60.50.20.3
Water consumed over 24 hours3.03.63.92.02.01.9-1.7
Number of responses in last shaping day0.30.30.5-0.7-0.7-0.3-0.2