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 Adipose gene expression ENSRNOG00000010872 0.23 0.18 7.8e-11 0.08 0.08 0.08 0.08 5.2e-09 2.6e-09 7.0e-09 5.5e-09
2 Brain gene expression ENSRNOG00000010872 0.03 0.03 7.3e-03 0.02 0.02 0 0.01 7.8e-03 8.3e-03 1.3e-01 2.5e-02
3 NAcc gene expression ENSRNOG00000010872 0.03 0.03 5.5e-03 0.02 0.02 0.02 0.02 1.8e-02 7.6e-03 1.5e-02 2.1e-02
4 PL gene expression ENSRNOG00000010872 0.05 0.04 8.3e-05 0.03 0.04 0.03 0.03 1.2e-03 5.7e-04 1.3e-03 2.1e-03

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
BMI with tail2.68.49.1-3.0-2.8-2.9-2.9
BMI without tail0.61.31.7-1.0-1.3-1.2-1.1
Body weight0.10.30.40.40.60.60.6
Epididymis fat weight4.710.911.2-3.3-3.3-3.3-3.3
Glucose0.91.31.61.01.31.21.2
Heart weight0.00.00.1-0.30.1-0.1-0.1
Left kidney weight0.61.62.11.01.41.31.3
Right kidney weight0.20.70.90.61.00.90.8
Tail length3.19.39.73.13.03.13.1
Length with tail4.115.215.83.74.03.93.9
Length without tail1.84.04.91.62.22.12.0
Liver weight, left3.35.36.12.52.22.32.3
Liver weight, right0.00.00.0-0.20.10.10.1
Parametrial fat weight0.00.00.00.2-0.1-0.0-0.0
Retroperitoneal fat weight0.20.70.9-0.6-1.0-0.9-0.8
Intraocular pressure0.00.10.1-0.3-0.3-0.3-0.3
Extensor digitorum longus weight5.823.223.54.84.84.84.8
Soleus weight0.00.00.1-0.3-0.1-0.2-0.2
Tibialis anterior weight0.31.01.11.01.01.01.0
Tibia length0.51.32.11.40.91.11.1
Number of licking bursts0.10.10.20.40.20.30.3
Food consumed during 24 hour testing period0.10.10.20.40.30.40.4
Times rat made contact with spout0.30.40.40.50.70.60.6
Mean time between licks in bursts1.01.31.4-1.1-1.2-1.2-1.2
Mean num. licks in bursts0.00.00.0-0.10.10.10.0
Std. dev. time between licks in bursts0.70.81.0-0.7-1.0-0.9-0.9
Water consumed over 24 hours3.33.93.91.92.02.02.0
Indifference point 0 sec3.15.16.11.82.52.42.3
Indifference point AUC2.53.03.21.61.71.81.8
Indifference point function ln k0.50.70.70.80.80.80.8
Indifference point function log k0.50.70.70.80.80.80.8
Delay discounting total patch changes 0 sec3.45.56.91.82.62.52.4
Delay discounting total patch changes 12 sec3.34.45.41.62.32.22.2
Delay discounting total patch changes 18 sec1.41.82.60.81.61.41.4
Delay discounting total patch changes 24 sec0.10.20.30.00.60.50.4
Delay discounting total patch changes 6 sec1.82.73.51.11.91.81.7
Delay discounting time to switch 0 sec11.217.017.7-4.0-4.1-4.2-4.2
Delay discounting water rate 0 sec18.930.132.05.15.75.65.6
Delay discounting water rate 12 sec9.314.014.53.63.73.83.8
Delay discounting water rate 18 sec5.16.77.02.62.52.62.7
Delay discounting water rate 24 sec4.15.66.02.42.32.42.4
Delay discounting water rate 6 sec4.76.87.22.42.72.72.7
Locomotor activity0.10.10.20.10.40.40.4
Locomotor testing distance0.30.40.60.30.80.80.7
Locomotor testing rearing1.42.23.5-1.9-1.3-1.4-1.4
Light reinforcement 10.00.00.1-0.3-0.1-0.1-0.1
Light reinforcement 21.41.92.4-0.9-1.6-1.5-1.4
Reaction time number correct3.04.35.61.62.42.12.1
Reaction time mean minus median0.10.20.2-0.2-0.5-0.5-0.4
Reaction time mean minus median AUC0.10.10.2-0.2-0.4-0.4-0.4
Reaction time num false alarms0.81.11.50.71.21.11.1
Reaction time num false alarms AUC1.31.82.31.11.51.41.4
Reaction time trials correct on left3.04.35.61.62.42.12.1
Reaction time trials on left3.04.25.51.62.42.12.1
Reaction time mean1.01.31.5-0.9-1.2-1.2-1.2
Reaction time mean AUC0.60.81.0-0.7-1.0-1.0-1.0
Median of all reaction times0.60.80.9-0.8-1.0-0.9-0.9
Reaction time omissions0.91.21.71.31.01.01.1
Reaction time false alarm rate0.10.10.10.20.30.30.3
Reaction time premature initiation rate0.71.01.10.91.01.01.0
Reaction time premature initiations2.43.44.11.62.01.91.9
Std. dev. reaction times0.40.50.7-0.4-0.8-0.8-0.8
Reaction time trials completed3.04.25.51.62.42.12.1
Reaction time trials AUC3.24.56.01.62.52.22.1
Social response proportion0.30.30.50.20.70.60.5
Social responses0.00.10.1-0.3-0.2-0.2-0.2
Social time0.81.01.11.00.91.01.0
Conditioned locomotion1.21.41.71.11.31.21.2
Cocaine response after cond. corrected0.50.50.6-0.7-0.7-0.7-0.7
Cocaine response after cond. not corrected1.82.02.1-1.4-1.4-1.4-1.4
Cocaine response before conditioning2.53.13.3-1.8-1.7-1.7-1.7
Saline control response0.20.20.3-0.4-0.5-0.5-0.5
Condit. Reinf. active minus inactive responses0.30.40.40.60.70.60.6
Condit. Reinf. active-inactive response ratio0.40.40.40.70.70.60.6
Condit. Reinf. active responses0.00.00.0-0.2-0.0-0.1-0.1
Condit. Reinf. inactive responses0.70.81.0-1.0-0.9-0.9-0.9
Condit. Reinf. lever presses1.72.32.4-1.5-1.5-1.5-1.5
Condit. Reinf. lever reinforcers received0.00.00.1-0.3-0.0-0.1-0.1
Pavlov. Cond. lever latency2.23.03.41.61.81.81.8
Pavlov. Cond. magazine entry latency5.26.06.0-2.4-2.4-2.5-2.5
Pavlov. Cond. change in total contacts4.25.96.2-2.5-2.4-2.4-2.4
Pavlov. Cond. index score5.36.97.0-2.6-2.6-2.6-2.6
Pavlov. Cond. latency score5.16.56.6-2.5-2.5-2.6-2.6
Pavlov. Cond. lever contacts3.04.24.8-1.8-2.2-2.1-2.1
Pavlov. Cond. magazine entry number4.25.25.82.42.12.32.3
Pavlov. Cond. intertrial magazine entries5.36.87.52.42.72.72.7
Pavlov. Cond. lever-magazine prob. diff.5.97.67.7-2.8-2.7-2.8-2.8
Pavlov. Cond. response bias4.25.85.9-2.3-2.4-2.4-2.4
Conditioned reinforcement - actives2.12.12.21.41.51.51.5
Conditioned reinforcement - inactives0.30.40.40.60.60.60.6
Conditioned locomotion0.70.80.9-0.9-0.9-0.9-0.9
Intermittent access intake day 1-15 change1.31.31.4-1.1-1.2-1.1-1.1
Intermittent access intake escalation1.51.51.6-1.1-1.3-1.2-1.2
Intermittent access intake escalation 20.10.10.2-0.1-0.4-0.3-0.3
Intermitt. access day 1 inactive lever presses2.72.93.11.61.81.71.7
Intermitt. access day 15 inactive lever presses0.80.91.10.81.01.01.0
Intermitt. access escalation Index0.30.30.30.40.60.50.5
Intermittent access day 1 total infusions0.40.50.6-0.8-0.6-0.7-0.7
Intermittent access day 15 total infusions1.92.12.2-1.5-1.4-1.4-1.4
Intermittent access terminal intake (last 3 days)2.22.42.7-1.6-1.5-1.5-1.5
Intermittent access total infusions0.80.91.2-1.1-0.8-0.9-0.9
Intermittent access day 1 locomotion1.01.01.2-1.1-1.0-1.0-1.0
Intermittent access day 15 total locomotion0.30.40.4-0.5-0.6-0.6-0.6
Intermittent access total locomotion0.50.50.5-0.7-0.7-0.7-0.7
Intermittent access standard deviation3.63.84.0-1.9-2.0-2.0-2.0
Cocaine induced anxiety3.03.53.51.81.91.91.9
Post-drug Anxiety2.52.82.81.71.71.71.7
Baseline Anxiety1.61.61.7-1.2-1.3-1.3-1.3
Lifetime Intake0.40.40.7-0.8-0.5-0.6-0.6
Incentive Sensitization - Responses0.00.00.0-0.2-0.0-0.1-0.1
Incentive Sensitization - Breakpoint0.00.00.0-0.10.10.00.0
Progressive ratio test 1 active lever presses0.00.00.1-0.3-0.1-0.1-0.2
Progressive ratio test 1 breakpoint0.10.10.2-0.5-0.2-0.3-0.3
Progressive ratio test 1 inactive lever presses2.93.13.31.71.81.81.8
Progressive ratio test 2 active lever presses0.00.00.1-0.20.0-0.1-0.1
Progressive ratio test 2 breakpoint0.00.00.1-0.20.0-0.1-0.1
Progressive ratio test 2 inactive lever presses0.81.01.20.81.11.01.0
Total sessions with >9 infusions0.10.10.1-0.4-0.1-0.2-0.2
Short access day 1 total inactive lever presses0.10.10.2-0.4-0.1-0.2-0.2
Short access day 10 total inactive lever presses0.40.40.50.60.70.60.7
Short access day 1 total infusions0.20.20.30.30.50.50.5
Short access day 10 total infusions0.50.50.8-0.9-0.6-0.7-0.7
Short access total infusions0.20.30.4-0.7-0.4-0.5-0.5
Short access day 1 locomotion0.80.81.3-1.1-0.7-0.8-0.9
Short access day 10 total locomotion0.60.70.8-0.9-0.8-0.8-0.8
Short access total locomotion0.10.10.2-0.4-0.2-0.3-0.3
Compulsive drug intake0.00.00.0-0.1-0.1-0.1-0.1
One hour access (0.3 mA shock)0.10.10.10.20.40.30.3
One hour access (shock baseline)0.00.00.0-0.2-0.1-0.1-0.1
Number of responses in last shaping day0.40.40.7-0.3-0.8-0.7-0.7
Context. condit. distance diff. score1.92.32.41.61.51.51.5
Locomotion velocity, session 10.30.40.70.90.40.50.5
Locomotion distance, session 10.30.40.6-0.3-0.8-0.7-0.7
Locomotion velocity, session 20.00.00.2-0.40.1-0.0-0.1
Locomotion distance, session 20.30.40.6-0.4-0.8-0.7-0.6
Locomotion velocity, session 30.20.20.2-0.4-0.4-0.4-0.4
Locomotion distance, session 30.00.00.10.30.00.10.1
Stereotopy head waving bouts, day 30.10.10.20.40.30.40.4
Stereotopy head waving duration, day 30.20.20.30.40.40.50.5
Locomotion velocity, session 70.30.30.6-0.8-0.4-0.5-0.5
Locomotion distance, session 70.70.91.0-1.0-0.9-1.0-1.0
Stereotopy head waving bouts, day 70.91.01.20.91.01.11.1
Stereotopy head waving duration, day 70.30.30.40.40.60.60.6
Locomotion velocity, session 80.20.20.30.40.50.50.4
Locomotion distance, session 80.00.00.00.2-0.2-0.1-0.1
Degree of sensitization distance0.10.10.3-0.5-0.2-0.3-0.3
Degree of sensitization stereotypy0.20.20.20.40.50.50.5
Condit. Reinf. active minus inactive responses0.50.60.8-0.7-0.9-0.8-0.8
Condit. Reinf. active-inactive response ratio2.52.72.9-1.6-1.7-1.7-1.7
Condit. Reinf. active responses0.20.20.3-0.5-0.5-0.4-0.4
Condit. Reinf. inactive responses1.92.32.51.51.61.51.5
Incentive salience index mean0.50.60.7-0.6-0.8-0.7-0.7
Condit. Reinf. lever presses0.10.10.1-0.4-0.3-0.3-0.4
Time in familiar zone, hab. session 10.70.61.3-1.1-0.5-0.7-0.7
Time in novel zone, hab. session 10.10.10.20.2-0.4-0.3-0.2
Total zone transitions, hab. session 10.50.81.1-0.6-1.0-0.9-0.9
Total locomotion distance, hab. session 10.00.00.00.20.10.10.2
Locomotion velocity, hab. session 10.40.60.60.80.70.80.8
Time in familiar zone, hab. session 20.70.81.6-1.3-0.5-0.7-0.8
Time in novel zone, hab. session 20.10.10.10.3-0.4-0.2-0.1
Total zone transitions, hab. session 20.60.81.2-0.5-1.1-0.9-0.9
Total locomotion distance, hab. session 20.40.61.01.00.50.70.7
Locomotion velocity, hab. session 20.60.91.41.20.70.90.9
Novel to familiar place preference ratio0.30.30.4-0.3-0.7-0.6-0.6
Novelty place preference0.20.20.3-0.3-0.5-0.5-0.4
Time in novel zone, NPP test0.10.10.2-0.2-0.5-0.4-0.4
Total zone transitions, NPP test0.10.20.4-0.0-0.6-0.4-0.4
Total locomotion distance, NPP test0.10.10.30.6-0.10.20.2
Locomotion velocity, NPP test0.10.10.40.60.00.20.3
Pavlov. Cond. lever latency0.70.91.11.01.00.90.9
Pavlov. Cond. magazine entry latency0.50.60.7-0.8-0.8-0.8-0.8
Pavlov. Cond. change in total contacts0.30.30.5-0.7-0.5-0.5-0.6
Pavlov. Cond. index score0.91.21.3-1.0-1.2-1.1-1.1
Pavlov. Cond. latency score0.60.80.9-0.8-1.0-0.9-0.9
Pavlov. Cond. lever contacts0.91.11.1-1.0-1.1-1.0-1.0
Pavlov. Cond. magazine entry number1.11.41.41.21.21.21.2
Pavlov. Cond. intertrial magazine entries5.56.76.72.62.52.62.6
Pavlov. Cond. lever-magazine prob. diff.0.60.81.0-0.8-1.0-0.9-0.9
Pavlov. Cond. response bias1.21.51.6-1.2-1.2-1.2-1.2
Bone: apparent density0.00.00.1-0.2-0.2-0.2-0.2
Bone surface0.00.00.10.1-0.3-0.2-0.2
Bone volume0.00.00.10.0-0.3-0.2-0.2
Bone: connectivity density0.00.10.10.20.30.20.2
Bone: cortical apparent density8.811.412.63.13.53.43.4
Bone: cortical area1.31.93.31.81.01.31.3
Bone: cortical porosity0.00.00.0-0.00.00.00.0
Bone: cortical porosity0.20.20.3-0.4-0.5-0.5-0.5
Bone: cortical thickness1.22.03.21.81.11.31.3
Bone: cortical thickness0.91.11.71.30.91.01.0
Bone: cortical tissue density8.911.612.73.23.63.43.4
Bone: elastic displacement0.70.81.01.00.80.80.9
Bone: elastic work0.20.30.60.80.30.40.4
Bone: endosteal estimation0.20.40.6-0.5-0.8-0.7-0.7
Bone: endosteal perimeter0.00.00.10.3-0.3-0.1-0.1
Bone: final force0.40.71.41.20.50.70.7
Bone: final moment0.50.81.81.30.60.70.8
Bone: marrow area0.20.40.5-0.4-0.7-0.6-0.6
Bone: maximum diameter0.10.20.50.70.10.30.3
Bone: maximum force0.40.71.41.20.60.70.8
Bone: maximum moment0.40.71.51.20.50.70.7
Bone: minimum diameter0.71.31.51.21.01.11.1
Bone: periosteal estimation0.20.30.80.90.20.40.5
Bone: periosteal perimeter0.10.20.60.80.00.30.3
Bone: post-yield work1.11.51.61.21.21.31.3
Bone: stiffness1.82.94.22.01.41.61.6
Bone: tissue strength0.20.20.40.60.20.30.4
Bone: trabecular number0.00.00.10.00.30.20.2
Bone: trabecular spacing0.00.10.20.0-0.4-0.2-0.2
Bone: trabecular thickness0.10.10.20.40.40.40.4
Bone: trabecular tissue density0.20.30.60.20.80.60.6
Breakpoint value in progressive ratio session0.00.00.00.1-0.1-0.1-0.1
Distance traveled before self-admin0.00.00.1-0.3-0.1-0.1-0.1
Distance traveled after self-admin0.50.50.60.80.70.70.7
Delta time in closed arm before/after self-admin0.10.10.1-0.2-0.3-0.2-0.2
Delta time in open arm before/after self-admin0.40.40.40.60.70.70.7
Diff in mean of infusions in LGA sessions0.00.00.00.20.20.20.2
Extinction: sum of active levers before priming0.00.00.00.0-0.0-0.0-0.0
Active lever presses in extinction session 61.31.31.31.21.11.11.1
Delta distance traveled before/after self-admin0.00.00.10.30.10.10.1
Delta ambulatory time before/after self-admin0.60.60.90.90.70.70.7
Time in closed arm before self-admin3.13.53.7-1.8-1.9-1.9-1.9
Time in closed arm after self-admin1.81.82.0-1.4-1.3-1.3-1.3
Time in open arm before self-admin5.25.66.22.22.52.42.4
Time in open arm after self-admin3.13.53.81.72.01.91.9
Sum of active levers in priming session hrs 5-60.10.10.2-0.4-0.4-0.4-0.4
Time to tail flick, vehicle, before self-admin0.70.70.90.90.70.80.8
Time to tail flick, vehicle, after self-admin0.20.20.4-0.6-0.4-0.4-0.4
Time to tail flick, test, before self-admin0.10.10.10.20.30.30.3
Time to tail flick, test, after self-admin1.81.81.91.31.41.31.3
Delta time to tail flick, vehicle, before/after SA0.10.10.2-0.5-0.2-0.3-0.3
Delta time to tail flick, test, before/after SA1.00.91.01.00.90.90.9
Ambulatory time before self-admin0.10.10.2-0.5-0.2-0.2-0.2
Ambulatory time after self-admin0.00.00.0-0.1-0.1-0.1-0.1
Total heroin consumption1.21.52.01.41.11.21.2
Area under the delay curve0.10.10.3-0.6-0.2-0.3-0.3
Delay disc. indifference point, 0s delay0.10.10.10.10.30.30.3
Delay disc. indifference point, 16s delay0.10.10.1-0.4-0.2-0.2-0.2
Delay disc. indifference point, 2s delay0.10.10.1-0.3-0.3-0.2-0.2
Delay disc. indifference point, 24s delay0.00.00.1-0.1-0.3-0.2-0.2
Delay disc. indifference point, 4s delay0.10.10.2-0.00.40.30.3
Delay disc. indifference point, 8s delay0.30.30.7-0.8-0.4-0.5-0.5
Delay discount exponential model param0.10.10.20.50.20.20.2
Delay discount hyperbolic model param0.10.10.30.50.20.30.3
Fecal boli incidents, locomotor time 11.71.92.6-0.9-1.6-1.5-1.4
Change in fecal boli incidents, locomotor task0.20.20.30.00.50.40.4
Time >=10cm from walls, locomotor time 10.50.50.5-0.7-0.7-0.7-0.7
Bouts of movement, locomotor time 11.11.21.5-0.8-1.2-1.1-1.1
Total resting periods, locomotor time 11.11.21.5-0.9-1.2-1.2-1.1
Rest time, locomotor task time 10.20.20.30.60.50.50.5
Distance moved, locomotor task time 10.30.40.8-0.9-0.4-0.5-0.6
Vertical activity count, locomotor time 10.60.60.80.60.90.80.8
Time >=10cm from walls, locomotor time 20.60.60.70.80.80.80.8
Bouts of movement, locomotor time 22.12.32.91.71.31.51.5
Total resting periods, locomotor time 21.61.72.01.41.21.31.3
Rest time, locomotor task time 20.30.40.50.70.60.60.6
Distance moved, locomotor task time 20.20.30.6-0.7-0.3-0.4-0.5
Vertical activity count, locomotor time 20.50.60.60.70.80.80.8
Weight adjusted by age0.00.00.00.10.10.10.1
Seeking ratio, delayed vs. immediate footshock0.30.30.50.70.50.50.5
Locomotion in novel chamber5.26.46.72.42.62.62.6
Locomotion in novel chamber post-restriction0.10.10.20.1-0.5-0.3-0.3
Progressive ratio0.40.50.70.80.60.70.7
Food seeking constrained by brief footshock2.02.43.11.81.41.51.5
Seeking ratio, punishment vs. effort0.10.10.10.30.30.30.3
Run reversals in cocaine runway, females1.11.01.2-1.1-0.9-1.0-1.1
Run reversals in cocaine runway, males1.01.01.01.01.01.01.0
Latency to leave start box in cocaine runway0.20.20.5-0.7-0.2-0.3-0.4
Latency to leave start box in cocaine runway, F0.20.20.6-0.8-0.1-0.3-0.4
Latency to leave start box in cocaine runway, M0.10.10.1-0.3-0.3-0.3-0.3
Cd content in liver0.40.50.70.90.50.60.7
Co content in liver0.81.01.11.01.01.01.0
Cu content in liver1.01.21.3-1.1-1.2-1.1-1.1
Fe content in liver0.10.10.1-0.3-0.3-0.3-0.3
K content in liver0.10.10.10.20.30.30.3
Mg content in liver0.10.10.10.10.40.30.2
Mn content in liver0.00.00.0-0.00.20.10.1
Na content in liver0.00.00.0-0.0-0.2-0.1-0.1
Rb content in liver0.60.81.00.71.00.90.9
Se content in liver0.10.20.40.1-0.6-0.3-0.3
Sr content in liver0.40.30.60.80.40.50.5
Zn content in liver0.20.20.30.60.50.40.5