Gckr

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 ENSRNOG00000048874 0.16 0.15 7.1e-12 0.1 0.1 0.1 0.1 1.1e-10 6.4e-11 8.3e-11 4.1e-11
2 Brain gene expression ENSRNOG00000048874 0.04 0.04 7.8e-04 0.03 0.03 0.03 0.02 2.0e-03 2.2e-03 1.8e-03 2.8e-03
3 Liver gene expression ENSRNOG00000048874 0.03 0.03 4.3e-03 0.02 0.01 0.01 0.01 6.2e-03 9.4e-03 7.5e-03 9.4e-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
BMI with tail0.41.31.3-1.2-1.11.1
BMI without tail0.30.70.7-0.9-0.80.8
Body weight1.98.18.5-2.8-2.92.8
Epididymis fat weight15.135.136.8-5.8-6.15.9
Glucose0.30.40.5-0.7-0.50.7
Heart weight10.014.415.1-3.9-3.63.9
Left kidney weight0.00.00.00.1-0.0-0.1
Right kidney weight0.61.82.1-1.3-1.51.2
Tail length0.20.50.6-0.7-0.80.7
Length with tail1.55.76.5-2.3-2.62.3
Length without tail0.61.31.4-1.1-1.21.2
Liver weight, left1.32.02.2-1.5-1.31.5
Liver weight, right9.315.415.8-4.0-3.93.9
Parametrial fat weight5.811.311.9-3.4-3.43.3
Retroperitoneal fat weight21.972.373.8-8.5-8.68.4
Intraocular pressure4.05.77.2-2.2-2.72.2
Extensor digitorum longus weight4.618.518.74.34.3-4.3
Soleus weight5.114.815.64.03.7-3.9
Tibialis anterior weight3.712.913.13.63.6-3.6
Tibia length2.77.58.1-2.8-2.62.8
Number of licking bursts0.20.30.30.60.5-0.6
Food consumed during 24 hour testing period0.20.30.40.50.6-0.5
Times rat made contact with spout2.63.03.31.81.6-1.8
Mean time between licks in bursts2.33.23.3-1.8-1.81.8
Mean num. licks in bursts0.10.10.10.30.2-0.3
Std. dev. time between licks in bursts0.10.10.1-0.3-0.30.4
Water consumed over 24 hours1.92.32.61.41.6-1.5
Indifference point 0 sec0.30.60.6-0.8-0.70.8
Indifference point AUC1.72.02.41.31.6-1.3
Indifference point function ln k0.00.00.1-0.2-0.00.2
Indifference point function log k0.00.00.1-0.2-0.00.2
Delay discounting total patch changes 0 sec0.20.40.4-0.6-0.50.6
Delay discounting total patch changes 12 sec0.81.11.1-1.0-1.01.1
Delay discounting total patch changes 18 sec0.10.10.1-0.3-0.20.3
Delay discounting total patch changes 24 sec1.11.41.6-1.2-1.11.3
Delay discounting total patch changes 6 sec0.00.00.1-0.3-0.10.2
Delay discounting time to switch 0 sec0.10.10.10.3-0.1-0.4
Delay discounting water rate 0 sec0.10.10.2-0.40.10.4
Delay discounting water rate 12 sec1.72.52.6-1.6-1.61.6
Delay discounting water rate 18 sec0.70.91.0-1.0-0.91.0
Delay discounting water rate 24 sec1.92.73.5-1.5-1.91.5
Delay discounting water rate 6 sec1.42.12.2-1.4-1.41.5
Locomotor activity0.00.10.2-0.1-0.40.1
Locomotor testing distance0.20.40.50.70.4-0.7
Locomotor testing rearing0.60.91.11.00.8-1.0
Light reinforcement 14.48.18.62.82.9-2.8
Light reinforcement 24.15.46.42.22.5-2.2
Reaction time number correct0.60.91.01.00.9-1.0
Reaction time mean minus median0.00.00.0-0.10.00.2
Reaction time mean minus median AUC0.00.10.1-0.3-0.10.3
Reaction time num false alarms0.30.40.40.60.6-0.7
Reaction time num false alarms AUC0.40.60.70.80.8-0.8
Reaction time trials correct on left0.60.91.01.00.9-1.0
Reaction time trials on left0.71.01.01.01.0-1.0
Reaction time mean1.11.51.6-1.3-1.11.3
Reaction time mean AUC0.91.21.4-1.2-0.91.1
Median of all reaction times1.11.51.6-1.3-1.11.2
Reaction time omissions0.10.10.20.40.4-0.3
Reaction time false alarm rate0.00.00.10.20.2-0.2
Reaction time premature initiation rate0.10.20.2-0.4-0.40.5
Reaction time premature initiations0.00.00.00.20.1-0.1
Std. dev. reaction times0.40.50.7-0.8-0.50.9
Reaction time trials completed0.71.01.01.01.0-1.0
Reaction time trials AUC0.91.21.31.11.1-1.1
Social response proportion0.50.60.8-0.9-0.50.8
Social responses0.20.20.3-0.6-0.10.5
Social time1.21.62.4-1.5-0.71.4
Conditioned locomotion3.33.94.12.01.9-2.0
Cocaine response after cond. corrected1.31.51.81.40.9-1.3
Cocaine response after cond. not corrected2.62.93.31.81.5-1.8
Cocaine response before conditioning1.11.32.01.01.4-1.0
Saline control response0.50.70.90.80.9-0.8
Condit. Reinf. active minus inactive responses4.25.25.22.32.3-2.3
Condit. Reinf. active-inactive response ratio1.21.21.31.11.1-1.1
Condit. Reinf. active responses3.54.85.22.12.3-2.2
Condit. Reinf. inactive responses1.92.42.51.51.6-1.5
Condit. Reinf. lever presses2.23.03.21.81.7-1.8
Condit. Reinf. lever reinforcers received2.94.14.52.02.1-2.0
Pavlov. Cond. lever latency1.82.52.6-1.6-1.61.6
Pavlov. Cond. magazine entry latency0.20.30.60.30.7-0.4
Pavlov. Cond. change in total contacts0.81.11.21.01.1-1.0
Pavlov. Cond. index score1.01.41.81.11.3-1.1
Pavlov. Cond. latency score1.01.21.71.01.3-1.0
Pavlov. Cond. lever contacts1.01.41.51.21.2-1.2
Pavlov. Cond. magazine entry number0.10.10.2-0.2-0.50.3
Pavlov. Cond. intertrial magazine entries3.14.04.6-1.9-2.12.0
Pavlov. Cond. lever-magazine prob. diff.0.81.01.40.91.2-0.9
Pavlov. Cond. response bias1.82.52.61.61.6-1.6
Conditioned reinforcement - actives0.30.30.60.30.8-0.3
Conditioned reinforcement - inactives2.63.04.81.42.2-1.4
Conditioned locomotion0.20.20.3-0.5-0.10.6
Intermittent access intake day 1-15 change0.10.10.1-0.20.30.2
Intermittent access intake escalation0.10.10.2-0.40.10.4
Intermittent access intake escalation 20.60.60.9-0.9-0.31.0
Intermitt. access day 1 inactive lever presses0.10.10.2-0.10.40.0
Intermitt. access day 15 inactive lever presses5.25.78.32.12.9-2.1
Intermitt. access escalation Index0.40.30.4-0.6-0.40.7
Intermittent access day 1 total infusions5.25.97.72.32.8-2.2
Intermittent access day 15 total infusions1.82.03.31.21.8-1.1
Intermittent access terminal intake (last 3 days)1.21.42.21.01.5-1.0
Intermittent access total infusions1.92.13.11.31.8-1.2
Intermittent access day 1 locomotion2.52.52.71.61.6-1.5
Intermittent access day 15 total locomotion0.70.71.50.61.2-0.6
Intermittent access total locomotion0.20.30.60.40.8-0.3
Intermittent access standard deviation0.10.10.2-0.10.40.0
Cocaine induced anxiety0.20.20.50.20.7-0.2
Post-drug Anxiety0.60.60.7-0.9-0.70.9
Baseline Anxiety0.70.71.2-0.7-1.10.7
Lifetime Intake2.52.84.21.52.0-1.4
Incentive Sensitization - Responses0.20.20.2-0.5-0.30.5
Incentive Sensitization - Breakpoint0.40.40.5-0.7-0.50.7
Progressive ratio test 1 active lever presses1.01.12.30.71.5-0.6
Progressive ratio test 1 breakpoint0.90.92.00.71.4-0.6
Progressive ratio test 1 inactive lever presses1.92.03.61.11.9-1.1
Progressive ratio test 2 active lever presses0.10.10.1-0.20.30.2
Progressive ratio test 2 breakpoint0.10.10.1-0.10.40.2
Progressive ratio test 2 inactive lever presses1.11.22.50.81.6-0.8
Total sessions with >9 infusions1.31.52.31.01.5-1.0
Short access day 1 total inactive lever presses4.65.17.82.02.8-1.9
Short access day 10 total inactive lever presses0.80.91.40.81.2-0.9
Short access day 1 total infusions3.43.65.51.72.4-1.5
Short access day 10 total infusions3.74.15.41.92.3-1.8
Short access total infusions2.12.33.51.31.9-1.3
Short access day 1 locomotion4.95.26.72.12.6-2.1
Short access day 10 total locomotion0.70.81.00.81.0-0.8
Short access total locomotion0.30.40.60.50.8-0.4
Compulsive drug intake0.10.10.4-0.1-0.60.0
One hour access (0.3 mA shock)1.51.82.41.21.6-1.2
One hour access (shock baseline)1.21.42.21.01.5-1.0
Number of responses in last shaping day0.10.10.30.10.5-0.2
Context. condit. distance diff. score0.00.00.1-0.1-0.20.1
Locomotion velocity, session 10.10.10.1-0.4-0.10.3
Locomotion distance, session 12.12.72.91.61.7-1.6
Locomotion velocity, session 20.10.20.2-0.3-0.50.4
Locomotion distance, session 20.00.00.0-0.10.10.1
Locomotion velocity, session 30.40.50.50.60.7-0.7
Locomotion distance, session 30.80.91.00.91.0-0.9
Stereotopy head waving bouts, day 31.51.82.01.21.4-1.3
Stereotopy head waving duration, day 30.00.10.10.20.3-0.3
Locomotion velocity, session 70.80.91.30.81.1-0.8
Locomotion distance, session 70.00.00.0-0.10.10.1
Stereotopy head waving bouts, day 70.00.00.0-0.1-0.00.0
Stereotopy head waving duration, day 70.40.40.50.60.7-0.6
Locomotion velocity, session 80.00.10.2-0.00.4-0.0
Locomotion distance, session 80.20.30.30.60.6-0.5
Degree of sensitization distance1.01.01.0-1.0-1.01.0
Degree of sensitization stereotypy0.10.10.1-0.3-0.30.2
Condit. Reinf. active minus inactive responses0.40.40.5-0.6-0.70.6
Condit. Reinf. active-inactive response ratio0.50.50.7-0.7-0.80.6
Condit. Reinf. active responses0.40.40.50.70.6-0.7
Condit. Reinf. inactive responses2.02.42.51.51.6-1.5
Incentive salience index mean0.10.10.10.30.3-0.3
Condit. Reinf. lever presses0.91.21.31.11.0-1.1
Time in familiar zone, hab. session 11.00.91.0-0.9-1.01.0
Time in novel zone, hab. session 10.70.60.7-0.8-0.80.7
Total zone transitions, hab. session 10.10.10.20.40.3-0.4
Total locomotion distance, hab. session 10.10.10.20.30.5-0.3
Locomotion velocity, hab. session 11.01.51.81.11.3-1.2
Time in familiar zone, hab. session 20.00.00.0-0.1-0.20.0
Time in novel zone, hab. session 20.30.30.4-0.5-0.60.6
Total zone transitions, hab. session 20.20.20.20.50.4-0.5
Total locomotion distance, hab. session 20.20.30.40.50.6-0.5
Locomotion velocity, hab. session 20.50.70.80.80.9-0.8
Novel to familiar place preference ratio0.60.70.7-0.8-0.90.8
Novelty place preference1.21.21.4-1.0-1.21.1
Time in novel zone, NPP test1.41.51.7-1.2-1.31.2
Total zone transitions, NPP test1.42.12.11.51.5-1.4
Total locomotion distance, NPP test1.92.63.11.61.8-1.5
Locomotion velocity, NPP test3.44.85.32.22.3-2.1
Pavlov. Cond. lever latency1.82.32.7-1.5-1.61.4
Pavlov. Cond. magazine entry latency0.00.00.00.10.2-0.1
Pavlov. Cond. change in total contacts0.10.10.10.30.3-0.2
Pavlov. Cond. index score0.70.91.11.01.1-0.9
Pavlov. Cond. latency score0.70.91.10.91.0-0.9
Pavlov. Cond. lever contacts1.31.51.71.21.3-1.1
Pavlov. Cond. magazine entry number0.40.50.6-0.6-0.80.7
Pavlov. Cond. intertrial magazine entries1.51.81.91.41.3-1.3
Pavlov. Cond. lever-magazine prob. diff.1.72.12.21.51.5-1.4
Pavlov. Cond. response bias1.51.82.01.31.4-1.3
Bone: apparent density5.69.29.73.03.1-3.0
Bone surface2.64.75.42.12.3-2.1
Bone volume2.84.75.32.12.3-2.1
Bone: connectivity density5.58.69.02.93.0-2.9
Bone: cortical apparent density0.50.70.70.90.8-0.8
Bone: cortical area0.30.50.50.70.7-0.6
Bone: cortical porosity1.21.31.61.11.3-1.0
Bone: cortical porosity1.11.21.51.01.2-1.0
Bone: cortical thickness0.00.00.0-0.1-0.10.1
Bone: cortical thickness1.61.82.01.31.4-1.3
Bone: cortical tissue density0.40.50.50.70.7-0.7
Bone: elastic displacement0.91.01.21.10.9-1.0
Bone: elastic work1.21.61.71.31.2-1.3
Bone: endosteal estimation0.30.70.90.80.9-0.8
Bone: endosteal perimeter0.10.30.30.50.5-0.5
Bone: final force0.10.10.10.40.3-0.3
Bone: final moment0.10.20.20.40.4-0.4
Bone: marrow area0.40.80.90.90.9-0.9
Bone: maximum diameter0.91.71.71.31.3-1.3
Bone: maximum force0.00.00.00.10.1-0.0
Bone: maximum moment0.00.00.00.20.2-0.1
Bone: minimum diameter0.10.20.2-0.5-0.30.5
Bone: periosteal estimation0.61.21.31.11.1-1.0
Bone: periosteal perimeter0.20.40.40.60.6-0.6
Bone: post-yield work0.30.50.60.70.6-0.7
Bone: stiffness0.00.00.1-0.2-0.10.2
Bone: tissue strength0.60.60.9-0.6-1.00.7
Bone: trabecular number4.46.87.22.52.7-2.6
Bone: trabecular spacing3.03.94.9-1.8-2.21.9
Bone: trabecular thickness0.60.71.00.71.0-0.8
Bone: trabecular tissue density0.10.10.20.40.5-0.3
Breakpoint value in progressive ratio session1.31.41.81.21.0-1.3
Distance traveled before self-admin0.00.00.10.3-0.2-0.2
Distance traveled after self-admin0.70.81.5-0.6-1.20.7
Delta time in closed arm before/after self-admin0.00.00.1-0.2-0.20.1
Delta time in open arm before/after self-admin0.30.30.40.60.5-0.5
Diff in mean of infusions in LGA sessions0.20.30.40.60.6-0.3
Extinction: sum of active levers before priming0.70.70.90.90.7-0.9
Active lever presses in extinction session 60.10.10.10.30.3-0.2
Delta distance traveled before/after self-admin1.61.71.8-1.3-1.31.3
Delta ambulatory time before/after self-admin0.30.30.3-0.5-0.50.6
Time in closed arm before self-admin0.50.60.7-0.7-0.80.9
Time in closed arm after self-admin1.51.61.8-1.1-1.41.3
Time in open arm before self-admin0.20.20.30.40.5-0.5
Time in open arm after self-admin2.62.82.91.71.7-1.7
Sum of active levers in priming session hrs 5-61.31.31.51.11.1-1.2
Time to tail flick, vehicle, before self-admin2.62.62.9-1.7-1.51.6
Time to tail flick, vehicle, after self-admin4.65.05.4-2.1-2.22.3
Time to tail flick, test, before self-admin0.70.70.70.90.8-0.7
Time to tail flick, test, after self-admin0.10.10.1-0.2-0.10.3
Delta time to tail flick, vehicle, before/after SA0.10.10.1-0.0-0.30.2
Delta time to tail flick, test, before/after SA0.40.30.50.50.7-0.5
Ambulatory time before self-admin0.20.20.30.50.1-0.5
Ambulatory time after self-admin0.50.61.1-0.6-1.10.6
Total heroin consumption3.34.04.31.92.1-2.0
Area under the delay curve0.40.50.70.80.4-0.8
Delay disc. indifference point, 0s delay1.71.82.3-1.3-1.51.3
Delay disc. indifference point, 16s delay1.01.01.31.10.6-1.1
Delay disc. indifference point, 2s delay0.20.20.2-0.5-0.40.5
Delay disc. indifference point, 24s delay4.34.25.22.31.5-2.3
Delay disc. indifference point, 4s delay0.00.00.0-0.00.1-0.0
Delay disc. indifference point, 8s delay0.60.60.80.90.5-0.9
Delay discount exponential model param0.90.91.2-1.1-0.61.1
Delay discount hyperbolic model param0.70.70.9-0.9-0.61.0
Fecal boli incidents, locomotor time 10.30.40.50.70.3-0.6
Change in fecal boli incidents, locomotor task4.24.04.2-2.1-2.01.9
Time >=10cm from walls, locomotor time 10.00.00.10.1-0.3-0.1
Bouts of movement, locomotor time 12.62.93.31.81.4-1.8
Total resting periods, locomotor time 12.73.03.31.81.5-1.8
Rest time, locomotor task time 10.00.00.00.20.1-0.1
Distance moved, locomotor task time 11.01.11.4-1.0-1.21.0
Vertical activity count, locomotor time 10.40.40.7-0.5-0.80.5
Time >=10cm from walls, locomotor time 20.00.00.0-0.10.10.0
Bouts of movement, locomotor time 20.10.10.2-0.2-0.40.2
Total resting periods, locomotor time 20.00.00.0-0.0-0.10.0
Rest time, locomotor task time 21.72.02.31.41.5-1.3
Distance moved, locomotor task time 21.31.61.7-1.2-1.31.2
Vertical activity count, locomotor time 21.01.01.2-1.0-1.11.0
Weight adjusted by age0.10.10.2-0.40.20.3
Seeking ratio, delayed vs. immediate footshock0.20.20.4-0.5-0.30.6
Locomotion in novel chamber1.31.62.7-1.1-1.61.0
Locomotion in novel chamber post-restriction1.82.23.0-1.3-1.71.3
Progressive ratio0.10.20.3-0.6-0.10.4
Food seeking constrained by brief footshock2.83.45.31.72.3-1.5
Seeking ratio, punishment vs. effort1.01.31.61.31.1-1.0
Run reversals in cocaine runway, females0.00.00.00.2-0.2-0.0
Run reversals in cocaine runway, males0.40.40.60.70.3-0.8
Latency to leave start box in cocaine runway0.40.50.50.70.7-0.7
Latency to leave start box in cocaine runway, F0.80.81.10.91.0-0.9
Latency to leave start box in cocaine runway, M0.20.10.20.40.3-0.4
Cd content in liver0.00.00.00.20.0-0.0
Co content in liver6.07.17.52.72.6-2.6
Cu content in liver0.00.00.10.20.1-0.2
Fe content in liver0.10.10.1-0.3-0.30.3
K content in liver0.10.10.1-0.3-0.20.2
Mg content in liver0.20.20.3-0.5-0.50.4
Mn content in liver0.40.50.50.70.7-0.7
Na content in liver0.30.30.40.50.6-0.5
Rb content in liver0.00.00.0-0.1-0.20.1
Se content in liver0.60.70.8-0.9-0.80.9
Sr content in liver0.00.00.1-0.1-0.20.1
Zn content in liver1.51.61.8-1.2-1.31.2