Hub : Genes

Lmo2

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 Lmo2 0.12 0.07 0.0e+00 0.14 0.14 0.13 0.14 3.9e-15 4.0e-15 1.3e-14 8.9e-15
2 Adipose gene expression Lmo2 0.46 0.16 0.0e+00 0.47 0.47 0.47 0.47 9.9e-59 6.8e-59 1.6e-58 5.8e-59
3 Liver mRNA stability Lmo2 0.02 0.02 8.2e-03 0.01 0.01 0.01 0.01 2.7e-02 2.4e-02 3.1e-02 5.6e-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 density0.61.01.1-1.01.10.9
Area under the delay curve0.10.10.20.2-0.2-0.5
BMI with tail0.10.20.3-0.50.50.5
BMI without tail0.40.90.9-1.00.90.9
Body weight0.62.32.9-1.41.41.7
Weight adjusted by age2.22.52.71.6-1.6-1.5
Bone surface0.50.91.1-1.01.00.8
Bone volume1.32.32.5-1.61.61.3
Breakpoint value in progressive ratio session1.21.41.71.3-1.3-0.9
Number of licking bursts0.30.40.5-0.70.70.4
Context. condit. distance diff. score3.54.24.8-2.02.02.2
Locomotion velocity, session 10.00.10.10.2-0.2-0.3
Locomotion distance, session 10.00.00.10.0-0.0-0.3
Locomotion velocity, session 20.00.00.0-0.00.0-0.0
Locomotion distance, session 20.10.20.2-0.40.40.5
Locomotion velocity, session 30.10.10.1-0.40.3-0.2
Locomotion distance, session 30.20.20.3-0.50.50.2
Stereotopy head waving bouts, day 30.10.10.30.2-0.2-0.6
Stereotopy head waving duration, day 30.40.50.6-0.80.80.6
Locomotion velocity, session 70.00.00.00.1-0.10.2
Locomotion distance, session 70.40.60.80.9-0.8-0.5
Stereotopy head waving bouts, day 70.10.10.2-0.40.4-0.1
Stereotopy head waving duration, day 70.00.10.1-0.30.3-0.1
Locomotion velocity, session 80.40.40.7-0.60.60.8
Locomotion distance, session 83.14.55.0-2.02.12.2
Degree of sensitization distance0.40.40.60.8-0.7-0.1
Degree of sensitization stereotypy0.10.10.1-0.20.2-0.3
Conditioned locomotion3.94.65.72.0-2.0-2.4
Cocaine response after cond. corrected2.83.13.31.7-1.7-1.8
Cocaine response after cond. not corrected0.40.50.50.7-0.7-0.7
Cocaine response before conditioning6.78.08.1-2.82.82.8
Saline control response0.71.01.2-1.11.10.8
Bone: connectivity density0.60.91.0-1.01.00.9
Bone: cortical apparent density0.20.30.40.6-0.6-0.1
Bone: cortical area0.20.30.7-0.30.30.8
Bone: cortical porosity0.40.40.50.6-0.6-0.7
Bone: cortical porosity0.10.10.20.4-0.4-0.4
Bone: cortical thickness0.00.10.10.1-0.10.4
Bone: cortical thickness3.23.84.12.0-2.0-1.8
Bone: cortical tissue density0.10.20.30.5-0.5-0.0
Condit. Reinf. active minus inactive responses1.71.92.1-1.41.41.3
Condit. Reinf. active-inactive response ratio3.63.94.0-2.02.01.9
Condit. Reinf. active responses0.60.70.8-0.90.90.7
Condit. Reinf. inactive responses0.50.60.60.8-0.8-0.8
Incentive salience index mean1.61.91.9-1.41.41.3
Condit. Reinf. lever presses1.11.51.6-1.21.21.3
Condit. Reinf. active minus inactive responses1.82.22.5-1.41.41.6
Condit. Reinf. active-inactive response ratio4.74.95.7-2.12.12.4
Condit. Reinf. active responses1.01.41.5-1.11.21.2
Condit. Reinf. inactive responses0.00.10.10.1-0.1-0.4
Condit. Reinf. lever presses0.81.11.3-1.01.01.1
Condit. Reinf. lever reinforcers received1.01.31.4-1.11.21.2
Conditioned reinforcement - actives3.43.44.5-1.71.72.1
Conditioned reinforcement - inactives9.110.210.3-3.23.23.2
Conditioned locomotion1.51.81.9-1.41.41.3
Patch foraging indifference point 0 sec0.40.71.40.5-0.6-1.2
Patch foraging indifference point AUC1.51.82.01.4-1.4-1.1
Delay disc. indifference point, 0s delay0.00.00.0-0.10.00.1
Delay disc. indifference point, 16s delay1.31.31.41.1-1.2-1.2
Delay disc. indifference point, 2s delay0.10.10.10.3-0.3-0.3
Delay disc. indifference point, 24s delay0.20.10.30.3-0.3-0.5
Delay disc. indifference point, 4s delay0.10.10.10.2-0.2-0.4
Delay disc. indifference point, 8s delay0.30.30.5-0.70.70.3
Indifference point function ln k1.01.41.6-1.21.31.1
Indifference point function log k1.01.41.6-1.21.31.1
Patch foraging total patch changes 0 sec0.30.51.20.4-0.4-1.1
Patch foraging total patch changes 12 sec0.00.00.0-0.20.20.1
Patch foraging total patch changes 18 sec0.60.71.10.7-0.7-1.0
Patch foraging total patch changes 24 sec1.31.52.21.1-1.1-1.5
Patch foraging total patch changes 6 sec0.40.61.00.5-0.6-1.0
Patch foraging time to switch 0 sec0.00.00.00.2-0.2-0.1
Patch foraging water rate 0 sec0.00.00.0-0.10.1-0.1
Patch foraging water rate 12 sec0.00.10.10.3-0.3-0.1
Patch foraging water rate 18 sec0.91.21.2-1.01.11.1
Patch foraging water rate 24 sec0.00.00.10.1-0.00.4
Patch foraging water rate 6 sec0.00.00.0-0.10.20.1
Seeking ratio, delayed vs. immediate footshock0.30.30.3-0.50.50.6
Distance traveled before self-admin0.50.60.7-0.70.70.8
Distance traveled after self-admin0.70.71.3-0.70.71.1
Extensor digitorum longus weight0.31.11.31.1-1.1-1.0
Bone: elastic displacement1.51.71.91.4-1.4-1.1
Bone: elastic work1.21.61.91.4-1.4-1.0
Bone: endosteal estimation0.10.30.40.5-0.5-0.6
Bone: endosteal perimeter0.30.60.7-0.80.80.7
Epididymis fat weight0.92.02.0-1.41.41.4
Delta time in closed arm before/after self-admin0.10.10.10.3-0.3-0.2
Delta time in open arm before/after self-admin0.20.20.50.2-0.2-0.7
Diff in mean of infusions in LGA sessions0.10.10.20.4-0.4-0.1
Delay discount exponential model param0.20.20.3-0.30.30.6
Extinction: sum of active levers before priming0.10.10.2-0.00.00.4
Active lever presses in extinction session 60.10.10.2-0.30.30.5
Bone: final force0.00.00.10.1-0.10.3
Bone: final moment0.10.20.20.5-0.5-0.0
Food consumed during 24 hour testing period7.59.19.6-3.03.03.1
Glucose2.23.34.0-1.71.72.0
Heart weight0.10.20.20.5-0.4-0.2
Delay discount hyperbolic model param0.10.10.2-0.20.20.5
Intermittent access intake day 1-15 change0.20.20.3-0.50.50.3
Intermittent access intake escalation0.60.60.7-0.80.80.6
Intermittent access intake escalation 23.23.23.4-1.91.81.7
Intermitt. access day 1 inactive lever presses0.10.10.20.2-0.20.5
Intermitt. access day 15 inactive lever presses2.72.93.6-1.61.61.9
Intermitt. access escalation Index0.40.30.4-0.50.60.6
Intermittent access day 1 total infusions2.83.23.4-1.81.91.7
Intermittent access day 15 total infusions4.65.15.5-2.32.32.1
Intermittent access terminal intake (last 3 days)6.67.27.7-2.82.72.5
Intermittent access total infusions6.47.17.5-2.72.72.5
Intermittent access day 1 locomotion1.01.11.2-1.11.10.9
Intermittent access day 15 total locomotion1.31.41.9-1.41.40.7
Intermittent access total locomotion1.82.12.6-1.61.61.1
Intermittent access standard deviation6.06.36.8-2.62.62.4
Left kidney weight0.61.62.4-1.11.11.5
Right kidney weight0.41.01.5-0.90.91.2
Cocaine induced anxiety0.40.50.9-0.60.60.9
Post-drug Anxiety0.00.00.00.2-0.10.1
Baseline Anxiety3.23.44.11.8-1.7-2.0
Tail length0.41.32.1-1.01.01.4
Length with tail0.51.92.6-1.21.21.6
Length without tail0.30.50.7-0.70.70.8
Times rat made contact with spout0.10.10.2-0.40.40.4
Lifetime Intake6.77.68.0-2.82.82.6
Liver weight, left0.40.61.1-0.60.61.1
Liver weight, right1.42.43.7-1.31.31.9
Locomotor activity0.10.10.2-0.40.40.2
Locomotor testing distance1.42.32.5-1.61.51.5
Locomotor testing rearing0.20.30.4-0.50.50.6
Locomotion in novel chamber0.40.40.6-0.70.80.5
Locomotion in novel chamber post-restriction0.81.01.20.9-0.9-1.1
Fecal boli incidents, locomotor time 17.17.88.73.0-2.9-2.5
Change in fecal boli incidents, locomotor task5.35.05.9-2.42.41.8
Time >=10cm from walls, locomotor time 10.10.10.10.4-0.3-0.1
Bouts of movement, locomotor time 10.50.60.80.9-0.8-0.5
Total resting periods, locomotor time 10.40.50.70.8-0.8-0.4
Rest time, locomotor task time 10.20.20.30.6-0.5-0.2
Distance moved, locomotor task time 11.92.12.4-1.51.51.4
Vertical activity count, locomotor time 10.10.10.2-0.40.30.2
Time >=10cm from walls, locomotor time 26.56.97.1-2.62.62.7
Bouts of movement, locomotor time 20.20.20.40.6-0.5-0.1
Total resting periods, locomotor time 20.10.20.30.5-0.4-0.1
Rest time, locomotor task time 21.82.12.41.4-1.4-1.5
Distance moved, locomotor task time 25.15.96.3-2.42.32.5
Vertical activity count, locomotor time 22.42.63.0-1.61.51.7
Light reinforcement 10.10.10.3-0.10.10.5
Light reinforcement 20.00.10.10.1-0.10.4
Bone: marrow area0.20.30.40.6-0.5-0.7
Bone: maximum diameter0.20.40.7-0.60.60.9
Bone: maximum force0.00.00.1-0.10.20.3
Bone: maximum moment0.00.10.10.3-0.3-0.2
Mean time between licks in bursts1.01.51.71.2-1.1-1.3
Mean num. licks in bursts0.00.00.00.2-0.2-0.0
Cd content in liver1.21.31.4-1.21.21.0
Co content in liver1.21.41.71.1-1.1-1.3
Cu content in liver0.20.30.30.5-0.5-0.5
Fe content in liver0.40.40.40.7-0.7-0.6
K content in liver2.82.82.81.7-1.7-1.6
Mg content in liver1.81.92.01.4-1.4-1.3
Mn content in liver1.71.92.11.5-1.5-1.3
Na content in liver0.00.00.10.2-0.20.0
Rb content in liver1.31.61.71.3-1.3-1.2
Se content in liver3.34.04.91.9-1.9-2.2
Sr content in liver0.10.10.10.3-0.3-0.3
Zn content in liver0.10.10.20.4-0.4-0.3
Bone: minimum diameter0.71.41.8-1.11.11.3
Time in familiar zone, hab. session 10.70.70.70.8-0.8-0.8
Time in novel zone, hab. session 11.71.71.9-1.41.41.1
Total zone transitions, hab. session 12.13.03.5-1.91.81.4
Total locomotion distance, hab. session 10.50.81.1-1.11.00.3
Locomotion velocity, hab. session 10.30.40.6-0.80.80.1
Time in familiar zone, hab. session 20.00.00.10.1-0.1-0.3
Time in novel zone, hab. session 20.20.20.4-0.30.30.7
Total zone transitions, hab. session 21.41.81.9-1.41.41.3
Total locomotion distance, hab. session 20.00.10.10.1-0.1-0.4
Locomotion velocity, hab. session 20.10.10.20.2-0.2-0.5
Novel to familiar place preference ratio0.70.70.8-0.80.80.9
Novelty place preference0.70.70.8-0.80.80.9
Time in novel zone, NPP test0.50.60.7-0.70.70.8
Total zone transitions, NPP test0.50.81.10.8-0.8-1.1
Total locomotion distance, NPP test0.70.91.50.8-0.8-1.2
Locomotion velocity, NPP test0.60.81.50.7-0.7-1.2
Intraocular pressure0.00.00.0-0.20.1-0.2
Delta distance traveled before/after self-admin0.20.20.30.5-0.5-0.1
Delta ambulatory time before/after self-admin0.10.10.10.3-0.30.1
Parametrial fat weight0.61.21.2-1.11.11.1
Pavlov. Cond. lever latency0.50.60.60.8-0.8-0.7
Pavlov. Cond. magazine entry latency0.91.11.6-0.90.91.3
Pavlov. Cond. change in total contacts0.20.20.20.5-0.5-0.4
Pavlov. Cond. index score0.20.30.4-0.50.50.6
Pavlov. Cond. latency score0.20.30.4-0.50.50.6
Pavlov. Cond. lever contacts0.40.40.6-0.60.60.7
Pavlov. Cond. magazine entry number0.81.01.50.9-0.9-1.2
Pavlov. Cond. intertrial magazine entries0.00.00.0-0.10.1-0.2
Pavlov. Cond. lever-magazine prob. diff.0.20.20.2-0.40.40.5
Pavlov. Cond. response bias0.81.01.4-0.90.91.2
Pavlov. Cond. lever latency2.63.43.51.9-1.9-1.9
Pavlov. Cond. magazine entry latency0.80.91.0-1.01.00.9
Pavlov. Cond. change in total contacts1.21.71.7-1.31.31.2
Pavlov. Cond. index score2.22.82.9-1.71.71.6
Pavlov. Cond. latency score2.63.33.5-1.81.91.7
Pavlov. Cond. lever contacts3.04.14.2-2.02.12.0
Pavlov. Cond. magazine entry number0.50.60.60.8-0.8-0.7
Pavlov. Cond. intertrial magazine entries0.00.00.10.2-0.2-0.1
Pavlov. Cond. lever-magazine prob. diff.1.92.42.5-1.61.61.5
Pavlov. Cond. response bias2.23.03.2-1.71.71.8
Time in closed arm before self-admin2.52.83.3-1.61.61.8
Time in closed arm after self-admin0.80.81.0-0.80.81.0
Time in open arm before self-admin2.02.12.51.4-1.4-1.6
Time in open arm after self-admin2.52.84.21.4-1.4-2.1
Bone: periosteal estimation0.00.00.00.2-0.20.0
Bone: periosteal perimeter1.01.71.9-1.31.21.4
Bone: post-yield work0.00.00.0-0.00.0-0.2
Progressive ratio test 1 active lever presses3.53.73.7-1.91.91.9
Progressive ratio test 1 breakpoint3.33.43.6-1.81.81.9
Progressive ratio test 1 inactive lever presses1.82.02.4-1.31.31.6
Progressive ratio test 2 active lever presses2.62.82.8-1.71.61.7
Progressive ratio test 2 breakpoint3.33.73.8-1.91.91.9
Progressive ratio test 2 inactive lever presses3.74.34.6-2.02.02.1
Incentive Sensitization - Responses1.11.11.3-1.01.01.1
Incentive Sensitization - Breakpoint0.91.01.0-1.01.01.0
Sum of active levers in priming session hrs 5-60.90.91.21.1-1.1-0.6
Progressive ratio0.40.40.6-0.50.60.8
Food seeking constrained by brief footshock0.81.01.0-1.01.01.0
Seeking ratio, punishment vs. effort0.20.30.50.3-0.4-0.7
Retroperitoneal fat weight9.531.232.1-5.75.75.4
Reaction time number correct0.00.10.1-0.20.20.2
Reaction time mean minus median0.10.10.2-0.40.40.4
Reaction time mean minus median AUC0.10.20.2-0.40.40.4
Reaction time num false alarms1.31.72.11.3-1.2-1.4
Reaction time num false alarms AUC1.72.42.71.5-1.5-1.6
Reaction time trials correct on left0.00.10.1-0.20.20.2
Reaction time trials on left0.00.00.0-0.10.10.1
Reaction time mean0.20.30.4-0.50.40.7
Reaction time mean AUC0.40.50.8-0.70.60.9
Median of all reaction times0.40.60.9-0.70.60.9
Reaction time omissions1.11.61.61.2-1.3-1.2
Reaction time false alarm rate2.53.54.01.8-1.8-2.0
Reaction time premature initiation rate0.20.20.30.5-0.5-0.2
Reaction time premature initiations0.10.10.10.4-0.4-0.1
Std. dev. reaction times0.00.00.0-0.20.10.2
Reaction time trials completed0.00.00.0-0.10.10.1
Reaction time trials AUC0.10.10.1-0.30.30.4
Run reversals in cocaine runway, females0.10.10.4-0.20.20.6
Run reversals in cocaine runway, males5.25.05.32.3-2.3-2.1
Latency to leave start box in cocaine runway0.30.30.40.5-0.5-0.6
Latency to leave start box in cocaine runway, F0.20.20.30.4-0.4-0.5
Latency to leave start box in cocaine runway, M0.20.20.20.5-0.5-0.3
Std. dev. time between licks in bursts0.20.20.30.5-0.5-0.4
Total sessions with >9 infusions2.22.52.7-1.51.51.6
Short access day 1 total inactive lever presses0.91.01.1-1.01.00.9
Short access day 10 total inactive lever presses0.20.20.5-0.20.30.7
Short access day 1 total infusions9.410.010.1-3.13.23.2
Short access day 10 total infusions3.84.24.9-2.22.21.7
Short access total infusions5.56.16.4-2.52.52.4
Short access day 1 locomotion3.84.04.6-2.12.11.7
Short access day 10 total locomotion2.83.13.5-1.91.91.5
Short access total locomotion3.13.23.7-1.91.91.6
One hour access (0.3 mA shock)2.63.13.1-1.81.81.7
Compulsive drug intake2.22.22.61.6-1.6-1.3
One hour access (shock baseline)6.47.48.0-2.82.82.5
Social response proportion4.44.85.32.3-2.3-1.9
Social responses0.10.10.2-0.20.20.4
Social time2.43.13.21.7-1.8-1.8
Soleus weight1.85.45.72.4-2.4-2.2
Bone: stiffness0.40.60.8-0.70.70.9
Tibialis anterior weight2.89.410.13.2-3.2-2.9
Time to tail flick, vehicle, before self-admin3.13.23.6-1.91.91.5
Time to tail flick, vehicle, after self-admin4.95.25.7-2.42.42.1
Time to tail flick, test, before self-admin1.91.82.1-1.51.41.2
Time to tail flick, test, after self-admin2.62.73.1-1.81.71.3
Delta time to tail flick, vehicle, before/after SA0.10.10.1-0.30.30.3
Delta time to tail flick, test, before/after SA0.00.00.0-0.00.0-0.2
Tibia length0.10.30.40.6-0.6-0.1
Ambulatory time before self-admin0.40.40.6-0.50.50.7
Ambulatory time after self-admin1.01.12.1-0.80.81.4
Bone: tissue strength0.10.10.20.2-0.2-0.5
Total heroin consumption1.51.72.01.4-1.4-1.1
Bone: trabecular number0.50.80.9-0.90.90.9
Bone: trabecular spacing0.10.20.2-0.40.40.4
Bone: trabecular thickness0.20.30.3-0.50.50.5
Bone: trabecular tissue density1.41.92.01.4-1.4-1.3
Water consumed over 24 hours0.20.30.4-0.50.50.6
Number of responses in last shaping day1.81.92.3-1.31.31.5