Casc3

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 ENSRNOG00000009716 0.04 0.03 6.9e-03 0.01 0.01 0 0.01 5.7e-02 1.6e-02 2.4e-01 1.6e-02
2 Liver mRNA stability ENSRNOG00000009716 0.11 0.07 7.9e-11 0.1 0.09 0.09 0.09 9.7e-11 5.2e-10 4.5e-10 6.2e-10
3 NAcc mRNA stability ENSRNOG00000009716 0.32 0.14 8.1e-03 0 0.01 0 0.01 3.2e-01 1.1e-01 1.2e-01 6.1e-02

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 tail1.23.98.01.92.8-0.3
BMI without tail0.10.20.50.30.7-0.0
Body weight2.811.720.03.54.5-1.7
Epididymis fat weight0.00.00.0-0.20.2-0.1
Glucose0.20.30.7-0.3-0.10.9
Heart weight3.04.35.02.22.2-1.8
Left kidney weight1.54.24.42.02.0-2.1
Right kidney weight0.10.20.40.40.6-0.1
Tail length0.30.91.50.90.7-1.2
Length with tail2.07.27.92.82.8-2.4
Length without tail1.83.95.92.12.4-1.2
Liver weight, left0.00.10.1-0.2-0.3-0.2
Liver weight, right0.20.40.8-0.6-0.90.3
Parametrial fat weight2.14.05.4-2.1-2.31.5
Retroperitoneal fat weight0.00.00.00.20.2-0.1
Intraocular pressure2.13.04.81.82.2-0.9
Extensor digitorum longus weight7.329.541.15.76.4-3.8
Soleus weight0.82.46.3-0.90.32.5
Tibialis anterior weight0.93.26.01.82.5-0.4
Tibia length0.82.34.71.42.20.4
Number of licking bursts0.91.11.8-1.1-0.51.3
Food consumed during 24 hour testing period0.40.50.60.70.8-0.5
Times rat made contact with spout1.31.51.5-1.2-1.21.2
Mean time between licks in bursts0.70.92.00.71.4-0.6
Mean num. licks in bursts0.10.10.20.2-0.4-0.4
Std. dev. time between licks in bursts0.00.00.1-0.30.10.2
Water consumed over 24 hours0.00.00.00.0-0.1-0.0
Indifference point 0 sec0.91.52.6-1.4-1.60.0
Indifference point AUC0.00.00.00.00.20.2
Indifference point function ln k0.20.30.60.50.3-0.8
Indifference point function log k0.20.30.60.50.3-0.8
Delay discounting total patch changes 0 sec0.71.11.8-1.2-1.4-0.0
Delay discounting total patch changes 12 sec5.26.98.8-3.0-2.82.0
Delay discounting total patch changes 18 sec0.40.50.9-0.9-0.80.4
Delay discounting total patch changes 24 sec1.41.82.2-1.4-1.51.1
Delay discounting total patch changes 6 sec1.42.13.1-1.6-1.80.7
Delay discounting time to switch 0 sec0.10.20.3-0.5-0.30.4
Delay discounting water rate 0 sec0.10.10.1-0.1-0.4-0.3
Delay discounting water rate 12 sec0.10.10.30.30.1-0.5
Delay discounting water rate 18 sec0.81.11.1-1.1-1.01.0
Delay discounting water rate 24 sec0.50.71.3-0.9-1.10.2
Delay discounting water rate 6 sec1.31.93.3-1.4-1.80.6
Locomotor activity1.32.12.7-1.6-1.11.7
Locomotor testing distance2.23.74.4-2.1-2.01.6
Locomotor testing rearing3.55.69.5-2.5-3.10.8
Light reinforcement 12.34.26.3-2.3-2.51.1
Light reinforcement 21.01.41.9-1.1-0.91.4
Reaction time number correct0.20.30.50.70.6-0.2
Reaction time mean minus median0.30.40.70.40.9-0.5
Reaction time mean minus median AUC0.00.00.10.00.2-0.0
Reaction time num false alarms1.21.72.3-1.3-1.11.5
Reaction time num false alarms AUC1.21.62.2-1.3-0.91.5
Reaction time trials correct on left0.20.30.50.70.6-0.2
Reaction time trials on left0.20.30.50.70.6-0.2
Reaction time mean0.20.30.7-0.1-0.4-0.9
Reaction time mean AUC0.30.40.9-0.0-0.4-0.9
Median of all reaction times0.50.71.5-0.6-1.2-0.6
Reaction time omissions1.01.32.0-1.3-1.40.7
Reaction time false alarm rate1.31.82.2-1.5-1.11.4
Reaction time premature initiation rate0.30.40.7-0.6-0.90.4
Reaction time premature initiations0.00.00.10.1-0.30.0
Std. dev. reaction times0.00.10.10.00.3-0.3
Reaction time trials completed0.20.30.50.70.6-0.2
Reaction time trials AUC0.20.30.50.70.6-0.3
Social response proportion0.30.30.50.70.7-0.0
Social responses0.20.20.4-0.5-0.00.7
Social time0.50.61.4-0.6-0.21.2
Conditioned locomotion0.10.10.2-0.2-0.5-0.2
Cocaine response after cond. corrected2.22.54.9-1.3-0.92.2
Cocaine response after cond. not corrected2.73.05.9-1.5-1.02.4
Cocaine response before conditioning0.00.00.1-0.1-0.20.1
Saline control response0.30.40.90.00.51.0
Condit. Reinf. active minus inactive responses1.21.42.0-1.4-1.30.8
Condit. Reinf. active-inactive response ratio1.31.41.8-1.3-1.21.0
Condit. Reinf. active responses2.12.93.8-2.0-1.71.4
Condit. Reinf. inactive responses2.12.63.1-1.8-1.61.5
Condit. Reinf. lever presses0.10.10.1-0.3-0.4-0.1
Condit. Reinf. lever reinforcers received1.82.53.4-1.8-1.71.1
Pavlov. Cond. lever latency0.40.50.70.90.8-0.5
Pavlov. Cond. magazine entry latency0.00.00.00.1-0.00.1
Pavlov. Cond. change in total contacts0.30.50.7-0.9-0.80.1
Pavlov. Cond. index score0.30.40.5-0.7-0.50.6
Pavlov. Cond. latency score0.20.20.3-0.5-0.40.5
Pavlov. Cond. lever contacts1.01.41.8-1.3-1.11.2
Pavlov. Cond. magazine entry number0.10.10.10.20.3-0.3
Pavlov. Cond. intertrial magazine entries2.43.13.81.71.6-1.9
Pavlov. Cond. lever-magazine prob. diff.0.20.20.3-0.5-0.40.4
Pavlov. Cond. response bias1.31.82.1-1.4-1.41.2
Conditioned reinforcement - actives0.60.60.8-0.9-0.90.5
Conditioned reinforcement - inactives1.31.53.3-1.1-1.80.0
Conditioned locomotion0.91.11.5-1.2-0.71.1
Intermittent access intake day 1-15 change0.40.41.0-0.4-1.0-0.2
Intermittent access intake escalation0.40.41.0-0.5-1.0-0.1
Intermittent access intake escalation 20.10.10.2-0.1-0.4-0.0
Intermitt. access day 1 inactive lever presses1.41.63.1-1.2-1.80.4
Intermitt. access day 15 inactive lever presses2.73.05.3-1.8-2.30.6
Intermitt. access escalation Index1.41.22.31.21.5-0.2
Intermittent access day 1 total infusions0.20.20.3-0.5-0.50.4
Intermittent access day 15 total infusions0.40.51.2-0.4-1.1-0.2
Intermittent access terminal intake (last 3 days)0.60.61.5-0.6-1.20.1
Intermittent access total infusions0.20.20.6-0.2-0.8-0.1
Intermittent access day 1 locomotion0.20.20.2-0.5-0.40.2
Intermittent access day 15 total locomotion0.50.50.7-0.8-0.80.5
Intermittent access total locomotion0.50.60.9-0.8-1.00.2
Intermittent access standard deviation1.71.84.3-1.0-2.1-0.4
Cocaine induced anxiety0.91.12.30.81.50.4
Post-drug Anxiety0.20.20.20.30.50.5
Baseline Anxiety0.50.61.3-0.6-1.10.1
Lifetime Intake0.20.30.7-0.2-0.8-0.3
Incentive Sensitization - Responses1.41.42.1-1.3-1.40.6
Incentive Sensitization - Breakpoint1.31.41.9-1.3-1.40.7
Progressive ratio test 1 active lever presses0.30.30.4-0.5-0.70.5
Progressive ratio test 1 breakpoint0.20.20.4-0.4-0.60.4
Progressive ratio test 1 inactive lever presses0.90.92.1-0.8-1.4-0.1
Progressive ratio test 2 active lever presses0.90.91.8-1.0-1.30.3
Progressive ratio test 2 breakpoint0.60.71.3-0.8-1.10.2
Progressive ratio test 2 inactive lever presses0.50.51.2-0.6-1.1-0.0
Total sessions with >9 infusions0.30.40.9-0.3-1.0-0.4
Short access day 1 total inactive lever presses1.51.73.7-1.1-1.90.3
Short access day 10 total inactive lever presses0.10.10.20.3-0.2-0.5
Short access day 1 total infusions0.50.51.1-0.2-1.1-0.6
Short access day 10 total infusions0.40.40.5-0.7-0.70.6
Short access total infusions0.30.40.7-0.0-0.8-0.6
Short access day 1 locomotion2.42.64.5-1.7-2.10.5
Short access day 10 total locomotion1.61.72.3-1.5-1.11.3
Short access total locomotion0.40.40.7-0.4-0.8-0.5
Compulsive drug intake1.71.73.21.20.7-1.8
One hour access (0.3 mA shock)0.00.00.10.1-0.1-0.3
One hour access (shock baseline)0.50.60.7-0.7-0.80.8
Number of responses in last shaping day0.60.61.20.0-0.8-1.1
Context. condit. distance diff. score2.83.44.72.11.0-2.2
Locomotion velocity, session 10.20.20.40.30.60.1
Locomotion distance, session 10.70.91.90.91.4-0.3
Locomotion velocity, session 20.20.20.30.40.6-0.4
Locomotion distance, session 20.10.20.4-0.40.10.6
Locomotion velocity, session 30.20.20.60.1-0.1-0.8
Locomotion distance, session 30.10.10.10.30.4-0.3
Stereotopy head waving bouts, day 31.11.32.3-1.1-1.50.6
Stereotopy head waving duration, day 30.00.00.0-0.0-0.10.1
Locomotion velocity, session 70.30.41.00.41.00.1
Locomotion distance, session 70.20.20.60.40.70.0
Stereotopy head waving bouts, day 70.50.60.7-0.7-0.80.8
Stereotopy head waving duration, day 70.30.30.4-0.5-0.60.6
Locomotion velocity, session 86.37.59.73.12.9-2.1
Locomotion distance, session 80.81.11.41.21.1-0.9
Degree of sensitization distance0.91.01.51.11.2-0.5
Degree of sensitization stereotypy1.21.31.5-1.0-1.11.2
Condit. Reinf. active minus inactive responses0.40.40.9-0.5-0.9-0.2
Condit. Reinf. active-inactive response ratio0.40.40.8-0.4-0.9-0.6
Condit. Reinf. active responses0.40.51.0-0.6-1.00.1
Condit. Reinf. inactive responses0.40.51.0-0.5-0.51.0
Incentive salience index mean1.11.32.0-1.3-1.40.5
Condit. Reinf. lever presses0.91.21.6-1.3-1.01.0
Time in familiar zone, hab. session 11.31.32.6-1.0-0.51.6
Time in novel zone, hab. session 10.40.40.80.0-0.6-0.9
Total zone transitions, hab. session 11.42.02.71.71.3-1.3
Total locomotion distance, hab. session 10.20.20.50.5-0.3-0.7
Locomotion velocity, hab. session 10.40.50.80.80.4-0.9
Time in familiar zone, hab. session 20.60.60.9-0.7-0.90.7
Time in novel zone, hab. session 20.10.10.1-0.3-0.2-0.2
Total zone transitions, hab. session 20.50.60.90.90.9-0.4
Total locomotion distance, hab. session 20.00.00.10.20.30.2
Locomotion velocity, hab. session 20.10.10.20.40.5-0.0
Novel to familiar place preference ratio1.31.41.61.31.2-1.1
Novelty place preference1.41.51.71.31.2-1.2
Time in novel zone, NPP test0.70.70.80.90.8-0.8
Total zone transitions, NPP test0.10.20.30.20.40.6
Total locomotion distance, NPP test0.20.30.6-0.4-0.30.8
Locomotion velocity, NPP test0.00.10.10.20.30.2
Pavlov. Cond. lever latency3.84.96.12.41.7-2.5
Pavlov. Cond. magazine entry latency9.211.813.1-3.6-3.63.1
Pavlov. Cond. change in total contacts5.25.58.6-2.4-2.91.4
Pavlov. Cond. index score8.410.712.2-3.5-3.23.2
Pavlov. Cond. latency score6.98.99.9-3.1-2.73.1
Pavlov. Cond. lever contacts3.64.35.7-2.2-1.52.4
Pavlov. Cond. magazine entry number10.312.915.93.84.0-3.0
Pavlov. Cond. intertrial magazine entries1.62.02.31.51.4-1.3
Pavlov. Cond. lever-magazine prob. diff.8.811.012.6-3.5-3.33.1
Pavlov. Cond. response bias7.69.311.2-3.2-3.32.5
Bone: apparent density2.43.94.4-2.0-2.11.8
Bone surface0.20.40.9-0.6-0.20.9
Bone volume0.81.32.4-1.1-0.71.6
Bone: connectivity density2.84.45.8-2.2-2.41.6
Bone: cortical apparent density3.03.97.9-1.9-2.80.5
Bone: cortical area0.10.10.2-0.3-0.30.5
Bone: cortical porosity0.80.81.8-0.7-0.41.4
Bone: cortical porosity0.91.02.5-0.6-0.31.6
Bone: cortical thickness0.50.81.6-0.8-1.30.5
Bone: cortical thickness2.93.46.8-1.7-2.60.7
Bone: cortical tissue density3.03.97.8-1.9-2.80.5
Bone: elastic displacement0.00.00.0-0.00.0-0.1
Bone: elastic work0.20.20.2-0.4-0.50.5
Bone: endosteal estimation0.81.84.11.12.00.1
Bone: endosteal perimeter0.61.22.41.01.6-0.5
Bone: final force1.62.64.6-1.5-1.12.1
Bone: final moment1.42.24.3-1.3-0.92.1
Bone: marrow area0.81.73.81.12.00.0
Bone: maximum diameter0.10.20.4-0.5-0.20.6
Bone: maximum force0.30.51.2-0.40.11.1
Bone: maximum moment0.20.41.0-0.20.31.0
Bone: minimum diameter0.30.51.10.51.10.0
Bone: periosteal estimation0.10.20.40.10.60.6
Bone: periosteal perimeter0.20.30.80.40.90.2
Bone: post-yield work0.91.32.01.21.4-0.6
Bone: stiffness0.10.20.6-0.2-0.10.8
Bone: tissue strength0.70.61.20.71.1-0.4
Bone: trabecular number5.58.69.3-3.0-3.02.7
Bone: trabecular spacing0.70.91.80.91.30.2
Bone: trabecular thickness0.10.20.2-0.4-0.40.3
Bone: trabecular tissue density0.70.92.20.80.2-1.5
Breakpoint value in progressive ratio session0.10.10.2-0.20.2-0.4
Distance traveled before self-admin0.10.10.1-0.10.30.3
Distance traveled after self-admin1.51.73.71.11.9-0.4
Delta time in closed arm before/after self-admin2.62.53.41.81.7-1.0
Delta time in open arm before/after self-admin0.10.10.10.30.1-0.3
Diff in mean of infusions in LGA sessions0.20.20.5-0.20.7-0.2
Extinction: sum of active levers before priming0.80.81.60.81.30.1
Active lever presses in extinction session 64.13.96.0-2.0-1.42.5
Delta distance traveled before/after self-admin1.51.62.11.41.4-0.9
Delta ambulatory time before/after self-admin0.80.91.90.91.4-0.1
Time in closed arm before self-admin0.10.20.3-0.6-0.2-0.3
Time in closed arm after self-admin1.92.03.11.31.0-1.8
Time in open arm before self-admin0.60.61.01.00.9-0.4
Time in open arm after self-admin0.20.20.40.60.4-0.4
Sum of active levers in priming session hrs 5-60.60.60.8-0.6-0.80.9
Time to tail flick, vehicle, before self-admin0.10.10.1-0.3-0.20.2
Time to tail flick, vehicle, after self-admin0.40.51.0-0.6-0.21.0
Time to tail flick, test, before self-admin0.50.50.80.90.8-0.4
Time to tail flick, test, after self-admin0.30.30.5-0.6-0.10.7
Delta time to tail flick, vehicle, before/after SA1.61.63.1-1.2-0.51.8
Delta time to tail flick, test, before/after SA1.41.32.0-1.4-1.00.9
Ambulatory time before self-admin0.00.00.10.20.1-0.3
Ambulatory time after self-admin2.02.24.81.22.2-0.4
Total heroin consumption3.54.25.2-2.3-1.92.0
Area under the delay curve0.10.10.2-0.2-0.40.3
Delay disc. indifference point, 0s delay0.60.61.0-1.0-0.70.6
Delay disc. indifference point, 16s delay0.30.30.50.5-0.3-0.7
Delay disc. indifference point, 2s delay1.61.82.5-1.4-1.01.6
Delay disc. indifference point, 24s delay0.10.10.20.40.4-0.3
Delay disc. indifference point, 4s delay0.70.71.0-0.7-1.00.7
Delay disc. indifference point, 8s delay0.20.20.2-0.4-0.40.4
Delay discount exponential model param0.00.00.10.10.3-0.1
Delay discount hyperbolic model param0.10.10.10.20.4-0.3
Fecal boli incidents, locomotor time 10.20.20.50.30.70.1
Change in fecal boli incidents, locomotor task0.00.00.00.10.2-0.0
Time >=10cm from walls, locomotor time 10.00.00.1-0.0-0.1-0.3
Bouts of movement, locomotor time 10.10.10.20.40.40.1
Total resting periods, locomotor time 10.30.30.50.60.70.1
Rest time, locomotor task time 10.30.30.5-0.6-0.20.7
Distance moved, locomotor task time 10.00.00.10.2-0.1-0.1
Vertical activity count, locomotor time 10.20.20.20.50.4-0.4
Time >=10cm from walls, locomotor time 21.41.51.7-1.3-1.21.2
Bouts of movement, locomotor time 20.10.10.2-0.2-0.4-0.2
Total resting periods, locomotor time 20.10.10.30.0-0.3-0.5
Rest time, locomotor task time 20.40.40.70.70.8-0.4
Distance moved, locomotor task time 20.10.10.20.30.40.3
Vertical activity count, locomotor time 20.30.40.60.60.8-0.3
Weight adjusted by age0.40.51.1-0.20.61.0
Seeking ratio, delayed vs. immediate footshock0.91.02.30.6-0.6-1.5
Locomotion in novel chamber4.04.95.5-2.3-2.32.0
Locomotion in novel chamber post-restriction2.12.53.2-1.8-1.11.7
Progressive ratio0.30.30.6-0.7-0.10.8
Food seeking constrained by brief footshock0.50.60.8-0.8-0.50.9
Seeking ratio, punishment vs. effort0.00.00.00.2-0.1-0.1
Run reversals in cocaine runway, females5.25.17.92.41.3-2.8
Run reversals in cocaine runway, males0.30.30.6-0.4-0.80.5
Latency to leave start box in cocaine runway1.61.82.21.51.1-1.4
Latency to leave start box in cocaine runway, F1.21.42.01.41.1-0.9
Latency to leave start box in cocaine runway, M0.50.51.30.1-0.4-1.1
Cd content in liver0.10.10.3-0.2-0.60.1
Co content in liver1.01.11.51.20.7-1.1
Cu content in liver0.40.51.20.5-0.3-1.1
Fe content in liver0.50.61.10.81.1-0.2
K content in liver1.01.01.4-1.1-1.20.7
Mg content in liver0.50.51.2-0.3-1.1-0.5
Mn content in liver1.41.63.3-1.3-1.8-0.1
Na content in liver1.21.22.3-1.0-0.61.5
Rb content in liver0.80.91.6-1.0-1.30.4
Se content in liver3.34.07.4-2.0-2.70.8
Sr content in liver0.40.41.00.1-0.3-1.0
Zn content in liver2.42.64.5-1.7-2.10.7