Hub : Genes

Soat2

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 mRNA stability Soat2 0.08 0.05 1.0e-04 0.03 0.03 0.02 0.04 1.2e-04 1.3e-04 8.7e-04 7.8e-05
2 Liver gene expression Soat2 0.39 0.13 0.0e+00 0.32 0.34 0.33 0.33 2.7e-36 9.6e-39 1.3e-37 1.0e-37

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
Bone: apparent density1.22.32.3-1.5-1.5
Area under the delay curve0.50.70.8-0.9-0.8
BMI with tail2.17.38.1-2.6-2.8
BMI without tail0.73.53.8-2.0-1.8
Body weight0.73.23.5-1.9-1.7
Weight adjusted by age0.30.81.20.61.1
Bone surface3.06.06.4-2.5-2.4
Bone volume2.65.25.2-2.3-2.3
Breakpoint value in progressive ratio session1.22.22.4-1.4-1.5
Number of licking bursts0.00.00.00.10.1
Context. condit. distance diff. score0.20.20.4-0.3-0.6
Locomotion velocity, session 16.26.97.42.52.7
Locomotion distance, session 14.05.25.62.22.4
Locomotion velocity, session 22.83.34.11.62.0
Locomotion distance, session 23.95.56.02.22.5
Locomotion velocity, session 32.83.33.81.71.9
Locomotion distance, session 32.12.42.71.51.6
Stereotopy head waving bouts, day 31.72.12.2-1.4-1.5
Stereotopy head waving duration, day 30.50.60.7-0.8-0.7
Locomotion velocity, session 70.60.60.70.90.7
Locomotion distance, session 72.22.93.71.41.9
Stereotopy head waving bouts, day 71.82.12.6-1.2-1.6
Stereotopy head waving duration, day 72.02.52.8-1.5-1.7
Locomotion velocity, session 80.00.00.10.30.1
Locomotion distance, session 82.43.53.61.81.9
Degree of sensitization distance0.00.00.0-0.2-0.1
Degree of sensitization stereotypy1.21.41.8-1.0-1.3
Conditioned locomotion1.11.31.51.21.1
Cocaine response after cond. corrected0.91.41.61.11.3
Cocaine response after cond. not corrected1.11.61.71.21.3
Cocaine response before conditioning0.10.10.10.30.1
Saline control response0.30.40.70.80.4
Bone: connectivity density0.10.10.1-0.3-0.4
Bone: cortical apparent density0.71.11.21.01.1
Bone: cortical area1.22.02.0-1.4-1.4
Bone: cortical porosity0.30.30.30.50.6
Bone: cortical porosity0.40.50.50.70.7
Bone: cortical thickness0.10.20.3-0.5-0.3
Bone: cortical thickness2.22.73.41.41.8
Bone: cortical tissue density0.81.31.41.11.2
Condit. Reinf. active minus inactive responses0.91.11.31.10.9
Condit. Reinf. active-inactive response ratio0.60.60.70.80.7
Condit. Reinf. active responses2.32.93.21.81.6
Condit. Reinf. inactive responses2.53.23.31.81.8
Incentive salience index mean0.40.50.70.80.6
Condit. Reinf. lever presses0.00.00.00.1-0.1
Condit. Reinf. active minus inactive responses0.40.60.6-0.7-0.8
Condit. Reinf. active-inactive response ratio0.20.40.4-0.6-0.6
Condit. Reinf. active responses0.50.60.8-0.7-0.9
Condit. Reinf. inactive responses0.00.10.10.30.2
Condit. Reinf. lever presses0.30.40.50.70.5
Condit. Reinf. lever reinforcers received0.00.10.1-0.2-0.3
Conditioned reinforcement - actives0.00.00.1-0.20.0
Conditioned reinforcement - inactives0.51.41.51.21.2
Conditioned locomotion0.20.40.5-0.7-0.4
Patch foraging indifference point 0 sec0.72.02.31.51.3
Patch foraging indifference point AUC0.51.11.41.20.9
Delay disc. indifference point, 0s delay0.00.00.0-0.20.1
Delay disc. indifference point, 16s delay0.10.20.3-0.3-0.5
Delay disc. indifference point, 2s delay3.74.14.1-2.0-2.0
Delay disc. indifference point, 24s delay0.20.30.3-0.5-0.5
Delay disc. indifference point, 4s delay1.01.11.2-1.1-1.0
Delay disc. indifference point, 8s delay0.10.20.3-0.5-0.3
Indifference point function ln k1.03.03.6-1.9-1.6
Indifference point function log k1.03.03.6-1.9-1.6
Patch foraging total patch changes 0 sec0.92.83.11.71.6
Patch foraging total patch changes 12 sec3.04.15.02.21.8
Patch foraging total patch changes 18 sec1.94.55.52.31.9
Patch foraging total patch changes 24 sec0.31.01.41.20.7
Patch foraging total patch changes 6 sec0.91.61.61.21.3
Patch foraging time to switch 0 sec0.00.00.0-0.10.2
Patch foraging water rate 0 sec0.00.10.2-0.0-0.4
Patch foraging water rate 12 sec0.00.00.00.10.0
Patch foraging water rate 18 sec0.00.00.00.20.0
Patch foraging water rate 24 sec0.50.70.8-0.7-0.9
Patch foraging water rate 6 sec0.30.50.9-0.3-1.0
Seeking ratio, delayed vs. immediate footshock0.10.10.2-0.00.4
Distance traveled before self-admin0.10.20.3-0.5-0.3
Distance traveled after self-admin0.00.00.1-0.1-0.3
Extensor digitorum longus weight8.031.834.3-5.9-5.4
Bone: elastic displacement1.01.32.10.71.4
Bone: elastic work0.40.51.00.11.0
Bone: endosteal estimation2.66.56.6-2.5-2.6
Bone: endosteal perimeter2.56.26.2-2.5-2.5
Epididymis fat weight0.41.92.01.41.4
Delta time in closed arm before/after self-admin0.50.40.7-0.4-0.9
Delta time in open arm before/after self-admin3.03.63.91.82.0
Diff in mean of infusions in LGA sessions0.00.00.0-0.2-0.2
Delay discount exponential model param0.91.21.31.21.0
Extinction: sum of active levers before priming2.84.24.6-2.1-2.0
Active lever presses in extinction session 60.70.70.9-1.0-0.8
Bone: final force2.74.44.7-2.2-2.0
Bone: final moment3.65.86.2-2.5-2.3
Food consumed during 24 hour testing period0.00.00.00.2-0.0
Glucose0.30.40.70.30.9
Heart weight0.00.00.00.2-0.2
Delay discount hyperbolic model param1.11.41.61.31.1
Intermittent access intake day 1-15 change0.00.00.0-0.2-0.2
Intermittent access intake escalation0.00.00.0-0.1-0.1
Intermittent access intake escalation 20.00.00.00.20.1
Intermitt. access day 1 inactive lever presses0.00.20.4-0.1-0.6
Intermitt. access day 15 inactive lever presses0.00.00.00.10.1
Intermitt. access escalation Index0.51.61.6-1.2-1.3
Intermittent access day 1 total infusions0.10.30.40.60.5
Intermittent access day 15 total infusions0.10.20.20.40.5
Intermittent access terminal intake (last 3 days)0.00.00.10.20.2
Intermittent access total infusions0.00.00.00.10.0
Intermittent access day 1 locomotion0.00.00.0-0.0-0.2
Intermittent access day 15 total locomotion0.00.10.1-0.4-0.2
Intermittent access total locomotion0.10.10.1-0.2-0.3
Intermittent access standard deviation0.21.01.30.91.1
Left kidney weight0.00.00.0-0.10.2
Right kidney weight0.10.60.8-0.9-0.6
Cocaine induced anxiety0.92.42.9-1.7-1.4
Post-drug Anxiety1.51.71.9-1.2-1.4
Baseline Anxiety0.61.11.51.20.8
Tail length0.20.91.30.71.2
Length with tail0.00.20.30.20.6
Length without tail0.10.60.8-0.9-0.7
Times rat made contact with spout0.10.10.1-0.1-0.4
Lifetime Intake0.00.00.00.1-0.1
Liver weight, left5.08.78.9-3.0-2.9
Liver weight, right0.20.30.3-0.6-0.5
Locomotor activity0.00.00.0-0.10.1
Locomotor testing distance0.00.00.10.10.3
Locomotor testing rearing0.00.00.0-0.10.2
Locomotion in novel chamber5.47.27.8-2.8-2.6
Locomotion in novel chamber post-restriction0.20.50.6-0.6-0.8
Fecal boli incidents, locomotor time 11.13.03.41.61.8
Change in fecal boli incidents, locomotor task0.80.91.0-1.0-0.9
Time >=10cm from walls, locomotor time 10.40.50.50.70.7
Bouts of movement, locomotor time 11.31.61.71.31.3
Total resting periods, locomotor time 12.42.82.91.71.7
Rest time, locomotor task time 10.20.30.50.40.7
Distance moved, locomotor task time 10.10.30.5-0.4-0.7
Vertical activity count, locomotor time 10.10.60.8-0.7-0.9
Time >=10cm from walls, locomotor time 20.00.00.10.10.2
Bouts of movement, locomotor time 20.51.81.9-1.3-1.4
Total resting periods, locomotor time 20.41.61.8-1.2-1.4
Rest time, locomotor task time 20.40.60.70.80.7
Distance moved, locomotor task time 20.00.00.0-0.00.0
Vertical activity count, locomotor time 20.30.60.8-0.9-0.6
Light reinforcement 10.52.52.61.61.5
Light reinforcement 21.22.73.01.51.7
Bone: marrow area2.66.36.5-2.5-2.5
Bone: maximum diameter1.12.32.4-1.5-1.5
Bone: maximum force2.65.15.8-2.4-2.1
Bone: maximum moment3.46.47.3-2.7-2.3
Mean time between licks in bursts0.00.20.40.30.6
Mean num. licks in bursts0.00.00.0-0.1-0.2
Cd content in liver0.00.00.00.00.2
Co content in liver0.70.91.2-1.1-0.8
Cu content in liver6.77.99.6-2.5-3.1
Fe content in liver0.30.30.5-0.7-0.4
K content in liver0.90.90.9-0.9-1.0
Mg content in liver0.70.80.8-0.8-0.9
Mn content in liver0.00.00.0-0.10.1
Na content in liver1.82.02.0-1.4-1.4
Rb content in liver1.82.12.1-1.4-1.5
Se content in liver0.30.30.40.50.7
Sr content in liver0.10.10.10.20.3
Zn content in liver0.91.11.51.20.8
Bone: minimum diameter2.14.04.3-1.9-2.1
Time in familiar zone, hab. session 10.10.10.20.20.5
Time in novel zone, hab. session 10.40.40.7-0.5-0.8
Total zone transitions, hab. session 10.81.11.21.10.9
Total locomotion distance, hab. session 13.04.34.82.22.0
Locomotion velocity, hab. session 12.23.13.21.81.7
Time in familiar zone, hab. session 21.51.72.0-1.4-1.2
Time in novel zone, hab. session 20.20.20.30.50.3
Total zone transitions, hab. session 21.51.92.01.41.4
Total locomotion distance, hab. session 23.34.44.72.22.0
Locomotion velocity, hab. session 23.34.44.62.12.0
Novel to familiar place preference ratio0.00.00.00.2-0.2
Novelty place preference0.00.00.00.1-0.2
Time in novel zone, NPP test0.00.10.10.0-0.3
Total zone transitions, NPP test4.97.37.42.72.7
Total locomotion distance, NPP test8.111.411.53.43.4
Locomotion velocity, NPP test8.512.112.33.53.5
Intraocular pressure0.00.10.10.30.2
Delta distance traveled before/after self-admin1.11.21.71.30.8
Delta ambulatory time before/after self-admin0.50.81.31.10.6
Parametrial fat weight0.30.71.01.00.6
Pavlov. Cond. lever latency0.81.01.20.81.1
Pavlov. Cond. magazine entry latency2.22.82.9-1.7-1.6
Pavlov. Cond. change in total contacts2.83.03.6-1.5-1.9
Pavlov. Cond. index score3.44.34.5-2.0-2.1
Pavlov. Cond. latency score3.34.24.6-2.0-2.1
Pavlov. Cond. lever contacts1.11.31.6-1.0-1.3
Pavlov. Cond. magazine entry number1.41.81.91.41.3
Pavlov. Cond. intertrial magazine entries3.44.04.42.11.9
Pavlov. Cond. lever-magazine prob. diff.3.44.34.4-2.0-2.1
Pavlov. Cond. response bias1.01.31.4-1.2-1.1
Pavlov. Cond. lever latency1.62.32.6-1.6-1.4
Pavlov. Cond. magazine entry latency3.34.75.02.12.2
Pavlov. Cond. change in total contacts0.00.00.10.2-0.2
Pavlov. Cond. index score2.54.04.22.02.0
Pavlov. Cond. latency score2.64.14.32.12.0
Pavlov. Cond. lever contacts2.33.43.61.91.8
Pavlov. Cond. magazine entry number1.62.12.2-1.5-1.4
Pavlov. Cond. intertrial magazine entries0.00.00.00.00.2
Pavlov. Cond. lever-magazine prob. diff.2.03.13.31.81.7
Pavlov. Cond. response bias1.62.22.31.51.5
Time in closed arm before self-admin0.00.00.0-0.10.0
Time in closed arm after self-admin1.11.21.7-0.9-1.3
Time in open arm before self-admin2.02.52.6-1.6-1.5
Time in open arm after self-admin0.50.50.80.60.9
Bone: periosteal estimation3.37.77.8-2.8-2.8
Bone: periosteal perimeter3.26.26.4-2.5-2.5
Bone: post-yield work1.52.62.9-1.7-1.5
Progressive ratio test 1 active lever presses0.61.01.01.01.0
Progressive ratio test 1 breakpoint0.61.01.11.01.0
Progressive ratio test 1 inactive lever presses0.00.10.10.40.2
Progressive ratio test 2 active lever presses0.30.50.6-0.5-0.8
Progressive ratio test 2 breakpoint0.40.50.8-0.6-0.9
Progressive ratio test 2 inactive lever presses0.10.20.3-0.5-0.5
Incentive Sensitization - Responses0.61.72.0-1.2-1.4
Incentive Sensitization - Breakpoint0.92.02.4-1.3-1.5
Sum of active levers in priming session hrs 5-60.00.00.00.00.0
Progressive ratio0.00.00.0-0.2-0.2
Food seeking constrained by brief footshock0.40.50.91.00.2
Seeking ratio, punishment vs. effort0.10.20.40.60.3
Retroperitoneal fat weight1.35.96.32.52.4
Reaction time number correct0.10.40.7-0.8-0.4
Reaction time mean minus median0.10.40.40.60.6
Reaction time mean minus median AUC0.00.10.10.30.3
Reaction time num false alarms3.45.86.52.62.3
Reaction time num false alarms AUC2.65.96.42.52.3
Reaction time trials correct on left0.10.40.7-0.8-0.4
Reaction time trials on left0.10.30.5-0.7-0.3
Reaction time mean0.00.00.10.2-0.2
Reaction time mean AUC0.00.10.2-0.1-0.4
Median of all reaction times0.10.10.20.0-0.5
Reaction time omissions2.84.65.32.32.0
Reaction time false alarm rate3.24.45.52.31.8
Reaction time premature initiation rate0.40.60.80.90.6
Reaction time premature initiations0.00.10.10.30.3
Std. dev. reaction times0.10.30.40.60.4
Reaction time trials completed0.10.30.5-0.7-0.3
Reaction time trials AUC0.10.40.7-0.8-0.4
Run reversals in cocaine runway, females0.00.00.00.10.1
Run reversals in cocaine runway, males0.00.00.0-0.10.2
Latency to leave start box in cocaine runway0.10.10.2-0.0-0.5
Latency to leave start box in cocaine runway, F0.10.10.30.50.2
Latency to leave start box in cocaine runway, M1.01.01.3-0.8-1.1
Std. dev. time between licks in bursts0.30.60.80.70.9
Total sessions with >9 infusions0.10.10.10.4-0.0
Short access day 1 total inactive lever presses0.00.00.0-0.1-0.1
Short access day 10 total inactive lever presses0.00.10.3-0.1-0.5
Short access day 1 total infusions0.00.10.10.3-0.2
Short access day 10 total infusions0.10.20.30.60.3
Short access total infusions0.00.00.10.2-0.2
Short access day 1 locomotion0.00.10.1-0.1-0.3
Short access day 10 total locomotion0.00.00.00.2-0.0
Short access total locomotion0.00.00.10.30.1
One hour access (0.3 mA shock)2.93.43.5-1.8-1.9
Compulsive drug intake0.91.31.9-0.9-1.4
One hour access (shock baseline)0.61.51.7-1.3-1.1
Social response proportion1.41.71.91.31.4
Social responses1.92.52.91.51.7
Social time1.01.61.91.11.4
Soleus weight0.61.82.3-1.5-1.1
Bone: stiffness3.76.87.3-2.5-2.7
Tibialis anterior weight6.020.720.7-4.6-4.5
Time to tail flick, vehicle, before self-admin0.00.00.0-0.1-0.1
Time to tail flick, vehicle, after self-admin0.10.20.3-0.4-0.5
Time to tail flick, test, before self-admin0.91.01.20.91.1
Time to tail flick, test, after self-admin0.50.60.6-0.7-0.8
Delta time to tail flick, vehicle, before/after SA0.20.20.3-0.5-0.5
Delta time to tail flick, test, before/after SA0.50.70.9-0.7-0.9
Tibia length0.51.31.5-1.1-1.2
Ambulatory time before self-admin0.00.10.1-0.3-0.1
Ambulatory time after self-admin0.10.10.2-0.1-0.4
Bone: tissue strength2.42.52.6-1.6-1.6
Total heroin consumption2.52.93.1-1.8-1.7
Bone: trabecular number0.10.20.2-0.4-0.5
Bone: trabecular spacing0.10.10.2-0.1-0.5
Bone: trabecular thickness0.00.10.10.20.3
Bone: trabecular tissue density0.10.10.20.40.2
Water consumed over 24 hours0.00.10.1-0.4-0.2
Number of responses in last shaping day2.43.14.01.52.0