Scarf1

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 OFC intron excision ratio chr10_60859670_60862282 0.13 0.1 8.3e-03 0.05 0.12 0.07 0.08 2.8e-02 8.9e-04 7.8e-03 7.4e-03
2 Adipose intron excision ratio chr10_60859670_60863266 0.03 0.03 9.4e-03 0 -0 -0 -0 2.8e-01 7.1e-01 9.2e-01 7.2e-01
3 Liver gene expression Scarf1 0.03 0.03 4.9e-03 0 0.01 0.01 0.01 1.2e-01 7.3e-03 4.9e-02 5.1e-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 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 density1.22.35.32.30.5-1.2
Area under the delay curve0.71.01.6-1.3-1.20.3
BMI with tail0.41.22.81.70.7-0.6
BMI without tail0.42.45.80.2-1.1-2.4
Body weight1.98.116.4-0.6-2.8-4.0
Weight adjusted by age0.20.60.91.00.90.3
Bone surface1.22.46.02.50.9-0.7
Bone volume1.22.35.92.40.8-0.7
Breakpoint value in progressive ratio session0.50.81.90.2-0.8-1.4
Number of licking bursts0.30.81.5-0.9-1.20.3
Context. condit. distance diff. score0.60.71.01.00.7-0.7
Locomotion velocity, session 11.11.22.61.0-0.3-1.6
Locomotion distance, session 10.20.30.90.9-0.0-0.0
Locomotion velocity, session 20.30.30.70.90.0-0.4
Locomotion distance, session 20.60.82.41.50.3-0.2
Locomotion velocity, session 33.33.86.5-2.5-2.20.2
Locomotion distance, session 30.10.10.30.2-0.30.5
Stereotopy head waving bouts, day 30.50.60.8-0.6-0.9-0.7
Stereotopy head waving duration, day 30.10.20.2-0.4-0.50.4
Locomotion velocity, session 70.80.91.71.31.00.2
Locomotion distance, session 71.11.42.71.61.30.0
Stereotopy head waving bouts, day 70.40.50.70.4-0.7-0.8
Stereotopy head waving duration, day 70.40.40.70.8-0.6-0.6
Locomotion velocity, session 80.40.50.90.90.80.2
Locomotion distance, session 80.71.01.61.20.0-1.2
Degree of sensitization distance0.50.60.80.70.7-0.9
Degree of sensitization stereotypy0.40.50.80.6-0.6-0.9
Conditioned locomotion0.30.30.6-0.00.60.8
Cocaine response after cond. corrected0.10.20.5-0.2-0.2-0.7
Cocaine response after cond. not corrected0.20.30.80.0-0.3-0.9
Cocaine response before conditioning0.30.30.70.8-0.0-0.5
Saline control response0.20.20.60.8-0.10.3
Bone: connectivity density2.13.48.22.91.0-1.0
Bone: cortical apparent density0.40.71.50.30.71.2
Bone: cortical area0.71.12.6-1.6-0.80.3
Bone: cortical porosity0.10.10.20.1-0.0-0.4
Bone: cortical porosity0.10.10.1-0.3-0.2-0.3
Bone: cortical thickness3.25.411.0-3.3-2.30.1
Bone: cortical thickness1.51.82.9-1.7-1.4-0.8
Bone: cortical tissue density0.40.61.20.30.71.1
Condit. Reinf. active minus inactive responses0.60.60.9-0.9-0.9-0.5
Condit. Reinf. active-inactive response ratio3.84.05.7-2.4-2.3-1.1
Condit. Reinf. active responses0.10.20.30.50.5-0.1
Condit. Reinf. inactive responses4.96.49.22.83.01.4
Incentive salience index mean0.60.71.0-0.8-1.0-0.8
Condit. Reinf. lever presses0.60.92.1-0.2-0.7-1.5
Condit. Reinf. active minus inactive responses0.10.20.50.70.4-0.1
Condit. Reinf. active-inactive response ratio0.10.20.3-0.5-0.4-0.5
Condit. Reinf. active responses0.60.91.81.40.80.5
Condit. Reinf. inactive responses2.23.35.32.31.61.4
Condit. Reinf. lever presses0.71.02.10.40.91.4
Condit. Reinf. lever reinforcers received0.70.91.81.30.80.6
Conditioned reinforcement - actives0.52.13.31.81.70.3
Conditioned reinforcement - inactives0.10.20.50.70.40.0
Conditioned locomotion0.20.30.7-0.10.30.8
Patch foraging indifference point 0 sec0.10.20.40.70.50.1
Patch foraging indifference point AUC0.20.61.10.40.71.1
Delay disc. indifference point, 0s delay0.10.10.40.1-0.6-0.2
Delay disc. indifference point, 16s delay0.60.81.3-1.1-1.00.5
Delay disc. indifference point, 2s delay0.70.81.3-1.0-1.20.2
Delay disc. indifference point, 24s delay0.10.10.2-0.4-0.20.3
Delay disc. indifference point, 4s delay1.11.11.7-1.3-1.3-0.3
Delay disc. indifference point, 8s delay0.40.61.1-1.0-0.90.1
Indifference point function ln k0.10.40.60.80.4-0.5
Indifference point function log k0.10.40.60.80.4-0.5
Patch foraging total patch changes 0 sec0.10.40.70.80.60.2
Patch foraging total patch changes 12 sec0.20.30.5-0.7-0.6-0.0
Patch foraging total patch changes 18 sec0.51.11.9-1.2-1.4-0.3
Patch foraging total patch changes 24 sec0.10.30.4-0.6-0.70.4
Patch foraging total patch changes 6 sec0.30.61.10.40.71.1
Patch foraging time to switch 0 sec0.83.04.1-2.0-1.8-1.3
Patch foraging water rate 0 sec0.41.61.61.31.21.3
Patch foraging water rate 12 sec0.00.10.2-0.0-0.4-0.2
Patch foraging water rate 18 sec0.71.53.71.90.9-0.0
Patch foraging water rate 24 sec0.30.40.60.80.50.6
Patch foraging water rate 6 sec0.20.30.90.10.30.9
Seeking ratio, delayed vs. immediate footshock0.40.61.6-0.5-0.21.3
Distance traveled before self-admin0.81.82.9-1.7-1.01.2
Distance traveled after self-admin0.10.20.5-0.7-0.40.2
Extensor digitorum longus weight2.811.224.75.03.00.1
Bone: elastic displacement0.30.30.9-0.10.21.0
Bone: elastic work2.43.16.1-2.5-1.70.4
Bone: endosteal estimation0.10.30.60.80.60.2
Bone: endosteal perimeter1.12.83.81.92.00.9
Epididymis fat weight1.57.511.93.20.1-3.5
Delta time in closed arm before/after self-admin0.60.61.7-0.00.31.3
Delta time in open arm before/after self-admin0.40.41.00.4-0.3-1.0
Diff in mean of infusions in LGA sessions0.30.61.40.60.1-1.2
Delay discount exponential model param0.70.91.41.21.1-0.2
Extinction: sum of active levers before priming1.21.83.51.91.40.1
Active lever presses in extinction session 61.11.12.31.50.9-0.3
Bone: final force1.93.04.2-1.9-2.0-1.2
Bone: final moment1.32.22.9-1.6-1.7-0.9
Food consumed during 24 hour testing period0.10.20.30.50.5-0.3
Glucose1.42.24.2-2.0-1.11.1
Heart weight0.81.32.70.4-1.0-1.6
Delay discount hyperbolic model param0.91.21.91.41.3-0.2
Intermittent access intake day 1-15 change0.31.62.30.61.41.5
Intermittent access intake escalation0.31.82.60.71.51.6
Intermittent access intake escalation 21.01.62.70.51.41.6
Intermitt. access day 1 inactive lever presses0.11.53.3-0.31.11.8
Intermitt. access day 15 inactive lever presses0.42.04.80.01.12.2
Intermitt. access escalation Index0.62.03.5-0.8-1.3-1.9
Intermittent access day 1 total infusions0.00.00.1-0.1-0.20.1
Intermittent access day 15 total infusions0.51.21.51.01.21.1
Intermittent access terminal intake (last 3 days)0.61.11.61.21.20.5
Intermittent access total infusions0.50.50.70.60.90.7
Intermittent access day 1 locomotion0.30.50.7-0.8-0.9-0.1
Intermittent access day 15 total locomotion0.00.20.5-0.10.20.7
Intermittent access total locomotion0.10.10.30.10.30.5
Intermittent access standard deviation0.94.97.01.62.72.2
Left kidney weight1.512.017.1-4.0-4.1-1.7
Right kidney weight1.812.718.3-3.8-4.3-2.3
Cocaine induced anxiety0.10.10.40.20.10.6
Post-drug Anxiety0.30.40.90.1-0.6-0.9
Baseline Anxiety0.40.71.90.3-0.2-1.4
Tail length2.010.715.8-1.9-3.6-4.0
Length with tail3.214.318.3-2.5-4.3-4.3
Length without tail0.73.65.3-0.9-2.2-2.3
Times rat made contact with spout1.92.13.0-1.7-1.7-0.8
Lifetime Intake0.40.60.80.60.90.7
Liver weight, left4.78.117.3-0.9-2.5-4.2
Liver weight, right3.25.512.2-0.4-2.0-3.5
Locomotor activity0.00.00.00.1-0.1-0.2
Locomotor testing distance0.00.00.00.1-0.2-0.1
Locomotor testing rearing0.10.51.01.00.50.6
Locomotion in novel chamber3.14.27.90.62.12.8
Locomotion in novel chamber post-restriction0.31.01.61.01.30.7
Fecal boli incidents, locomotor time 10.10.20.4-0.2-0.6-0.3
Change in fecal boli incidents, locomotor task0.20.20.6-0.8-0.2-0.3
Time >=10cm from walls, locomotor time 10.40.40.90.70.90.1
Bouts of movement, locomotor time 10.10.10.30.30.5-0.0
Total resting periods, locomotor time 10.40.41.00.61.00.2
Rest time, locomotor task time 10.30.50.80.20.90.9
Distance moved, locomotor task time 10.00.00.10.30.0-0.0
Vertical activity count, locomotor time 10.00.30.70.80.3-0.2
Time >=10cm from walls, locomotor time 20.10.20.6-0.7-0.20.1
Bouts of movement, locomotor time 20.00.00.1-0.3-0.1-0.1
Total resting periods, locomotor time 20.00.00.00.00.1-0.1
Rest time, locomotor task time 20.30.51.10.71.10.3
Distance moved, locomotor task time 20.20.20.60.0-0.20.8
Vertical activity count, locomotor time 20.20.50.9-0.7-0.90.0
Light reinforcement 10.00.10.2-0.1-0.4-0.1
Light reinforcement 21.22.74.9-2.2-1.7-0.3
Bone: marrow area0.10.30.60.80.60.2
Bone: maximum diameter0.51.01.60.71.30.9
Bone: maximum force1.42.73.7-1.9-1.9-0.9
Bone: maximum moment1.01.82.6-1.6-1.6-0.6
Mean time between licks in bursts0.21.31.9-0.6-1.4-1.2
Mean num. licks in bursts0.10.30.8-0.40.1-0.9
Cd content in liver1.61.82.31.51.51.0
Co content in liver0.00.00.1-0.20.10.1
Cu content in liver0.30.30.8-0.9-0.40.3
Fe content in liver0.70.91.4-0.6-1.0-1.2
K content in liver2.01.92.5-1.2-1.6-1.3
Mg content in liver0.10.10.20.40.40.2
Mn content in liver1.01.11.61.21.30.6
Na content in liver1.92.14.1-2.0-1.5-0.2
Rb content in liver2.53.05.52.41.80.2
Se content in liver0.20.30.6-0.8-0.40.1
Sr content in liver2.01.72.61.51.60.4
Zn content in liver0.20.20.60.00.1-0.8
Bone: minimum diameter0.71.32.3-1.5-1.2-0.4
Time in familiar zone, hab. session 12.93.24.81.82.21.2
Time in novel zone, hab. session 12.62.94.7-1.7-2.2-1.0
Total zone transitions, hab. session 11.11.63.31.80.70.9
Total locomotion distance, hab. session 10.20.30.80.9-0.20.2
Locomotion velocity, hab. session 10.30.41.21.10.20.4
Time in familiar zone, hab. session 20.80.92.41.60.50.3
Time in novel zone, hab. session 22.22.45.9-2.4-1.1-0.4
Total zone transitions, hab. session 20.20.30.70.8-0.4-0.3
Total locomotion distance, hab. session 20.30.40.9-0.0-1.0-0.4
Locomotion velocity, hab. session 20.20.30.8-0.0-0.9-0.3
Novel to familiar place preference ratio0.70.91.60.41.30.9
Novelty place preference0.30.40.80.20.90.4
Time in novel zone, NPP test0.20.30.60.40.80.2
Total zone transitions, NPP test0.40.61.71.3-0.00.4
Total locomotion distance, NPP test0.30.40.60.7-0.10.8
Locomotion velocity, NPP test0.40.61.40.60.31.2
Intraocular pressure1.82.93.91.21.82.0
Delta distance traveled before/after self-admin0.80.91.21.10.6-1.1
Delta ambulatory time before/after self-admin0.50.91.41.20.8-0.9
Parametrial fat weight2.35.510.52.40.2-3.2
Pavlov. Cond. lever latency0.70.91.01.00.90.9
Pavlov. Cond. magazine entry latency0.40.51.2-0.3-0.2-1.1
Pavlov. Cond. change in total contacts0.40.41.0-1.0-0.6-0.0
Pavlov. Cond. index score0.60.81.7-0.6-0.6-1.3
Pavlov. Cond. latency score1.11.42.5-0.9-0.9-1.6
Pavlov. Cond. lever contacts0.60.70.8-0.9-0.7-0.9
Pavlov. Cond. magazine entry number0.10.10.2-0.0-0.30.5
Pavlov. Cond. intertrial magazine entries0.70.81.20.90.71.1
Pavlov. Cond. lever-magazine prob. diff.0.40.51.2-0.4-0.4-1.1
Pavlov. Cond. response bias0.20.30.8-0.2-0.1-0.9
Pavlov. Cond. lever latency0.50.71.11.00.4-0.9
Pavlov. Cond. magazine entry latency1.72.43.7-1.8-1.9-0.4
Pavlov. Cond. change in total contacts0.40.91.6-1.3-1.00.3
Pavlov. Cond. index score0.81.22.0-1.4-0.90.8
Pavlov. Cond. latency score0.81.32.1-1.4-0.91.0
Pavlov. Cond. lever contacts0.40.61.2-1.1-0.70.3
Pavlov. Cond. magazine entry number1.62.13.11.81.80.2
Pavlov. Cond. intertrial magazine entries0.91.93.82.01.30.0
Pavlov. Cond. lever-magazine prob. diff.0.71.11.8-1.3-0.90.8
Pavlov. Cond. response bias0.91.22.3-1.5-1.10.2
Time in closed arm before self-admin0.61.02.60.4-0.5-1.6
Time in closed arm after self-admin0.20.20.5-0.7-0.40.1
Time in open arm before self-admin1.01.22.1-1.4-0.31.2
Time in open arm after self-admin0.20.20.6-0.30.20.7
Bone: periosteal estimation0.10.30.6-0.7-0.60.0
Bone: periosteal perimeter0.10.20.30.10.50.6
Bone: post-yield work0.20.41.00.1-0.3-1.0
Progressive ratio test 1 active lever presses0.10.10.40.10.10.6
Progressive ratio test 1 breakpoint0.10.20.50.20.20.7
Progressive ratio test 1 inactive lever presses0.30.82.1-0.50.41.4
Progressive ratio test 2 active lever presses1.31.92.61.31.61.1
Progressive ratio test 2 breakpoint1.51.92.61.41.61.1
Progressive ratio test 2 inactive lever presses0.41.42.10.71.31.4
Incentive Sensitization - Responses0.82.13.01.61.70.9
Incentive Sensitization - Breakpoint0.81.92.81.51.70.8
Sum of active levers in priming session hrs 5-61.00.92.30.7-0.1-1.5
Progressive ratio0.20.51.00.40.71.0
Food seeking constrained by brief footshock0.00.00.1-0.0-0.10.3
Seeking ratio, punishment vs. effort0.51.11.6-1.2-1.3-0.6
Retroperitoneal fat weight0.10.40.60.2-0.6-0.8
Reaction time number correct0.00.10.20.1-0.5-0.3
Reaction time mean minus median0.10.91.50.61.21.0
Reaction time mean minus median AUC0.32.12.81.71.61.0
Reaction time num false alarms1.11.82.61.11.21.6
Reaction time num false alarms AUC0.81.72.51.11.21.6
Reaction time trials correct on left0.00.10.20.1-0.5-0.3
Reaction time trials on left0.00.10.20.1-0.4-0.3
Reaction time mean0.00.10.20.00.50.3
Reaction time mean AUC0.20.40.60.10.80.7
Median of all reaction times0.00.00.1-0.30.00.1
Reaction time omissions0.00.10.10.30.3-0.0
Reaction time false alarm rate1.21.62.11.01.31.4
Reaction time premature initiation rate0.40.61.11.10.80.1
Reaction time premature initiations0.20.61.31.10.70.1
Std. dev. reaction times0.31.12.00.71.40.9
Reaction time trials completed0.00.10.20.1-0.4-0.3
Reaction time trials AUC0.00.10.10.1-0.4-0.2
Run reversals in cocaine runway, females0.80.91.50.70.91.2
Run reversals in cocaine runway, males1.11.31.51.21.20.9
Latency to leave start box in cocaine runway0.10.20.3-0.5-0.5-0.2
Latency to leave start box in cocaine runway, F0.50.60.7-0.7-0.9-0.8
Latency to leave start box in cocaine runway, M0.10.10.10.00.10.4
Std. dev. time between licks in bursts0.10.10.30.60.30.1
Total sessions with >9 infusions0.60.71.00.71.00.9
Short access day 1 total inactive lever presses0.00.10.10.30.3-0.1
Short access day 10 total inactive lever presses0.00.30.5-0.50.30.7
Short access day 1 total infusions0.61.21.90.31.31.4
Short access day 10 total infusions0.50.81.20.50.91.1
Short access total infusions0.50.71.40.20.91.2
Short access day 1 locomotion0.40.61.6-0.60.21.2
Short access day 10 total locomotion0.10.51.2-0.30.41.1
Short access total locomotion0.71.02.6-0.50.41.6
One hour access (0.3 mA shock)1.21.41.91.41.40.6
Compulsive drug intake0.50.71.8-0.1-0.6-1.3
One hour access (shock baseline)0.20.50.70.50.80.9
Social response proportion1.51.94.8-0.1-0.9-2.2
Social responses0.70.92.20.5-0.4-1.5
Social time0.61.01.81.10.2-1.3
Soleus weight1.44.19.11.3-1.2-3.0
Bone: stiffness0.81.53.1-0.2-1.2-1.8
Tibialis anterior weight3.813.229.45.43.0-1.0
Time to tail flick, vehicle, before self-admin2.22.85.72.41.3-0.9
Time to tail flick, vehicle, after self-admin0.10.10.30.60.2-0.2
Time to tail flick, test, before self-admin0.30.30.80.4-0.1-0.9
Time to tail flick, test, after self-admin0.20.20.3-0.6-0.4-0.4
Delta time to tail flick, vehicle, before/after SA0.40.40.9-0.5-0.10.9
Delta time to tail flick, test, before/after SA0.40.40.90.10.70.9
Tibia length1.64.55.0-2.0-2.2-2.2
Ambulatory time before self-admin1.03.15.7-2.4-1.80.6
Ambulatory time after self-admin0.71.21.4-1.2-1.2-0.8
Bone: tissue strength1.21.32.9-1.7-1.00.0
Total heroin consumption1.41.62.71.40.3-1.7
Bone: trabecular number1.32.56.02.50.6-1.0
Bone: trabecular spacing0.20.30.4-0.60.20.6
Bone: trabecular thickness0.10.20.30.6-0.1-0.4
Bone: trabecular tissue density0.61.12.2-1.5-0.60.7
Water consumed over 24 hours1.01.92.6-1.4-1.6-1.1
Number of responses in last shaping day0.60.82.1-0.40.41.4