Hub : Genes

Apoc4

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 Apoc4 0.59 0.14 0.0e+00 0.49 0.49 0.49 0.49 2.9e-61 7.5e-62 1.4e-62 2.6e-62
2 Liver mRNA stability Apoc4 0.04 0.03 9.9e-04 0.03 0.02 0.02 0.02 4.9e-04 1.1e-03 1.6e-03 2.3e-03
3 BLA gene expression Apoc4 0.07 0.06 2.4e-03 0.03 0.04 0.04 0.03 1.0e-02 5.2e-03 4.6e-03 8.4e-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 density0.00.10.1-0.3-0.20.3
Area under the delay curve1.21.82.31.5-1.4-1.2
BMI with tail0.82.73.5-1.71.41.9
BMI without tail0.31.72.0-1.41.41.1
Body weight1.46.07.1-2.42.22.7
Weight adjusted by age0.00.00.00.00.10.2
Bone surface0.40.81.2-0.90.51.1
Bone volume0.30.71.2-0.80.41.1
Breakpoint value in progressive ratio session1.22.22.71.6-1.6-1.3
Number of licking bursts1.13.34.4-1.82.11.5
Context. condit. distance diff. score0.30.40.8-0.50.30.9
Locomotion velocity, session 10.10.10.10.2-0.30.3
Locomotion distance, session 10.10.10.2-0.40.10.3
Locomotion velocity, session 20.81.01.6-1.01.30.6
Locomotion distance, session 20.20.30.6-0.70.50.1
Locomotion velocity, session 30.10.10.3-0.40.50.1
Locomotion distance, session 31.21.42.31.1-0.9-1.5
Stereotopy head waving bouts, day 30.50.61.3-0.61.1-0.2
Stereotopy head waving duration, day 30.70.91.4-1.01.20.6
Locomotion velocity, session 70.10.10.20.2-0.4-0.4
Locomotion distance, session 70.10.20.3-0.30.20.6
Stereotopy head waving bouts, day 70.70.81.0-1.01.00.7
Stereotopy head waving duration, day 70.60.80.9-0.91.00.8
Locomotion velocity, session 80.10.10.20.3-0.0-0.4
Locomotion distance, session 80.10.10.1-0.3-0.00.3
Degree of sensitization distance1.31.42.5-1.00.81.6
Degree of sensitization stereotypy0.90.91.1-1.01.00.9
Conditioned locomotion0.70.82.20.3-0.2-1.5
Cocaine response after cond. corrected0.40.60.9-1.00.80.5
Cocaine response after cond. not corrected1.01.52.2-1.51.30.9
Cocaine response before conditioning1.21.41.9-1.21.40.8
Saline control response1.72.32.8-1.61.71.3
Bone: connectivity density0.00.10.1-0.1-0.4-0.1
Bone: cortical apparent density0.10.10.20.2-0.4-0.2
Bone: cortical area1.62.62.9-1.51.61.7
Bone: cortical porosity1.41.53.60.9-0.3-1.9
Bone: cortical porosity0.80.92.40.50.1-1.5
Bone: cortical thickness0.50.81.0-1.01.00.7
Bone: cortical thickness1.21.41.6-1.31.21.0
Bone: cortical tissue density0.10.20.30.4-0.5-0.3
Condit. Reinf. active minus inactive responses0.50.60.8-0.90.60.9
Condit. Reinf. active-inactive response ratio0.60.71.0-0.90.41.0
Condit. Reinf. active responses0.30.40.6-0.80.40.7
Condit. Reinf. inactive responses0.00.00.1-0.0-0.2-0.1
Incentive salience index mean0.20.20.4-0.60.40.2
Condit. Reinf. lever presses0.00.10.2-0.20.1-0.4
Condit. Reinf. active minus inactive responses0.10.20.3-0.40.30.5
Condit. Reinf. active-inactive response ratio0.30.50.7-0.80.70.7
Condit. Reinf. active responses0.10.10.10.3-0.3-0.3
Condit. Reinf. inactive responses0.71.11.21.1-0.9-1.1
Condit. Reinf. lever presses0.40.61.2-0.60.51.1
Condit. Reinf. lever reinforcers received0.10.20.20.4-0.3-0.5
Conditioned reinforcement - actives0.51.82.0-1.41.41.1
Conditioned reinforcement - inactives0.10.40.6-0.50.80.5
Conditioned locomotion1.92.83.0-1.71.71.6
Patch foraging indifference point 0 sec0.20.50.7-0.80.80.3
Patch foraging indifference point AUC1.33.14.6-1.92.21.1
Delay disc. indifference point, 0s delay1.92.23.11.4-1.2-1.8
Delay disc. indifference point, 16s delay0.81.11.31.1-1.1-0.9
Delay disc. indifference point, 2s delay2.83.14.52.1-1.9-1.1
Delay disc. indifference point, 24s delay0.50.81.9-0.60.21.4
Delay disc. indifference point, 4s delay0.00.00.10.20.0-0.3
Delay disc. indifference point, 8s delay1.21.92.21.5-1.4-1.3
Indifference point function ln k0.31.01.71.0-1.3-0.5
Indifference point function log k0.31.01.71.0-1.3-0.5
Patch foraging total patch changes 0 sec0.30.91.2-1.11.00.8
Patch foraging total patch changes 12 sec0.81.11.9-1.11.40.3
Patch foraging total patch changes 18 sec1.22.93.4-1.81.61.6
Patch foraging total patch changes 24 sec0.10.30.5-0.70.60.1
Patch foraging total patch changes 6 sec1.42.43.7-1.81.90.7
Patch foraging time to switch 0 sec1.14.46.02.4-2.2-1.5
Patch foraging water rate 0 sec1.24.66.3-2.52.41.3
Patch foraging water rate 12 sec0.10.30.5-0.70.40.6
Patch foraging water rate 18 sec0.10.20.3-0.50.30.5
Patch foraging water rate 24 sec0.50.71.0-1.00.80.8
Patch foraging water rate 6 sec1.01.52.2-1.30.91.5
Seeking ratio, delayed vs. immediate footshock2.23.24.71.5-1.6-2.2
Distance traveled before self-admin0.10.10.2-0.30.30.5
Distance traveled after self-admin0.20.30.40.5-0.4-0.6
Extensor digitorum longus weight2.08.09.8-2.72.63.1
Bone: elastic displacement1.21.51.81.2-1.2-1.3
Bone: elastic work0.10.10.3-0.00.1-0.5
Bone: endosteal estimation0.00.10.10.1-0.20.4
Bone: endosteal perimeter0.10.20.5-0.10.10.7
Epididymis fat weight0.20.81.01.0-0.9-0.8
Delta time in closed arm before/after self-admin0.10.00.10.1-0.40.0
Delta time in open arm before/after self-admin0.00.00.10.3-0.1-0.1
Diff in mean of infusions in LGA sessions0.71.31.71.3-1.3-0.8
Delay discount exponential model param0.91.21.6-1.31.10.9
Extinction: sum of active levers before priming0.30.51.30.3-0.2-1.1
Active lever presses in extinction session 60.10.10.2-0.30.20.4
Bone: final force0.30.50.6-0.70.80.7
Bone: final moment0.40.70.9-0.90.90.7
Food consumed during 24 hour testing period3.05.97.62.4-2.8-2.1
Glucose0.30.40.60.8-0.5-0.7
Heart weight1.93.13.7-1.81.91.5
Delay discount hyperbolic model param0.81.11.5-1.21.00.8
Intermittent access intake day 1-15 change0.10.30.4-0.50.40.7
Intermittent access intake escalation0.10.40.5-0.60.50.7
Intermittent access intake escalation 20.00.10.1-0.10.1-0.4
Intermitt. access day 1 inactive lever presses0.00.00.00.00.10.1
Intermitt. access day 15 inactive lever presses0.10.30.8-0.00.00.9
Intermitt. access escalation Index0.10.40.60.5-0.6-0.8
Intermittent access day 1 total infusions0.61.82.4-1.31.51.1
Intermittent access day 15 total infusions0.51.21.4-1.01.11.2
Intermittent access terminal intake (last 3 days)0.91.51.6-1.21.21.3
Intermittent access total infusions2.52.93.1-1.71.71.7
Intermittent access day 1 locomotion0.10.20.4-0.50.60.2
Intermittent access day 15 total locomotion0.00.20.3-0.40.50.3
Intermittent access total locomotion1.41.62.0-1.31.41.1
Intermittent access standard deviation0.00.10.20.5-0.4-0.2
Left kidney weight3.024.028.3-5.35.04.3
Right kidney weight3.121.925.6-5.14.84.1
Cocaine induced anxiety0.10.20.30.5-0.5-0.2
Post-drug Anxiety0.00.00.10.3-0.10.1
Baseline Anxiety0.00.00.00.10.1-0.0
Tail length0.21.11.3-1.01.10.9
Length with tail0.41.62.0-1.21.11.4
Length without tail0.52.74.9-1.51.02.2
Times rat made contact with spout0.00.00.1-0.3-0.20.2
Lifetime Intake2.22.72.9-1.61.71.6
Liver weight, left1.32.23.6-1.61.90.8
Liver weight, right1.52.63.2-1.61.41.8
Locomotor activity1.52.34.0-1.52.00.8
Locomotor testing distance0.51.32.4-1.21.50.4
Locomotor testing rearing2.07.48.9-2.93.02.2
Locomotion in novel chamber0.10.10.20.4-0.3-0.4
Locomotion in novel chamber post-restriction0.61.82.31.2-1.3-1.5
Fecal boli incidents, locomotor time 10.00.00.1-0.10.20.1
Change in fecal boli incidents, locomotor task0.60.61.01.0-0.9-0.4
Time >=10cm from walls, locomotor time 10.00.00.0-0.2-0.10.1
Bouts of movement, locomotor time 11.52.02.81.5-1.7-0.9
Total resting periods, locomotor time 12.32.63.61.8-1.9-1.1
Rest time, locomotor task time 10.10.10.20.4-0.50.0
Distance moved, locomotor task time 10.10.30.6-0.50.8-0.1
Vertical activity count, locomotor time 10.10.31.00.2-0.0-1.0
Time >=10cm from walls, locomotor time 20.10.30.70.5-0.2-0.9
Bouts of movement, locomotor time 21.55.07.22.4-2.7-1.4
Total resting periods, locomotor time 21.14.46.52.2-2.5-1.4
Rest time, locomotor task time 20.00.10.10.1-0.3-0.3
Distance moved, locomotor task time 20.40.61.0-0.81.00.4
Vertical activity count, locomotor time 20.10.10.20.4-0.2-0.4
Light reinforcement 10.00.20.3-0.50.30.5
Light reinforcement 20.00.10.1-0.30.30.3
Bone: marrow area0.00.10.10.0-0.10.4
Bone: maximum diameter2.55.05.7-2.22.12.4
Bone: maximum force0.20.30.4-0.50.50.6
Bone: maximum moment0.20.40.4-0.60.70.6
Mean time between licks in bursts0.10.30.90.3-0.3-0.9
Mean num. licks in bursts1.23.14.71.6-2.2-1.5
Cd content in liver0.10.10.3-0.2-0.20.6
Co content in liver1.51.72.01.3-1.2-1.4
Cu content in liver0.40.40.7-0.50.50.9
Fe content in liver5.06.27.5-2.22.52.7
K content in liver0.10.10.1-0.10.3-0.3
Mg content in liver0.20.30.6-0.40.7-0.1
Mn content in liver0.60.71.0-0.81.0-0.7
Na content in liver0.10.10.3-0.10.50.4
Rb content in liver0.30.40.7-0.60.20.9
Se content in liver2.32.74.7-1.62.20.8
Sr content in liver0.10.10.20.10.3-0.4
Zn content in liver0.70.81.0-0.90.81.0
Bone: minimum diameter0.30.50.9-0.50.61.0
Time in familiar zone, hab. session 10.20.20.2-0.40.50.4
Time in novel zone, hab. session 10.50.60.6-0.70.80.8
Total zone transitions, hab. session 10.30.40.6-0.70.40.8
Total locomotion distance, hab. session 10.40.50.60.8-0.7-0.6
Locomotion velocity, hab. session 11.11.61.81.4-1.3-1.1
Time in familiar zone, hab. session 20.20.30.4-0.40.50.6
Time in novel zone, hab. session 20.00.00.10.1-0.20.2
Total zone transitions, hab. session 20.30.40.7-0.60.80.1
Total locomotion distance, hab. session 20.71.01.21.0-0.8-1.1
Locomotion velocity, hab. session 20.50.71.10.8-0.7-1.0
Novel to familiar place preference ratio1.11.41.9-1.30.71.4
Novelty place preference0.91.21.6-1.20.71.3
Time in novel zone, NPP test1.11.41.8-1.30.81.3
Total zone transitions, NPP test0.10.10.2-0.40.40.3
Total locomotion distance, NPP test0.20.20.3-0.50.40.6
Locomotion velocity, NPP test0.10.20.2-0.40.30.4
Intraocular pressure0.20.30.8-0.2-0.00.9
Delta distance traveled before/after self-admin1.92.12.21.5-1.4-1.5
Delta ambulatory time before/after self-admin0.50.81.30.8-0.7-1.1
Parametrial fat weight0.10.10.2-0.30.5-0.4
Pavlov. Cond. lever latency0.40.50.70.9-0.7-0.4
Pavlov. Cond. magazine entry latency0.20.30.5-0.50.20.7
Pavlov. Cond. change in total contacts0.60.60.70.6-0.8-0.9
Pavlov. Cond. index score0.20.20.4-0.60.50.3
Pavlov. Cond. latency score0.00.00.1-0.30.2-0.0
Pavlov. Cond. lever contacts0.20.30.5-0.70.50.4
Pavlov. Cond. magazine entry number0.10.10.20.3-0.0-0.4
Pavlov. Cond. intertrial magazine entries0.10.10.1-0.30.3-0.4
Pavlov. Cond. lever-magazine prob. diff.0.20.20.4-0.60.50.1
Pavlov. Cond. response bias1.01.31.5-1.20.91.2
Pavlov. Cond. lever latency0.00.00.00.2-0.2-0.1
Pavlov. Cond. magazine entry latency0.60.81.9-0.80.11.4
Pavlov. Cond. change in total contacts0.00.10.20.1-0.50.3
Pavlov. Cond. index score0.10.20.5-0.3-0.10.7
Pavlov. Cond. latency score0.10.10.3-0.1-0.30.5
Pavlov. Cond. lever contacts0.10.20.3-0.50.30.5
Pavlov. Cond. magazine entry number0.30.40.80.00.6-0.9
Pavlov. Cond. intertrial magazine entries0.00.10.20.30.0-0.4
Pavlov. Cond. lever-magazine prob. diff.0.20.30.7-0.50.00.8
Pavlov. Cond. response bias0.10.10.2-0.3-0.00.5
Time in closed arm before self-admin0.71.31.6-1.11.01.3
Time in closed arm after self-admin0.40.40.80.7-0.9-0.1
Time in open arm before self-admin1.21.52.41.1-0.9-1.5
Time in open arm after self-admin0.70.81.80.7-0.3-1.3
Bone: periosteal estimation0.40.91.5-0.80.81.2
Bone: periosteal perimeter0.40.91.5-0.70.71.2
Bone: post-yield work0.40.61.10.9-1.0-0.0
Progressive ratio test 1 active lever presses1.12.03.2-1.51.80.7
Progressive ratio test 1 breakpoint1.01.72.8-1.41.70.6
Progressive ratio test 1 inactive lever presses0.71.92.1-1.21.41.5
Progressive ratio test 2 active lever presses1.72.52.8-1.51.71.6
Progressive ratio test 2 breakpoint2.22.83.1-1.61.71.7
Progressive ratio test 2 inactive lever presses0.10.30.5-0.20.50.7
Incentive Sensitization - Responses0.92.54.1-1.31.32.0
Incentive Sensitization - Breakpoint1.02.33.8-1.21.22.0
Sum of active levers in priming session hrs 5-60.90.81.90.6-0.5-1.4
Progressive ratio0.41.32.01.3-1.4-0.5
Food seeking constrained by brief footshock5.46.77.32.5-2.5-2.7
Seeking ratio, punishment vs. effort0.51.22.30.8-0.8-1.5
Retroperitoneal fat weight0.10.30.7-0.40.40.8
Reaction time number correct1.76.07.3-2.72.71.9
Reaction time mean minus median0.00.10.10.0-0.30.3
Reaction time mean minus median AUC0.10.71.3-0.80.41.1
Reaction time num false alarms3.86.57.0-2.62.42.7
Reaction time num false alarms AUC2.25.15.5-2.32.22.2
Reaction time trials correct on left1.76.07.3-2.72.71.9
Reaction time trials on left1.86.07.3-2.72.71.9
Reaction time mean0.41.01.80.9-1.3-0.5
Reaction time mean AUC0.30.71.40.8-1.2-0.4
Median of all reaction times0.91.32.21.1-1.5-0.7
Reaction time omissions0.10.10.2-0.3-0.00.4
Reaction time false alarm rate0.30.40.7-0.50.40.8
Reaction time premature initiation rate0.50.81.30.6-0.8-1.1
Reaction time premature initiations0.10.30.5-0.70.6-0.1
Std. dev. reaction times0.00.10.30.3-0.5-0.1
Reaction time trials completed1.86.07.3-2.72.71.9
Reaction time trials AUC2.17.48.8-3.03.02.1
Run reversals in cocaine runway, females0.10.10.30.4-0.5-0.0
Run reversals in cocaine runway, males0.40.40.6-0.80.70.5
Latency to leave start box in cocaine runway0.30.51.0-0.60.11.0
Latency to leave start box in cocaine runway, F0.60.71.0-1.00.80.7
Latency to leave start box in cocaine runway, M0.40.30.9-0.0-0.40.9
Std. dev. time between licks in bursts0.00.00.0-0.1-0.0-0.1
Total sessions with >9 infusions2.73.44.6-2.02.11.3
Short access day 1 total inactive lever presses0.40.81.2-0.80.81.1
Short access day 10 total inactive lever presses0.10.91.31.1-1.1-0.5
Short access day 1 total infusions0.91.82.5-1.41.61.0
Short access day 10 total infusions2.23.64.6-2.02.11.5
Short access total infusions1.52.12.8-1.51.71.2
Short access day 1 locomotion1.83.03.8-1.92.01.2
Short access day 10 total locomotion0.00.00.0-0.20.0-0.1
Short access total locomotion0.30.50.8-0.80.9-0.1
One hour access (0.3 mA shock)0.20.20.6-0.20.20.8
Compulsive drug intake0.10.20.2-0.50.50.4
One hour access (shock baseline)0.61.51.8-1.21.11.4
Social response proportion1.51.92.5-1.51.01.6
Social responses1.01.31.4-1.21.01.1
Social time2.33.64.62.0-2.1-1.5
Soleus weight0.51.43.2-0.90.51.8
Bone: stiffness0.91.72.4-1.11.21.5
Tibialis anterior weight3.612.313.3-3.63.33.7
Time to tail flick, vehicle, before self-admin1.51.83.1-1.51.80.3
Time to tail flick, vehicle, after self-admin0.20.51.3-0.30.21.1
Time to tail flick, test, before self-admin1.11.32.80.8-0.7-1.7
Time to tail flick, test, after self-admin0.20.20.30.5-0.4-0.3
Delta time to tail flick, vehicle, before/after SA0.10.20.40.2-0.30.6
Delta time to tail flick, test, before/after SA1.21.52.8-0.91.01.7
Tibia length0.30.70.9-0.90.80.8
Ambulatory time before self-admin0.00.00.1-0.0-0.00.3
Ambulatory time after self-admin0.40.60.60.8-0.7-0.8
Bone: tissue strength0.90.91.20.9-0.9-1.1
Total heroin consumption0.00.00.1-0.0-0.1-0.3
Bone: trabecular number0.00.10.20.0-0.40.0
Bone: trabecular spacing0.00.00.1-0.10.30.1
Bone: trabecular thickness1.31.82.1-1.51.31.3
Bone: trabecular tissue density0.40.70.9-0.80.81.0
Water consumed over 24 hours0.10.20.20.1-0.5-0.5
Number of responses in last shaping day2.43.23.5-1.91.81.7