Hub : Genes

Gcat

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 Liver gene expression Gcat 0.38 0.13 0.0e+00 0.16 0.06 0.13 0.01 3.7e-17 9.5e-08 2.4e-14 1.3e-02
2 Brain gene expression Gcat 0.05 0.03 4.2e-04 0.03 0.02 0.02 0.03 3.8e-04 1.0e-02 3.5e-03 1.6e-03
3 NAcc gene expression Gcat 0.03 0.02 3.9e-04 0.02 0.03 0.02 0.02 1.2e-03 4.8e-05 5.5e-04 5.0e-04
4 Adipose gene expression Gcat 0.04 0.03 4.4e-04 0.02 0.01 0.02 0.02 6.2e-03 1.2e-02 2.3e-03 5.1e-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 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 density0.10.10.30.3-0.3-0.60.1
Area under the delay curve1.31.53.01.1-1.1-1.70.8
BMI with tail0.10.30.5-0.50.5-0.50.7
BMI without tail0.10.41.0-0.10.21.0-0.8
Body weight0.52.22.9-1.71.71.5-0.8
Weight adjusted by age0.60.91.3-1.21.11.00.3
Bone surface0.10.10.4-0.10.1-0.10.6
Bone volume0.00.10.10.3-0.4-0.10.1
Breakpoint value in progressive ratio session0.30.30.80.4-0.3-0.90.3
Number of licking bursts0.50.81.41.2-1.20.4-0.4
Context. condit. distance diff. score1.51.92.7-1.51.61.3-0.9
Locomotion velocity, session 11.61.72.8-1.61.71.10.4
Locomotion distance, session 10.40.50.80.8-0.9-0.30.7
Locomotion velocity, session 21.92.24.8-1.31.1-1.02.2
Locomotion distance, session 20.81.11.31.0-1.1-1.10.9
Locomotion velocity, session 31.31.53.4-0.91.01.9-0.9
Locomotion distance, session 31.61.82.51.6-1.31.0-1.3
Stereotopy head waving bouts, day 30.70.81.6-1.21.20.20.5
Stereotopy head waving duration, day 33.64.38.2-2.92.70.61.2
Locomotion velocity, session 70.50.61.2-0.70.81.1-0.3
Locomotion distance, session 70.91.22.5-0.20.51.6-1.4
Stereotopy head waving bouts, day 73.54.07.3-2.72.60.71.2
Stereotopy head waving duration, day 73.23.86.5-2.62.50.01.6
Locomotion velocity, session 82.63.25.7-2.42.40.90.7
Locomotion distance, session 80.40.61.2-1.01.10.20.2
Degree of sensitization distance2.42.54.8-2.22.20.7-0.2
Degree of sensitization stereotypy3.74.16.8-2.62.60.41.6
Conditioned locomotion0.81.01.4-1.21.21.00.2
Cocaine response after cond. corrected1.01.21.8-1.21.2-0.41.3
Cocaine response after cond. not corrected0.91.12.2-0.80.8-1.01.5
Cocaine response before conditioning0.70.91.61.3-1.2-0.7-0.2
Saline control response0.20.30.7-0.10.20.6-0.8
Bone: connectivity density0.10.20.3-0.30.40.5-0.3
Bone: cortical apparent density1.31.82.61.2-1.21.3-1.6
Bone: cortical area0.40.71.6-0.70.7-0.21.3
Bone: cortical porosity1.11.12.1-0.80.8-1.11.5
Bone: cortical porosity2.12.33.2-1.61.7-0.71.8
Bone: cortical thickness0.91.42.41.5-1.4-1.00.4
Bone: cortical thickness1.11.31.91.4-1.4-1.10.6
Bone: cortical tissue density1.31.82.71.1-1.11.4-1.6
Condit. Reinf. active minus inactive responses1.21.32.51.0-0.81.1-1.6
Condit. Reinf. active-inactive response ratio1.01.12.10.5-0.31.4-1.5
Condit. Reinf. active responses2.53.15.71.9-1.60.8-2.4
Condit. Reinf. inactive responses2.63.15.41.9-1.80.1-2.3
Incentive salience index mean1.72.03.31.3-1.11.3-1.8
Condit. Reinf. lever presses1.52.12.81.5-1.31.2-1.7
Condit. Reinf. active minus inactive responses0.10.10.4-0.00.1-0.70.3
Condit. Reinf. active-inactive response ratio0.20.20.4-0.50.6-0.30.4
Condit. Reinf. active responses0.30.40.6-0.40.5-0.80.7
Condit. Reinf. inactive responses0.00.10.20.0-0.1-0.10.5
Condit. Reinf. lever presses0.30.30.50.7-0.7-0.6-0.4
Condit. Reinf. lever reinforcers received0.30.40.5-0.60.6-0.70.7
Conditioned reinforcement - actives0.71.11.71.3-1.3-0.90.5
Conditioned reinforcement - inactives2.03.05.42.3-2.3-1.0-0.5
Conditioned locomotion1.21.63.70.4-0.4-1.91.5
Patch foraging indifference point 0 sec0.61.12.30.1-0.21.5-1.4
Patch foraging indifference point AUC0.81.11.61.3-1.01.1-0.9
Delay disc. indifference point, 0s delay0.91.03.10.2-0.2-1.80.8
Delay disc. indifference point, 16s delay1.11.32.31.0-1.0-1.50.9
Delay disc. indifference point, 2s delay6.16.816.01.4-1.5-4.02.7
Delay disc. indifference point, 24s delay1.11.24.6-0.30.22.1-0.3
Delay disc. indifference point, 4s delay1.21.33.50.2-0.3-1.91.2
Delay disc. indifference point, 8s delay1.21.42.41.6-1.5-0.4-0.8
Indifference point function ln k0.61.12.3-1.51.3-0.10.6
Indifference point function log k0.61.12.3-1.51.3-0.10.6
Patch foraging total patch changes 0 sec0.51.02.00.6-0.71.1-1.4
Patch foraging total patch changes 12 sec0.20.20.80.20.00.9-0.2
Patch foraging total patch changes 18 sec0.40.71.30.7-0.51.1-0.8
Patch foraging total patch changes 24 sec1.52.53.41.8-1.61.1-1.7
Patch foraging total patch changes 6 sec0.40.60.90.7-0.70.9-0.8
Patch foraging time to switch 0 sec1.63.25.4-1.11.0-2.32.3
Patch foraging water rate 0 sec1.73.57.70.5-0.32.8-2.5
Patch foraging water rate 12 sec0.30.71.10.6-0.81.1-0.9
Patch foraging water rate 18 sec1.82.88.4-0.10.12.9-1.6
Patch foraging water rate 24 sec1.52.14.1-1.31.22.0-1.0
Patch foraging water rate 6 sec1.92.84.61.3-1.41.8-2.1
Seeking ratio, delayed vs. immediate footshock0.10.10.3-0.10.2-0.30.5
Distance traveled before self-admin1.01.43.50.10.0-1.91.4
Distance traveled after self-admin0.40.51.4-0.40.41.2-0.2
Extensor digitorum longus weight1.14.29.71.5-1.6-3.11.5
Bone: elastic displacement0.91.02.0-1.41.30.50.5
Bone: elastic work3.24.26.9-2.52.6-0.11.8
Bone: endosteal estimation1.73.87.0-2.62.50.81.3
Bone: endosteal perimeter2.14.47.2-2.72.50.52.0
Epididymis fat weight0.41.52.7-1.61.60.7-0.4
Delta time in closed arm before/after self-admin0.80.81.21.1-1.0-0.90.3
Delta time in open arm before/after self-admin0.20.20.5-0.50.7-0.00.2
Diff in mean of infusions in LGA sessions0.50.61.6-0.30.41.2-0.7
Delay discount exponential model param1.21.42.5-1.11.11.6-0.8
Extinction: sum of active levers before priming1.11.22.6-0.30.4-1.31.6
Active lever presses in extinction session 60.30.30.5-0.50.5-0.40.7
Bone: final force1.01.62.8-1.31.4-0.31.7
Bone: final moment1.11.72.4-1.51.5-0.11.5
Food consumed during 24 hour testing period0.20.20.7-0.20.2-0.40.8
Glucose0.40.60.90.9-0.90.1-0.9
Heart weight3.14.88.1-2.72.91.90.6
Delay discount hyperbolic model param1.82.14.4-1.21.22.1-1.0
Intermittent access intake day 1-15 change0.20.30.80.9-0.7-0.2-0.3
Intermittent access intake escalation0.20.40.90.9-0.80.1-0.5
Intermittent access intake escalation 20.60.71.01.0-0.90.3-0.9
Intermitt. access day 1 inactive lever presses0.20.81.4-0.60.61.2-0.9
Intermitt. access day 15 inactive lever presses0.10.30.60.3-0.40.6-0.8
Intermitt. access escalation Index0.71.01.81.3-1.4-0.7-0.1
Intermittent access day 1 total infusions0.50.92.20.2-0.1-1.11.5
Intermittent access day 15 total infusions0.50.70.80.9-0.8-0.80.7
Intermittent access terminal intake (last 3 days)0.30.40.70.5-0.4-0.60.8
Intermittent access total infusions1.01.22.10.6-0.5-1.41.5
Intermittent access day 1 locomotion0.30.40.60.7-0.6-0.80.5
Intermittent access day 15 total locomotion0.10.20.40.6-0.6-0.40.2
Intermittent access total locomotion0.30.30.70.8-0.7-0.3-0.2
Intermittent access standard deviation0.10.20.5-0.10.3-0.70.5
Left kidney weight4.320.037.7-5.96.11.82.0
Right kidney weight4.219.036.8-5.86.12.21.1
Cocaine induced anxiety0.20.30.4-0.50.5-0.60.6
Post-drug Anxiety0.10.20.3-0.50.40.1-0.4
Baseline Anxiety0.20.30.40.5-0.50.4-0.7
Tail length0.72.75.90.2-0.22.2-2.4
Length with tail0.83.76.7-1.51.62.6-1.7
Length without tail1.44.78.1-2.82.91.60.1
Times rat made contact with spout3.84.35.32.0-1.82.2-2.3
Lifetime Intake1.11.32.50.5-0.4-1.51.6
Liver weight, left0.00.00.0-0.10.10.2-0.2
Liver weight, right0.81.42.7-0.90.91.6-1.1
Locomotor activity0.30.50.9-0.90.90.40.2
Locomotor testing distance0.40.71.41.2-1.00.0-0.6
Locomotor testing rearing0.10.10.3-0.40.50.10.4
Locomotion in novel chamber1.41.73.11.8-1.8-0.6-0.6
Locomotion in novel chamber post-restriction1.21.93.01.6-1.7-1.40.4
Fecal boli incidents, locomotor time 10.50.72.4-0.20.31.5-0.4
Change in fecal boli incidents, locomotor task0.70.72.3-0.40.41.5-0.5
Time >=10cm from walls, locomotor time 10.70.81.4-1.21.10.30.6
Bouts of movement, locomotor time 10.10.10.3-0.1-0.00.6-0.2
Total resting periods, locomotor time 10.10.10.2-0.30.20.50.0
Rest time, locomotor task time 10.40.41.2-0.40.31.1-0.5
Distance moved, locomotor task time 10.10.10.3-0.50.5-0.20.1
Vertical activity count, locomotor time 10.51.23.10.8-0.60.9-1.8
Time >=10cm from walls, locomotor time 21.21.74.9-0.91.02.2-0.3
Bouts of movement, locomotor time 21.82.86.21.3-1.3-2.51.3
Total resting periods, locomotor time 21.83.27.31.3-1.3-2.71.5
Rest time, locomotor task time 20.00.00.10.2-0.3-0.10.2
Distance moved, locomotor task time 20.70.81.1-0.81.11.0-0.6
Vertical activity count, locomotor time 20.70.92.10.1-0.01.5-1.3
Light reinforcement 10.00.10.2-0.20.3-0.10.5
Light reinforcement 20.50.71.5-0.40.5-1.01.2
Bone: marrow area1.94.17.4-2.72.60.81.3
Bone: maximum diameter2.34.36.9-2.62.50.41.9
Bone: maximum force1.01.82.9-1.41.4-0.31.7
Bone: maximum moment1.22.02.8-1.61.7-0.21.7
Mean time between licks in bursts0.92.14.8-0.70.6-1.72.2
Mean num. licks in bursts0.50.81.60.2-0.11.2-1.3
Cd content in liver0.00.00.10.3-0.1-0.10.3
Co content in liver0.50.51.01.0-0.8-0.60.3
Cu content in liver2.12.54.92.1-2.2-0.2-0.6
Fe content in liver3.74.48.2-2.82.90.71.0
K content in liver0.10.10.20.3-0.30.4-0.5
Mg content in liver0.20.20.50.2-0.30.7-0.4
Mn content in liver0.30.30.70.8-0.7-0.3-0.2
Na content in liver0.20.20.50.2-0.10.6-0.7
Rb content in liver0.00.10.1-0.20.10.20.4
Se content in liver0.30.30.60.8-0.6-0.60.1
Sr content in liver4.53.97.22.7-2.4-1.1-1.2
Zn content in liver0.40.50.50.6-0.70.7-0.7
Bone: minimum diameter0.20.40.6-0.80.7-0.20.7
Time in familiar zone, hab. session 10.50.50.5-0.70.70.70.7
Time in novel zone, hab. session 10.20.20.2-0.50.4-0.30.3
Total zone transitions, hab. session 11.11.62.91.7-1.7-0.3-0.7
Total locomotion distance, hab. session 10.71.01.71.3-1.20.2-0.8
Locomotion velocity, hab. session 10.91.32.11.5-1.40.1-0.9
Time in familiar zone, hab. session 20.10.10.20.5-0.40.4-0.1
Time in novel zone, hab. session 20.20.20.50.2-0.3-0.7-0.2
Total zone transitions, hab. session 20.50.61.10.5-0.81.0-0.7
Total locomotion distance, hab. session 20.00.00.10.1-0.20.10.2
Locomotion velocity, hab. session 20.00.10.10.2-0.30.30.0
Novel to familiar place preference ratio0.50.61.2-0.91.10.5-0.2
Novelty place preference0.50.61.0-0.91.00.6-0.3
Time in novel zone, NPP test0.60.60.9-0.91.00.7-0.5
Total zone transitions, NPP test0.81.22.11.4-1.50.4-0.7
Total locomotion distance, NPP test0.10.10.40.1-0.10.6-0.3
Locomotion velocity, NPP test0.10.10.20.5-0.40.4-0.2
Intraocular pressure0.50.71.3-1.11.20.30.5
Delta distance traveled before/after self-admin3.63.811.1-0.90.73.3-1.7
Delta ambulatory time before/after self-admin3.13.911.1-1.21.13.3-1.3
Parametrial fat weight0.61.43.10.6-0.51.4-1.8
Pavlov. Cond. lever latency0.10.10.2-0.50.4-0.00.2
Pavlov. Cond. magazine entry latency0.70.91.50.6-0.6-1.21.2
Pavlov. Cond. change in total contacts0.80.81.51.2-1.0-0.70.5
Pavlov. Cond. index score0.10.10.20.5-0.4-0.20.3
Pavlov. Cond. latency score0.10.10.20.4-0.3-0.20.3
Pavlov. Cond. lever contacts0.30.40.80.9-0.80.0-0.3
Pavlov. Cond. magazine entry number0.50.61.0-1.00.90.6-0.3
Pavlov. Cond. intertrial magazine entries1.51.84.10.8-0.71.3-2.0
Pavlov. Cond. lever-magazine prob. diff.0.20.20.40.7-0.6-0.20.3
Pavlov. Cond. response bias0.30.40.80.9-0.8-0.40.3
Pavlov. Cond. lever latency0.10.10.20.3-0.4-0.30.4
Pavlov. Cond. magazine entry latency0.60.81.31.2-1.0-0.5-0.7
Pavlov. Cond. change in total contacts1.32.13.8-1.92.00.90.3
Pavlov. Cond. index score0.10.20.60.10.00.4-0.8
Pavlov. Cond. latency score0.20.30.90.2-0.10.5-1.0
Pavlov. Cond. lever contacts0.10.20.4-0.20.30.5-0.7
Pavlov. Cond. magazine entry number0.10.20.6-0.20.1-0.20.7
Pavlov. Cond. intertrial magazine entries0.10.20.60.0-0.10.8-0.5
Pavlov. Cond. lever-magazine prob. diff.0.10.10.30.10.10.1-0.6
Pavlov. Cond. response bias0.00.00.1-0.20.30.0-0.2
Time in closed arm before self-admin0.40.50.80.9-0.9-0.7-0.4
Time in closed arm after self-admin0.70.71.01.0-1.00.4-0.9
Time in open arm before self-admin0.50.61.4-0.1-0.21.2-0.9
Time in open arm after self-admin0.00.00.00.10.00.0-0.1
Bone: periosteal estimation1.43.04.9-2.22.10.31.7
Bone: periosteal perimeter2.74.67.2-2.72.61.01.8
Bone: post-yield work0.20.31.0-0.30.40.01.0
Progressive ratio test 1 active lever presses0.70.81.90.2-0.2-1.11.4
Progressive ratio test 1 breakpoint0.50.61.50.2-0.2-1.01.2
Progressive ratio test 1 inactive lever presses1.11.64.50.3-0.3-2.11.4
Progressive ratio test 2 active lever presses1.01.22.01.4-1.3-0.90.4
Progressive ratio test 2 breakpoint1.11.21.81.3-1.2-1.10.7
Progressive ratio test 2 inactive lever presses1.42.34.52.1-2.1-0.7-0.3
Incentive Sensitization - Responses0.70.91.91.4-1.3-0.3-0.4
Incentive Sensitization - Breakpoint0.70.91.91.4-1.3-0.3-0.3
Sum of active levers in priming session hrs 5-60.10.10.2-0.10.2-0.40.2
Progressive ratio0.10.10.2-0.40.5-0.30.1
Food seeking constrained by brief footshock0.40.51.4-0.10.2-0.81.2
Seeking ratio, punishment vs. effort0.10.10.40.2-0.1-0.10.6
Retroperitoneal fat weight0.93.78.3-2.42.90.40.7
Reaction time number correct0.30.50.90.9-1.00.5-0.4
Reaction time mean minus median0.00.10.2-0.30.4-0.20.0
Reaction time mean minus median AUC0.00.10.1-0.30.4-0.1-0.2
Reaction time num false alarms0.00.10.20.4-0.20.0-0.2
Reaction time num false alarms AUC0.10.10.20.4-0.30.1-0.4
Reaction time trials correct on left0.30.50.90.9-1.00.5-0.4
Reaction time trials on left0.30.61.11.0-1.00.5-0.3
Reaction time mean0.20.30.6-0.80.7-0.0-0.1
Reaction time mean AUC0.10.20.4-0.60.5-0.0-0.1
Median of all reaction times0.20.30.8-0.90.7-0.10.1
Reaction time omissions1.82.66.20.7-0.8-2.51.8
Reaction time false alarm rate0.00.10.20.10.0-0.4-0.1
Reaction time premature initiation rate0.10.10.2-0.40.4-0.10.5
Reaction time premature initiations0.00.00.10.0-0.10.20.1
Std. dev. reaction times0.10.20.3-0.50.60.1-0.2
Reaction time trials completed0.30.61.11.0-1.00.5-0.3
Reaction time trials AUC0.20.40.70.7-0.80.5-0.3
Run reversals in cocaine runway, females0.30.31.1-0.20.11.0-0.5
Run reversals in cocaine runway, males1.21.22.4-1.01.01.5-0.8
Latency to leave start box in cocaine runway2.32.63.4-1.81.6-1.21.8
Latency to leave start box in cocaine runway, F2.22.53.8-1.81.4-0.92.0
Latency to leave start box in cocaine runway, M0.40.30.5-0.60.7-0.60.4
Std. dev. time between licks in bursts0.20.30.5-0.70.70.6-0.1
Total sessions with >9 infusions1.01.22.5-0.90.9-0.81.6
Short access day 1 total inactive lever presses1.01.32.2-1.51.40.9-0.0
Short access day 10 total inactive lever presses1.64.09.2-0.40.33.0-2.5
Short access day 1 total infusions0.20.20.3-0.50.60.50.0
Short access day 10 total infusions0.71.02.4-0.70.7-0.71.5
Short access total infusions0.70.92.4-0.50.5-0.91.5
Short access day 1 locomotion0.10.20.3-0.40.30.5-0.2
Short access day 10 total locomotion0.61.11.61.2-1.10.1-1.3
Short access total locomotion0.10.10.30.2-0.2-0.50.1
One hour access (0.3 mA shock)2.73.25.02.2-2.2-1.50.7
Compulsive drug intake1.41.72.21.4-1.50.7-1.4
One hour access (shock baseline)1.01.63.30.6-0.6-1.81.5
Social response proportion5.15.810.2-1.81.7-2.63.2
Social responses0.60.81.8-0.30.2-1.21.3
Social time1.01.32.01.2-1.2-1.40.7
Soleus weight1.23.54.72.0-2.01.1-2.2
Bone: stiffness0.71.21.6-1.21.20.11.3
Tibialis anterior weight2.48.111.43.3-3.4-3.10.4
Time to tail flick, vehicle, before self-admin0.20.20.60.2-0.2-0.80.4
Time to tail flick, vehicle, after self-admin1.11.53.00.1-0.11.7-1.7
Time to tail flick, test, before self-admin0.90.91.41.2-1.1-1.00.2
Time to tail flick, test, after self-admin0.50.51.00.4-0.61.0-0.7
Delta time to tail flick, vehicle, before/after SA0.70.71.1-0.80.91.1-0.5
Delta time to tail flick, test, before/after SA0.60.60.80.8-0.80.6-0.9
Tibia length0.41.21.9-1.21.40.31.2
Ambulatory time before self-admin0.60.92.20.7-0.7-1.50.7
Ambulatory time after self-admin0.60.72.4-0.0-0.01.5-0.6
Bone: tissue strength0.20.20.4-0.50.7-0.10.3
Total heroin consumption0.50.61.20.6-0.3-1.10.9
Bone: trabecular number0.00.00.1-0.10.20.3-0.1
Bone: trabecular spacing0.40.50.6-0.80.70.70.7
Bone: trabecular thickness0.30.41.00.6-0.6-0.1-1.0
Bone: trabecular tissue density0.40.51.10.6-0.70.3-1.0
Water consumed over 24 hours1.21.72.71.2-1.01.3-1.6
Number of responses in last shaping day1.82.04.70.6-0.6-2.21.6