Calcoco2

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 gene expression Calcoco2 0.09 0.05 4.1e-11 0.1 0.12 0.09 0.1 2.0e-09 6.4e-11 1.3e-08 6.9e-10
2 PL gene expression Calcoco2 0.36 0.11 3.8e-11 0.07 0.11 0.1 0.07 1.2e-08 1.9e-12 5.9e-11 3.1e-08
3 BLA gene expression Calcoco2 0.19 0.18 1.6e-04 0.07 0.07 0.08 0.07 7.4e-05 1.8e-04 4.4e-05 9.9e-05

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
Bone: apparent density1.22.03.31.51.8-0.8
Area under the delay curve0.30.30.8-0.3-0.90.3
BMI with tail9.229.958.87.75.4-1.4
BMI without tail1.02.03.01.51.7-0.8
Body weight0.52.13.71.91.3-1.0
Weight adjusted by age2.02.26.2-0.5-0.4-2.5
Bone surface0.40.81.60.81.3-0.4
Bone volume1.22.04.01.42.0-0.3
Breakpoint value in progressive ratio session2.93.25.1-1.9-2.3-0.8
Number of licking bursts0.80.91.8-0.80.41.4
Context. condit. distance diff. score0.60.81.01.00.6-1.0
Locomotion velocity, session 12.12.35.30.11.22.3
Locomotion distance, session 14.15.38.9-2.3-1.23.0
Locomotion velocity, session 21.41.72.7-1.2-0.91.6
Locomotion distance, session 24.46.28.5-2.8-1.52.9
Locomotion velocity, session 31.21.42.80.5-1.11.7
Locomotion distance, session 33.43.76.3-1.5-2.51.7
Stereotopy head waving bouts, day 32.32.75.52.31.7-0.0
Stereotopy head waving duration, day 32.12.54.22.01.8-0.2
Locomotion velocity, session 71.21.31.3-1.1-1.11.2
Locomotion distance, session 73.24.18.1-2.8-2.0-0.1
Stereotopy head waving bouts, day 70.50.50.60.70.80.7
Stereotopy head waving duration, day 70.60.71.70.60.31.3
Locomotion velocity, session 80.60.71.40.80.31.2
Locomotion distance, session 80.60.91.4-0.9-0.61.2
Degree of sensitization distance0.60.61.4-0.30.7-1.2
Degree of sensitization stereotypy0.10.10.2-0.40.20.2
Conditioned locomotion1.01.22.01.41.2-0.3
Cocaine response after cond. corrected3.64.17.22.72.2-0.3
Cocaine response after cond. not corrected2.02.23.92.01.3-0.9
Cocaine response before conditioning2.53.14.0-1.9-2.0-1.3
Saline control response0.10.10.40.10.1-0.6
Bone: connectivity density0.30.41.00.50.2-1.0
Bone: cortical apparent density3.44.57.5-2.7-2.3-0.8
Bone: cortical area0.20.30.60.60.0-0.8
Bone: cortical porosity0.10.10.40.60.10.1
Bone: cortical porosity0.10.10.30.50.2-0.2
Bone: cortical thickness0.50.81.20.2-1.0-1.1
Bone: cortical thickness1.92.34.4-0.9-2.1-1.2
Bone: cortical tissue density3.74.88.3-2.9-2.4-0.8
Condit. Reinf. active minus inactive responses0.30.40.8-0.9-0.1-0.5
Condit. Reinf. active-inactive response ratio0.00.00.10.2-0.1-0.0
Condit. Reinf. active responses0.30.30.9-1.00.10.2
Condit. Reinf. inactive responses0.60.71.1-1.00.21.0
Incentive salience index mean0.50.61.8-1.3-0.2-0.2
Condit. Reinf. lever presses0.91.12.8-1.7-0.30.7
Condit. Reinf. active minus inactive responses0.20.30.9-0.20.9-0.1
Condit. Reinf. active-inactive response ratio0.60.61.8-0.11.3-0.3
Condit. Reinf. active responses0.00.00.1-0.30.2-0.1
Condit. Reinf. inactive responses0.20.20.6-0.1-0.8-0.1
Condit. Reinf. lever presses0.81.01.3-0.9-1.0-1.1
Condit. Reinf. lever reinforcers received0.00.10.1-0.40.0-0.2
Conditioned reinforcement - actives1.01.03.10.01.8-0.0
Conditioned reinforcement - inactives0.10.10.1-0.3-0.30.1
Conditioned locomotion2.73.38.90.93.00.5
Patch foraging indifference point 0 sec0.61.01.81.30.70.7
Patch foraging indifference point AUC0.70.81.6-0.3-0.8-1.3
Delay disc. indifference point, 0s delay0.40.40.7-0.3-0.9-0.6
Delay disc. indifference point, 16s delay0.40.40.80.9-0.50.4
Delay disc. indifference point, 2s delay0.10.10.1-0.30.3-0.4
Delay disc. indifference point, 24s delay0.80.70.9-0.9-0.7-0.9
Delay disc. indifference point, 4s delay2.52.65.6-1.4-2.40.5
Delay disc. indifference point, 8s delay0.50.51.0-0.4-0.61.0
Indifference point function ln k1.01.44.0-0.2-0.22.0
Indifference point function log k1.01.44.0-0.2-0.22.0
Patch foraging total patch changes 0 sec0.61.02.11.40.80.6
Patch foraging total patch changes 12 sec0.91.12.80.20.7-1.7
Patch foraging total patch changes 18 sec0.81.02.71.60.5-0.3
Patch foraging total patch changes 24 sec1.31.62.01.21.4-1.1
Patch foraging total patch changes 6 sec0.40.51.31.10.4-0.4
Patch foraging time to switch 0 sec0.20.30.7-0.20.80.3
Patch foraging water rate 0 sec0.81.32.61.60.1-1.2
Patch foraging water rate 12 sec0.81.32.60.6-1.61.0
Patch foraging water rate 18 sec0.91.33.2-0.1-0.8-1.8
Patch foraging water rate 24 sec0.81.11.81.40.3-1.2
Patch foraging water rate 6 sec0.20.30.70.2-0.80.3
Seeking ratio, delayed vs. immediate footshock1.11.31.81.20.7-1.4
Distance traveled before self-admin0.80.82.1-1.50.0-0.6
Distance traveled after self-admin0.40.41.00.50.11.0
Extensor digitorum longus weight0.20.82.41.50.1-0.2
Bone: elastic displacement0.10.10.20.20.50.2
Bone: elastic work0.10.20.40.00.4-0.6
Bone: endosteal estimation0.40.82.00.31.4-0.5
Bone: endosteal perimeter0.40.91.90.71.40.7
Epididymis fat weight0.00.10.20.4-0.5-0.1
Delta time in closed arm before/after self-admin0.20.20.70.20.0-0.8
Delta time in open arm before/after self-admin0.10.10.2-0.2-0.1-0.5
Diff in mean of infusions in LGA sessions1.31.42.8-1.2-0.1-1.7
Delay discount exponential model param0.40.41.00.41.0-0.1
Extinction: sum of active levers before priming0.80.81.3-1.2-0.7-0.8
Active lever presses in extinction session 60.10.10.20.2-0.4-0.2
Bone: final force0.20.40.80.50.9-0.4
Bone: final moment0.20.40.70.60.9-0.3
Food consumed during 24 hour testing period1.01.22.4-1.6-0.9-0.4
Glucose0.60.91.41.21.00.3
Heart weight1.52.13.41.51.80.8
Delay discount hyperbolic model param0.50.51.30.51.1-0.0
Intermittent access intake day 1-15 change2.82.84.31.21.72.1
Intermittent access intake escalation2.72.74.30.91.72.1
Intermittent access intake escalation 22.12.13.01.01.51.7
Intermitt. access day 1 inactive lever presses0.20.20.5-0.0-0.1-0.7
Intermitt. access day 15 inactive lever presses0.50.51.41.2-0.0-0.3
Intermitt. access escalation Index1.41.33.20.01.8-0.8
Intermittent access day 1 total infusions1.61.94.9-0.9-0.1-2.2
Intermittent access day 15 total infusions0.40.51.3-0.41.1-0.2
Intermittent access terminal intake (last 3 days)0.40.41.3-0.21.1-0.0
Intermittent access total infusions0.20.20.3-0.30.5-0.5
Intermittent access day 1 locomotion1.01.01.6-1.30.6-1.0
Intermittent access day 15 total locomotion0.60.71.9-0.41.4-0.2
Intermittent access total locomotion0.91.02.7-0.41.7-0.1
Intermittent access standard deviation2.32.54.31.21.32.1
Left kidney weight0.00.10.30.00.1-0.6
Right kidney weight0.41.01.31.11.1-0.6
Cocaine induced anxiety0.50.51.20.11.1-0.7
Post-drug Anxiety0.40.50.9-0.90.6-0.5
Baseline Anxiety0.20.20.50.0-0.30.7
Tail length7.924.050.8-7.1-4.50.8
Length with tail4.516.531.8-5.6-4.20.6
Length without tail0.10.30.5-0.2-0.7-0.7
Times rat made contact with spout0.20.30.5-0.70.40.4
Lifetime Intake0.40.51.0-0.50.3-1.0
Liver weight, left0.71.11.5-1.2-1.10.8
Liver weight, right0.91.51.7-1.0-1.3-1.3
Locomotor activity0.71.12.50.60.61.6
Locomotor testing distance1.11.82.60.91.31.6
Locomotor testing rearing0.10.20.50.30.30.7
Locomotion in novel chamber0.81.02.7-0.40.3-1.6
Locomotion in novel chamber post-restriction2.22.65.71.32.40.5
Fecal boli incidents, locomotor time 12.52.73.92.00.71.9
Change in fecal boli incidents, locomotor task1.11.12.2-1.5-1.0-0.2
Time >=10cm from walls, locomotor time 10.60.61.8-0.3-0.1-1.3
Bouts of movement, locomotor time 10.10.10.20.4-0.0-0.1
Total resting periods, locomotor time 10.20.20.50.70.00.3
Rest time, locomotor task time 10.91.02.70.40.41.7
Distance moved, locomotor task time 12.02.24.4-1.5-0.3-2.1
Vertical activity count, locomotor time 11.01.12.7-0.7-0.2-1.6
Time >=10cm from walls, locomotor time 20.40.40.5-0.7-0.7-0.5
Bouts of movement, locomotor time 22.22.34.70.21.5-2.2
Total resting periods, locomotor time 21.92.03.10.31.7-1.7
Rest time, locomotor task time 20.70.81.3-0.8-1.20.6
Distance moved, locomotor task time 20.10.10.2-0.4-0.5-0.2
Vertical activity count, locomotor time 20.20.30.6-0.20.4-0.8
Light reinforcement 11.42.56.80.30.82.6
Light reinforcement 20.71.02.3-0.50.61.5
Bone: marrow area0.30.71.60.21.3-0.6
Bone: maximum diameter0.30.51.00.71.0-0.3
Bone: maximum force0.50.91.31.01.1-0.6
Bone: maximum moment0.50.81.21.11.0-0.5
Mean time between licks in bursts0.40.61.00.9-0.01.0
Mean num. licks in bursts0.30.30.90.1-0.3-0.9
Cd content in liver0.20.20.3-0.4-0.3-0.5
Co content in liver0.10.20.30.20.50.4
Cu content in liver2.63.29.1-3.00.30.5
Fe content in liver0.70.82.3-1.5-0.30.3
K content in liver1.11.12.9-0.51.70.3
Mg content in liver1.11.12.2-1.50.80.6
Mn content in liver2.02.24.5-2.1-1.1-1.0
Na content in liver1.51.64.5-0.32.10.4
Rb content in liver0.50.61.7-0.30.21.3
Se content in liver0.60.71.60.51.3-0.6
Sr content in liver1.81.62.3-1.0-1.5-1.2
Zn content in liver0.50.51.6-0.21.30.1
Bone: minimum diameter0.00.10.20.20.50.1
Time in familiar zone, hab. session 10.20.10.2-0.4-0.4-0.3
Time in novel zone, hab. session 11.51.42.71.61.10.6
Total zone transitions, hab. session 14.25.99.7-3.1-2.51.3
Total locomotion distance, hab. session 11.82.65.5-2.3-1.40.6
Locomotion velocity, hab. session 12.23.17.1-2.7-1.40.4
Time in familiar zone, hab. session 20.50.51.21.1-0.00.5
Time in novel zone, hab. session 20.20.20.3-0.40.2-0.5
Total zone transitions, hab. session 22.33.05.1-2.3-0.81.8
Total locomotion distance, hab. session 20.71.01.8-0.90.61.3
Locomotion velocity, hab. session 20.70.91.4-1.00.41.2
Novel to familiar place preference ratio0.40.40.8-0.6-0.9-0.4
Novelty place preference0.70.71.4-0.6-1.2-0.6
Time in novel zone, NPP test0.60.61.5-0.4-1.2-0.3
Total zone transitions, NPP test4.97.010.5-2.8-1.53.2
Total locomotion distance, NPP test1.52.13.9-1.5-0.22.0
Locomotion velocity, NPP test1.72.43.4-1.8-0.61.8
Intraocular pressure1.31.83.1-1.5-1.80.1
Delta distance traveled before/after self-admin1.21.33.01.70.40.8
Delta ambulatory time before/after self-admin1.71.83.51.90.91.2
Parametrial fat weight0.00.10.2-0.40.2-0.0
Pavlov. Cond. lever latency0.91.11.71.31.1-0.7
Pavlov. Cond. magazine entry latency0.40.51.1-0.4-0.5-1.0
Pavlov. Cond. change in total contacts1.71.93.7-1.9-1.1-0.9
Pavlov. Cond. index score0.50.61.0-1.0-0.6-0.7
Pavlov. Cond. latency score0.40.51.1-1.0-0.6-0.3
Pavlov. Cond. lever contacts1.11.32.8-1.7-1.00.5
Pavlov. Cond. magazine entry number0.60.81.50.80.61.2
Pavlov. Cond. intertrial magazine entries0.60.71.1-1.00.31.0
Pavlov. Cond. lever-magazine prob. diff.0.50.70.9-0.9-0.7-0.8
Pavlov. Cond. response bias0.70.81.0-0.9-1.0-0.7
Pavlov. Cond. lever latency0.60.81.8-1.3-0.40.6
Pavlov. Cond. magazine entry latency0.20.30.5-0.7-0.50.2
Pavlov. Cond. change in total contacts0.50.71.70.60.0-1.3
Pavlov. Cond. index score0.30.40.80.60.5-0.9
Pavlov. Cond. latency score0.20.20.50.30.2-0.7
Pavlov. Cond. lever contacts0.50.71.31.10.6-0.7
Pavlov. Cond. magazine entry number0.10.10.4-0.0-0.20.6
Pavlov. Cond. intertrial magazine entries2.33.03.6-1.5-1.81.9
Pavlov. Cond. lever-magazine prob. diff.0.40.60.90.70.5-1.0
Pavlov. Cond. response bias0.40.50.91.00.7-0.4
Time in closed arm before self-admin1.92.13.21.80.21.8
Time in closed arm after self-admin1.51.62.81.70.41.3
Time in open arm before self-admin0.70.71.4-0.7-0.4-1.2
Time in open arm after self-admin0.80.91.7-0.8-0.6-1.3
Bone: periosteal estimation0.40.91.50.81.2-0.8
Bone: periosteal perimeter0.30.61.41.20.60.1
Bone: post-yield work0.20.30.70.80.10.3
Progressive ratio test 1 active lever presses1.11.12.4-0.90.3-1.5
Progressive ratio test 1 breakpoint1.01.12.2-1.00.1-1.5
Progressive ratio test 1 inactive lever presses0.20.20.50.5-0.0-0.7
Progressive ratio test 2 active lever presses0.30.30.8-0.90.1-0.3
Progressive ratio test 2 breakpoint0.20.20.4-0.60.1-0.5
Progressive ratio test 2 inactive lever presses0.00.00.0-0.00.0-0.0
Incentive Sensitization - Responses0.30.30.4-0.10.6-0.7
Incentive Sensitization - Breakpoint0.30.30.50.10.7-0.6
Sum of active levers in priming session hrs 5-62.82.75.5-2.4-1.6-0.3
Progressive ratio0.50.51.50.41.2-0.1
Food seeking constrained by brief footshock0.30.40.60.40.80.7
Seeking ratio, punishment vs. effort0.40.50.7-0.7-0.9-0.4
Retroperitoneal fat weight0.20.50.80.90.8-0.3
Reaction time number correct0.60.91.71.0-1.30.4
Reaction time mean minus median1.21.62.8-1.7-0.2-1.4
Reaction time mean minus median AUC1.82.43.8-1.9-0.1-1.8
Reaction time num false alarms0.91.21.9-0.9-0.91.4
Reaction time num false alarms AUC0.71.01.1-1.0-1.11.0
Reaction time trials correct on left0.60.91.71.0-1.30.4
Reaction time trials on left0.70.91.70.9-1.30.4
Reaction time mean1.01.42.7-1.10.5-1.7
Reaction time mean AUC1.41.93.8-1.20.6-2.0
Median of all reaction times1.11.53.3-0.60.9-1.8
Reaction time omissions0.40.51.2-1.10.1-0.5
Reaction time false alarm rate0.50.71.5-1.2-0.10.7
Reaction time premature initiation rate0.50.61.0-0.7-1.00.6
Reaction time premature initiations0.91.33.4-0.3-1.80.6
Std. dev. reaction times1.21.72.6-1.6-0.2-1.6
Reaction time trials completed0.70.91.70.9-1.30.4
Reaction time trials AUC0.71.01.80.9-1.40.5
Run reversals in cocaine runway, females0.90.92.2-0.5-1.50.4
Run reversals in cocaine runway, males1.81.73.61.21.9-0.4
Latency to leave start box in cocaine runway3.63.85.42.32.1-1.3
Latency to leave start box in cocaine runway, F4.14.58.62.92.20.0
Latency to leave start box in cocaine runway, M3.23.16.10.41.7-2.5
Std. dev. time between licks in bursts0.81.01.31.00.81.2
Total sessions with >9 infusions0.60.61.2-0.71.10.6
Short access day 1 total inactive lever presses2.12.46.2-0.9-2.5-0.2
Short access day 10 total inactive lever presses0.70.81.30.3-1.0-1.2
Short access day 1 total infusions0.50.61.5-0.3-0.3-1.2
Short access day 10 total infusions1.01.22.0-0.01.4-1.2
Short access total infusions0.30.30.7-0.00.5-0.8
Short access day 1 locomotion0.70.82.20.31.5-0.3
Short access day 10 total locomotion1.01.13.1-0.51.8-0.1
Short access total locomotion1.81.94.20.12.11.2
One hour access (0.3 mA shock)1.11.22.7-0.9-0.5-1.6
Compulsive drug intake6.26.38.4-2.8-2.9-1.6
One hour access (shock baseline)2.12.45.21.42.30.1
Social response proportion1.21.32.1-1.5-1.20.5
Social responses0.40.61.6-0.1-1.3-0.2
Social time0.10.10.30.2-0.6-0.1
Soleus weight0.82.24.62.21.30.5
Bone: stiffness0.20.30.80.20.4-0.9
Tibialis anterior weight0.20.71.5-0.6-1.2-0.6
Time to tail flick, vehicle, before self-admin1.81.82.1-1.2-1.4-1.4
Time to tail flick, vehicle, after self-admin0.91.02.40.7-0.31.5
Time to tail flick, test, before self-admin1.71.74.20.7-0.72.0
Time to tail flick, test, after self-admin0.30.30.50.5-0.7-0.1
Delta time to tail flick, vehicle, before/after SA3.23.26.51.70.42.6
Delta time to tail flick, test, before/after SA0.60.50.8-0.6-0.6-0.9
Tibia length0.41.21.61.30.91.1
Ambulatory time before self-admin0.50.51.3-1.20.1-0.5
Ambulatory time after self-admin0.40.50.80.70.40.9
Bone: tissue strength0.20.20.60.80.0-0.3
Total heroin consumption1.92.33.2-0.9-1.8-1.6
Bone: trabecular number0.71.12.90.51.7-0.3
Bone: trabecular spacing0.00.10.10.1-0.3-0.2
Bone: trabecular thickness1.11.43.31.80.70.5
Bone: trabecular tissue density0.20.30.6-0.2-0.60.8
Water consumed over 24 hours0.10.10.1-0.3-0.3-0.0
Number of responses in last shaping day0.80.81.41.2-0.50.9