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 Brain gene expression ENSRNOG00000033531 0.05 0.03 8.9e-06 0.06 0.05 0.04 0.05 5.7e-06 3.3e-05 1.3e-04 2.4e-05
2 NAcc gene expression ENSRNOG00000033531 0.81 0.05 1.9e-06 0.02 0.04 0.01 0.02 1.5e-02 8.0e-04 2.5e-02 8.9e-03
3 NAcc intron excision ratio chr4:18980769:18982156 0.17 0.1 7.8e-03 0.02 0.03 0.03 0.03 1.2e-02 4.2e-03 3.4e-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 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 tail0.10.20.70.80.2-0.0
BMI without tail0.61.23.51.9-0.2-0.1
Body weight0.10.30.7-0.20.10.8
Epididymis fat weight0.71.62.2-0.8-1.41.5
Glucose0.30.50.9-0.50.5-1.0
Heart weight2.63.86.9-2.6-1.11.8
Left kidney weight0.51.32.20.51.51.2
Right kidney weight0.61.62.21.11.51.2
Tail length0.10.41.21.10.20.0
Length with tail0.10.40.90.31.00.5
Length without tail0.40.91.1-0.91.10.8
Liver weight, left0.00.10.1-0.40.3-0.0
Liver weight, right0.30.61.01.00.5-0.7
Parametrial fat weight0.10.30.50.7-0.1-0.6
Retroperitoneal fat weight0.00.10.40.20.1-0.6
Intraocular pressure1.82.64.3-1.3-2.1-1.3
Extensor digitorum longus weight0.41.43.80.80.0-1.9
Soleus weight8.725.546.7-6.8-5.31.3
Tibialis anterior weight1.03.55.7-2.4-2.10.6
Tibia length0.10.41.0-0.20.01.0
Number of licking bursts0.50.61.0-1.0-0.50.7
Food consumed during 24 hour testing period0.80.91.8-1.3-1.00.2
Times rat made contact with spout0.20.20.50.0-0.3-0.7
Mean time between licks in bursts0.91.32.90.7-0.5-1.7
Mean num. licks in bursts0.60.71.40.70.2-1.2
Std. dev. time between licks in bursts1.41.73.31.30.4-1.8
Water consumed over 24 hours0.20.20.4-0.2-0.5-0.6
Indifference point 0 sec0.30.51.40.30.01.2
Indifference point AUC0.70.82.0-0.7-1.40.1
Indifference point function ln k0.20.30.80.40.90.1
Indifference point function log k0.20.30.80.40.90.1
Delay discounting total patch changes 0 sec0.60.92.50.50.21.6
Delay discounting total patch changes 12 sec0.50.71.5-0.4-0.61.2
Delay discounting total patch changes 18 sec1.41.92.9-1.0-1.71.3
Delay discounting total patch changes 24 sec2.12.65.2-1.0-2.31.4
Delay discounting total patch changes 6 sec2.03.16.7-0.5-2.61.5
Delay discounting time to switch 0 sec0.60.92.1-0.7-1.50.3
Delay discounting water rate 0 sec0.20.20.6-0.00.40.8
Delay discounting water rate 12 sec2.03.03.7-1.8-1.91.4
Delay discounting water rate 18 sec2.12.84.3-2.0-2.10.4
Delay discounting water rate 24 sec0.20.30.5-0.5-0.70.3
Delay discounting water rate 6 sec0.60.91.4-0.8-1.20.9
Locomotor activity0.20.40.5-0.70.70.4
Locomotor testing distance0.40.71.9-1.40.20.3
Locomotor testing rearing0.10.20.3-0.0-0.5-0.5
Light reinforcement 10.30.60.8-0.7-0.70.9
Light reinforcement 20.10.10.20.3-0.3-0.5
Reaction time number correct1.21.85.2-0.1-0.32.3
Reaction time mean minus median1.92.55.42.31.4-0.2
Reaction time mean minus median AUC2.93.76.72.62.0-0.6
Reaction time num false alarms1.31.74.40.32.1-0.9
Reaction time num false alarms AUC0.91.32.7-0.31.7-1.1
Reaction time trials correct on left1.21.85.2-0.1-0.32.3
Reaction time trials on left1.21.74.90.0-0.22.2
Reaction time mean1.82.44.82.21.1-1.1
Reaction time mean AUC2.53.36.32.51.5-1.2
Median of all reaction times1.31.83.41.80.9-1.0
Reaction time omissions2.73.77.22.71.6-1.1
Reaction time false alarm rate1.72.44.5-0.21.7-2.1
Reaction time premature initiation rate1.21.63.10.71.81.1
Reaction time premature initiations1.62.24.30.61.42.1
Std. dev. reaction times2.73.87.32.71.6-1.1
Reaction time trials completed1.21.74.90.0-0.22.2
Reaction time trials AUC1.41.95.5-0.2-0.52.3
Social response proportion0.10.10.20.4-0.40.1
Social responses0.60.81.81.40.50.6
Social time1.31.74.20.80.42.1
Conditioned locomotion0.40.50.90.9-0.3-0.6
Cocaine response after cond. corrected0.70.71.1-0.6-1.10.9
Cocaine response after cond. not corrected0.30.30.8-0.4-0.90.2
Cocaine response before conditioning0.30.30.90.30.2-1.0
Saline control response0.60.81.20.81.10.8
Condit. Reinf. active minus inactive responses0.60.71.3-0.3-1.20.8
Condit. Reinf. active-inactive response ratio0.10.10.3-0.2-0.50.2
Condit. Reinf. active responses0.40.61.6-0.0-1.30.4
Condit. Reinf. inactive responses0.20.30.80.4-0.9-0.1
Condit. Reinf. lever presses3.24.39.2-0.7-1.83.0
Condit. Reinf. lever reinforcers received0.60.92.1-0.2-1.40.7
Pavlov. Cond. lever latency2.02.87.40.11.0-2.7
Pavlov. Cond. magazine entry latency0.40.51.30.0-0.41.2
Pavlov. Cond. change in total contacts1.31.83.0-0.2-1.51.7
Pavlov. Cond. index score1.72.24.7-0.4-1.42.2
Pavlov. Cond. latency score1.72.14.5-0.5-1.32.1
Pavlov. Cond. lever contacts2.53.58.9-0.2-1.23.0
Pavlov. Cond. magazine entry number0.70.81.9-0.40.7-1.4
Pavlov. Cond. intertrial magazine entries0.50.71.30.11.2-0.8
Pavlov. Cond. lever-magazine prob. diff.1.82.34.9-0.4-1.42.2
Pavlov. Cond. response bias2.02.86.8-0.1-1.32.6
Conditioned reinforcement - actives2.12.14.1-1.2-0.92.0
Conditioned reinforcement - inactives1.82.14.5-1.02.10.9
Conditioned locomotion1.21.43.9-0.4-0.32.0
Intermittent access intake day 1-15 change2.42.45.3-1.0-1.02.3
Intermittent access intake escalation1.61.63.5-0.7-0.91.9
Intermittent access intake escalation 20.20.20.3-0.5-0.40.4
Intermitt. access day 1 inactive lever presses5.15.56.52.02.6-2.4
Intermitt. access day 15 inactive lever presses0.80.91.80.51.3-0.8
Intermitt. access escalation Index1.91.72.81.40.6-1.7
Intermittent access day 1 total infusions0.30.30.6-0.5-0.80.3
Intermittent access day 15 total infusions1.41.62.1-0.9-1.41.4
Intermittent access terminal intake (last 3 days)0.91.01.7-1.3-1.00.5
Intermittent access total infusions0.80.92.0-1.4-0.70.5
Intermittent access day 1 locomotion0.70.71.9-0.1-1.40.4
Intermittent access day 15 total locomotion3.13.35.7-0.8-2.41.9
Intermittent access total locomotion2.02.23.4-1.5-1.81.0
Intermittent access standard deviation0.10.10.20.40.00.4
Cocaine induced anxiety0.91.01.51.21.2-0.3
Post-drug Anxiety1.01.11.90.51.1-1.4
Baseline Anxiety0.20.20.50.30.1-0.7
Lifetime Intake0.80.91.6-1.2-0.31.1
Incentive Sensitization - Responses0.90.92.4-1.5-0.5-0.4
Incentive Sensitization - Breakpoint1.01.02.6-1.6-0.6-0.3
Progressive ratio test 1 active lever presses1.11.11.7-0.6-1.31.1
Progressive ratio test 1 breakpoint0.80.81.4-0.6-1.20.9
Progressive ratio test 1 inactive lever presses0.30.30.50.70.6-0.5
Progressive ratio test 2 active lever presses1.21.32.0-1.4-1.20.5
Progressive ratio test 2 breakpoint1.41.52.6-1.6-1.30.3
Progressive ratio test 2 inactive lever presses0.40.40.6-0.7-0.5-0.8
Total sessions with >9 infusions0.20.20.3-0.40.20.6
Short access day 1 total inactive lever presses0.30.40.9-1.0-0.20.2
Short access day 10 total inactive lever presses2.62.84.71.62.2-1.2
Short access day 1 total infusions0.40.40.80.10.70.9
Short access day 10 total infusions1.92.14.6-1.1-0.82.1
Short access total infusions0.70.81.6-0.20.91.3
Short access day 1 locomotion0.90.91.71.31.00.1
Short access day 10 total locomotion1.92.14.0-0.9-1.12.0
Short access total locomotion0.90.91.5-0.5-1.21.0
Compulsive drug intake0.20.20.30.4-0.6-0.1
One hour access (0.3 mA shock)0.60.71.1-1.1-0.20.9
One hour access (shock baseline)0.60.71.9-1.4-0.20.4
Number of responses in last shaping day0.70.71.2-1.1-0.60.7
Context. condit. distance diff. score0.30.40.70.80.20.7
Locomotion velocity, session 11.51.63.0-1.4-1.7-0.0
Locomotion distance, session 14.76.110.2-2.8-3.2-0.2
Locomotion velocity, session 20.60.71.4-0.1-0.8-1.2
Locomotion distance, session 22.23.25.6-1.3-2.4-1.5
Locomotion velocity, session 32.32.74.5-1.3-2.11.4
Locomotion distance, session 30.80.92.2-0.3-1.50.6
Stereotopy head waving bouts, day 30.70.91.4-1.2-1.10.2
Stereotopy head waving duration, day 30.91.12.5-1.6-0.8-0.3
Locomotion velocity, session 70.30.30.7-0.3-0.90.0
Locomotion distance, session 70.60.82.20.2-0.01.5
Stereotopy head waving bouts, day 71.82.03.0-1.7-1.21.3
Stereotopy head waving duration, day 72.02.44.3-2.1-1.40.9
Locomotion velocity, session 82.22.65.2-1.6-2.30.4
Locomotion distance, session 80.60.82.20.3-1.5-0.4
Degree of sensitization distance2.02.04.51.12.10.5
Degree of sensitization stereotypy1.11.21.7-1.3-1.10.9
Condit. Reinf. active minus inactive responses1.01.22.8-0.8-1.7-0.2
Condit. Reinf. active-inactive response ratio0.70.81.5-0.6-1.2-0.6
Condit. Reinf. active responses1.21.53.4-1.1-1.80.1
Condit. Reinf. inactive responses0.30.40.8-0.6-0.90.3
Incentive salience index mean1.41.73.9-1.0-2.0-0.6
Condit. Reinf. lever presses1.21.62.8-1.4-1.7-0.3
Time in familiar zone, hab. session 10.20.20.3-0.50.20.4
Time in novel zone, hab. session 10.60.61.11.00.3-0.8
Total zone transitions, hab. session 12.23.25.6-1.2-1.62.4
Total locomotion distance, hab. session 11.01.43.90.40.12.0
Locomotion velocity, hab. session 11.11.64.70.0-0.12.2
Time in familiar zone, hab. session 20.70.71.70.61.3-0.1
Time in novel zone, hab. session 21.01.02.1-1.0-1.50.3
Total zone transitions, hab. session 20.40.50.80.9-0.60.5
Total locomotion distance, hab. session 20.81.02.91.70.20.4
Locomotion velocity, hab. session 20.60.82.11.40.10.5
Novel to familiar place preference ratio0.70.71.31.20.6-0.7
Novelty place preference0.91.01.71.30.7-0.9
Time in novel zone, NPP test0.91.01.51.20.6-1.0
Total zone transitions, NPP test2.02.96.8-1.3-2.60.5
Total locomotion distance, NPP test0.50.71.10.8-0.51.1
Locomotion velocity, NPP test0.40.50.80.9-0.30.9
Pavlov. Cond. lever latency0.30.40.60.60.8-0.3
Pavlov. Cond. magazine entry latency0.00.00.10.3-0.1-0.0
Pavlov. Cond. change in total contacts0.10.10.20.1-0.4-0.4
Pavlov. Cond. index score0.10.10.2-0.2-0.5-0.1
Pavlov. Cond. latency score0.20.20.5-0.3-0.7-0.2
Pavlov. Cond. lever contacts0.20.30.50.1-0.5-0.7
Pavlov. Cond. magazine entry number0.00.00.1-0.2-0.1-0.2
Pavlov. Cond. intertrial magazine entries0.50.61.51.20.4-0.3
Pavlov. Cond. lever-magazine prob. diff.0.10.10.2-0.0-0.4-0.2
Pavlov. Cond. response bias0.10.10.20.50.30.4
Bone: apparent density0.50.81.6-0.6-0.51.3
Bone surface0.20.30.5-0.5-0.5-0.7
Bone volume0.20.40.8-0.9-0.60.1
Bone: connectivity density0.40.61.1-0.7-0.61.0
Bone: cortical apparent density0.20.30.4-0.50.60.3
Bone: cortical area0.81.22.00.71.1-1.4
Bone: cortical porosity0.70.81.60.50.7-1.3
Bone: cortical porosity2.83.03.91.71.5-2.0
Bone: cortical thickness0.40.71.40.91.20.1
Bone: cortical thickness0.50.51.10.20.71.1
Bone: cortical tissue density0.20.20.3-0.50.60.4
Bone: elastic displacement0.50.50.70.90.30.9
Bone: elastic work0.10.10.3-0.10.60.1
Bone: endosteal estimation0.81.74.3-0.6-0.6-2.1
Bone: endosteal perimeter0.81.64.6-0.10.1-2.1
Bone: final force0.60.91.40.90.8-1.2
Bone: final moment0.50.91.90.70.5-1.4
Bone: marrow area0.81.64.3-0.6-0.6-2.1
Bone: maximum diameter1.83.47.71.01.2-2.8
Bone: maximum force1.01.72.90.91.2-1.7
Bone: maximum moment1.01.73.80.70.9-1.9
Bone: minimum diameter0.81.64.40.30.5-2.1
Bone: periosteal estimation0.91.95.60.20.4-2.4
Bone: periosteal perimeter0.81.33.00.60.8-1.7
Bone: post-yield work0.70.91.9-1.00.0-1.4
Bone: stiffness2.74.38.01.51.7-2.8
Bone: tissue strength0.80.81.6-1.2-0.9-0.2
Bone: trabecular number0.81.33.1-0.8-0.31.8
Bone: trabecular spacing1.62.15.9-0.3-0.5-2.4
Bone: trabecular thickness0.10.10.3-0.5-0.20.3
Bone: trabecular tissue density0.91.32.11.41.3-0.2
Breakpoint value in progressive ratio session0.10.10.10.30.3-0.4
Distance traveled before self-admin3.53.86.7-1.3-1.82.6
Distance traveled after self-admin1.21.43.7-0.6-0.31.9
Delta time in closed arm before/after self-admin0.90.82.5-1.6-0.1-0.3
Delta time in open arm before/after self-admin0.60.61.41.2-0.0-0.6
Diff in mean of infusions in LGA sessions0.80.91.6-1.3-1.0-0.5
Extinction: sum of active levers before priming1.51.51.6-1.2-1.3-1.2
Active lever presses in extinction session 62.01.93.2-1.2-1.81.0
Delta distance traveled before/after self-admin1.11.22.90.71.7-0.4
Delta ambulatory time before/after self-admin2.12.33.81.62.0-0.6
Time in closed arm before self-admin1.21.42.51.31.60.1
Time in closed arm after self-admin1.01.02.40.51.60.6
Time in open arm before self-admin0.40.50.8-0.9-0.30.7
Time in open arm after self-admin0.70.71.4-0.5-0.7-1.2
Sum of active levers in priming session hrs 5-60.70.70.9-0.9-0.90.7
Time to tail flick, vehicle, before self-admin1.51.62.5-1.6-1.20.8
Time to tail flick, vehicle, after self-admin0.60.61.8-0.40.11.3
Time to tail flick, test, before self-admin2.22.23.8-1.7-1.9-0.1
Time to tail flick, test, after self-admin3.13.26.3-1.8-2.50.5
Delta time to tail flick, vehicle, before/after SA0.70.71.31.10.8-0.3
Delta time to tail flick, test, before/after SA0.40.30.7-0.1-0.50.8
Ambulatory time before self-admin2.72.85.4-0.9-1.52.3
Ambulatory time after self-admin0.80.92.30.40.51.5
Total heroin consumption0.30.40.6-0.8-0.7-0.1
Area under the delay curve0.50.51.00.01.00.8
Delay disc. indifference point, 0s delay0.30.40.70.4-0.50.8
Delay disc. indifference point, 16s delay1.11.23.3-0.30.41.8
Delay disc. indifference point, 2s delay0.60.71.20.21.10.9
Delay disc. indifference point, 24s delay0.40.40.6-0.80.2-0.7
Delay disc. indifference point, 4s delay0.70.71.30.11.20.9
Delay disc. indifference point, 8s delay0.30.40.60.00.80.6
Delay discount exponential model param0.50.51.40.0-1.2-0.5
Delay discount hyperbolic model param0.80.81.9-0.1-1.4-0.7
Fecal boli incidents, locomotor time 10.80.91.5-1.2-0.31.0
Change in fecal boli incidents, locomotor task0.30.30.7-0.1-0.40.8
Time >=10cm from walls, locomotor time 12.42.43.31.31.5-1.8
Bouts of movement, locomotor time 10.60.71.11.01.0-0.3
Total resting periods, locomotor time 10.40.50.80.90.8-0.2
Rest time, locomotor task time 10.70.81.5-0.8-1.20.5
Distance moved, locomotor task time 11.51.72.61.31.6-0.8
Vertical activity count, locomotor time 10.60.61.20.81.1-0.3
Time >=10cm from walls, locomotor time 20.00.00.00.0-0.10.2
Bouts of movement, locomotor time 21.31.42.70.90.8-1.6
Total resting periods, locomotor time 21.11.22.80.60.7-1.7
Rest time, locomotor task time 20.30.30.60.30.5-0.8
Distance moved, locomotor task time 20.60.82.00.5-0.01.4
Vertical activity count, locomotor time 20.20.20.40.50.10.7
Weight adjusted by age0.10.20.30.1-0.5-0.4
Seeking ratio, delayed vs. immediate footshock0.91.01.7-0.01.3-1.1
Locomotion in novel chamber0.70.92.3-0.3-0.41.5
Locomotion in novel chamber post-restriction0.20.20.50.0-0.70.3
Progressive ratio0.91.12.2-0.8-0.6-1.5
Food seeking constrained by brief footshock2.93.57.0-2.6-1.80.6
Seeking ratio, punishment vs. effort1.31.63.6-0.7-0.91.9
Run reversals in cocaine runway, females0.40.40.90.51.00.3
Run reversals in cocaine runway, males0.10.10.20.50.0-0.2
Latency to leave start box in cocaine runway1.21.32.0-1.4-0.21.4
Latency to leave start box in cocaine runway, F2.42.67.1-0.20.82.7
Latency to leave start box in cocaine runway, M0.60.61.1-1.0-0.5-0.7
Cd content in liver0.40.50.5-0.7-0.60.7
Co content in liver0.60.81.9-1.4-0.3-0.6
Cu content in liver0.20.20.50.30.7-0.2
Fe content in liver0.40.41.1-0.30.21.0
K content in liver1.71.72.61.40.7-1.6
Mg content in liver1.01.02.71.60.4-0.4
Mn content in liver1.21.43.51.90.7-0.3
Na content in liver0.90.91.31.0-1.1-0.7
Rb content in liver0.10.20.4-0.6-0.2-0.3
Se content in liver2.73.24.72.21.02.0
Sr content in liver0.20.20.40.10.70.5
Zn content in liver0.20.20.50.70.50.1