Pik3c2a

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 Adipose mRNA stability ENSRNOG00000020479 0.1 0.09 6.5e-09 0.06 0.02 0.04 0.05 6.4e-07 1.3e-03 4.0e-05 3.3e-06
2 Liver gene expression ENSRNOG00000020479 0.02 0.02 8.3e-03 0.01 0.01 0 0 6.2e-02 2.5e-02 2.2e-01 8.2e-02
3 Liver mRNA stability ENSRNOG00000020479 0.03 0.03 2.2e-03 0.01 0.01 0.01 0 4.0e-02 5.9e-02 2.2e-02 1.5e-01
4 NAcc gene expression ENSRNOG00000020479 0.04 0.05 2.9e-03 0.02 0.02 0.02 0.01 2.1e-02 1.9e-02 2.2e-02 3.2e-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 4
BMI with tail5.116.621.04.64.52.14.6
BMI without tail9.419.824.54.94.92.54.9
Body weight4.217.723.54.94.62.04.7
Epididymis fat weight1.43.34.22.12.01.02.0
Glucose0.00.00.1-0.0-0.1-0.3-0.1
Heart weight0.71.03.20.30.51.80.5
Left kidney weight6.217.722.84.84.62.14.7
Right kidney weight7.220.426.65.25.02.15.1
Tail length2.26.77.82.72.82.02.8
Length with tail0.83.04.22.01.90.81.9
Length without tail0.30.61.5-0.4-0.7-1.2-0.6
Liver weight, left2.64.35.02.01.92.22.1
Liver weight, right3.25.37.02.72.41.42.5
Parametrial fat weight8.416.421.44.64.61.54.6
Retroperitoneal fat weight2.37.710.13.23.11.23.1
Intraocular pressure0.30.40.60.70.80.40.7
Extensor digitorum longus weight2.08.211.53.43.20.73.3
Soleus weight0.92.63.81.91.80.41.8
Tibialis anterior weight3.411.815.94.03.91.03.9
Tibia length0.00.10.10.30.20.30.2
Number of licking bursts5.26.27.6-2.7-2.7-1.5-2.8
Food consumed during 24 hour testing period0.00.00.00.0-0.10.0-0.0
Times rat made contact with spout0.60.71.2-1.1-0.80.7-0.8
Mean time between licks in bursts0.71.01.51.21.00.31.2
Mean num. licks in bursts2.93.53.81.81.91.81.9
Std. dev. time between licks in bursts2.42.93.41.71.81.41.8
Water consumed over 24 hours3.54.16.3-2.5-2.20.6-2.2
Indifference point 0 sec0.20.40.90.20.61.00.4
Indifference point AUC1.11.31.41.11.11.01.2
Indifference point function ln k0.40.62.00.50.3-1.40.3
Indifference point function log k0.40.62.00.50.3-1.40.3
Delay discounting total patch changes 0 sec0.50.81.50.51.01.20.8
Delay discounting total patch changes 12 sec0.20.20.7-0.40.10.8-0.1
Delay discounting total patch changes 18 sec0.10.20.6-0.4-0.00.8-0.1
Delay discounting total patch changes 24 sec1.11.43.70.61.01.90.9
Delay discounting total patch changes 6 sec0.20.30.5-0.6-0.40.7-0.5
Delay discounting time to switch 0 sec3.75.76.7-2.5-2.6-1.7-2.6
Delay discounting water rate 0 sec1.01.62.01.31.40.91.3
Delay discounting water rate 12 sec4.46.69.03.02.90.82.9
Delay discounting water rate 18 sec2.02.63.41.81.80.91.8
Delay discounting water rate 24 sec0.40.50.60.70.80.40.8
Delay discounting water rate 6 sec0.50.71.00.91.0-0.10.9
Locomotor activity0.40.71.01.00.8-0.50.8
Locomotor testing distance0.30.50.90.70.5-1.00.5
Locomotor testing rearing0.10.20.30.50.5-0.30.4
Light reinforcement 10.51.01.6-1.3-1.00.6-1.0
Light reinforcement 20.50.71.3-0.8-0.61.2-0.6
Reaction time number correct0.20.30.40.60.6-0.00.6
Reaction time mean minus median0.60.80.90.90.80.80.9
Reaction time mean minus median AUC0.70.91.51.20.90.41.0
Reaction time num false alarms0.20.30.4-0.5-0.7-0.1-0.6
Reaction time num false alarms AUC0.10.10.2-0.2-0.40.4-0.3
Reaction time trials correct on left0.20.30.40.60.6-0.00.6
Reaction time trials on left0.20.30.50.70.7-0.00.7
Reaction time mean0.10.20.30.50.50.10.5
Reaction time mean AUC0.10.10.10.30.30.10.3
Median of all reaction times0.00.00.10.20.2-0.30.2
Reaction time omissions0.10.10.10.30.2-0.40.2
Reaction time false alarm rate0.30.40.7-0.6-0.9-0.3-0.8
Reaction time premature initiation rate0.10.10.30.20.1-0.50.2
Reaction time premature initiations0.20.30.70.40.3-0.90.3
Std. dev. reaction times0.71.01.21.11.10.81.1
Reaction time trials completed0.20.30.50.70.7-0.00.7
Reaction time trials AUC0.30.50.60.80.80.10.8
Social response proportion0.80.81.00.91.00.81.0
Social responses0.30.30.5-0.7-0.6-0.1-0.7
Social time1.31.85.3-0.5-0.9-2.3-0.8
Conditioned locomotion0.40.40.8-0.5-0.7-0.9-0.6
Cocaine response after cond. corrected0.40.50.8-0.6-0.5-0.9-0.6
Cocaine response after cond. not corrected0.50.50.80.80.9-0.20.8
Cocaine response before conditioning4.65.67.02.62.61.42.6
Saline control response0.60.80.90.80.90.90.9
Condit. Reinf. active minus inactive responses1.01.31.71.31.20.61.3
Condit. Reinf. active-inactive response ratio0.80.91.40.70.91.20.9
Condit. Reinf. active responses0.91.22.01.41.10.31.2
Condit. Reinf. inactive responses0.70.91.61.30.9-0.41.0
Condit. Reinf. lever presses2.94.15.12.22.31.02.3
Condit. Reinf. lever reinforcers received0.71.01.61.31.10.21.1
Pavlov. Cond. lever latency1.72.33.0-1.6-1.7-1.1-1.7
Pavlov. Cond. magazine entry latency0.20.20.7-0.10.10.90.1
Pavlov. Cond. change in total contacts0.60.80.90.80.91.00.9
Pavlov. Cond. index score0.60.80.90.81.01.00.9
Pavlov. Cond. latency score0.50.70.90.80.90.70.9
Pavlov. Cond. lever contacts3.14.35.72.22.41.12.3
Pavlov. Cond. magazine entry number0.40.40.70.80.7-0.40.7
Pavlov. Cond. intertrial magazine entries5.97.611.63.43.00.23.1
Pavlov. Cond. lever-magazine prob. diff.0.60.81.30.70.91.10.9
Pavlov. Cond. response bias1.41.92.21.31.51.31.4
Conditioned reinforcement - actives1.01.02.5-0.7-0.7-1.6-0.7
Conditioned reinforcement - inactives1.11.21.7-1.1-1.3-0.7-1.2
Conditioned locomotion1.82.13.9-1.2-1.2-2.0-1.2
Intermittent access intake day 1-15 change1.11.11.3-0.9-1.1-1.1-1.0
Intermittent access intake escalation0.70.70.8-0.7-0.9-0.9-0.8
Intermittent access intake escalation 20.20.20.4-0.4-0.6-0.4-0.5
Intermitt. access day 1 inactive lever presses0.10.10.2-0.4-0.40.2-0.4
Intermitt. access day 15 inactive lever presses0.30.40.5-0.7-0.70.1-0.7
Intermitt. access escalation Index3.83.46.41.61.52.51.5
Intermittent access day 1 total infusions0.50.50.90.50.7-1.00.6
Intermittent access day 15 total infusions0.91.03.90.0-0.1-2.0-0.1
Intermittent access terminal intake (last 3 days)1.11.24.80.30.1-2.20.2
Intermittent access total infusions0.40.40.90.50.6-1.00.5
Intermittent access day 1 locomotion1.31.32.50.91.0-1.60.9
Intermittent access day 15 total locomotion0.30.30.60.60.4-0.80.5
Intermittent access total locomotion0.80.90.90.91.0-0.90.9
Intermittent access standard deviation0.40.40.50.60.60.70.6
Cocaine induced anxiety1.11.21.61.21.10.91.2
Post-drug Anxiety0.40.40.50.70.60.70.6
Baseline Anxiety1.31.41.7-1.3-1.3-0.7-1.3
Lifetime Intake0.50.50.90.80.9-0.10.8
Incentive Sensitization - Responses0.40.40.7-0.8-0.70.1-0.7
Incentive Sensitization - Breakpoint0.40.40.7-0.8-0.70.1-0.7
Progressive ratio test 1 active lever presses0.20.20.40.40.6-0.10.5
Progressive ratio test 1 breakpoint0.30.40.60.50.80.20.7
Progressive ratio test 1 inactive lever presses0.70.71.70.50.71.30.7
Progressive ratio test 2 active lever presses0.00.00.1-0.10.2-0.20.1
Progressive ratio test 2 breakpoint0.00.00.10.00.30.00.2
Progressive ratio test 2 inactive lever presses0.10.10.1-0.3-0.2-0.3-0.2
Total sessions with >9 infusions0.50.61.00.71.0-0.30.9
Short access day 1 total inactive lever presses0.20.20.4-0.5-0.20.6-0.3
Short access day 10 total inactive lever presses1.01.12.1-0.9-0.91.4-0.9
Short access day 1 total infusions0.50.60.70.60.80.80.7
Short access day 10 total infusions0.10.10.30.30.5-0.20.4
Short access total infusions1.31.41.81.11.31.11.2
Short access day 1 locomotion0.10.20.5-0.3-0.1-0.7-0.2
Short access day 10 total locomotion1.41.52.01.41.4-0.01.4
Short access total locomotion1.61.72.41.41.6-0.51.5
Compulsive drug intake1.41.32.01.41.3-0.11.3
One hour access (0.3 mA shock)1.21.41.91.41.2-0.81.2
One hour access (shock baseline)0.40.51.3-0.4-0.5-1.1-0.5
Number of responses in last shaping day0.10.10.10.10.30.30.2
Context. condit. distance diff. score1.01.22.3-0.8-1.0-1.5-1.0
Locomotion velocity, session 12.62.73.6-1.9-1.80.7-1.9
Locomotion distance, session 10.20.20.6-0.3-0.30.8-0.3
Locomotion velocity, session 23.23.75.0-2.2-2.10.8-2.2
Locomotion distance, session 20.20.30.7-0.4-0.30.9-0.3
Locomotion velocity, session 30.30.41.5-0.1-0.11.2-0.1
Locomotion distance, session 30.91.03.80.3-0.2-1.9-0.1
Stereotopy head waving bouts, day 31.51.92.7-1.6-1.11.4-1.2
Stereotopy head waving duration, day 32.42.95.2-1.9-1.22.3-1.3
Locomotion velocity, session 70.20.20.4-0.5-0.20.7-0.3
Locomotion distance, session 71.11.42.4-1.0-1.0-1.6-1.0
Stereotopy head waving bouts, day 70.40.40.6-0.8-0.60.3-0.7
Stereotopy head waving duration, day 70.20.30.60.40.50.80.5
Locomotion velocity, session 81.92.32.7-1.5-1.7-1.4-1.6
Locomotion distance, session 80.81.21.6-1.2-1.3-0.3-1.2
Degree of sensitization distance0.50.50.7-0.7-0.5-0.8-0.6
Degree of sensitization stereotypy0.00.00.0-0.2-0.2-0.0-0.2
Condit. Reinf. active minus inactive responses0.20.20.50.50.30.70.4
Condit. Reinf. active-inactive response ratio1.21.32.01.01.01.41.0
Condit. Reinf. active responses0.20.20.90.20.11.00.1
Condit. Reinf. inactive responses0.10.10.20.30.00.40.1
Incentive salience index mean0.30.30.60.80.50.50.6
Condit. Reinf. lever presses0.00.00.10.2-0.1-0.4-0.0
Time in familiar zone, hab. session 10.30.30.5-0.5-0.7-0.3-0.6
Time in novel zone, hab. session 10.20.20.20.40.50.20.4
Total zone transitions, hab. session 10.00.10.10.30.20.20.3
Total locomotion distance, hab. session 10.30.40.70.80.7-0.10.7
Locomotion velocity, hab. session 10.30.50.70.80.80.10.8
Time in familiar zone, hab. session 20.30.30.40.60.6-0.10.6
Time in novel zone, hab. session 20.00.00.00.10.10.10.0
Total zone transitions, hab. session 20.10.20.30.50.30.30.4
Total locomotion distance, hab. session 20.00.00.10.3-0.1-0.30.0
Locomotion velocity, hab. session 20.00.00.10.3-0.1-0.30.1
Novel to familiar place preference ratio0.30.30.5-0.4-0.7-0.6-0.6
Novelty place preference0.60.60.9-0.6-1.0-0.7-0.9
Time in novel zone, NPP test0.40.50.7-0.5-0.8-0.6-0.7
Total zone transitions, NPP test0.10.20.50.10.20.70.2
Total locomotion distance, NPP test0.00.10.1-0.2-0.3-0.2-0.3
Locomotion velocity, NPP test0.00.00.1-0.1-0.2-0.2-0.2
Pavlov. Cond. lever latency1.21.62.3-1.5-1.4-0.1-1.4
Pavlov. Cond. magazine entry latency5.36.99.83.13.00.23.0
Pavlov. Cond. change in total contacts2.22.33.31.81.7-0.51.7
Pavlov. Cond. index score3.94.97.12.72.5-0.02.6
Pavlov. Cond. latency score3.74.86.62.62.50.32.5
Pavlov. Cond. lever contacts2.53.04.22.11.90.12.0
Pavlov. Cond. magazine entry number3.24.05.7-2.4-2.20.1-2.3
Pavlov. Cond. intertrial magazine entries0.30.40.5-0.7-0.60.3-0.6
Pavlov. Cond. lever-magazine prob. diff.4.45.67.92.82.7-0.02.7
Pavlov. Cond. response bias2.63.24.82.21.9-0.42.0
Bone: apparent density0.40.60.70.80.80.70.8
Bone surface0.71.21.31.11.11.01.1
Bone volume0.71.21.31.11.11.11.1
Bone: connectivity density0.71.21.41.11.20.91.1
Bone: cortical apparent density1.92.53.9-2.0-1.70.5-1.7
Bone: cortical area1.72.63.11.51.71.41.7
Bone: cortical porosity1.61.72.61.61.40.11.5
Bone: cortical porosity0.80.81.31.10.9-0.21.0
Bone: cortical thickness0.10.20.20.30.50.40.4
Bone: cortical thickness0.60.72.7-0.1-0.3-1.6-0.3
Bone: cortical tissue density1.92.54.0-2.0-1.70.5-1.7
Bone: elastic displacement3.03.44.3-2.1-2.0-1.0-2.1
Bone: elastic work0.40.50.5-0.6-0.7-0.7-0.7
Bone: endosteal estimation1.43.13.41.71.91.61.9
Bone: endosteal perimeter0.81.71.81.31.31.21.4
Bone: final force2.03.25.51.41.62.31.6
Bone: final moment1.62.75.11.21.42.31.5
Bone: marrow area1.32.83.21.71.81.51.8
Bone: maximum diameter2.03.74.52.02.11.42.1
Bone: maximum force1.32.33.31.31.51.81.5
Bone: maximum moment1.11.93.21.11.31.81.3
Bone: minimum diameter0.61.11.31.01.11.01.1
Bone: periosteal estimation2.14.35.01.92.22.02.1
Bone: periosteal perimeter2.23.74.21.82.01.82.0
Bone: post-yield work3.85.26.32.42.51.62.5
Bone: stiffness0.91.41.91.01.11.41.1
Bone: tissue strength0.50.51.3-0.6-0.51.1-0.4
Bone: trabecular number0.00.00.00.1-0.0-0.2-0.0
Bone: trabecular spacing0.30.40.50.60.70.30.7
Bone: trabecular thickness0.60.70.90.90.90.60.9
Bone: trabecular tissue density0.40.50.7-0.9-0.60.8-0.6
Breakpoint value in progressive ratio session4.24.76.9-2.3-2.6-0.2-2.5
Distance traveled before self-admin0.80.91.2-1.1-0.9-0.7-1.0
Distance traveled after self-admin0.10.20.6-0.0-0.0-0.8-0.0
Delta time in closed arm before/after self-admin0.30.30.8-0.4-0.4-0.9-0.4
Delta time in open arm before/after self-admin2.82.73.61.71.90.81.9
Diff in mean of infusions in LGA sessions0.40.40.6-0.7-0.8-0.0-0.8
Extinction: sum of active levers before priming0.40.40.8-0.5-0.9-0.2-0.8
Active lever presses in extinction session 60.10.10.20.40.20.30.3
Delta distance traveled before/after self-admin0.70.81.11.00.9-0.51.0
Delta ambulatory time before/after self-admin0.40.40.60.70.7-0.30.7
Time in closed arm before self-admin0.60.71.00.91.00.21.0
Time in closed arm after self-admin0.91.02.2-0.8-0.7-1.5-0.8
Time in open arm before self-admin0.60.70.9-0.8-0.90.5-0.9
Time in open arm after self-admin1.92.02.51.61.51.11.6
Sum of active levers in priming session hrs 5-60.20.20.80.1-0.00.90.0
Time to tail flick, vehicle, before self-admin1.21.23.00.90.71.70.8
Time to tail flick, vehicle, after self-admin0.60.70.8-0.9-0.9-0.6-0.9
Time to tail flick, test, before self-admin0.00.00.1-0.1-0.00.3-0.1
Time to tail flick, test, after self-admin0.20.31.00.00.21.00.2
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.3-0.0-0.0-0.2
Delta time to tail flick, test, before/after SA0.40.40.40.50.60.70.6
Ambulatory time before self-admin1.71.82.1-1.5-1.3-1.1-1.4
Ambulatory time after self-admin0.50.51.6-0.5-0.4-1.3-0.4
Total heroin consumption1.72.02.9-1.4-1.7-0.8-1.6
Area under the delay curve0.30.30.6-0.8-0.60.2-0.7
Delay disc. indifference point, 0s delay0.10.10.1-0.3-0.20.3-0.3
Delay disc. indifference point, 16s delay3.93.95.5-2.3-2.2-0.3-2.3
Delay disc. indifference point, 2s delay0.40.50.70.80.80.00.8
Delay disc. indifference point, 24s delay2.52.43.2-1.8-1.51.3-1.5
Delay disc. indifference point, 4s delay0.40.40.6-0.8-0.60.4-0.7
Delay disc. indifference point, 8s delay0.90.91.2-1.1-1.1-0.5-1.1
Delay discount exponential model param0.30.40.60.80.6-0.50.6
Delay discount hyperbolic model param0.20.20.40.60.4-0.40.5
Fecal boli incidents, locomotor time 10.40.51.7-0.3-0.21.3-0.2
Change in fecal boli incidents, locomotor task0.00.00.0-0.1-0.2-0.0-0.2
Time >=10cm from walls, locomotor time 11.11.12.1-0.8-0.9-1.4-0.9
Bouts of movement, locomotor time 10.00.00.1-0.2-0.30.2-0.2
Total resting periods, locomotor time 10.40.50.7-0.7-0.8-0.4-0.8
Rest time, locomotor task time 14.65.15.9-2.0-2.3-2.4-2.2
Distance moved, locomotor task time 11.92.12.61.51.61.01.6
Vertical activity count, locomotor time 10.40.41.20.30.51.10.4
Time >=10cm from walls, locomotor time 20.50.62.00.50.1-1.40.2
Bouts of movement, locomotor time 20.40.40.60.70.80.20.7
Total resting periods, locomotor time 20.60.60.80.80.90.20.9
Rest time, locomotor task time 20.91.11.3-1.1-1.2-0.7-1.2
Distance moved, locomotor task time 20.10.10.4-0.1-0.3-0.6-0.2
Vertical activity count, locomotor time 20.70.71.0-1.0-1.00.2-1.0
Weight adjusted by age1.31.42.01.11.11.41.1
Seeking ratio, delayed vs. immediate footshock0.00.00.00.10.1-0.00.1
Locomotion in novel chamber4.65.77.02.62.61.52.6
Locomotion in novel chamber post-restriction0.50.61.10.60.61.00.6
Progressive ratio0.40.51.90.0-0.1-1.4-0.1
Food seeking constrained by brief footshock0.91.11.9-0.9-1.0-1.4-0.9
Seeking ratio, punishment vs. effort0.10.10.60.00.10.80.1
Run reversals in cocaine runway, females1.71.71.91.31.41.21.4
Run reversals in cocaine runway, males2.01.92.7-1.6-1.60.2-1.6
Latency to leave start box in cocaine runway0.20.20.6-0.3-0.2-0.8-0.3
Latency to leave start box in cocaine runway, F0.10.10.10.30.40.30.3
Latency to leave start box in cocaine runway, M2.12.02.2-1.5-1.3-1.5-1.4
Cd content in liver0.80.91.1-1.0-1.0-0.4-1.0
Co content in liver1.21.42.1-1.4-1.3-0.3-1.4
Cu content in liver0.10.20.30.50.4-0.20.4
Fe content in liver1.51.82.0-1.3-1.4-1.1-1.4
K content in liver0.90.91.41.20.90.41.1
Mg content in liver0.40.40.70.80.60.40.7
Mn content in liver0.60.71.21.10.90.01.0
Na content in liver1.21.31.51.21.11.01.2
Rb content in liver0.10.10.10.40.2-0.20.3
Se content in liver0.20.30.50.70.5-0.30.6
Sr content in liver2.32.12.31.41.51.31.5
Zn content in liver0.91.01.31.21.10.31.1