Limd2

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 NAcc mRNA stability Limd2 0.02 0.01 8.0e-03 0.01 0.01 0 0.01 1.4e-02 2.6e-02 2.3e-01 6.0e-02
2 NAcc gene expression Limd2 0.04 0.03 6.6e-04 0.02 0.02 0.03 0.02 1.6e-03 7.0e-04 6.2e-04 1.1e-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
Bone: apparent density1.83.16.12.5-0.2
Area under the delay curve0.00.00.00.1-0.1
BMI with tail1.54.78.1-1.12.8
BMI without tail2.34.79.10.53.0
Body weight1.14.44.92.02.2
Weight adjusted by age0.60.61.0-1.0-0.6
Bone surface5.59.619.14.4-0.4
Bone volume4.57.715.43.9-0.1
Breakpoint value in progressive ratio session0.80.81.71.30.1
Number of licking bursts0.40.50.90.2-1.0
Context. condit. distance diff. score0.50.61.3-1.1-0.0
Locomotion velocity, session 10.91.01.91.40.2
Locomotion distance, session 10.00.00.00.2-0.1
Locomotion velocity, session 21.01.22.11.5-0.5
Locomotion distance, session 20.40.51.00.1-1.0
Locomotion velocity, session 30.20.30.5-0.0-0.7
Locomotion distance, session 30.60.70.90.6-1.0
Stereotopy head waving bouts, day 30.00.10.1-0.3-0.0
Stereotopy head waving duration, day 30.40.40.6-0.8-0.5
Locomotion velocity, session 70.10.10.3-0.50.1
Locomotion distance, session 70.10.10.3-0.5-0.1
Stereotopy head waving bouts, day 70.30.30.6-0.1-0.8
Stereotopy head waving duration, day 71.62.03.3-0.8-1.8
Locomotion velocity, session 80.10.10.20.5-0.1
Locomotion distance, session 80.20.20.2-0.5-0.5
Degree of sensitization distance0.40.40.5-0.70.5
Degree of sensitization stereotypy0.70.71.3-0.5-1.1
Conditioned locomotion0.30.40.70.40.8
Cocaine response after cond. corrected0.30.40.6-0.2-0.8
Cocaine response after cond. not corrected1.11.32.50.2-1.6
Cocaine response before conditioning0.81.01.60.6-1.3
Saline control response1.72.34.00.72.0
Bone: connectivity density2.33.77.12.7-0.4
Bone: cortical apparent density2.63.46.6-2.6-0.5
Bone: cortical area2.23.35.72.40.9
Bone: cortical porosity10.911.922.24.71.3
Bone: cortical porosity6.57.013.63.70.7
Bone: cortical thickness0.40.71.3-1.20.2
Bone: cortical thickness0.40.50.9-0.9-0.2
Bone: cortical tissue density2.53.36.4-2.5-0.4
Condit. Reinf. active minus inactive responses1.71.93.41.80.7
Condit. Reinf. active-inactive response ratio0.50.51.01.00.3
Condit. Reinf. active responses2.22.74.82.20.7
Condit. Reinf. inactive responses0.70.91.71.30.0
Incentive salience index mean2.32.85.32.30.5
Condit. Reinf. lever presses0.91.22.41.50.2
Condit. Reinf. active minus inactive responses4.75.810.83.3-0.9
Condit. Reinf. active-inactive response ratio4.04.28.12.8-0.5
Condit. Reinf. active responses3.75.210.33.20.1
Condit. Reinf. inactive responses0.80.91.11.10.9
Condit. Reinf. lever presses1.41.93.51.90.6
Condit. Reinf. lever reinforcers received3.34.79.33.10.2
Conditioned reinforcement - actives0.30.30.50.40.7
Conditioned reinforcement - inactives0.91.01.11.10.9
Conditioned locomotion1.72.02.61.61.2
Patch foraging indifference point 0 sec1.82.94.52.11.1
Patch foraging indifference point AUC0.20.30.30.60.5
Delay disc. indifference point, 0s delay0.60.70.8-0.8-0.9
Delay disc. indifference point, 16s delay0.30.30.30.50.5
Delay disc. indifference point, 2s delay1.21.32.10.7-1.4
Delay disc. indifference point, 24s delay0.80.81.00.71.0
Delay disc. indifference point, 4s delay0.40.40.7-0.2-0.9
Delay disc. indifference point, 8s delay0.10.10.1-0.4-0.3
Indifference point function ln k0.10.10.20.4-0.3
Indifference point function log k0.10.10.20.4-0.3
Patch foraging total patch changes 0 sec1.93.15.12.31.1
Patch foraging total patch changes 12 sec1.11.42.71.60.4
Patch foraging total patch changes 18 sec1.41.82.51.61.0
Patch foraging total patch changes 24 sec1.41.73.31.80.4
Patch foraging total patch changes 6 sec1.11.62.61.60.8
Patch foraging time to switch 0 sec0.00.00.0-0.10.2
Patch foraging water rate 0 sec1.01.51.61.21.3
Patch foraging water rate 12 sec0.30.50.6-0.8-0.6
Patch foraging water rate 18 sec0.70.91.80.3-1.3
Patch foraging water rate 24 sec0.50.71.30.0-1.1
Patch foraging water rate 6 sec0.10.10.20.4-0.2
Seeking ratio, delayed vs. immediate footshock0.70.91.5-0.41.2
Distance traveled before self-admin1.01.12.20.1-1.5
Distance traveled after self-admin0.70.71.5-0.0-1.2
Extensor digitorum longus weight2.810.812.5-3.53.0
Bone: elastic displacement0.50.60.6-0.7-0.8
Bone: elastic work0.40.50.70.80.6
Bone: endosteal estimation8.819.336.46.01.4
Bone: endosteal perimeter9.118.936.26.01.3
Epididymis fat weight1.63.87.20.72.7
Delta time in closed arm before/after self-admin0.50.51.00.3-1.0
Delta time in open arm before/after self-admin0.60.60.9-0.90.5
Diff in mean of infusions in LGA sessions0.50.61.0-1.00.5
Delay discount exponential model param0.10.10.1-0.40.1
Extinction: sum of active levers before priming0.10.10.10.20.3
Active lever presses in extinction session 62.92.83.61.91.4
Bone: final force0.91.52.71.6-0.5
Bone: final moment1.01.73.21.8-0.4
Food consumed during 24 hour testing period2.22.73.41.41.9
Glucose0.40.60.9-0.9-0.6
Heart weight0.00.10.1-0.3-0.1
Delay discount hyperbolic model param0.10.10.1-0.30.3
Intermittent access intake day 1-15 change0.90.81.30.61.1
Intermittent access intake escalation0.50.50.90.21.0
Intermittent access intake escalation 21.01.01.30.91.1
Intermitt. access day 1 inactive lever presses3.84.18.02.80.3
Intermitt. access day 15 inactive lever presses5.05.56.02.22.4
Intermitt. access escalation Index5.44.76.5-1.7-2.5
Intermittent access day 1 total infusions0.30.40.70.80.2
Intermittent access day 15 total infusions0.50.50.90.50.9
Intermittent access terminal intake (last 3 days)1.61.82.21.51.2
Intermittent access total infusions1.51.62.51.60.9
Intermittent access day 1 locomotion2.32.43.51.91.2
Intermittent access day 15 total locomotion2.62.84.12.01.3
Intermittent access total locomotion5.26.07.92.82.0
Intermittent access standard deviation2.82.93.81.42.0
Left kidney weight0.51.31.4-1.2-1.1
Right kidney weight0.30.91.6-0.4-1.3
Cocaine induced anxiety0.20.20.30.20.6
Post-drug Anxiety0.10.10.2-0.00.5
Baseline Anxiety0.50.60.9-0.9-0.5
Tail length1.33.96.92.61.0
Length with tail1.34.89.63.1-0.3
Length without tail0.71.41.81.4-1.0
Times rat made contact with spout0.40.40.80.90.3
Lifetime Intake2.12.33.61.91.0
Liver weight, left0.91.51.61.2-1.3
Liver weight, right0.61.01.5-0.7-1.2
Locomotor activity0.10.20.40.6-0.0
Locomotor testing distance0.91.51.71.31.1
Locomotor testing rearing1.32.02.91.01.7
Locomotion in novel chamber0.70.81.6-0.2-1.3
Locomotion in novel chamber post-restriction1.31.52.51.6-0.8
Fecal boli incidents, locomotor time 10.00.00.0-0.1-0.1
Change in fecal boli incidents, locomotor task0.80.71.0-0.61.0
Time >=10cm from walls, locomotor time 13.33.34.1-1.6-2.0
Bouts of movement, locomotor time 11.11.21.9-0.71.4
Total resting periods, locomotor time 11.11.21.8-0.81.3
Rest time, locomotor task time 10.00.00.0-0.1-0.2
Distance moved, locomotor task time 10.50.50.70.50.9
Vertical activity count, locomotor time 10.30.30.50.70.2
Time >=10cm from walls, locomotor time 20.00.10.10.3-0.1
Bouts of movement, locomotor time 20.91.01.8-0.41.3
Total resting periods, locomotor time 20.70.81.1-0.71.0
Rest time, locomotor task time 22.63.04.2-2.0-1.4
Distance moved, locomotor task time 21.21.41.61.11.3
Vertical activity count, locomotor time 23.94.35.32.31.8
Light reinforcement 10.20.40.60.40.8
Light reinforcement 20.40.60.60.80.8
Bone: marrow area8.718.835.66.01.4
Bone: maximum diameter4.27.715.33.90.3
Bone: maximum force1.22.14.12.00.2
Bone: maximum moment1.42.54.82.20.3
Mean time between licks in bursts0.00.10.1-0.20.2
Mean num. licks in bursts0.81.02.00.11.4
Cd content in liver4.24.68.6-2.9-0.7
Co content in liver0.50.61.2-1.10.0
Cu content in liver0.60.70.80.80.9
Fe content in liver0.30.30.4-0.5-0.7
K content in liver2.22.22.21.5-1.5
Mg content in liver0.50.50.90.4-1.0
Mn content in liver2.52.85.20.7-2.3
Na content in liver1.31.41.81.0-1.3
Rb content in liver3.54.45.8-1.7-2.4
Se content in liver2.22.73.0-1.7-1.5
Sr content in liver0.30.30.60.80.1
Zn content in liver1.51.63.20.2-1.8
Bone: minimum diameter8.816.528.95.42.0
Time in familiar zone, hab. session 10.20.20.30.20.5
Time in novel zone, hab. session 10.20.20.3-0.5-0.1
Total zone transitions, hab. session 10.10.10.10.20.3
Total locomotion distance, hab. session 10.71.01.71.30.6
Locomotion velocity, hab. session 10.81.12.01.40.5
Time in familiar zone, hab. session 20.10.10.20.40.2
Time in novel zone, hab. session 20.10.10.1-0.3-0.4
Total zone transitions, hab. session 20.00.00.0-0.00.1
Total locomotion distance, hab. session 20.30.30.60.40.7
Locomotion velocity, hab. session 20.10.20.30.30.6
Novel to familiar place preference ratio0.30.30.40.60.5
Novelty place preference0.10.20.20.40.4
Time in novel zone, NPP test0.10.10.10.40.2
Total zone transitions, NPP test0.10.10.30.0-0.5
Total locomotion distance, NPP test0.30.40.80.90.2
Locomotion velocity, NPP test0.20.30.40.50.6
Intraocular pressure2.23.16.00.52.5
Delta distance traveled before/after self-admin0.10.10.3-0.50.0
Delta ambulatory time before/after self-admin0.00.00.0-0.10.0
Parametrial fat weight0.91.83.21.80.6
Pavlov. Cond. lever latency2.93.67.1-2.7-0.3
Pavlov. Cond. magazine entry latency3.95.09.63.10.6
Pavlov. Cond. change in total contacts4.24.58.02.81.0
Pavlov. Cond. index score3.64.69.03.00.5
Pavlov. Cond. latency score2.93.77.32.70.3
Pavlov. Cond. lever contacts2.73.25.92.40.8
Pavlov. Cond. magazine entry number3.13.97.5-2.7-0.5
Pavlov. Cond. intertrial magazine entries0.10.10.20.20.5
Pavlov. Cond. lever-magazine prob. diff.3.74.58.83.00.5
Pavlov. Cond. response bias4.95.911.53.40.6
Pavlov. Cond. lever latency0.30.40.5-0.70.6
Pavlov. Cond. magazine entry latency2.83.23.7-1.6-1.9
Pavlov. Cond. change in total contacts0.30.40.70.3-0.8
Pavlov. Cond. index score0.40.61.1-0.0-1.1
Pavlov. Cond. latency score0.60.71.5-0.0-1.2
Pavlov. Cond. lever contacts0.10.10.20.5-0.2
Pavlov. Cond. magazine entry number3.23.94.11.92.0
Pavlov. Cond. intertrial magazine entries10.914.317.54.23.3
Pavlov. Cond. lever-magazine prob. diff.0.60.71.5-0.1-1.2
Pavlov. Cond. response bias0.20.30.7-0.1-0.8
Time in closed arm before self-admin0.40.50.6-0.8-0.6
Time in closed arm after self-admin2.02.13.3-0.9-1.8
Time in open arm before self-admin0.10.10.1-0.4-0.3
Time in open arm after self-admin0.91.02.0-0.01.4
Bone: periosteal estimation7.615.729.55.41.4
Bone: periosteal perimeter4.37.214.33.80.2
Bone: post-yield work1.41.93.51.90.5
Progressive ratio test 1 active lever presses2.22.34.52.10.4
Progressive ratio test 1 breakpoint3.13.35.82.40.9
Progressive ratio test 1 inactive lever presses2.42.65.22.30.2
Progressive ratio test 2 active lever presses2.83.04.92.21.0
Progressive ratio test 2 breakpoint3.64.06.62.61.2
Progressive ratio test 2 inactive lever presses2.73.14.42.11.3
Incentive Sensitization - Responses1.71.73.11.70.6
Incentive Sensitization - Breakpoint1.51.52.91.70.4
Sum of active levers in priming session hrs 5-60.10.10.2-0.4-0.2
Progressive ratio0.70.81.3-0.4-1.1
Food seeking constrained by brief footshock1.51.92.81.70.9
Seeking ratio, punishment vs. effort1.72.02.31.31.5
Retroperitoneal fat weight1.03.13.61.61.9
Reaction time number correct0.91.31.8-0.9-1.4
Reaction time mean minus median0.40.50.9-0.40.9
Reaction time mean minus median AUC0.60.81.3-1.1-0.6
Reaction time num false alarms2.23.06.12.5-0.2
Reaction time num false alarms AUC2.63.67.22.7-0.1
Reaction time trials correct on left0.91.31.8-0.9-1.4
Reaction time trials on left0.91.21.7-0.9-1.3
Reaction time mean0.30.50.6-0.6-0.8
Reaction time mean AUC0.30.40.4-0.7-0.6
Median of all reaction times0.50.71.2-0.5-1.1
Reaction time omissions0.20.20.20.50.5
Reaction time false alarm rate2.83.97.52.70.5
Reaction time premature initiation rate1.01.42.40.71.5
Reaction time premature initiations0.10.20.40.10.6
Std. dev. reaction times0.10.10.2-0.40.3
Reaction time trials completed0.91.21.7-0.9-1.3
Reaction time trials AUC0.91.31.8-0.9-1.3
Run reversals in cocaine runway, females2.42.44.7-0.32.2
Run reversals in cocaine runway, males0.00.00.0-0.1-0.2
Latency to leave start box in cocaine runway0.10.20.2-0.5-0.3
Latency to leave start box in cocaine runway, F0.30.40.4-0.5-0.7
Latency to leave start box in cocaine runway, M0.00.00.0-0.20.2
Std. dev. time between licks in bursts0.30.40.8-0.20.9
Total sessions with >9 infusions0.00.00.00.1-0.1
Short access day 1 total inactive lever presses0.60.71.41.20.2
Short access day 10 total inactive lever presses1.01.11.21.01.1
Short access day 1 total infusions0.40.40.70.90.2
Short access day 10 total infusions5.05.57.52.71.9
Short access total infusions2.52.84.52.11.0
Short access day 1 locomotion2.72.93.21.61.8
Short access day 10 total locomotion8.910.010.83.33.0
Short access total locomotion4.64.85.02.22.2
One hour access (0.3 mA shock)0.60.71.31.10.3
Compulsive drug intake1.41.42.3-0.8-1.5
One hour access (shock baseline)1.11.31.31.11.1
Social response proportion0.10.10.3-0.50.1
Social responses0.00.00.00.20.0
Social time0.30.30.50.40.7
Soleus weight0.10.30.70.80.2
Bone: stiffness0.60.91.10.9-1.0
Tibialis anterior weight1.44.89.4-0.43.1
Time to tail flick, vehicle, before self-admin0.91.01.90.1-1.4
Time to tail flick, vehicle, after self-admin0.30.30.40.7-0.4
Time to tail flick, test, before self-admin0.40.40.8-0.90.2
Time to tail flick, test, after self-admin0.00.00.1-0.1-0.3
Delta time to tail flick, vehicle, before/after SA1.41.41.41.21.1
Delta time to tail flick, test, before/after SA0.60.50.90.3-1.0
Tibia length0.41.22.30.1-1.5
Ambulatory time before self-admin0.90.91.80.2-1.4
Ambulatory time after self-admin0.30.40.50.5-0.7
Bone: tissue strength2.02.02.8-1.1-1.7
Total heroin consumption1.01.21.61.3-0.9
Bone: trabecular number2.53.97.32.7-0.6
Bone: trabecular spacing1.01.32.6-1.60.2
Bone: trabecular thickness3.94.78.42.91.0
Bone: trabecular tissue density0.91.31.7-1.3-0.9
Water consumed over 24 hours0.10.10.10.20.3
Number of responses in last shaping day1.21.31.81.30.9