Cacna2d1

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 NAcc gene expression Cacna2d1 0.53 0.11 0.0e+00 0.12 0.16 0.15 0.16 2.6e-13 9.9e-18 8.7e-17 1.5e-17
2 LHb alternative TSS NM_001110847.1 0.16 0.11 8.8e-03 -0.01 0 -0 -0.01 8.0e-01 2.8e-01 4.5e-01 5.1e-01
3 LHb alternative TSS NM_001110847.1 0.16 0.11 8.7e-03 -0.01 0 -0 -0.01 8.0e-01 2.8e-01 4.5e-01 5.2e-01
4 Brain gene expression Cacna2d1 0.15 0.09 3.3e-16 0.19 0.17 0.18 0.18 4.9e-17 1.5e-15 1.7e-16 5.7e-17

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 density0.10.20.4-0.3-0.3-0.30.6
Area under the delay curve0.00.00.10.3-0.0-0.0-0.0
BMI with tail0.10.20.60.20.40.4-0.8
BMI without tail0.51.03.60.20.30.3-1.9
Body weight0.00.10.1-0.2-0.3-0.30.2
Weight adjusted by age0.00.00.0-0.2-0.2-0.2-0.1
Bone surface0.20.30.5-0.20.70.70.5
Bone volume0.10.20.8-0.40.10.10.9
Breakpoint value in progressive ratio session0.10.20.20.1-0.5-0.5-0.4
Number of licking bursts0.60.71.0-0.5-0.9-0.91.0
Context. condit. distance diff. score0.40.50.70.3-0.7-0.7-0.8
Locomotion velocity, session 12.32.42.9-1.7-1.5-1.51.5
Locomotion distance, session 14.96.39.7-3.1-1.9-1.92.9
Locomotion velocity, session 20.20.30.4-0.6-0.5-0.50.2
Locomotion distance, session 21.42.05.0-2.2-0.7-0.71.4
Locomotion velocity, session 33.13.64.7-1.9-2.2-2.21.3
Locomotion distance, session 31.31.42.0-1.2-1.4-1.40.4
Stereotopy head waving bouts, day 31.01.21.3-1.1-1.1-1.11.2
Stereotopy head waving duration, day 31.01.22.4-0.9-0.9-0.91.5
Locomotion velocity, session 70.30.30.4-0.6-0.6-0.60.3
Locomotion distance, session 70.20.30.6-0.0-0.8-0.8-0.2
Stereotopy head waving bouts, day 72.12.32.9-1.7-1.3-1.31.7
Stereotopy head waving duration, day 72.43.04.1-1.8-1.5-1.52.0
Locomotion velocity, session 82.52.94.7-2.2-1.5-1.51.6
Locomotion distance, session 80.81.11.5-1.1-1.2-1.2-0.3
Degree of sensitization distance2.12.13.11.81.41.4-1.2
Degree of sensitization stereotypy1.41.52.1-1.5-1.1-1.11.2
Conditioned locomotion0.40.50.9-0.10.70.7-0.9
Cocaine response after cond. corrected1.41.62.3-1.2-1.5-1.50.6
Cocaine response after cond. not corrected0.40.50.9-0.9-0.7-0.70.4
Cocaine response before conditioning0.81.01.90.31.41.4-0.3
Saline control response0.70.91.01.01.01.0-0.8
Bone: connectivity density0.20.30.5-0.5-0.5-0.50.7
Bone: cortical apparent density0.40.50.80.20.90.90.5
Bone: cortical area1.62.53.91.22.02.0-0.7
Bone: cortical porosity1.11.21.90.91.41.4-0.5
Bone: cortical porosity4.24.65.82.02.42.4-1.7
Bone: cortical thickness0.81.31.61.21.21.3-0.9
Bone: cortical thickness0.40.50.70.80.80.8-0.2
Bone: cortical tissue density0.30.40.70.20.80.80.5
Condit. Reinf. active minus inactive responses1.31.42.5-1.6-1.1-1.10.8
Condit. Reinf. active-inactive response ratio0.80.91.4-1.2-1.0-1.00.6
Condit. Reinf. active responses1.11.43.0-1.7-0.9-0.91.1
Condit. Reinf. inactive responses0.30.30.7-0.80.30.30.7
Incentive salience index mean1.21.53.1-1.8-1.0-1.01.0
Condit. Reinf. lever presses0.91.22.3-1.5-0.3-0.31.5
Condit. Reinf. active minus inactive responses0.20.30.9-1.0-0.3-0.30.3
Condit. Reinf. active-inactive response ratio0.10.10.2-0.50.10.10.2
Condit. Reinf. active responses0.30.41.1-1.0-0.6-0.60.0
Condit. Reinf. inactive responses0.30.30.4-0.6-0.6-0.6-0.4
Condit. Reinf. lever presses3.64.87.4-2.0-2.7-2.70.7
Condit. Reinf. lever reinforcers received0.60.81.7-1.3-0.9-0.90.2
Conditioned reinforcement - actives1.01.01.5-1.1-0.7-0.71.2
Conditioned reinforcement - inactives0.60.60.90.6-0.8-0.81.0
Conditioned locomotion0.10.10.2-0.5-0.1-0.10.4
Patch foraging indifference point 0 sec0.10.10.10.1-0.3-0.3-0.3
Patch foraging indifference point AUC0.50.62.0-1.4-0.1-0.10.6
Delay disc. indifference point, 0s delay0.10.10.1-0.3-0.3-0.3-0.4
Delay disc. indifference point, 16s delay0.10.10.1-0.2-0.3-0.30.3
Delay disc. indifference point, 2s delay0.40.50.70.80.80.8-0.2
Delay disc. indifference point, 24s delay0.20.20.6-0.4-0.1-0.10.8
Delay disc. indifference point, 4s delay0.10.10.20.5-0.2-0.2-0.1
Delay disc. indifference point, 8s delay0.00.00.10.3-0.2-0.2-0.0
Indifference point function ln k0.30.40.91.00.40.4-0.4
Indifference point function log k0.30.40.91.00.40.4-0.4
Patch foraging total patch changes 0 sec0.10.10.20.2-0.3-0.3-0.5
Patch foraging total patch changes 12 sec0.20.20.5-0.7-0.4-0.40.3
Patch foraging total patch changes 18 sec1.41.94.1-2.0-1.1-1.11.0
Patch foraging total patch changes 24 sec1.31.65.0-2.2-0.5-0.51.0
Patch foraging total patch changes 6 sec3.24.86.3-2.5-2.5-2.50.5
Patch foraging time to switch 0 sec1.32.02.7-1.4-1.6-1.60.7
Patch foraging water rate 0 sec0.40.61.10.51.01.00.0
Patch foraging water rate 12 sec1.52.34.0-2.0-1.0-1.01.8
Patch foraging water rate 18 sec1.62.14.3-1.8-0.7-0.72.1
Patch foraging water rate 24 sec0.50.61.1-0.41.01.00.6
Patch foraging water rate 6 sec0.30.40.9-1.00.20.20.8
Seeking ratio, delayed vs. immediate footshock0.20.20.80.90.10.10.0
Distance traveled before self-admin1.51.62.2-1.5-1.2-1.21.2
Distance traveled after self-admin0.30.40.4-0.4-0.6-0.60.6
Extensor digitorum longus weight0.20.81.20.41.11.1-0.8
Bone: elastic displacement0.20.20.70.4-0.1-0.1-0.9
Bone: elastic work0.20.30.50.70.50.50.1
Bone: endosteal estimation0.20.30.5-0.10.70.70.6
Bone: endosteal perimeter0.40.91.70.41.31.30.1
Epididymis fat weight1.02.22.8-1.7-1.6-1.60.8
Delta time in closed arm before/after self-admin0.90.92.4-0.8-0.5-0.51.6
Delta time in open arm before/after self-admin0.80.81.30.50.90.9-1.2
Diff in mean of infusions in LGA sessions1.01.11.4-1.0-1.0-1.01.2
Delay discount exponential model param0.10.10.2-0.4-0.1-0.1-0.0
Extinction: sum of active levers before priming0.90.91.4-1.2-0.8-0.81.1
Active lever presses in extinction session 62.52.43.1-1.5-1.7-1.71.1
Bone: final force1.11.72.31.31.51.5-0.9
Bone: final moment0.91.41.91.11.41.4-0.7
Food consumed during 24 hour testing period0.91.11.8-1.1-0.8-0.81.3
Glucose0.40.50.90.21.01.00.5
Heart weight3.95.57.0-1.9-2.4-2.42.6
Delay discount hyperbolic model param0.10.10.4-0.7-0.2-0.20.1
Intermittent access intake day 1-15 change0.60.61.1-1.1-0.2-0.21.0
Intermittent access intake escalation0.40.40.8-0.90.30.30.7
Intermittent access intake escalation 20.50.50.9-0.30.90.90.5
Intermitt. access day 1 inactive lever presses5.15.56.42.52.42.4-2.0
Intermitt. access day 15 inactive lever presses0.80.81.21.11.01.0-0.5
Intermitt. access escalation Index0.90.82.10.90.30.3-1.4
Intermittent access day 1 total infusions0.50.60.8-0.7-0.9-0.90.5
Intermittent access day 15 total infusions0.80.91.4-1.2-0.8-0.80.9
Intermittent access terminal intake (last 3 days)1.11.21.7-1.0-1.0-1.01.3
Intermittent access total infusions1.11.22.0-0.9-1.1-1.11.4
Intermittent access day 1 locomotion0.20.30.8-0.9-0.4-0.40.1
Intermittent access day 15 total locomotion1.31.44.1-2.0-0.7-0.70.8
Intermittent access total locomotion1.61.93.4-1.8-1.0-1.01.5
Intermittent access standard deviation0.20.20.30.20.60.6-0.4
Left kidney weight0.20.71.41.20.70.7-0.6
Right kidney weight0.20.71.31.20.40.4-1.1
Cocaine induced anxiety1.41.71.81.31.31.3-1.2
Post-drug Anxiety0.50.50.70.90.80.8-0.5
Baseline Anxiety0.00.00.1-0.1-0.1-0.1-0.3
Tail length0.10.41.30.40.20.2-1.2
Length with tail0.00.20.50.7-0.0-0.0-0.3
Length without tail0.10.31.00.4-0.2-0.21.0
Times rat made contact with spout0.30.30.6-0.1-0.8-0.8-0.0
Lifetime Intake1.11.21.6-0.6-1.2-1.21.2
Liver weight, left0.10.10.20.10.40.40.4
Liver weight, right0.81.42.10.41.51.5-1.0
Locomotor activity0.20.30.50.2-0.6-0.60.7
Locomotor testing distance0.30.62.1-0.2-0.2-0.21.4
Locomotor testing rearing0.10.10.2-0.50.30.30.0
Locomotion in novel chamber0.10.10.3-0.5-0.2-0.20.3
Locomotion in novel chamber post-restriction0.30.40.6-0.6-0.8-0.8-0.0
Fecal boli incidents, locomotor time 10.60.61.5-0.4-0.7-0.71.2
Change in fecal boli incidents, locomotor task0.30.30.5-0.4-0.7-0.70.1
Time >=10cm from walls, locomotor time 13.63.64.81.92.22.2-1.3
Bouts of movement, locomotor time 10.40.51.00.8-0.2-0.2-1.0
Total resting periods, locomotor time 10.40.40.80.7-0.3-0.3-0.9
Rest time, locomotor task time 11.21.31.8-1.0-1.3-1.30.8
Distance moved, locomotor task time 14.44.87.71.42.82.8-1.3
Vertical activity count, locomotor time 12.02.13.21.11.81.8-0.8
Time >=10cm from walls, locomotor time 20.00.00.10.30.10.1-0.0
Bouts of movement, locomotor time 20.40.40.80.60.50.5-0.9
Total resting periods, locomotor time 20.20.20.30.60.30.3-0.6
Rest time, locomotor task time 20.20.20.40.60.50.5-0.3
Distance moved, locomotor task time 20.10.20.3-0.30.40.4-0.5
Vertical activity count, locomotor time 20.10.10.3-0.10.40.4-0.5
Light reinforcement 10.91.72.9-0.7-1.7-1.70.6
Light reinforcement 20.00.00.10.10.10.1-0.3
Bone: marrow area0.20.40.5-0.10.70.70.6
Bone: maximum diameter2.75.08.21.62.92.9-1.0
Bone: maximum force2.03.55.01.82.22.2-0.9
Bone: maximum moment1.72.94.31.52.12.1-0.7
Mean time between licks in bursts0.10.20.5-0.40.00.0-0.7
Mean num. licks in bursts0.20.30.50.30.40.4-0.7
Cd content in liver0.40.50.6-0.8-0.6-0.60.7
Co content in liver0.40.51.9-0.20.20.21.4
Cu content in liver0.30.40.70.90.60.6-0.3
Fe content in liver0.10.10.10.1-0.3-0.30.3
K content in liver1.51.52.00.91.21.2-1.4
Mg content in liver1.11.12.70.80.70.8-1.6
Mn content in liver1.82.03.51.01.31.3-1.9
Na content in liver1.11.11.5-0.6-1.2-1.2-1.0
Rb content in liver0.10.10.4-0.4-0.0-0.00.6
Se content in liver1.41.74.71.30.30.3-2.2
Sr content in liver0.10.00.10.4-0.1-0.1-0.1
Zn content in liver0.20.20.50.40.10.1-0.7
Bone: minimum diameter0.81.52.80.71.71.7-0.3
Time in familiar zone, hab. session 10.10.10.2-0.10.30.30.5
Time in novel zone, hab. session 10.50.51.10.60.60.6-1.0
Total zone transitions, hab. session 11.21.63.0-1.7-1.0-1.01.3
Total locomotion distance, hab. session 10.10.10.1-0.20.30.3-0.3
Locomotion velocity, hab. session 10.00.10.2-0.5-0.1-0.10.0
Time in familiar zone, hab. session 21.61.62.80.91.71.7-0.6
Time in novel zone, hab. session 21.91.92.8-1.0-1.7-1.71.0
Total zone transitions, hab. session 20.10.20.6-0.3-0.1-0.1-0.8
Total locomotion distance, hab. session 20.81.12.60.50.80.8-1.6
Locomotion velocity, hab. session 20.50.71.80.40.70.7-1.3
Novel to familiar place preference ratio0.40.51.30.60.20.2-1.1
Novelty place preference0.60.61.60.70.30.3-1.3
Time in novel zone, NPP test0.60.61.50.70.40.4-1.2
Total zone transitions, NPP test1.82.54.9-2.2-1.3-1.31.4
Total locomotion distance, NPP test0.10.20.5-0.30.20.2-0.7
Locomotion velocity, NPP test0.20.30.7-0.10.40.4-0.8
Intraocular pressure0.91.22.5-1.6-0.6-0.61.3
Delta distance traveled before/after self-admin0.91.01.61.21.01.0-0.5
Delta ambulatory time before/after self-admin1.71.92.91.71.11.1-1.5
Parametrial fat weight0.10.30.40.50.40.4-0.7
Pavlov. Cond. lever latency0.20.30.70.8-0.2-0.2-0.7
Pavlov. Cond. magazine entry latency0.10.10.1-0.40.20.2-0.2
Pavlov. Cond. change in total contacts0.10.10.1-0.40.30.3-0.0
Pavlov. Cond. index score0.10.20.5-0.70.20.20.3
Pavlov. Cond. latency score0.20.20.7-0.80.10.10.4
Pavlov. Cond. lever contacts0.30.30.5-0.50.70.7-0.1
Pavlov. Cond. magazine entry number0.00.10.10.2-0.3-0.30.2
Pavlov. Cond. intertrial magazine entries0.50.61.60.70.30.3-1.3
Pavlov. Cond. lever-magazine prob. diff.0.10.10.4-0.60.30.30.1
Pavlov. Cond. response bias0.30.40.60.10.80.8-0.4
Pavlov. Cond. lever latency1.41.93.11.21.81.8-0.1
Pavlov. Cond. magazine entry latency0.40.40.7-0.6-0.8-0.8-0.0
Pavlov. Cond. change in total contacts1.52.02.7-1.6-1.6-1.60.2
Pavlov. Cond. index score1.82.33.3-1.6-1.8-1.80.4
Pavlov. Cond. latency score1.62.02.8-1.6-1.7-1.70.5
Pavlov. Cond. lever contacts2.12.94.7-1.4-2.2-2.20.2
Pavlov. Cond. magazine entry number0.30.40.50.70.70.70.4
Pavlov. Cond. intertrial magazine entries1.31.62.21.51.51.5-0.1
Pavlov. Cond. lever-magazine prob. diff.2.02.53.4-1.7-1.9-1.90.4
Pavlov. Cond. response bias1.82.43.9-1.4-2.0-2.00.1
Time in closed arm before self-admin1.31.42.81.70.80.8-1.3
Time in closed arm after self-admin0.90.91.11.01.01.0-0.5
Time in open arm before self-admin0.30.30.8-0.6-0.2-0.20.9
Time in open arm after self-admin0.10.10.2-0.50.10.10.4
Bone: periosteal estimation0.81.62.80.81.71.7-0.2
Bone: periosteal perimeter1.11.83.00.91.71.7-0.6
Bone: post-yield work0.50.60.9-0.00.90.91.0
Progressive ratio test 1 active lever presses1.11.21.7-1.0-1.3-1.30.6
Progressive ratio test 1 breakpoint1.31.42.1-0.9-1.5-1.50.6
Progressive ratio test 1 inactive lever presses0.20.20.50.40.30.3-0.7
Progressive ratio test 2 active lever presses1.82.02.0-1.4-1.4-1.41.4
Progressive ratio test 2 breakpoint1.92.22.6-1.3-1.5-1.51.6
Progressive ratio test 2 inactive lever presses0.20.30.5-0.7-0.3-0.30.7
Incentive Sensitization - Responses1.31.32.4-1.1-0.9-0.91.5
Incentive Sensitization - Breakpoint1.41.42.6-1.2-0.9-0.91.6
Sum of active levers in priming session hrs 5-60.50.50.7-0.8-0.6-0.60.7
Progressive ratio0.20.30.7-0.6-0.2-0.20.8
Food seeking constrained by brief footshock3.54.37.0-1.8-1.9-1.92.6
Seeking ratio, punishment vs. effort0.40.40.5-0.7-0.6-0.60.7
Retroperitoneal fat weight0.10.20.40.0-0.6-0.6-0.2
Reaction time number correct0.20.20.4-0.3-0.6-0.60.2
Reaction time mean minus median3.54.75.81.72.22.2-2.4
Reaction time mean minus median AUC4.86.27.12.32.52.5-2.7
Reaction time num false alarms1.21.63.41.81.21.2-0.2
Reaction time num false alarms AUC0.91.22.01.41.11.10.4
Reaction time trials correct on left0.20.20.4-0.3-0.6-0.60.2
Reaction time trials on left0.10.20.3-0.2-0.5-0.50.0
Reaction time mean3.04.25.11.42.22.2-2.3
Reaction time mean AUC4.45.96.71.92.62.6-2.6
Median of all reaction times2.23.03.61.21.91.9-1.9
Reaction time omissions3.04.17.41.81.71.7-2.7
Reaction time false alarm rate0.91.22.21.51.21.20.2
Reaction time premature initiation rate0.70.92.91.7-0.1-0.1-0.8
Reaction time premature initiations0.50.62.01.4-0.2-0.2-0.6
Std. dev. reaction times4.66.57.72.02.62.6-2.8
Reaction time trials completed0.10.20.3-0.2-0.5-0.50.0
Reaction time trials AUC0.20.30.5-0.5-0.7-0.70.3
Run reversals in cocaine runway, females0.30.30.80.90.30.3-0.5
Run reversals in cocaine runway, males0.10.10.20.10.30.3-0.5
Latency to leave start box in cocaine runway0.80.92.0-0.3-0.8-0.81.4
Latency to leave start box in cocaine runway, F0.10.10.10.3-0.3-0.30.2
Latency to leave start box in cocaine runway, M0.30.31.1-0.2-0.2-0.21.0
Std. dev. time between licks in bursts0.70.91.60.60.90.9-1.3
Total sessions with >9 infusions0.30.30.60.1-0.8-0.80.4
Short access day 1 total inactive lever presses0.30.30.9-0.4-0.1-0.11.0
Short access day 10 total inactive lever presses2.12.32.81.71.41.4-1.6
Short access day 1 total infusions0.20.20.30.5-0.5-0.5-0.1
Short access day 10 total infusions1.71.92.8-0.9-1.7-1.71.1
Short access total infusions0.30.30.40.5-0.7-0.70.2
Short access day 1 locomotion0.80.91.71.20.40.4-1.3
Short access day 10 total locomotion0.80.91.3-1.1-0.9-0.90.9
Short access total locomotion0.70.70.9-0.9-1.0-1.00.5
One hour access (0.3 mA shock)0.70.81.1-0.6-1.0-1.01.1
Compulsive drug intake0.30.30.4-0.50.60.6-0.4
One hour access (shock baseline)1.11.31.9-0.4-1.3-1.31.4
Social response proportion0.10.20.3-0.50.30.3-0.4
Social responses0.60.71.80.60.60.6-1.3
Social time0.20.20.60.50.30.3-0.8
Soleus weight10.731.446.7-6.3-4.4-4.46.8
Bone: stiffness3.96.18.62.22.92.9-1.5
Tibialis anterior weight1.24.05.7-2.4-1.5-1.52.4
Time to tail flick, vehicle, before self-admin1.31.32.2-1.4-0.7-0.71.5
Time to tail flick, vehicle, after self-admin0.10.10.20.00.40.40.4
Time to tail flick, test, before self-admin3.43.45.2-2.3-1.6-1.61.7
Time to tail flick, test, after self-admin3.13.25.5-2.3-1.4-1.41.8
Delta time to tail flick, vehicle, before/after SA0.80.81.41.20.60.6-1.1
Delta time to tail flick, test, before/after SA0.00.00.0-0.1-0.2-0.20.0
Tibia length0.00.10.1-0.0-0.4-0.40.2
Ambulatory time before self-admin1.01.11.3-1.2-1.1-1.10.9
Ambulatory time after self-admin0.10.10.20.5-0.1-0.1-0.3
Bone: tissue strength0.60.61.6-0.8-0.3-0.31.2
Total heroin consumption0.50.60.6-0.8-0.8-0.80.8
Bone: trabecular number0.20.30.6-0.3-0.4-0.40.8
Bone: trabecular spacing0.10.10.4-0.6-0.0-0.00.3
Bone: trabecular thickness0.10.10.30.0-0.2-0.20.5
Bone: trabecular tissue density1.11.52.11.01.21.2-1.4
Water consumed over 24 hours0.10.10.1-0.4-0.2-0.20.2
Number of responses in last shaping day1.01.01.2-0.7-1.1-1.11.1