Ccnt1

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 mRNA stability ENSRNOG00000053054 0.05 0.03 6.6e-06 0.05 0.06 0.06 0.05 9.4e-06 6.4e-06 3.8e-06 8.6e-06
2 NAcc mRNA stability ENSRNOG00000053054 0.04 0.03 5.6e-03 0 0.01 0 0 2.9e-01 3.1e-02 1.2e-01 1.6e-01
3 PL gene expression ENSRNOG00000053054 0.08 0.06 1.7e-07 0.08 0.09 0.07 0.08 9.0e-07 4.5e-07 3.7e-06 1.4e-06

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 tail4.715.316.5-3.7-4.14.0
BMI without tail0.00.10.1-0.2-0.30.2
Body weight6.728.329.9-5.1-5.55.4
Epididymis fat weight0.20.40.6-0.4-0.80.6
Glucose0.10.20.3-0.5-0.40.4
Heart weight0.00.00.0-0.1-0.20.2
Left kidney weight0.41.11.4-0.8-1.21.2
Right kidney weight2.88.18.3-2.8-2.92.9
Tail length0.10.20.20.30.4-0.5
Length with tail2.07.27.5-2.6-2.72.7
Length without tail7.616.717.6-3.9-4.24.2
Liver weight, left2.13.43.4-1.8-1.91.8
Liver weight, right1.72.83.0-1.6-1.71.7
Parametrial fat weight1.93.84.02.01.9-1.9
Retroperitoneal fat weight0.30.91.21.10.8-0.9
Intraocular pressure7.710.911.43.23.4-3.3
Extensor digitorum longus weight4.719.019.8-4.4-4.34.3
Soleus weight0.61.71.9-1.4-1.31.3
Tibialis anterior weight1.44.95.7-2.4-2.12.1
Tibia length7.821.822.0-4.7-4.74.7
Number of licking bursts0.10.20.20.20.5-0.5
Food consumed during 24 hour testing period1.72.12.2-1.4-1.51.5
Times rat made contact with spout0.00.00.00.20.0-0.1
Mean time between licks in bursts0.20.20.30.50.5-0.5
Mean num. licks in bursts0.00.00.10.4-0.10.0
Std. dev. time between licks in bursts0.91.01.20.91.1-1.1
Water consumed over 24 hours0.00.00.0-0.0-0.10.0
Indifference point 0 sec2.13.43.51.91.8-1.9
Indifference point AUC0.20.20.30.40.5-0.5
Indifference point function ln k3.55.05.1-2.2-2.32.2
Indifference point function log k3.55.05.1-2.2-2.32.2
Delay discounting total patch changes 0 sec2.13.33.41.81.8-1.8
Delay discounting total patch changes 12 sec1.72.22.51.31.6-1.5
Delay discounting total patch changes 18 sec4.25.65.92.32.4-2.4
Delay discounting total patch changes 24 sec1.72.22.41.31.5-1.6
Delay discounting total patch changes 6 sec2.33.63.71.81.9-1.9
Delay discounting time to switch 0 sec2.43.74.11.82.0-1.9
Delay discounting water rate 0 sec3.35.25.5-2.2-2.32.3
Delay discounting water rate 12 sec3.75.65.8-2.3-2.42.4
Delay discounting water rate 18 sec0.40.50.5-0.7-0.70.7
Delay discounting water rate 24 sec3.24.45.1-2.3-2.02.1
Delay discounting water rate 6 sec3.95.75.8-2.4-2.42.4
Locomotor activity0.81.31.41.01.2-1.2
Locomotor testing distance2.64.44.62.02.1-2.1
Locomotor testing rearing2.13.33.71.61.9-1.9
Light reinforcement 12.74.95.51.92.3-2.3
Light reinforcement 20.70.91.00.81.0-1.0
Reaction time number correct1.01.51.6-1.3-1.11.2
Reaction time mean minus median8.411.011.93.43.2-3.2
Reaction time mean minus median AUC6.48.18.93.02.8-2.8
Reaction time num false alarms1.92.62.71.61.6-1.6
Reaction time num false alarms AUC2.83.94.12.02.0-1.9
Reaction time trials correct on left1.01.51.6-1.3-1.11.2
Reaction time trials on left0.71.11.2-1.1-1.01.1
Reaction time mean0.50.70.80.90.7-0.8
Reaction time mean AUC0.20.30.50.70.5-0.5
Median of all reaction times0.00.10.1-0.2-0.30.3
Reaction time omissions10.113.713.93.73.7-3.7
Reaction time false alarm rate2.73.84.12.01.9-1.9
Reaction time premature initiation rate5.57.48.02.52.8-2.8
Reaction time premature initiations2.73.94.41.82.1-2.0
Std. dev. reaction times6.28.59.33.02.8-2.9
Reaction time trials completed0.71.11.2-1.1-1.01.1
Reaction time trials AUC1.31.92.0-1.4-1.31.4
Social response proportion0.10.10.10.20.3-0.3
Social responses7.59.810.72.93.3-3.2
Social time0.00.00.00.20.1-0.0
Conditioned locomotion0.00.00.1-0.3-0.10.1
Cocaine response after cond. corrected0.00.00.10.3-0.10.1
Cocaine response after cond. not corrected0.70.81.11.10.7-0.7
Cocaine response before conditioning4.15.05.62.12.4-2.3
Saline control response0.00.00.1-0.2-0.20.2
Condit. Reinf. active minus inactive responses0.00.10.10.20.2-0.3
Condit. Reinf. active-inactive response ratio0.30.30.30.60.6-0.6
Condit. Reinf. active responses0.30.40.40.60.6-0.6
Condit. Reinf. inactive responses0.70.91.00.81.0-1.0
Condit. Reinf. lever presses0.00.00.00.10.1-0.1
Condit. Reinf. lever reinforcers received0.60.90.90.91.0-1.0
Pavlov. Cond. lever latency0.00.00.00.0-0.00.0
Pavlov. Cond. magazine entry latency0.91.01.1-1.0-1.01.0
Pavlov. Cond. change in total contacts1.82.42.5-1.5-1.61.6
Pavlov. Cond. index score0.50.70.7-0.8-0.80.8
Pavlov. Cond. latency score0.60.80.8-0.9-0.90.9
Pavlov. Cond. lever contacts0.10.10.10.30.3-0.3
Pavlov. Cond. magazine entry number2.32.82.91.71.6-1.7
Pavlov. Cond. intertrial magazine entries4.76.16.12.52.5-2.5
Pavlov. Cond. lever-magazine prob. diff.0.91.21.3-1.1-1.11.1
Pavlov. Cond. response bias0.00.00.0-0.00.0-0.0
Conditioned reinforcement - actives1.51.41.51.11.2-1.2
Conditioned reinforcement - inactives1.51.81.81.31.3-1.3
Conditioned locomotion0.30.40.50.50.7-0.7
Intermittent access intake day 1-15 change1.11.11.31.11.0-1.0
Intermittent access intake escalation0.70.70.91.00.8-0.8
Intermittent access intake escalation 21.21.21.31.21.0-1.0
Intermitt. access day 1 inactive lever presses3.63.94.31.82.1-2.0
Intermitt. access day 15 inactive lever presses1.31.51.51.21.2-1.2
Intermitt. access escalation Index0.20.20.30.40.5-0.5
Intermittent access day 1 total infusions1.11.31.31.11.1-1.1
Intermittent access day 15 total infusions2.22.52.51.61.6-1.6
Intermittent access terminal intake (last 3 days)2.52.82.91.71.6-1.7
Intermittent access total infusions2.22.52.51.61.6-1.6
Intermittent access day 1 locomotion1.01.01.10.91.1-1.1
Intermittent access day 15 total locomotion1.31.41.61.01.2-1.3
Intermittent access total locomotion3.23.64.01.72.0-2.0
Intermittent access standard deviation0.40.40.50.70.7-0.6
Cocaine induced anxiety1.21.41.6-1.3-1.11.1
Post-drug Anxiety4.95.45.7-2.4-2.32.3
Baseline Anxiety1.11.21.3-1.0-1.11.1
Lifetime Intake1.82.12.11.41.4-1.5
Incentive Sensitization - Responses0.00.00.1-0.3-0.20.2
Incentive Sensitization - Breakpoint0.00.00.0-0.1-0.10.1
Progressive ratio test 1 active lever presses3.84.04.31.92.0-2.1
Progressive ratio test 1 breakpoint3.43.53.81.81.9-2.0
Progressive ratio test 1 inactive lever presses3.53.74.01.91.9-2.0
Progressive ratio test 2 active lever presses2.02.12.31.31.5-1.5
Progressive ratio test 2 breakpoint2.62.93.11.61.7-1.8
Progressive ratio test 2 inactive lever presses2.63.03.21.61.8-1.8
Total sessions with >9 infusions0.30.40.40.60.6-0.7
Short access day 1 total inactive lever presses1.11.21.21.11.1-1.1
Short access day 10 total inactive lever presses0.50.50.60.50.8-0.7
Short access day 1 total infusions0.00.00.0-0.0-0.10.0
Short access day 10 total infusions0.50.60.60.80.7-0.7
Short access total infusions0.20.20.20.40.4-0.4
Short access day 1 locomotion0.00.00.00.10.1-0.2
Short access day 10 total locomotion0.20.20.30.30.5-0.6
Short access total locomotion0.30.30.40.40.6-0.6
Compulsive drug intake0.80.80.9-0.8-0.90.9
One hour access (0.3 mA shock)0.10.10.10.30.4-0.4
One hour access (shock baseline)0.00.00.00.20.1-0.2
Number of responses in last shaping day0.10.10.2-0.5-0.40.3
Context. condit. distance diff. score0.30.40.4-0.6-0.60.6
Locomotion velocity, session 11.21.21.31.11.1-1.1
Locomotion distance, session 13.14.04.62.11.9-2.0
Locomotion velocity, session 20.30.30.40.60.6-0.5
Locomotion distance, session 22.53.54.02.01.8-1.8
Locomotion velocity, session 33.84.44.62.12.1-2.1
Locomotion distance, session 35.25.65.82.42.3-2.4
Stereotopy head waving bouts, day 31.21.41.7-1.3-1.11.2
Stereotopy head waving duration, day 30.40.50.6-0.8-0.70.7
Locomotion velocity, session 70.10.10.20.40.3-0.4
Locomotion distance, session 71.31.71.81.31.3-1.4
Stereotopy head waving bouts, day 71.11.21.7-1.3-1.01.0
Stereotopy head waving duration, day 71.31.62.0-1.4-1.11.2
Locomotion velocity, session 80.00.00.0-0.1-0.10.1
Locomotion distance, session 81.31.92.21.51.3-1.3
Degree of sensitization distance0.60.60.7-0.8-0.80.8
Degree of sensitization stereotypy0.30.30.5-0.7-0.40.4
Condit. Reinf. active minus inactive responses0.10.10.10.30.2-0.2
Condit. Reinf. active-inactive response ratio0.20.20.2-0.3-0.50.5
Condit. Reinf. active responses0.50.60.70.80.8-0.7
Condit. Reinf. inactive responses2.73.23.31.71.8-1.8
Incentive salience index mean0.10.10.1-0.2-0.30.3
Condit. Reinf. lever presses0.30.40.5-0.6-0.70.7
Time in familiar zone, hab. session 10.40.30.50.70.5-0.5
Time in novel zone, hab. session 10.30.30.5-0.7-0.50.5
Total zone transitions, hab. session 10.30.50.50.70.7-0.7
Total locomotion distance, hab. session 10.00.00.00.10.0-0.0
Locomotion velocity, hab. session 10.00.00.00.0-0.10.1
Time in familiar zone, hab. session 20.20.20.3-0.3-0.50.5
Time in novel zone, hab. session 20.20.20.30.20.6-0.5
Total zone transitions, hab. session 20.30.30.50.70.5-0.5
Total locomotion distance, hab. session 20.10.20.30.50.3-0.3
Locomotion velocity, hab. session 20.00.00.10.30.1-0.1
Novel to familiar place preference ratio1.81.92.3-1.5-1.31.3
Novelty place preference1.31.31.7-1.3-1.11.1
Time in novel zone, NPP test1.01.01.4-1.2-0.90.9
Total zone transitions, NPP test1.11.51.81.41.2-1.2
Total locomotion distance, NPP test1.82.52.81.71.5-1.5
Locomotion velocity, NPP test0.91.31.51.21.1-1.1
Pavlov. Cond. lever latency0.00.00.00.10.1-0.1
Pavlov. Cond. magazine entry latency0.00.00.00.1-0.10.1
Pavlov. Cond. change in total contacts0.10.10.2-0.4-0.30.4
Pavlov. Cond. index score0.20.20.2-0.5-0.50.4
Pavlov. Cond. latency score0.10.20.2-0.4-0.40.4
Pavlov. Cond. lever contacts0.10.10.10.30.4-0.4
Pavlov. Cond. magazine entry number0.00.00.0-0.00.0-0.0
Pavlov. Cond. intertrial magazine entries0.40.50.60.80.7-0.6
Pavlov. Cond. lever-magazine prob. diff.0.50.60.6-0.8-0.80.8
Pavlov. Cond. response bias0.00.00.00.20.1-0.1
Bone: apparent density10.216.918.0-3.9-4.24.2
Bone surface12.021.121.9-4.4-4.74.7
Bone volume9.015.215.9-3.7-4.04.0
Bone: connectivity density7.211.312.0-3.1-3.53.5
Bone: cortical apparent density0.30.40.50.60.7-0.7
Bone: cortical area10.616.116.3-4.0-4.04.0
Bone: cortical porosity1.31.41.51.11.2-1.2
Bone: cortical porosity1.92.02.11.31.5-1.4
Bone: cortical thickness4.57.47.6-2.7-2.82.7
Bone: cortical thickness0.30.30.4-0.5-0.60.6
Bone: cortical tissue density0.50.60.70.70.8-0.8
Bone: elastic displacement5.05.65.82.32.4-2.4
Bone: elastic work0.00.00.00.20.2-0.2
Bone: endosteal estimation7.215.515.8-4.0-3.93.9
Bone: endosteal perimeter7.114.615.0-3.9-3.83.8
Bone: final force10.116.617.3-3.9-4.24.1
Bone: final moment10.216.817.7-3.9-4.24.2
Bone: marrow area7.115.215.5-3.9-3.93.9
Bone: maximum diameter4.48.18.5-2.9-2.82.8
Bone: maximum force13.523.424.2-4.7-4.94.9
Bone: maximum moment13.523.524.4-4.7-4.94.9
Bone: minimum diameter9.217.017.5-4.2-4.14.1
Bone: periosteal estimation12.325.125.2-5.0-5.05.0
Bone: periosteal perimeter10.817.918.2-4.2-4.34.3
Bone: post-yield work7.39.910.2-3.2-3.13.1
Bone: stiffness16.425.926.7-5.0-5.25.1
Bone: tissue strength0.70.60.7-0.8-0.80.8
Bone: trabecular number5.78.99.8-2.6-3.13.1
Bone: trabecular spacing2.02.53.01.31.7-1.7
Bone: trabecular thickness0.10.10.20.40.2-0.3
Bone: trabecular tissue density0.10.10.10.20.4-0.4
Breakpoint value in progressive ratio session0.20.20.2-0.5-0.40.4
Distance traveled before self-admin1.11.21.31.01.1-1.1
Distance traveled after self-admin0.20.20.20.50.4-0.4
Delta time in closed arm before/after self-admin0.20.20.3-0.2-0.50.5
Delta time in open arm before/after self-admin4.13.94.21.82.0-2.0
Diff in mean of infusions in LGA sessions1.41.61.7-1.2-1.31.3
Extinction: sum of active levers before priming0.30.30.4-0.6-0.60.6
Active lever presses in extinction session 60.50.50.5-0.7-0.70.7
Delta distance traveled before/after self-admin0.10.10.1-0.1-0.40.3
Delta ambulatory time before/after self-admin0.00.00.0-0.0-0.20.2
Time in closed arm before self-admin1.41.62.2-1.5-1.11.2
Time in closed arm after self-admin0.60.60.6-0.7-0.80.8
Time in open arm before self-admin0.70.70.9-0.7-1.00.9
Time in open arm after self-admin0.20.30.30.50.5-0.5
Sum of active levers in priming session hrs 5-60.10.10.10.30.3-0.3
Time to tail flick, vehicle, before self-admin1.21.21.31.01.1-1.1
Time to tail flick, vehicle, after self-admin0.20.20.3-0.5-0.40.4
Time to tail flick, test, before self-admin0.50.50.70.80.6-0.6
Time to tail flick, test, after self-admin0.10.10.2-0.2-0.40.4
Delta time to tail flick, vehicle, before/after SA0.50.50.5-0.7-0.70.7
Delta time to tail flick, test, before/after SA0.20.20.2-0.5-0.50.4
Ambulatory time before self-admin4.04.14.41.92.1-2.1
Ambulatory time after self-admin1.61.81.91.21.4-1.4
Total heroin consumption1.92.32.6-1.6-1.51.4
Area under the delay curve1.21.21.5-1.0-1.21.2
Delay disc. indifference point, 0s delay1.21.41.4-1.1-1.21.2
Delay disc. indifference point, 16s delay1.31.31.3-1.1-1.21.1
Delay disc. indifference point, 2s delay1.21.41.4-1.1-1.21.2
Delay disc. indifference point, 24s delay1.51.41.5-1.2-1.21.2
Delay disc. indifference point, 4s delay0.30.30.4-0.3-0.60.6
Delay disc. indifference point, 8s delay3.13.23.6-1.6-1.91.8
Delay discount exponential model param1.01.11.30.91.1-1.1
Delay discount hyperbolic model param0.91.01.20.81.1-1.1
Fecal boli incidents, locomotor time 11.41.62.31.51.0-1.2
Change in fecal boli incidents, locomotor task1.21.11.3-1.1-1.01.0
Time >=10cm from walls, locomotor time 10.30.30.4-0.3-0.60.5
Bouts of movement, locomotor time 10.00.10.1-0.1-0.30.2
Total resting periods, locomotor time 10.10.10.20.50.2-0.3
Rest time, locomotor task time 10.20.20.30.50.3-0.4
Distance moved, locomotor task time 10.00.00.00.00.2-0.1
Vertical activity count, locomotor time 11.31.41.6-1.0-1.21.3
Time >=10cm from walls, locomotor time 20.40.40.40.60.6-0.7
Bouts of movement, locomotor time 22.52.62.8-1.6-1.71.6
Total resting periods, locomotor time 22.83.03.1-1.7-1.81.7
Rest time, locomotor task time 20.10.10.2-0.1-0.40.3
Distance moved, locomotor task time 20.20.20.30.40.5-0.5
Vertical activity count, locomotor time 20.00.00.1-0.2-0.20.2
Weight adjusted by age2.62.93.5-1.9-1.61.6
Seeking ratio, delayed vs. immediate footshock0.40.40.6-0.4-0.70.7
Locomotion in novel chamber0.60.80.8-0.9-0.80.9
Locomotion in novel chamber post-restriction0.00.10.1-0.2-0.30.2
Progressive ratio0.00.00.10.20.1-0.2
Food seeking constrained by brief footshock0.10.20.20.40.4-0.5
Seeking ratio, punishment vs. effort0.00.00.0-0.1-0.0-0.0
Run reversals in cocaine runway, females0.00.00.00.10.2-0.2
Run reversals in cocaine runway, males1.51.41.51.11.2-1.2
Latency to leave start box in cocaine runway0.00.00.00.10.1-0.1
Latency to leave start box in cocaine runway, F1.92.12.21.41.5-1.5
Latency to leave start box in cocaine runway, M2.02.02.1-1.3-1.41.5
Cd content in liver0.40.40.40.60.6-0.7
Co content in liver0.10.10.10.20.3-0.3
Cu content in liver1.11.31.4-1.2-1.11.1
Fe content in liver0.10.10.10.30.4-0.4
K content in liver0.50.50.6-0.6-0.70.7
Mg content in liver0.00.00.00.0-0.10.1
Mn content in liver0.00.00.0-0.1-0.10.1
Na content in liver0.00.00.00.00.1-0.1
Rb content in liver0.10.20.20.30.4-0.4
Se content in liver0.40.50.50.70.7-0.7
Sr content in liver0.70.70.7-0.9-0.80.8
Zn content in liver1.21.31.51.01.2-1.2