Lrrc3c

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 IC gene expression Lrrc3c 0.07 0.06 3.2e-03 0.03 0.04 0.01 0.02 1.9e-02 9.3e-03 7.8e-02 6.2e-02
2 PL gene expression Lrrc3c 0.04 0.03 9.6e-05 0.04 0.04 0.02 0.04 3.8e-05 7.1e-05 2.0e-03 8.6e-05
3 pVTA gene expression Lrrc3c 0.07 0.06 5.2e-04 0.03 0.03 0.03 0.03 3.1e-03 1.5e-03 1.1e-03 2.6e-03
4 NAcc gene expression Lrrc3c 0.02 0.02 7.6e-03 0.01 0.01 0.01 0.01 5.7e-03 9.3e-03 1.3e-02 4.4e-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 4
Bone: apparent density1.93.34.1-1.9-2.0-1.6-1.8
Area under the delay curve0.30.30.6-0.7-0.4-0.6-0.4
BMI with tail2.27.510.73.32.83.21.1
BMI without tail1.54.69.52.31.83.10.5
Body weight5.925.635.45.95.35.72.6
Weight adjusted by age0.10.20.30.50.5-0.4-0.4
Bone surface0.10.20.60.0-0.3-0.2-0.8
Bone volume0.40.71.9-0.3-0.7-0.7-1.4
Breakpoint value in progressive ratio session0.30.31.10.30.31.0-0.2
Number of licking bursts0.30.51.4-0.3-0.3-0.7-1.2
Context. condit. distance diff. score1.62.04.01.11.40.92.0
Locomotion velocity, session 10.30.30.80.90.60.50.2
Locomotion distance, session 12.12.74.32.01.52.10.5
Locomotion velocity, session 20.20.30.70.50.30.80.4
Locomotion distance, session 20.40.61.40.60.21.2-0.7
Locomotion velocity, session 30.10.10.2-0.1-0.10.50.3
Locomotion distance, session 30.30.40.70.50.70.80.3
Stereotopy head waving bouts, day 32.02.33.4-1.9-1.8-1.3-0.9
Stereotopy head waving duration, day 30.20.20.4-0.5-0.7-0.2-0.2
Locomotion velocity, session 70.80.91.41.21.00.90.4
Locomotion distance, session 70.30.40.50.70.70.70.4
Stereotopy head waving bouts, day 70.50.50.7-0.8-0.8-0.6-0.7
Stereotopy head waving duration, day 70.10.20.2-0.5-0.4-0.0-0.4
Locomotion velocity, session 86.98.39.83.13.12.62.6
Locomotion distance, session 81.42.02.71.51.41.70.9
Degree of sensitization distance0.80.81.01.00.80.81.0
Degree of sensitization stereotypy0.60.60.7-0.8-0.7-0.8-0.8
Conditioned locomotion0.10.10.3-0.6-0.4-0.30.1
Cocaine response after cond. corrected0.80.92.1-0.7-0.7-0.8-1.4
Cocaine response after cond. not corrected1.11.32.6-0.8-0.6-1.2-1.6
Cocaine response before conditioning0.10.10.3-0.3-0.0-0.60.0
Saline control response0.30.40.80.90.80.30.2
Bone: connectivity density2.64.15.5-2.3-2.3-1.5-1.8
Bone: cortical apparent density4.46.09.6-3.1-2.6-2.6-0.9
Bone: cortical area0.30.51.6-0.3-0.4-1.3-0.0
Bone: cortical porosity0.60.71.2-0.5-0.6-1.0-1.1
Bone: cortical porosity0.40.40.8-0.1-0.3-0.8-0.9
Bone: cortical thickness1.11.73.5-1.5-1.2-1.9-0.2
Bone: cortical thickness4.35.06.7-2.6-2.4-2.4-1.3
Bone: cortical tissue density4.56.19.6-3.1-2.6-2.6-0.9
Condit. Reinf. active minus inactive responses0.70.81.7-1.3-1.0-0.6-0.4
Condit. Reinf. active-inactive response ratio0.80.92.1-1.4-0.9-0.70.0
Condit. Reinf. active responses0.81.01.7-1.3-1.1-1.0-0.5
Condit. Reinf. inactive responses0.30.30.6-0.3-0.4-0.8-0.6
Incentive salience index mean1.82.23.2-1.8-1.6-1.5-0.9
Condit. Reinf. lever presses1.62.23.2-1.4-1.5-1.8-1.1
Condit. Reinf. active minus inactive responses1.41.82.1-1.2-1.3-1.5-1.4
Condit. Reinf. active-inactive response ratio1.31.42.3-1.0-1.3-0.9-1.5
Condit. Reinf. active responses2.02.83.9-1.4-1.6-1.7-2.0
Condit. Reinf. inactive responses1.62.12.6-1.4-1.3-1.4-1.6
Condit. Reinf. lever presses0.00.10.1-0.4-0.20.0-0.3
Condit. Reinf. lever reinforcers received2.02.83.3-1.6-1.6-1.6-1.8
Conditioned reinforcement - actives0.50.83.2-0.4-0.1-1.8-0.2
Conditioned reinforcement - inactives0.10.20.4-0.5-0.6-0.2-0.2
Conditioned locomotion0.91.22.3-0.9-0.7-1.5-1.1
Patch foraging indifference point 0 sec1.12.13.5-1.9-1.6-1.3-0.6
Patch foraging indifference point AUC0.00.00.00.10.20.20.2
Delay disc. indifference point, 0s delay1.51.72.3-1.5-1.5-0.8-1.2
Delay disc. indifference point, 16s delay0.30.30.5-0.7-0.5-0.40.7
Delay disc. indifference point, 2s delay1.51.72.7-1.1-1.1-1.3-1.7
Delay disc. indifference point, 24s delay0.20.20.40.20.60.20.6
Delay disc. indifference point, 4s delay1.21.31.5-1.1-0.9-1.2-1.2
Delay disc. indifference point, 8s delay0.00.00.1-0.4-0.0-0.2-0.1
Indifference point function ln k0.10.10.5-0.00.20.10.7
Indifference point function log k0.10.10.5-0.00.20.10.7
Patch foraging total patch changes 0 sec0.71.32.3-1.5-1.3-1.0-0.3
Patch foraging total patch changes 12 sec4.35.56.5-2.6-2.5-2.1-2.2
Patch foraging total patch changes 18 sec0.20.30.5-0.7-0.6-0.7-0.2
Patch foraging total patch changes 24 sec0.50.91.5-1.2-0.9-1.0-0.5
Patch foraging total patch changes 6 sec1.32.03.1-1.6-1.7-1.2-0.8
Patch foraging time to switch 0 sec0.00.10.2-0.2-0.4-0.1-0.3
Patch foraging water rate 0 sec0.00.10.2-0.4-0.30.1-0.3
Patch foraging water rate 12 sec0.10.10.20.20.3-0.30.4
Patch foraging water rate 18 sec0.50.71.4-0.8-0.7-0.6-1.2
Patch foraging water rate 24 sec0.60.81.6-0.9-1.2-0.6-0.8
Patch foraging water rate 6 sec1.21.82.7-1.6-1.3-0.7-1.5
Seeking ratio, delayed vs. immediate footshock0.30.31.2-0.3-0.2-0.01.1
Distance traveled before self-admin0.30.30.9-0.1-0.5-0.5-0.9
Distance traveled after self-admin0.30.40.70.90.50.8-0.0
Extensor digitorum longus weight8.132.139.86.36.34.65.3
Bone: elastic displacement0.00.00.1-0.00.00.30.1
Bone: elastic work0.10.10.3-0.2-0.4-0.3-0.6
Bone: endosteal estimation1.53.36.22.51.91.80.6
Bone: endosteal perimeter0.81.83.61.91.41.10.5
Epididymis fat weight0.10.40.70.80.60.4-0.5
Delta time in closed arm before/after self-admin5.45.07.82.22.22.81.6
Delta time in open arm before/after self-admin0.10.10.20.00.2-0.40.1
Diff in mean of infusions in LGA sessions0.00.10.20.00.00.1-0.4
Delay discount exponential model param0.10.10.30.60.30.40.2
Extinction: sum of active levers before priming1.61.72.41.41.51.21.0
Active lever presses in extinction session 61.31.34.7-0.2-0.60.3-2.2
Bone: final force0.71.21.7-0.7-0.9-1.3-1.3
Bone: final moment0.60.91.4-0.5-0.8-1.2-1.1
Food consumed during 24 hour testing period0.50.71.21.10.80.80.5
Glucose0.10.10.30.1-0.10.3-0.6
Heart weight2.74.15.92.42.12.01.6
Delay discount hyperbolic model param0.20.20.30.50.30.40.4
Intermittent access intake day 1-15 change0.10.20.8-0.20.00.9-0.4
Intermittent access intake escalation0.10.20.6-0.20.00.8-0.4
Intermittent access intake escalation 20.50.61.80.50.71.30.0
Intermitt. access day 1 inactive lever presses0.41.62.5-1.5-1.60.4-1.2
Intermitt. access day 15 inactive lever presses0.71.42.8-1.7-1.6-0.1-0.6
Intermitt. access escalation Index1.31.83.11.61.80.11.2
Intermittent access day 1 total infusions0.20.41.3-0.1-0.4-1.1-0.1
Intermittent access day 15 total infusions0.00.00.0-0.0-0.1-0.10.0
Intermittent access terminal intake (last 3 days)0.10.10.2-0.4-0.4-0.2-0.2
Intermittent access total infusions0.00.10.2-0.1-0.2-0.40.1
Intermittent access day 1 locomotion0.20.30.8-0.2-0.4-0.9-0.1
Intermittent access day 15 total locomotion0.30.51.0-0.6-0.7-0.6-1.0
Intermittent access total locomotion0.91.01.2-1.1-1.1-1.0-0.9
Intermittent access standard deviation0.61.32.2-1.5-1.50.2-1.0
Left kidney weight0.42.02.51.61.21.61.3
Right kidney weight0.00.20.30.4-0.10.6-0.5
Cocaine induced anxiety3.14.47.62.11.92.81.3
Post-drug Anxiety1.31.42.31.01.01.51.0
Baseline Anxiety2.73.17.2-1.6-1.4-2.7-0.8
Tail length0.62.44.21.41.42.01.3
Length with tail2.39.913.23.53.23.61.9
Length without tail2.37.511.03.33.12.61.6
Times rat made contact with spout0.91.01.4-0.9-1.2-0.6-1.2
Lifetime Intake0.10.10.3-0.3-0.4-0.5-0.1
Liver weight, left0.20.30.50.70.60.50.1
Liver weight, right0.20.30.6-0.7-0.80.4-0.1
Locomotor activity0.71.12.4-0.7-0.7-1.0-1.6
Locomotor testing distance1.83.33.9-1.9-1.7-2.0-1.7
Locomotor testing rearing3.67.210.8-3.3-3.2-2.2-1.8
Locomotion in novel chamber5.36.77.9-2.6-2.8-2.6-2.3
Locomotion in novel chamber post-restriction0.71.23.7-0.6-0.8-0.4-1.9
Fecal boli incidents, locomotor time 10.20.30.60.50.30.80.2
Change in fecal boli incidents, locomotor task0.10.10.1-0.3-0.0-0.3-0.2
Time >=10cm from walls, locomotor time 10.30.30.7-0.5-0.2-0.80.5
Bouts of movement, locomotor time 10.50.60.90.81.00.80.5
Total resting periods, locomotor time 10.80.91.41.11.20.90.4
Rest time, locomotor task time 10.10.10.10.1-0.20.3-0.4
Distance moved, locomotor task time 10.00.10.2-0.10.0-0.40.2
Vertical activity count, locomotor time 10.10.20.50.50.7-0.30.2
Time >=10cm from walls, locomotor time 21.21.85.1-1.1-0.7-2.3-0.7
Bouts of movement, locomotor time 20.10.20.4-0.7-0.3-0.40.4
Total resting periods, locomotor time 20.10.20.4-0.5-0.1-0.10.6
Rest time, locomotor task time 20.81.01.61.01.01.30.6
Distance moved, locomotor task time 20.10.10.20.40.30.30.2
Vertical activity count, locomotor time 20.20.30.50.70.70.20.5
Light reinforcement 11.53.75.5-2.2-2.4-1.2-1.7
Light reinforcement 20.50.82.0-0.7-0.90.2-1.4
Bone: marrow area1.53.25.92.41.91.70.6
Bone: maximum diameter0.20.31.0-0.1-0.3-1.0-0.4
Bone: maximum force0.00.10.20.40.2-0.0-0.2
Bone: maximum moment0.10.10.30.60.30.1-0.0
Mean time between licks in bursts0.71.72.61.61.41.10.9
Mean num. licks in bursts0.10.10.3-0.4-0.50.20.2
Cd content in liver1.21.31.81.31.21.20.8
Co content in liver2.02.33.21.41.51.51.8
Cu content in liver0.00.00.1-0.20.00.10.4
Fe content in liver1.31.62.71.61.31.20.7
K content in liver0.70.71.1-1.0-0.8-0.9-0.5
Mg content in liver0.40.41.1-1.1-0.6-0.40.4
Mn content in liver0.80.91.9-1.4-1.0-0.9-0.0
Na content in liver0.70.72.2-0.3-0.5-0.7-1.5
Rb content in liver1.11.32.1-1.5-1.3-0.9-0.6
Se content in liver6.17.210.2-3.2-2.9-2.5-2.0
Sr content in liver0.40.31.00.10.40.31.0
Zn content in liver2.83.14.4-2.1-2.1-1.4-1.4
Bone: minimum diameter0.30.61.31.10.80.20.4
Time in familiar zone, hab. session 10.70.72.2-0.1-0.4-0.4-1.5
Time in novel zone, hab. session 10.40.40.9-0.9-0.40.10.6
Total zone transitions, hab. session 11.42.02.51.61.51.11.4
Total locomotion distance, hab. session 10.00.00.1-0.00.10.20.2
Locomotion velocity, hab. session 10.20.30.40.60.60.40.6
Time in familiar zone, hab. session 20.50.51.2-0.6-0.5-0.4-1.1
Time in novel zone, hab. session 20.10.10.2-0.5-0.4-0.10.1
Total zone transitions, hab. session 21.01.21.61.21.31.00.8
Total locomotion distance, hab. session 20.30.30.50.60.60.7-0.1
Locomotion velocity, hab. session 20.40.50.80.90.90.80.2
Novel to familiar place preference ratio1.11.22.11.01.10.71.5
Novelty place preference1.11.22.60.81.10.51.6
Time in novel zone, NPP test0.60.61.50.40.80.31.2
Total zone transitions, NPP test0.30.41.01.00.80.2-0.1
Total locomotion distance, NPP test0.10.10.30.30.10.2-0.6
Locomotion velocity, NPP test0.20.20.70.80.30.3-0.0
Intraocular pressure2.13.04.52.11.81.31.7
Delta distance traveled before/after self-admin1.41.51.71.21.31.21.2
Delta ambulatory time before/after self-admin1.51.92.41.41.51.51.0
Parametrial fat weight0.61.53.6-0.9-1.1-0.8-1.9
Pavlov. Cond. lever latency2.63.24.81.51.81.52.2
Pavlov. Cond. magazine entry latency10.213.114.5-3.6-3.8-3.6-3.4
Pavlov. Cond. change in total contacts8.38.811.7-3.4-3.3-2.9-2.0
Pavlov. Cond. index score8.610.912.2-3.2-3.5-3.1-3.3
Pavlov. Cond. latency score6.78.49.4-2.8-3.1-2.7-3.1
Pavlov. Cond. lever contacts3.64.35.9-1.8-2.1-1.9-2.4
Pavlov. Cond. magazine entry number12.015.218.24.14.33.73.4
Pavlov. Cond. intertrial magazine entries1.72.02.31.21.51.41.5
Pavlov. Cond. lever-magazine prob. diff.10.212.614.4-3.6-3.8-3.3-3.5
Pavlov. Cond. response bias10.112.514.2-3.7-3.8-3.5-3.2
Pavlov. Cond. lever latency0.70.91.40.80.81.01.2
Pavlov. Cond. magazine entry latency0.10.10.40.20.2-0.6-0.3
Pavlov. Cond. change in total contacts0.71.21.8-1.1-1.1-1.3-0.8
Pavlov. Cond. index score0.40.50.9-0.4-0.5-0.9-0.9
Pavlov. Cond. latency score0.30.40.8-0.3-0.4-0.9-0.8
Pavlov. Cond. lever contacts0.71.01.8-0.7-0.9-1.0-1.3
Pavlov. Cond. magazine entry number0.30.30.80.30.30.90.6
Pavlov. Cond. intertrial magazine entries1.72.54.71.21.51.32.2
Pavlov. Cond. lever-magazine prob. diff.0.20.30.6-0.2-0.3-0.7-0.8
Pavlov. Cond. response bias1.41.92.7-1.1-1.2-1.5-1.6
Time in closed arm before self-admin1.62.03.6-1.7-1.9-1.2-0.5
Time in closed arm after self-admin0.50.51.70.20.10.61.3
Time in open arm before self-admin1.21.32.41.31.50.80.6
Time in open arm after self-admin0.20.20.60.50.80.20.1
Bone: periosteal estimation0.10.30.91.00.6-0.0-0.0
Bone: periosteal perimeter0.40.61.71.30.80.1-0.0
Bone: post-yield work0.91.42.11.41.20.91.0
Progressive ratio test 1 active lever presses0.30.31.2-0.2-0.2-1.1-0.1
Progressive ratio test 1 breakpoint0.20.20.9-0.1-0.1-0.9-0.0
Progressive ratio test 1 inactive lever presses0.10.10.3-0.5-0.5-0.0-0.1
Progressive ratio test 2 active lever presses1.11.32.1-1.1-1.0-1.5-0.9
Progressive ratio test 2 breakpoint1.21.42.2-1.1-1.1-1.5-1.0
Progressive ratio test 2 inactive lever presses0.10.20.3-0.4-0.6-0.1-0.4
Incentive Sensitization - Responses1.52.12.2-1.5-1.5-1.4-1.4
Incentive Sensitization - Breakpoint1.51.92.0-1.4-1.4-1.3-1.4
Sum of active levers in priming session hrs 5-60.10.10.2-0.1-0.30.1-0.4
Progressive ratio0.00.10.1-0.2-0.1-0.3-0.3
Food seeking constrained by brief footshock0.40.50.8-0.6-0.7-0.7-0.9
Seeking ratio, punishment vs. effort0.00.00.10.1-0.1-0.20.2
Retroperitoneal fat weight0.10.20.4-0.4-0.70.4-0.4
Reaction time number correct0.30.51.31.10.9-0.10.2
Reaction time mean minus median0.20.40.70.60.80.60.6
Reaction time mean minus median AUC0.00.00.10.10.3-0.10.2
Reaction time num false alarms0.81.21.7-0.7-0.9-1.3-1.3
Reaction time num false alarms AUC0.61.01.7-0.6-0.7-1.2-1.3
Reaction time trials correct on left0.30.51.31.10.9-0.10.2
Reaction time trials on left0.30.51.21.10.8-0.10.2
Reaction time mean0.10.20.5-0.7-0.3-0.30.1
Reaction time mean AUC0.10.20.5-0.7-0.3-0.20.2
Median of all reaction times0.60.91.8-1.3-1.0-0.9-0.3
Reaction time omissions0.40.50.8-0.8-0.9-0.6-0.6
Reaction time false alarm rate0.91.31.6-1.1-1.1-1.0-1.3
Reaction time premature initiation rate0.40.51.2-0.7-0.4-0.5-1.1
Reaction time premature initiations0.10.20.40.30.4-0.3-0.6
Std. dev. reaction times0.00.00.0-0.00.20.10.1
Reaction time trials completed0.30.51.21.10.8-0.10.2
Reaction time trials AUC0.20.51.11.10.8-0.20.3
Run reversals in cocaine runway, females2.02.03.31.31.51.01.8
Run reversals in cocaine runway, males0.20.20.3-0.4-0.5-0.5-0.5
Latency to leave start box in cocaine runway1.11.21.51.21.01.11.1
Latency to leave start box in cocaine runway, F1.31.52.51.61.30.91.0
Latency to leave start box in cocaine runway, M0.20.20.4-0.4-0.50.70.2
Std. dev. time between licks in bursts0.00.10.10.40.2-0.0-0.3
Total sessions with >9 infusions0.20.20.3-0.5-0.3-0.50.4
Short access day 1 total inactive lever presses1.21.62.8-1.6-1.7-0.6-0.9
Short access day 10 total inactive lever presses0.20.52.0-0.00.21.40.0
Short access day 1 total infusions0.20.30.5-0.6-0.7-0.20.3
Short access day 10 total infusions0.50.71.6-0.6-0.8-1.3-0.4
Short access total infusions0.30.30.5-0.6-0.7-0.7-0.2
Short access day 1 locomotion0.70.81.5-1.2-1.2-0.5-0.5
Short access day 10 total locomotion1.12.12.4-1.5-1.4-1.5-1.3
Short access total locomotion0.20.20.4-0.6-0.6-0.4-0.3
One hour access (0.3 mA shock)0.40.40.60.50.7-0.80.7
Compulsive drug intake0.91.13.80.20.7-0.32.0
One hour access (shock baseline)0.00.00.20.1-0.1-0.0-0.4
Social response proportion0.40.50.80.60.50.90.7
Social responses0.10.20.40.0-0.20.6-0.6
Social time0.30.41.20.40.20.2-1.1
Soleus weight0.10.30.90.40.20.2-1.0
Bone: stiffness0.10.10.20.2-0.0-0.5-0.2
Tibialis anterior weight1.34.46.52.52.32.01.3
Time to tail flick, vehicle, before self-admin0.20.20.6-0.1-0.2-0.3-0.8
Time to tail flick, vehicle, after self-admin0.20.20.5-0.10.1-0.6-0.7
Time to tail flick, test, before self-admin1.01.11.91.11.40.90.6
Time to tail flick, test, after self-admin0.60.61.6-0.1-0.50.8-1.3
Delta time to tail flick, vehicle, before/after SA0.70.61.9-0.4-0.4-0.5-1.4
Delta time to tail flick, test, before/after SA2.62.64.2-1.6-2.0-1.0-1.7
Tibia length1.33.56.02.52.01.90.7
Ambulatory time before self-admin0.10.10.2-0.0-0.3-0.2-0.5
Ambulatory time after self-admin1.41.62.71.61.11.60.2
Bone: tissue strength1.41.41.51.21.21.11.1
Total heroin consumption3.74.38.2-1.5-2.0-1.6-2.9
Bone: trabecular number4.98.29.4-2.9-3.1-2.6-2.8
Bone: trabecular spacing1.21.63.21.81.50.90.4
Bone: trabecular thickness0.10.10.1-0.3-0.3-0.4-0.3
Bone: trabecular tissue density0.50.82.5-0.10.60.51.6
Water consumed over 24 hours0.10.10.20.50.10.4-0.0
Number of responses in last shaping day0.40.40.7-0.5-0.60.80.6