Cdk2ap2

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 PL mRNA stability Cdk2ap2 0.03 0.02 9.7e-03 0.01 0.01 0.01 0.01 7.5e-03 3.9e-02 3.7e-02 4.0e-02
2 Brain mRNA stability Cdk2ap2 0.04 0.03 5.2e-03 0.03 0.01 0.02 0.03 8.9e-04 3.2e-02 4.4e-03 1.6e-03
3 Liver gene expression Cdk2ap2 0.06 0.04 2.2e-03 0 0.02 0.02 0.02 8.7e-02 3.4e-03 5.5e-03 6.0e-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 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 density0.71.23.10.40.4-1.8
Area under the delay curve0.10.10.3-0.1-0.1-0.6
BMI with tail2.89.114.42.52.6-3.8
BMI without tail1.63.45.21.51.6-2.3
Body weight3.715.616.93.84.1-4.0
Weight adjusted by age1.72.02.71.71.3-1.2
Bone surface2.95.28.42.01.7-2.9
Bone volume0.91.53.30.90.6-1.8
Breakpoint value in progressive ratio session2.52.72.91.71.7-1.6
Number of licking bursts0.00.00.10.2-0.0-0.3
Context. condit. distance diff. score1.01.21.7-1.2-1.30.8
Locomotion velocity, session 10.00.00.00.1-0.0-0.1
Locomotion distance, session 10.81.12.20.80.5-1.5
Locomotion velocity, session 22.63.03.51.91.8-1.6
Locomotion distance, session 21.31.82.31.41.1-1.5
Locomotion velocity, session 30.30.30.9-0.2-0.0-0.9
Locomotion distance, session 30.00.00.10.0-0.0-0.3
Stereotopy head waving bouts, day 30.30.30.6-0.8-0.5-0.3
Stereotopy head waving duration, day 30.81.01.5-1.2-1.10.4
Locomotion velocity, session 70.20.20.5-0.0-0.1-0.7
Locomotion distance, session 70.40.50.60.70.5-0.8
Stereotopy head waving bouts, day 70.40.51.0-1.0-0.6-0.1
Stereotopy head waving duration, day 70.91.02.30.50.8-1.5
Locomotion velocity, session 81.51.81.91.41.4-1.3
Locomotion distance, session 80.10.20.4-0.3-0.70.0
Degree of sensitization distance0.40.40.60.60.5-0.8
Degree of sensitization stereotypy0.30.30.70.20.5-0.8
Conditioned locomotion2.02.43.92.01.7-0.5
Cocaine response after cond. corrected0.20.20.4-0.6-0.30.2
Cocaine response after cond. not corrected0.10.10.3-0.5-0.3-0.1
Cocaine response before conditioning0.10.10.30.40.2-0.5
Saline control response3.14.04.32.12.1-1.9
Bone: connectivity density2.84.38.01.51.7-2.8
Bone: cortical apparent density0.60.71.10.91.0-0.6
Bone: cortical area0.40.60.91.00.9-0.2
Bone: cortical porosity0.00.00.1-0.2-0.1-0.2
Bone: cortical porosity0.20.30.30.50.5-0.6
Bone: cortical thickness3.65.98.22.92.8-1.2
Bone: cortical thickness2.22.53.82.01.7-0.9
Bone: cortical tissue density0.70.91.41.01.2-0.7
Condit. Reinf. active minus inactive responses0.10.20.40.20.1-0.7
Condit. Reinf. active-inactive response ratio0.10.10.1-0.2-0.2-0.2
Condit. Reinf. active responses0.00.00.00.0-0.1-0.2
Condit. Reinf. inactive responses0.10.10.1-0.2-0.30.3
Incentive salience index mean0.20.20.50.50.2-0.7
Condit. Reinf. lever presses0.10.10.30.50.1-0.1
Condit. Reinf. active minus inactive responses0.50.61.1-1.0-0.9-0.1
Condit. Reinf. active-inactive response ratio1.81.92.7-1.6-1.60.8
Condit. Reinf. active responses0.20.30.6-0.4-0.3-0.8
Condit. Reinf. inactive responses1.11.32.30.90.9-1.5
Condit. Reinf. lever presses1.01.32.11.10.8-1.5
Condit. Reinf. lever reinforcers received0.30.41.1-0.1-0.0-1.0
Conditioned reinforcement - actives0.50.50.8-0.6-0.60.9
Conditioned reinforcement - inactives6.16.87.4-2.7-2.72.4
Conditioned locomotion10.112.113.9-3.3-3.43.7
Patch foraging indifference point 0 sec0.60.91.8-1.3-0.70.6
Patch foraging indifference point AUC1.31.52.21.51.3-0.9
Delay disc. indifference point, 0s delay0.20.20.6-0.20.0-0.8
Delay disc. indifference point, 16s delay1.41.41.7-1.3-1.30.9
Delay disc. indifference point, 2s delay0.10.20.3-0.5-0.50.0
Delay disc. indifference point, 24s delay0.00.00.1-0.00.30.1
Delay disc. indifference point, 4s delay0.10.10.30.2-0.0-0.5
Delay disc. indifference point, 8s delay0.20.20.40.00.4-0.6
Indifference point function ln k5.06.98.5-2.9-2.52.4
Indifference point function log k5.06.98.5-2.9-2.52.4
Patch foraging total patch changes 0 sec0.40.61.1-1.0-0.40.7
Patch foraging total patch changes 12 sec2.33.03.41.81.8-1.6
Patch foraging total patch changes 18 sec0.20.20.40.30.5-0.6
Patch foraging total patch changes 24 sec0.70.81.31.01.1-0.6
Patch foraging total patch changes 6 sec0.71.01.80.51.1-1.3
Patch foraging time to switch 0 sec2.33.65.71.81.3-2.4
Patch foraging water rate 0 sec5.69.012.9-2.8-2.53.6
Patch foraging water rate 12 sec7.711.816.3-3.2-3.04.0
Patch foraging water rate 18 sec1.92.63.1-1.5-1.51.7
Patch foraging water rate 24 sec2.83.96.4-1.7-1.52.5
Patch foraging water rate 6 sec2.02.94.9-1.4-1.32.2
Seeking ratio, delayed vs. immediate footshock0.20.20.5-0.00.2-0.7
Distance traveled before self-admin0.10.10.20.20.2-0.4
Distance traveled after self-admin0.00.00.0-0.00.0-0.1
Extensor digitorum longus weight7.027.532.95.75.5-4.4
Bone: elastic displacement0.60.72.0-0.3-0.11.4
Bone: elastic work1.11.42.61.21.6-0.5
Bone: endosteal estimation1.22.63.9-1.8-2.00.7
Bone: endosteal perimeter2.55.37.8-2.6-2.81.1
Epididymis fat weight3.37.68.4-2.9-2.92.5
Delta time in closed arm before/after self-admin0.80.81.11.11.0-0.5
Delta time in open arm before/after self-admin0.10.10.2-0.4-0.40.2
Diff in mean of infusions in LGA sessions0.30.40.50.70.7-0.4
Delay discount exponential model param0.10.10.30.0-0.00.6
Extinction: sum of active levers before priming4.14.04.81.92.0-2.2
Active lever presses in extinction session 61.11.11.61.31.2-0.4
Bone: final force1.93.13.51.91.7-1.7
Bone: final moment1.62.62.91.71.6-1.6
Food consumed during 24 hour testing period0.30.40.7-0.4-0.50.8
Glucose1.21.93.1-1.5-1.80.5
Heart weight1.82.53.6-1.9-1.61.2
Delay discount hyperbolic model param0.10.10.3-0.0-0.00.6
Intermittent access intake day 1-15 change2.32.32.6-1.4-1.51.6
Intermittent access intake escalation2.12.02.3-1.4-1.51.4
Intermittent access intake escalation 21.11.11.2-1.0-1.11.1
Intermitt. access day 1 inactive lever presses1.51.72.2-1.5-1.21.1
Intermitt. access day 15 inactive lever presses1.82.02.8-1.7-1.41.1
Intermitt. access escalation Index3.22.83.1-1.6-1.71.7
Intermittent access day 1 total infusions2.02.33.9-2.0-1.70.5
Intermittent access day 15 total infusions7.18.010.2-3.2-3.02.2
Intermittent access terminal intake (last 3 days)4.44.96.5-2.5-2.41.5
Intermittent access total infusions2.42.73.8-2.0-1.80.9
Intermittent access day 1 locomotion0.50.61.0-1.0-0.8-0.2
Intermittent access day 15 total locomotion4.04.35.4-2.2-2.31.6
Intermittent access total locomotion4.04.66.5-2.4-2.51.3
Intermittent access standard deviation0.91.01.1-1.0-1.11.0
Left kidney weight1.43.94.4-2.1-1.82.1
Right kidney weight1.13.14.4-1.7-1.42.1
Cocaine induced anxiety0.00.00.0-0.1-0.10.2
Post-drug Anxiety0.70.81.20.91.1-0.5
Baseline Anxiety1.61.72.11.41.5-0.9
Tail length0.51.52.61.31.6-0.4
Length with tail2.07.410.22.93.2-1.9
Length without tail2.35.06.32.32.5-1.9
Times rat made contact with spout0.60.71.20.70.7-1.1
Lifetime Intake1.92.13.2-1.8-1.60.8
Liver weight, left0.10.20.2-0.3-0.50.4
Liver weight, right0.10.20.4-0.4-0.20.7
Locomotor activity1.01.62.0-1.4-1.01.4
Locomotor testing distance1.32.22.9-1.7-1.21.5
Locomotor testing rearing0.91.42.1-1.5-1.20.7
Locomotion in novel chamber6.17.68.7-3.0-2.92.4
Locomotion in novel chamber post-restriction3.44.14.5-2.1-2.01.9
Fecal boli incidents, locomotor time 10.00.00.0-0.1-0.20.1
Change in fecal boli incidents, locomotor task0.40.30.50.40.6-0.7
Time >=10cm from walls, locomotor time 10.90.91.5-1.2-1.1-0.0
Bouts of movement, locomotor time 10.50.61.01.00.8-0.4
Total resting periods, locomotor time 10.20.20.40.60.5-0.1
Rest time, locomotor task time 11.92.13.0-1.3-1.31.7
Distance moved, locomotor task time 10.20.30.70.20.2-0.8
Vertical activity count, locomotor time 11.01.11.6-1.2-1.10.6
Time >=10cm from walls, locomotor time 20.10.10.2-0.3-0.30.4
Bouts of movement, locomotor time 20.50.60.70.80.9-0.6
Total resting periods, locomotor time 20.20.30.30.50.5-0.5
Rest time, locomotor task time 21.82.12.7-1.6-1.61.0
Distance moved, locomotor task time 20.50.60.90.91.0-0.4
Vertical activity count, locomotor time 20.20.20.60.20.30.8
Light reinforcement 10.81.41.8-0.9-1.31.3
Light reinforcement 23.14.14.4-1.9-2.12.1
Bone: marrow area1.22.64.0-1.8-2.00.7
Bone: maximum diameter0.10.30.4-0.4-0.50.6
Bone: maximum force2.03.45.71.61.5-2.4
Bone: maximum moment1.72.94.81.41.4-2.2
Mean time between licks in bursts0.81.11.90.71.4-0.9
Mean num. licks in bursts0.00.00.1-0.10.1-0.2
Cd content in liver1.82.02.2-1.3-1.51.5
Co content in liver0.40.41.0-0.3-0.41.0
Cu content in liver0.10.10.20.40.4-0.2
Fe content in liver0.00.00.10.10.2-0.2
K content in liver1.91.93.01.21.1-1.7
Mg content in liver0.40.41.3-0.0-0.1-1.1
Mn content in liver1.82.02.81.71.3-1.3
Na content in liver0.00.00.10.20.20.3
Rb content in liver1.01.32.2-1.5-1.30.1
Se content in liver0.10.20.2-0.5-0.5-0.2
Sr content in liver2.22.02.91.71.6-0.8
Zn content in liver1.01.11.51.21.0-0.8
Bone: minimum diameter0.71.32.0-1.4-1.40.0
Time in familiar zone, hab. session 10.40.30.5-0.7-0.70.3
Time in novel zone, hab. session 10.00.00.10.10.2-0.0
Total zone transitions, hab. session 10.60.91.21.10.8-0.9
Total locomotion distance, hab. session 10.30.40.8-0.5-0.90.5
Locomotion velocity, hab. session 10.10.10.2-0.0-0.50.2
Time in familiar zone, hab. session 20.50.50.80.80.9-0.2
Time in novel zone, hab. session 20.20.20.2-0.4-0.3-0.5
Total zone transitions, hab. session 22.32.95.81.41.1-2.4
Total locomotion distance, hab. session 20.20.30.70.2-0.1-0.9
Locomotion velocity, hab. session 20.10.20.3-0.1-0.5-0.5
Novel to familiar place preference ratio0.20.20.50.30.2-0.7
Novelty place preference0.10.10.20.0-0.1-0.4
Time in novel zone, NPP test0.10.10.20.0-0.1-0.5
Total zone transitions, NPP test1.62.33.11.61.0-1.8
Total locomotion distance, NPP test0.10.10.10.3-0.3-0.4
Locomotion velocity, NPP test0.00.10.10.2-0.3-0.2
Intraocular pressure0.70.91.9-0.6-0.71.4
Delta distance traveled before/after self-admin0.00.00.0-0.10.00.1
Delta ambulatory time before/after self-admin0.00.00.10.20.3-0.1
Parametrial fat weight1.53.04.2-1.9-2.11.0
Pavlov. Cond. lever latency0.30.40.7-0.8-0.40.6
Pavlov. Cond. magazine entry latency0.10.20.3-0.2-0.3-0.6
Pavlov. Cond. change in total contacts0.30.30.6-0.5-0.80.2
Pavlov. Cond. index score0.00.00.10.0-0.30.1
Pavlov. Cond. latency score0.00.00.10.1-0.2-0.1
Pavlov. Cond. lever contacts0.10.10.30.50.0-0.3
Pavlov. Cond. magazine entry number0.10.10.10.10.4-0.3
Pavlov. Cond. intertrial magazine entries0.30.40.8-0.5-0.40.9
Pavlov. Cond. lever-magazine prob. diff.0.00.00.00.1-0.1-0.0
Pavlov. Cond. response bias0.00.00.1-0.0-0.30.1
Pavlov. Cond. lever latency0.10.10.1-0.3-0.10.3
Pavlov. Cond. magazine entry latency3.64.25.61.91.8-2.4
Pavlov. Cond. change in total contacts0.30.50.90.60.4-1.0
Pavlov. Cond. index score1.01.31.81.20.9-1.3
Pavlov. Cond. latency score0.81.01.31.00.7-1.2
Pavlov. Cond. lever contacts0.00.00.10.30.10.0
Pavlov. Cond. magazine entry number4.75.87.6-2.3-2.12.8
Pavlov. Cond. intertrial magazine entries1.92.52.8-1.7-1.51.6
Pavlov. Cond. lever-magazine prob. diff.1.51.92.41.41.1-1.6
Pavlov. Cond. response bias0.81.11.31.10.9-1.1
Time in closed arm before self-admin0.10.10.2-0.3-0.50.2
Time in closed arm after self-admin0.10.10.20.50.2-0.0
Time in open arm before self-admin0.20.20.40.50.6-0.3
Time in open arm after self-admin0.00.00.0-0.00.10.1
Bone: periosteal estimation0.10.20.4-0.4-0.60.3
Bone: periosteal perimeter0.10.20.3-0.4-0.60.0
Bone: post-yield work0.91.32.4-0.8-0.9-1.6
Progressive ratio test 1 active lever presses1.61.72.1-1.5-1.21.2
Progressive ratio test 1 breakpoint1.41.51.8-1.3-1.11.2
Progressive ratio test 1 inactive lever presses0.40.40.6-0.8-0.60.5
Progressive ratio test 2 active lever presses3.23.44.3-2.1-1.91.6
Progressive ratio test 2 breakpoint4.24.75.3-2.3-2.12.0
Progressive ratio test 2 inactive lever presses7.08.19.8-3.1-3.12.3
Incentive Sensitization - Responses0.30.30.4-0.6-0.60.3
Incentive Sensitization - Breakpoint0.60.60.7-0.8-0.90.5
Sum of active levers in priming session hrs 5-60.30.30.60.30.40.7
Progressive ratio2.93.35.71.51.4-2.4
Food seeking constrained by brief footshock0.40.40.50.60.7-0.6
Seeking ratio, punishment vs. effort1.72.13.8-1.1-1.11.9
Retroperitoneal fat weight5.618.321.0-4.6-4.43.8
Reaction time number correct0.30.40.60.80.7-0.2
Reaction time mean minus median2.53.33.71.71.8-1.9
Reaction time mean minus median AUC1.92.52.81.61.7-1.4
Reaction time num false alarms0.10.10.3-0.20.30.5
Reaction time num false alarms AUC0.30.51.10.61.0-0.2
Reaction time trials correct on left0.30.40.60.80.7-0.2
Reaction time trials on left0.40.50.80.90.9-0.2
Reaction time mean0.10.10.20.30.0-0.4
Reaction time mean AUC0.00.10.20.1-0.1-0.4
Median of all reaction times0.00.10.1-0.1-0.4-0.2
Reaction time omissions2.12.83.21.71.8-1.5
Reaction time false alarm rate0.00.10.1-0.10.40.1
Reaction time premature initiation rate2.83.84.61.92.2-1.7
Reaction time premature initiations3.95.67.12.52.7-1.8
Std. dev. reaction times0.71.01.21.01.0-1.1
Reaction time trials completed0.40.50.80.90.9-0.2
Reaction time trials AUC0.20.40.50.70.7-0.2
Run reversals in cocaine runway, females1.91.83.01.11.1-1.7
Run reversals in cocaine runway, males0.20.20.30.40.50.3
Latency to leave start box in cocaine runway0.10.10.3-0.2-0.2-0.5
Latency to leave start box in cocaine runway, F0.10.10.30.1-0.1-0.6
Latency to leave start box in cocaine runway, M0.00.00.1-0.3-0.1-0.0
Std. dev. time between licks in bursts0.40.50.90.71.00.0
Total sessions with >9 infusions0.50.50.7-0.8-0.80.5
Short access day 1 total inactive lever presses2.52.83.7-1.9-1.61.4
Short access day 10 total inactive lever presses1.21.31.7-1.3-1.11.0
Short access day 1 total infusions1.71.83.0-1.7-1.40.7
Short access day 10 total infusions0.40.40.5-0.7-0.6-0.6
Short access total infusions0.30.30.6-0.8-0.6-0.1
Short access day 1 locomotion1.01.01.5-1.2-1.20.4
Short access day 10 total locomotion0.30.30.6-0.6-0.70.0
Short access total locomotion0.20.20.2-0.5-0.5-0.1
One hour access (0.3 mA shock)7.99.311.8-3.4-3.12.6
Compulsive drug intake3.23.34.71.82.2-1.3
One hour access (shock baseline)9.410.912.4-3.5-3.42.9
Social response proportion1.21.31.91.01.0-1.4
Social responses0.50.60.80.90.9-0.6
Social time0.71.01.10.91.0-1.0
Soleus weight4.814.015.4-3.7-3.63.9
Bone: stiffness1.52.44.51.21.1-2.1
Tibialis anterior weight8.027.235.86.05.8-3.4
Time to tail flick, vehicle, before self-admin0.80.81.80.60.6-1.3
Time to tail flick, vehicle, after self-admin2.93.13.41.71.7-1.8
Time to tail flick, test, before self-admin0.20.20.60.1-0.2-0.8
Time to tail flick, test, after self-admin0.20.20.40.60.3-0.2
Delta time to tail flick, vehicle, before/after SA0.90.91.11.10.9-0.9
Delta time to tail flick, test, before/after SA0.70.60.90.90.90.4
Tibia length0.10.30.40.60.60.5
Ambulatory time before self-admin0.10.10.20.10.0-0.4
Ambulatory time after self-admin0.30.40.6-0.7-0.7-0.0
Bone: tissue strength0.20.20.3-0.5-0.50.1
Total heroin consumption4.35.15.82.42.4-2.0
Bone: trabecular number0.71.12.80.70.5-1.7
Bone: trabecular spacing0.20.30.7-0.1-0.40.9
Bone: trabecular thickness0.60.71.4-1.2-0.8-0.1
Bone: trabecular tissue density6.18.610.1-2.7-2.93.2
Water consumed over 24 hours0.80.91.20.90.9-1.1
Number of responses in last shaping day0.60.60.6-0.8-0.80.8