Ccdc93

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 Liver gene expression Ccdc93 0.13 0.07 4.3e-08 0.04 0.06 0.03 0.05 5.0e-05 3.7e-07 1.7e-04 5.8e-06
2 pVTA alternative TSS XM_039090684.2 0.05 0.03 2.2e-03 0.01 0.02 0.02 0.01 9.0e-02 1.4e-02 1.0e-02 5.1e-02
3 Adipose gene expression Ccdc93 0.24 0.11 4.5e-12 0.07 0.07 0.07 0.07 5.1e-08 2.3e-08 4.2e-08 2.4e-08

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 density1.32.25.1-0.3-1.2-2.3
Area under the delay curve2.02.33.31.81.11.5
BMI with tail1.03.46.42.51.8-0.8
BMI without tail0.30.91.31.11.1-0.4
Body weight0.31.12.20.90.6-1.5
Weight adjusted by age0.50.81.71.30.60.6
Bone surface0.61.12.70.70.0-1.7
Bone volume0.61.02.30.1-0.8-1.5
Breakpoint value in progressive ratio session0.50.61.80.30.11.3
Number of licking bursts0.71.12.20.90.51.5
Context. condit. distance diff. score1.01.22.60.20.91.6
Locomotion velocity, session 13.84.16.81.41.92.6
Locomotion distance, session 11.31.64.40.40.62.1
Locomotion velocity, session 20.50.61.3-0.5-1.10.4
Locomotion distance, session 20.10.10.20.5-0.30.4
Locomotion velocity, session 30.60.61.2-0.80.21.1
Locomotion distance, session 30.60.61.5-0.6-0.1-1.2
Stereotopy head waving bouts, day 30.20.30.4-0.3-0.6-0.6
Stereotopy head waving duration, day 30.60.82.0-0.20.51.4
Locomotion velocity, session 71.51.73.0-1.01.01.7
Locomotion distance, session 70.10.20.3-0.00.50.6
Stereotopy head waving bouts, day 70.30.40.5-0.7-0.70.2
Stereotopy head waving duration, day 70.30.30.7-0.50.00.9
Locomotion velocity, session 81.92.35.7-0.60.92.4
Locomotion distance, session 80.30.51.20.20.41.1
Degree of sensitization distance1.01.12.20.80.61.5
Degree of sensitization stereotypy0.50.50.9-1.0-0.8-0.1
Conditioned locomotion0.20.20.20.50.40.4
Cocaine response after cond. corrected6.27.59.12.13.03.0
Cocaine response after cond. not corrected8.29.613.62.03.43.7
Cocaine response before conditioning0.10.10.3-0.6-0.10.1
Saline control response0.20.30.4-0.4-0.60.6
Bone: connectivity density1.01.64.70.2-0.1-2.2
Bone: cortical apparent density0.81.12.4-0.5-1.5-0.8
Bone: cortical area0.91.42.6-1.6-1.1-0.6
Bone: cortical porosity0.10.20.3-0.30.3-0.5
Bone: cortical porosity0.10.10.2-0.40.40.0
Bone: cortical thickness1.22.03.4-1.8-1.4-0.8
Bone: cortical thickness1.72.03.2-1.8-1.3-1.0
Bone: cortical tissue density0.70.92.1-0.4-1.4-0.7
Condit. Reinf. active minus inactive responses0.60.71.11.00.5-0.9
Condit. Reinf. active-inactive response ratio0.20.20.2-0.10.50.5
Condit. Reinf. active responses1.01.31.91.40.1-1.4
Condit. Reinf. inactive responses1.41.83.31.3-0.5-1.8
Incentive salience index mean1.11.43.50.8-0.3-1.9
Condit. Reinf. lever presses0.91.23.00.6-0.5-1.7
Condit. Reinf. active minus inactive responses2.63.45.62.12.40.4
Condit. Reinf. active-inactive response ratio3.03.55.12.32.10.9
Condit. Reinf. active responses2.23.14.82.12.2-0.1
Condit. Reinf. inactive responses0.60.82.20.40.2-1.5
Condit. Reinf. lever presses0.40.51.20.41.1-0.4
Condit. Reinf. lever reinforcers received2.02.84.32.02.1-0.2
Conditioned reinforcement - actives0.61.02.31.50.8-0.3
Conditioned reinforcement - inactives0.71.11.80.2-1.1-1.4
Conditioned locomotion0.81.12.3-0.4-1.5-0.9
Patch foraging indifference point 0 sec1.73.26.5-2.5-1.31.2
Patch foraging indifference point AUC1.31.94.3-0.7-2.1-1.0
Delay disc. indifference point, 0s delay0.10.10.20.0-0.30.4
Delay disc. indifference point, 16s delay5.25.79.23.02.41.4
Delay disc. indifference point, 2s delay1.31.42.0-1.3-0.71.4
Delay disc. indifference point, 24s delay0.40.51.31.20.0-0.4
Delay disc. indifference point, 4s delay0.50.51.11.10.00.7
Delay disc. indifference point, 8s delay1.72.02.81.41.21.7
Indifference point function ln k0.81.52.80.11.71.3
Indifference point function log k0.81.52.80.11.71.3
Patch foraging total patch changes 0 sec1.52.75.3-2.3-1.31.1
Patch foraging total patch changes 12 sec2.43.14.6-2.1-2.20.3
Patch foraging total patch changes 18 sec2.13.25.1-2.1-2.30.6
Patch foraging total patch changes 24 sec1.01.63.2-1.8-0.81.1
Patch foraging total patch changes 6 sec1.52.33.5-1.9-1.60.9
Patch foraging time to switch 0 sec0.91.73.31.81.30.6
Patch foraging water rate 0 sec1.02.04.9-2.20.11.1
Patch foraging water rate 12 sec0.30.61.8-1.3-0.1-0.3
Patch foraging water rate 18 sec0.40.71.3-1.20.60.5
Patch foraging water rate 24 sec0.91.32.50.31.61.1
Patch foraging water rate 6 sec0.40.71.8-1.30.3-0.1
Seeking ratio, delayed vs. immediate footshock0.60.72.0-0.3-0.11.4
Distance traveled before self-admin0.81.02.4-0.6-1.50.6
Distance traveled after self-admin1.92.34.5-1.4-2.1-0.6
Extensor digitorum longus weight0.51.93.1-0.1-1.8-1.6
Bone: elastic displacement0.30.30.80.40.9-0.1
Bone: elastic work0.60.82.2-1.5-0.40.2
Bone: endosteal estimation0.00.00.0-0.10.10.2
Bone: endosteal perimeter0.20.30.60.40.40.8
Epididymis fat weight1.13.88.52.91.70.4
Delta time in closed arm before/after self-admin4.94.66.12.52.11.8
Delta time in open arm before/after self-admin2.92.96.0-1.3-2.5-1.0
Diff in mean of infusions in LGA sessions0.40.40.8-0.50.90.5
Delay discount exponential model param1.92.12.8-1.7-1.0-1.6
Extinction: sum of active levers before priming0.30.30.7-0.4-0.9-0.1
Active lever presses in extinction session 61.51.53.5-0.7-1.9-0.8
Bone: final force1.42.35.3-2.3-1.2-0.4
Bone: final moment1.42.25.3-2.3-1.1-0.4
Food consumed during 24 hour testing period0.00.00.00.2-0.00.0
Glucose3.04.77.82.82.21.3
Heart weight0.40.61.20.81.10.0
Delay discount hyperbolic model param1.82.03.0-1.4-0.9-1.7
Intermittent access intake day 1-15 change0.30.71.4-0.7-0.3-1.2
Intermittent access intake escalation0.30.71.1-1.0-0.5-0.8
Intermittent access intake escalation 20.20.20.5-0.7-0.1-0.1
Intermitt. access day 1 inactive lever presses0.62.43.8-0.7-1.9-1.7
Intermitt. access day 15 inactive lever presses0.51.12.50.5-0.7-1.6
Intermitt. access escalation Index0.00.00.1-0.0-0.10.3
Intermittent access day 1 total infusions0.10.10.20.50.40.1
Intermittent access day 15 total infusions0.40.60.6-0.8-0.7-0.8
Intermittent access terminal intake (last 3 days)0.10.20.4-0.6-0.3-0.3
Intermittent access total infusions0.10.10.20.1-0.2-0.4
Intermittent access day 1 locomotion0.40.51.0-0.7-1.0-0.1
Intermittent access day 15 total locomotion0.10.30.6-0.8-0.4-0.0
Intermittent access total locomotion0.60.71.2-1.1-0.90.1
Intermittent access standard deviation0.00.10.10.30.20.3
Left kidney weight1.15.09.1-0.0-3.0-2.4
Right kidney weight0.94.07.4-0.7-2.7-2.0
Cocaine induced anxiety0.20.20.50.30.3-0.7
Post-drug Anxiety0.20.20.60.30.8-0.3
Baseline Anxiety0.10.10.20.20.40.2
Tail length0.20.82.3-1.5-0.5-0.1
Length with tail0.10.30.6-0.8-0.3-0.4
Length without tail0.00.20.40.20.2-0.6
Times rat made contact with spout0.91.01.5-1.0-1.2-0.8
Lifetime Intake0.10.10.10.2-0.3-0.3
Liver weight, left1.62.74.5-1.1-1.5-2.1
Liver weight, right0.30.60.90.3-0.9-0.9
Locomotor activity0.71.22.70.6-0.6-1.7
Locomotor testing distance0.30.61.10.6-0.6-1.1
Locomotor testing rearing0.51.01.90.1-1.0-1.4
Locomotion in novel chamber0.30.40.8-0.90.50.6
Locomotion in novel chamber post-restriction0.10.20.40.10.50.6
Fecal boli incidents, locomotor time 11.92.87.02.61.1-0.4
Change in fecal boli incidents, locomotor task1.41.42.1-1.5-1.1-0.9
Time >=10cm from walls, locomotor time 10.90.91.9-0.3-0.9-1.4
Bouts of movement, locomotor time 10.30.40.60.80.7-0.0
Total resting periods, locomotor time 10.60.70.90.91.0-0.6
Rest time, locomotor task time 10.81.02.30.81.5-0.2
Distance moved, locomotor task time 11.11.63.5-0.7-0.91.9
Vertical activity count, locomotor time 11.33.03.8-1.9-1.91.4
Time >=10cm from walls, locomotor time 20.81.12.1-0.8-0.8-1.4
Bouts of movement, locomotor time 21.01.62.91.71.10.8
Total resting periods, locomotor time 20.81.43.51.90.80.5
Rest time, locomotor task time 20.81.11.91.41.1-0.3
Distance moved, locomotor task time 22.12.53.3-1.8-1.80.9
Vertical activity count, locomotor time 21.21.72.4-1.5-1.50.8
Light reinforcement 10.71.74.30.5-0.7-2.1
Light reinforcement 21.21.95.20.60.4-2.3
Bone: marrow area0.00.00.1-0.30.00.2
Bone: maximum diameter0.20.30.5-0.5-0.7-0.4
Bone: maximum force1.93.38.2-2.9-1.3-0.2
Bone: maximum moment1.83.17.7-2.8-1.3-0.2
Mean time between licks in bursts1.63.86.72.02.61.0
Mean num. licks in bursts1.11.82.6-1.3-1.0-1.6
Cd content in liver0.20.20.30.40.50.6
Co content in liver0.80.92.2-0.31.5-0.6
Cu content in liver4.85.76.6-2.4-2.6-2.2
Fe content in liver0.10.10.2-0.40.30.4
K content in liver0.90.81.5-0.4-0.9-1.2
Mg content in liver0.30.30.5-0.5-0.4-0.7
Mn content in liver1.41.62.4-1.0-1.5-1.2
Na content in liver1.51.62.71.61.2-0.7
Rb content in liver0.40.41.2-0.21.1-0.3
Se content in liver0.20.30.40.6-0.3-0.6
Sr content in liver1.00.91.71.30.8-0.5
Zn content in liver0.80.91.50.7-0.7-1.2
Bone: minimum diameter0.30.51.4-1.2-0.3-0.3
Time in familiar zone, hab. session 12.42.33.90.61.62.0
Time in novel zone, hab. session 11.41.43.60.2-0.9-1.9
Total zone transitions, hab. session 10.10.10.4-0.10.20.6
Total locomotion distance, hab. session 10.10.10.10.4-0.30.2
Locomotion velocity, hab. session 10.10.10.4-0.1-0.60.1
Time in familiar zone, hab. session 23.84.17.40.52.12.7
Time in novel zone, hab. session 22.52.55.30.0-1.5-2.3
Total zone transitions, hab. session 20.00.00.0-0.2-0.1-0.0
Total locomotion distance, hab. session 20.30.40.80.3-0.9-0.5
Locomotion velocity, hab. session 20.40.51.1-0.1-1.1-0.7
Novel to familiar place preference ratio0.70.81.80.4-0.6-1.3
Novelty place preference0.91.02.20.2-0.9-1.5
Time in novel zone, NPP test0.91.02.10.1-0.9-1.5
Total zone transitions, NPP test0.60.81.40.91.20.5
Total locomotion distance, NPP test0.50.60.90.9-0.4-0.9
Locomotion velocity, NPP test0.40.50.80.9-0.2-0.8
Intraocular pressure0.20.41.01.0-0.1-0.2
Delta distance traveled before/after self-admin0.60.60.9-1.0-0.5-0.9
Delta ambulatory time before/after self-admin0.40.40.6-0.7-0.3-0.8
Parametrial fat weight1.43.47.32.71.6-0.6
Pavlov. Cond. lever latency0.40.41.00.30.51.0
Pavlov. Cond. magazine entry latency0.00.00.1-0.20.0-0.2
Pavlov. Cond. change in total contacts2.02.15.30.1-1.0-2.3
Pavlov. Cond. index score0.10.10.2-0.4-0.2-0.5
Pavlov. Cond. latency score0.10.10.3-0.3-0.1-0.5
Pavlov. Cond. lever contacts0.70.81.7-0.6-0.7-1.3
Pavlov. Cond. magazine entry number0.10.20.30.60.30.4
Pavlov. Cond. intertrial magazine entries0.30.40.60.70.70.2
Pavlov. Cond. lever-magazine prob. diff.0.20.20.4-0.4-0.4-0.6
Pavlov. Cond. response bias0.30.40.7-0.3-0.5-0.8
Pavlov. Cond. lever latency0.30.51.1-0.4-0.31.0
Pavlov. Cond. magazine entry latency0.10.10.2-0.50.20.2
Pavlov. Cond. change in total contacts0.40.70.80.90.9-0.7
Pavlov. Cond. index score0.20.20.60.10.2-0.8
Pavlov. Cond. latency score0.20.30.6-0.4-0.0-0.8
Pavlov. Cond. lever contacts0.30.40.80.50.4-0.9
Pavlov. Cond. magazine entry number0.10.10.20.00.10.4
Pavlov. Cond. intertrial magazine entries0.71.11.71.11.30.5
Pavlov. Cond. lever-magazine prob. diff.0.10.20.40.10.3-0.7
Pavlov. Cond. response bias0.30.40.50.70.3-0.7
Time in closed arm before self-admin1.31.73.2-1.8-0.7-1.2
Time in closed arm after self-admin0.30.30.50.40.70.5
Time in open arm before self-admin1.41.52.40.81.51.3
Time in open arm after self-admin1.01.12.0-0.9-1.4-0.6
Bone: periosteal estimation0.20.40.9-0.9-0.40.1
Bone: periosteal perimeter0.30.61.4-0.40.41.2
Bone: post-yield work0.20.30.7-0.00.90.3
Progressive ratio test 1 active lever presses0.30.40.80.90.4-0.4
Progressive ratio test 1 breakpoint0.40.51.01.00.5-0.3
Progressive ratio test 1 inactive lever presses0.50.71.20.2-1.1-0.9
Progressive ratio test 2 active lever presses0.00.00.1-0.20.30.1
Progressive ratio test 2 breakpoint0.00.00.1-0.30.20.1
Progressive ratio test 2 inactive lever presses1.01.61.9-1.1-1.4-1.2
Incentive Sensitization - Responses0.10.20.2-0.50.50.2
Incentive Sensitization - Breakpoint0.10.20.4-0.60.30.1
Sum of active levers in priming session hrs 5-61.21.12.2-0.9-1.5-0.6
Progressive ratio0.60.91.8-0.90.11.3
Food seeking constrained by brief footshock0.91.12.2-1.5-0.6-0.7
Seeking ratio, punishment vs. effort0.60.82.3-0.0-0.5-1.5
Retroperitoneal fat weight4.619.731.55.15.61.2
Reaction time number correct0.30.60.90.70.90.7
Reaction time mean minus median1.84.510.33.21.60.6
Reaction time mean minus median AUC2.25.59.83.12.31.1
Reaction time num false alarms0.81.13.1-1.8-0.40.4
Reaction time num false alarms AUC0.91.43.3-1.8-0.90.1
Reaction time trials correct on left0.30.60.90.70.90.7
Reaction time trials on left0.30.70.90.71.00.7
Reaction time mean0.81.23.41.80.1-0.6
Reaction time mean AUC0.91.44.02.00.3-0.5
Median of all reaction times0.40.61.21.1-0.3-0.7
Reaction time omissions0.50.81.81.30.60.5
Reaction time false alarm rate0.81.12.4-1.6-0.9-0.2
Reaction time premature initiation rate0.10.20.30.5-0.1-0.6
Reaction time premature initiations0.10.20.40.60.30.0
Std. dev. reaction times1.22.25.72.40.90.2
Reaction time trials completed0.30.70.90.71.00.7
Reaction time trials AUC0.40.71.10.71.10.8
Run reversals in cocaine runway, females2.92.96.40.51.42.5
Run reversals in cocaine runway, males0.20.20.3-0.60.2-0.6
Latency to leave start box in cocaine runway0.70.72.1-0.1-0.3-1.5
Latency to leave start box in cocaine runway, F0.20.20.40.10.6-0.4
Latency to leave start box in cocaine runway, M2.72.54.2-0.4-1.8-2.1
Std. dev. time between licks in bursts1.11.53.50.91.90.4
Total sessions with >9 infusions0.10.10.10.4-0.20.1
Short access day 1 total inactive lever presses0.70.91.40.1-1.2-1.2
Short access day 10 total inactive lever presses1.63.89.03.01.6-0.1
Short access day 1 total infusions0.10.10.10.30.10.4
Short access day 10 total infusions0.40.51.00.4-0.51.0
Short access total infusions0.20.30.80.9-0.00.2
Short access day 1 locomotion0.20.20.40.70.50.2
Short access day 10 total locomotion0.20.40.7-0.9-0.50.4
Short access total locomotion0.10.10.10.3-0.3-0.1
One hour access (0.3 mA shock)0.40.51.01.00.5-0.5
Compulsive drug intake0.70.81.81.3-0.6-0.5
One hour access (shock baseline)0.20.20.4-0.60.50.1
Social response proportion0.70.81.8-0.50.61.3
Social responses0.20.30.4-0.60.10.7
Social time0.91.32.30.21.51.2
Soleus weight1.64.78.6-1.3-2.9-2.0
Bone: stiffness1.32.14.0-2.0-1.4-0.5
Tibialis anterior weight0.10.20.70.80.1-0.1
Time to tail flick, vehicle, before self-admin1.01.02.70.1-0.5-1.6
Time to tail flick, vehicle, after self-admin0.00.00.10.3-0.0-0.0
Time to tail flick, test, before self-admin2.52.64.1-2.0-1.2-1.5
Time to tail flick, test, after self-admin0.20.20.4-0.6-0.2-0.5
Delta time to tail flick, vehicle, before/after SA0.50.50.90.50.41.0
Delta time to tail flick, test, before/after SA3.63.75.62.41.81.5
Tibia length0.10.40.6-0.80.6-0.4
Ambulatory time before self-admin0.71.12.3-0.8-1.50.5
Ambulatory time after self-admin2.42.84.6-1.7-2.2-1.0
Bone: tissue strength0.10.10.40.10.60.2
Total heroin consumption0.50.61.4-0.4-1.20.6
Bone: trabecular number0.81.42.3-0.4-1.3-1.5
Bone: trabecular spacing2.53.34.70.92.12.2
Bone: trabecular thickness6.07.59.2-2.6-3.0-2.5
Bone: trabecular tissue density0.71.12.1-1.0-1.50.1
Water consumed over 24 hours0.70.91.6-1.1-1.3-0.3
Number of responses in last shaping day0.10.10.20.2-0.40.3