Cbx2

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 Brain isoform ratio NM_001107071.2 0.04 0.03 5.2e-03 0.02 0.02 0.02 0.02 8.7e-03 4.9e-03 4.2e-03 3.0e-03
2 Liver gene expression Cbx2 0.05 0.03 2.8e-07 0.06 0.05 0.06 0.06 8.5e-07 1.8e-06 4.4e-07 5.7e-07

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
Bone: apparent density0.91.42.6-1.6-0.5
Area under the delay curve2.32.54.90.32.2
BMI with tail0.41.21.41.2-1.0
BMI without tail0.81.62.2-1.0-1.5
Body weight1.87.513.03.61.4
Weight adjusted by age0.60.60.70.80.8
Bone surface0.20.40.4-0.60.6
Bone volume0.40.71.4-1.2-0.2
Breakpoint value in progressive ratio session0.50.50.7-0.8-0.6
Number of licking bursts0.40.40.70.90.3
Context. condit. distance diff. score1.01.21.5-1.2-1.0
Locomotion velocity, session 10.50.50.90.41.0
Locomotion distance, session 11.82.32.8-1.7-1.3
Locomotion velocity, session 20.60.71.0-1.0-0.6
Locomotion distance, session 21.42.02.3-1.5-1.3
Locomotion velocity, session 30.10.10.1-0.40.1
Locomotion distance, session 30.80.81.1-1.0-0.8
Stereotopy head waving bouts, day 30.10.10.10.40.2
Stereotopy head waving duration, day 30.00.00.0-0.2-0.2
Locomotion velocity, session 70.40.50.5-0.7-0.6
Locomotion distance, session 76.58.28.6-2.8-2.9
Stereotopy head waving bouts, day 70.10.10.30.10.5
Stereotopy head waving duration, day 71.21.52.30.81.5
Locomotion velocity, session 80.60.71.1-1.1-0.6
Locomotion distance, session 84.16.16.4-2.5-2.4
Degree of sensitization distance2.12.12.2-1.5-1.4
Degree of sensitization stereotypy0.10.10.2-0.20.4
Conditioned locomotion0.00.00.00.2-0.1
Cocaine response after cond. corrected0.00.00.10.2-0.1
Cocaine response after cond. not corrected0.00.00.0-0.1-0.1
Cocaine response before conditioning0.30.40.8-0.90.0
Saline control response0.30.40.80.10.9
Bone: connectivity density0.91.52.8-1.7-0.4
Bone: cortical apparent density0.81.12.1-0.3-1.4
Bone: cortical area4.77.110.33.22.0
Bone: cortical porosity1.61.81.81.31.4
Bone: cortical porosity1.31.41.81.01.3
Bone: cortical thickness6.510.717.54.22.0
Bone: cortical thickness2.73.25.12.31.1
Bone: cortical tissue density1.01.32.3-0.5-1.5
Condit. Reinf. active minus inactive responses0.10.10.30.20.5
Condit. Reinf. active-inactive response ratio0.10.10.1-0.30.3
Condit. Reinf. active responses0.20.20.30.30.5
Condit. Reinf. inactive responses0.00.00.0-0.00.0
Incentive salience index mean0.30.30.60.30.8
Condit. Reinf. lever presses0.10.10.2-0.4-0.0
Condit. Reinf. active minus inactive responses1.51.83.50.41.9
Condit. Reinf. active-inactive response ratio2.32.43.51.11.9
Condit. Reinf. active responses0.40.50.5-0.70.7
Condit. Reinf. inactive responses1.41.72.7-1.6-0.8
Condit. Reinf. lever presses1.52.03.1-1.8-0.9
Condit. Reinf. lever reinforcers received0.70.91.8-1.30.2
Conditioned reinforcement - actives0.20.20.4-0.0-0.6
Conditioned reinforcement - inactives0.70.81.41.2-0.4
Conditioned locomotion0.40.40.60.6-0.8
Patch foraging indifference point 0 sec1.22.02.2-1.5-1.3
Patch foraging indifference point AUC0.20.20.3-0.6-0.3
Delay disc. indifference point, 0s delay1.71.82.61.11.6
Delay disc. indifference point, 16s delay0.70.71.4-1.2-0.1
Delay disc. indifference point, 2s delay2.12.34.20.72.0
Delay disc. indifference point, 24s delay0.30.30.5-0.20.7
Delay disc. indifference point, 4s delay2.32.44.70.32.2
Delay disc. indifference point, 8s delay5.45.610.01.13.2
Indifference point function ln k1.01.32.3-0.6-1.5
Indifference point function log k1.01.32.3-0.6-1.5
Patch foraging total patch changes 0 sec2.03.13.4-1.8-1.7
Patch foraging total patch changes 12 sec0.71.01.1-0.9-1.1
Patch foraging total patch changes 18 sec4.65.910.1-3.2-1.3
Patch foraging total patch changes 24 sec0.40.40.8-0.90.3
Patch foraging total patch changes 6 sec0.10.20.2-0.3-0.5
Patch foraging time to switch 0 sec0.10.20.40.20.6
Patch foraging water rate 0 sec0.30.50.6-0.6-0.8
Patch foraging water rate 12 sec2.13.34.8-1.3-2.2
Patch foraging water rate 18 sec1.31.72.8-0.8-1.7
Patch foraging water rate 24 sec4.76.56.6-2.6-2.5
Patch foraging water rate 6 sec0.50.71.2-0.4-1.1
Seeking ratio, delayed vs. immediate footshock1.61.82.80.91.7
Distance traveled before self-admin1.21.21.51.01.2
Distance traveled after self-admin2.32.52.9-1.7-1.5
Extensor digitorum longus weight1.56.17.1-2.2-2.7
Bone: elastic displacement0.40.40.80.9-0.0
Bone: elastic work3.54.67.12.71.4
Bone: endosteal estimation1.12.54.6-2.1-0.6
Bone: endosteal perimeter0.51.12.10.11.4
Epididymis fat weight0.30.60.70.8-0.7
Delta time in closed arm before/after self-admin2.12.03.30.91.8
Delta time in open arm before/after self-admin1.11.01.2-1.1-0.9
Diff in mean of infusions in LGA sessions0.10.10.2-0.50.0
Delay discount exponential model param2.62.75.4-0.2-2.3
Extinction: sum of active levers before priming0.70.70.7-0.8-0.8
Active lever presses in extinction session 60.10.10.1-0.30.2
Bone: final force2.64.15.42.31.7
Bone: final moment2.54.15.62.41.6
Food consumed during 24 hour testing period0.10.10.1-0.4-0.2
Glucose0.00.10.10.2-0.3
Heart weight0.50.70.90.7-1.0
Delay discount hyperbolic model param2.62.75.4-0.3-2.3
Intermittent access intake day 1-15 change0.10.10.10.10.3
Intermittent access intake escalation0.10.10.1-0.20.2
Intermittent access intake escalation 20.30.30.50.30.7
Intermitt. access day 1 inactive lever presses0.70.81.41.20.3
Intermitt. access day 15 inactive lever presses0.10.10.2-0.2-0.4
Intermitt. access escalation Index0.50.40.50.60.7
Intermittent access day 1 total infusions0.20.30.40.2-0.7
Intermittent access day 15 total infusions0.00.00.00.1-0.0
Intermittent access terminal intake (last 3 days)0.10.10.10.30.2
Intermittent access total infusions0.10.10.10.3-0.3
Intermittent access day 1 locomotion0.30.30.50.2-0.7
Intermittent access day 15 total locomotion0.10.10.20.5-0.1
Intermittent access total locomotion0.30.40.60.4-0.8
Intermittent access standard deviation1.61.71.81.31.3
Left kidney weight2.16.06.62.62.3
Right kidney weight1.33.63.92.01.8
Cocaine induced anxiety3.13.64.41.72.1
Post-drug Anxiety0.20.30.5-0.20.7
Baseline Anxiety1.71.82.0-1.4-1.3
Tail length0.31.01.40.71.2
Length with tail2.59.311.03.32.8
Length without tail4.710.213.73.72.6
Times rat made contact with spout0.10.10.10.20.3
Lifetime Intake0.10.20.30.6-0.1
Liver weight, left1.32.12.31.41.5
Liver weight, right4.57.47.82.82.6
Locomotor activity0.30.40.6-0.8-0.5
Locomotor testing distance0.50.81.4-1.2-0.4
Locomotor testing rearing1.62.54.1-2.0-0.9
Locomotion in novel chamber0.81.01.9-1.4-0.4
Locomotion in novel chamber post-restriction0.30.30.40.5-0.7
Fecal boli incidents, locomotor time 10.20.20.2-0.5-0.4
Change in fecal boli incidents, locomotor task1.21.11.4-1.2-0.9
Time >=10cm from walls, locomotor time 11.01.01.7-1.3-0.5
Bouts of movement, locomotor time 10.20.20.30.1-0.6
Total resting periods, locomotor time 10.30.30.7-0.0-0.8
Rest time, locomotor task time 10.60.71.21.1-0.3
Distance moved, locomotor task time 10.20.20.3-0.50.4
Vertical activity count, locomotor time 10.20.20.4-0.7-0.1
Time >=10cm from walls, locomotor time 20.10.10.20.5-0.0
Bouts of movement, locomotor time 20.00.00.1-0.2-0.0
Total resting periods, locomotor time 20.00.00.0-0.20.0
Rest time, locomotor task time 20.10.10.10.4-0.0
Distance moved, locomotor task time 20.50.60.70.70.8
Vertical activity count, locomotor time 20.00.00.10.30.0
Light reinforcement 10.40.70.8-0.9-0.8
Light reinforcement 20.50.60.70.80.8
Bone: marrow area1.12.54.6-2.2-0.6
Bone: maximum diameter2.03.74.21.82.0
Bone: maximum force1.93.24.62.11.4
Bone: maximum moment1.83.14.72.21.2
Mean time between licks in bursts0.20.20.5-0.1-0.7
Mean num. licks in bursts0.40.50.9-0.9-0.4
Cd content in liver1.92.12.2-1.4-1.5
Co content in liver1.01.21.6-0.9-1.3
Cu content in liver0.50.60.91.00.4
Fe content in liver1.41.62.2-1.5-1.0
K content in liver0.10.10.10.40.1
Mg content in liver1.41.41.6-1.1-1.3
Mn content in liver1.01.11.51.20.9
Na content in liver0.70.71.00.61.0
Rb content in liver0.40.50.7-0.6-0.8
Se content in liver0.10.10.1-0.3-0.2
Sr content in liver1.41.32.21.50.6
Zn content in liver1.41.52.01.41.0
Bone: minimum diameter0.61.21.41.01.2
Time in familiar zone, hab. session 10.40.40.7-0.0-0.8
Time in novel zone, hab. session 10.30.30.5-0.10.7
Total zone transitions, hab. session 11.21.71.8-1.3-1.2
Total locomotion distance, hab. session 10.91.21.5-1.0-1.2
Locomotion velocity, hab. session 10.91.31.7-1.0-1.3
Time in familiar zone, hab. session 20.60.61.2-0.1-1.1
Time in novel zone, hab. session 20.30.30.4-0.50.6
Total zone transitions, hab. session 23.34.34.4-2.1-2.1
Total locomotion distance, hab. session 22.02.62.7-1.6-1.6
Locomotion velocity, hab. session 21.41.92.0-1.4-1.4
Novel to familiar place preference ratio0.40.40.7-0.90.1
Novelty place preference0.30.30.5-0.70.2
Time in novel zone, NPP test0.40.40.7-0.9-0.1
Total zone transitions, NPP test2.63.83.9-2.0-1.9
Total locomotion distance, NPP test3.24.35.3-1.8-2.3
Locomotion velocity, NPP test2.33.23.8-1.6-2.0
Intraocular pressure1.11.51.9-1.4-1.0
Delta distance traveled before/after self-admin3.84.14.1-2.0-2.0
Delta ambulatory time before/after self-admin4.44.85.2-2.3-2.1
Parametrial fat weight0.61.22.31.50.4
Pavlov. Cond. lever latency4.15.26.0-2.4-2.1
Pavlov. Cond. magazine entry latency2.83.64.11.82.0
Pavlov. Cond. change in total contacts0.20.20.30.50.2
Pavlov. Cond. index score3.94.94.92.22.2
Pavlov. Cond. latency score4.76.06.32.52.4
Pavlov. Cond. lever contacts1.92.22.71.71.3
Pavlov. Cond. magazine entry number3.34.14.5-2.1-1.9
Pavlov. Cond. intertrial magazine entries1.01.21.3-1.1-1.1
Pavlov. Cond. lever-magazine prob. diff.3.34.14.22.02.1
Pavlov. Cond. response bias3.03.74.02.01.8
Pavlov. Cond. lever latency1.92.64.02.01.1
Pavlov. Cond. magazine entry latency4.95.75.7-2.4-2.4
Pavlov. Cond. change in total contacts3.14.36.0-2.4-1.6
Pavlov. Cond. index score3.54.55.8-2.4-1.8
Pavlov. Cond. latency score3.34.15.4-2.3-1.7
Pavlov. Cond. lever contacts1.82.43.8-2.0-1.0
Pavlov. Cond. magazine entry number5.36.57.32.72.4
Pavlov. Cond. intertrial magazine entries0.60.81.70.01.3
Pavlov. Cond. lever-magazine prob. diff.4.25.46.9-2.6-2.0
Pavlov. Cond. response bias2.23.04.2-2.0-1.4
Time in closed arm before self-admin0.20.20.30.5-0.4
Time in closed arm after self-admin1.71.72.01.41.2
Time in open arm before self-admin0.60.60.80.70.9
Time in open arm after self-admin0.80.91.3-1.1-0.7
Bone: periosteal estimation0.30.70.80.70.9
Bone: periosteal perimeter4.77.99.23.02.6
Bone: post-yield work0.70.91.2-1.1-0.8
Progressive ratio test 1 active lever presses0.10.10.10.2-0.3
Progressive ratio test 1 breakpoint0.10.10.20.3-0.5
Progressive ratio test 1 inactive lever presses0.40.40.70.80.4
Progressive ratio test 2 active lever presses0.10.10.20.4-0.3
Progressive ratio test 2 breakpoint0.20.20.20.4-0.4
Progressive ratio test 2 inactive lever presses0.20.30.60.7-0.1
Incentive Sensitization - Responses0.30.30.70.8-0.0
Incentive Sensitization - Breakpoint0.30.30.70.80.1
Sum of active levers in priming session hrs 5-60.40.30.4-0.7-0.5
Progressive ratio0.50.61.0-1.0-0.2
Food seeking constrained by brief footshock0.10.10.1-0.20.3
Seeking ratio, punishment vs. effort0.10.10.10.20.3
Retroperitoneal fat weight0.61.93.61.90.4
Reaction time number correct7.010.011.4-3.4-3.0
Reaction time mean minus median1.01.31.61.31.0
Reaction time mean minus median AUC1.92.42.71.51.7
Reaction time num false alarms0.20.30.4-0.5-0.6
Reaction time num false alarms AUC0.40.60.7-0.7-0.8
Reaction time trials correct on left7.010.011.4-3.4-3.0
Reaction time trials on left7.09.911.3-3.4-2.9
Reaction time mean0.00.10.10.20.3
Reaction time mean AUC0.00.00.0-0.10.0
Median of all reaction times0.00.00.1-0.2-0.0
Reaction time omissions0.60.80.90.81.0
Reaction time false alarm rate0.50.70.91.00.6
Reaction time premature initiation rate1.21.62.5-0.9-1.6
Reaction time premature initiations5.88.19.3-2.6-3.1
Std. dev. reaction times0.00.00.00.1-0.0
Reaction time trials completed7.09.911.3-3.4-2.9
Reaction time trials AUC7.210.411.6-3.4-3.0
Run reversals in cocaine runway, females1.81.82.3-1.5-1.1
Run reversals in cocaine runway, males1.00.91.81.40.1
Latency to leave start box in cocaine runway0.70.81.2-0.6-1.1
Latency to leave start box in cocaine runway, F1.31.41.7-1.0-1.3
Latency to leave start box in cocaine runway, M0.40.40.60.3-0.8
Std. dev. time between licks in bursts0.81.01.0-1.0-1.0
Total sessions with >9 infusions0.10.10.20.40.3
Short access day 1 total inactive lever presses0.70.81.51.20.3
Short access day 10 total inactive lever presses0.91.01.61.30.7
Short access day 1 total infusions0.00.00.10.3-0.0
Short access day 10 total infusions0.30.40.70.80.2
Short access total infusions0.20.20.30.6-0.2
Short access day 1 locomotion0.50.50.80.90.5
Short access day 10 total locomotion0.50.51.01.00.2
Short access total locomotion1.11.12.11.40.4
One hour access (0.3 mA shock)0.20.20.4-0.3-0.6
Compulsive drug intake0.20.20.3-0.1-0.6
One hour access (shock baseline)0.10.10.20.50.2
Social response proportion0.20.20.3-0.5-0.3
Social responses0.00.00.00.10.1
Social time0.00.00.1-0.1-0.2
Soleus weight0.41.22.21.50.3
Bone: stiffness1.01.62.21.51.0
Tibialis anterior weight0.30.91.4-0.7-1.2
Time to tail flick, vehicle, before self-admin0.10.10.20.5-0.2
Time to tail flick, vehicle, after self-admin0.40.40.70.8-0.2
Time to tail flick, test, before self-admin0.00.00.0-0.20.2
Time to tail flick, test, after self-admin1.01.01.70.61.3
Delta time to tail flick, vehicle, before/after SA0.40.30.5-0.5-0.7
Delta time to tail flick, test, before/after SA0.50.40.50.60.7
Tibia length14.039.540.86.46.2
Ambulatory time before self-admin1.71.82.11.21.5
Ambulatory time after self-admin1.01.11.6-1.3-0.7
Bone: tissue strength0.30.30.5-0.3-0.7
Total heroin consumption1.01.12.00.51.4
Bone: trabecular number0.40.71.3-1.10.2
Bone: trabecular spacing0.40.50.6-0.6-0.8
Bone: trabecular thickness0.30.30.50.30.7
Bone: trabecular tissue density0.20.30.60.80.2
Water consumed over 24 hours0.00.00.10.00.2
Number of responses in last shaping day3.63.75.62.41.4