Hub : Genes

Loxl2

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 Brain mRNA stability Loxl2 0.05 0.05 3.6e-04 0.03 0.03 0.03 0.03 3.8e-04 4.9e-04 3.8e-04 6.3e-04
2 Adipose gene expression Loxl2 0.03 0.03 1.4e-03 0.02 0.02 0.02 0.02 2.7e-03 3.7e-03 3.1e-03 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
Bone: apparent density1.22.12.5-1.31.6
Area under the delay curve0.10.10.10.4-0.3
BMI with tail0.51.61.71.3-1.2
BMI without tail0.00.00.00.1-0.1
Body weight0.62.62.71.6-1.6
Weight adjusted by age0.82.32.31.5-1.5
Bone surface0.61.21.3-1.01.2
Bone volume0.61.21.4-1.01.2
Breakpoint value in progressive ratio session0.10.20.20.5-0.5
Number of licking bursts0.00.00.00.1-0.1
Context. condit. distance diff. score0.80.90.9-1.01.0
Locomotion velocity, session 10.20.20.20.5-0.4
Locomotion distance, session 10.00.00.00.00.1
Locomotion velocity, session 20.10.10.1-0.30.3
Locomotion distance, session 20.00.00.1-0.10.3
Locomotion velocity, session 30.60.60.70.8-0.8
Locomotion distance, session 30.00.00.0-0.00.1
Stereotopy head waving bouts, day 30.70.80.90.8-1.0
Stereotopy head waving duration, day 32.22.83.11.6-1.8
Locomotion velocity, session 73.74.14.3-2.02.1
Locomotion distance, session 73.13.94.2-1.92.1
Stereotopy head waving bouts, day 71.01.21.41.0-1.2
Stereotopy head waving duration, day 71.62.02.41.3-1.5
Locomotion velocity, session 80.00.00.0-0.20.1
Locomotion distance, session 80.60.90.9-0.91.0
Degree of sensitization distance4.44.84.8-2.22.2
Degree of sensitization stereotypy0.70.70.90.7-1.0
Conditioned locomotion0.10.10.1-0.30.3
Cocaine response after cond. corrected0.30.50.60.8-0.7
Cocaine response after cond. not corrected0.30.40.40.7-0.6
Cocaine response before conditioning0.20.20.3-0.60.3
Saline control response0.10.10.2-0.40.2
Bone: connectivity density2.54.04.4-1.92.1
Bone: cortical apparent density0.00.00.1-0.10.2
Bone: cortical area0.00.00.0-0.10.1
Bone: cortical porosity1.11.21.31.1-1.1
Bone: cortical porosity0.60.60.70.8-0.8
Bone: cortical thickness0.00.00.0-0.10.0
Bone: cortical thickness0.00.00.1-0.30.0
Bone: cortical tissue density0.00.10.1-0.20.3
Condit. Reinf. active minus inactive responses0.80.91.11.0-0.8
Condit. Reinf. active-inactive response ratio2.72.82.91.7-1.7
Condit. Reinf. active responses0.00.10.10.3-0.1
Condit. Reinf. inactive responses2.33.03.2-1.71.8
Incentive salience index mean1.11.51.81.3-1.0
Condit. Reinf. lever presses0.60.91.21.1-0.7
Condit. Reinf. active minus inactive responses0.40.60.9-1.00.6
Condit. Reinf. active-inactive response ratio0.00.10.10.1-0.4
Condit. Reinf. active responses1.11.62.1-1.41.1
Condit. Reinf. inactive responses1.92.82.9-1.71.6
Condit. Reinf. lever presses0.20.40.4-0.70.5
Condit. Reinf. lever reinforcers received0.91.31.7-1.30.9
Conditioned reinforcement - actives0.41.71.7-1.31.3
Conditioned reinforcement - inactives1.64.44.5-2.12.1
Conditioned locomotion0.10.20.2-0.40.4
Patch foraging indifference point 0 sec1.33.64.3-2.11.7
Patch foraging indifference point AUC0.10.30.30.6-0.6
Delay disc. indifference point, 0s delay0.20.20.2-0.50.5
Delay disc. indifference point, 16s delay0.10.20.2-0.40.4
Delay disc. indifference point, 2s delay1.51.71.71.3-1.3
Delay disc. indifference point, 24s delay0.20.30.30.5-0.5
Delay disc. indifference point, 4s delay1.92.02.01.4-1.4
Delay disc. indifference point, 8s delay0.00.00.0-0.10.1
Indifference point function ln k0.00.00.0-0.1-0.0
Indifference point function log k0.00.00.0-0.1-0.0
Patch foraging total patch changes 0 sec0.92.73.2-1.81.4
Patch foraging total patch changes 12 sec0.70.91.1-1.00.9
Patch foraging total patch changes 18 sec0.92.12.3-1.51.4
Patch foraging total patch changes 24 sec0.00.00.00.0-0.2
Patch foraging total patch changes 6 sec0.20.40.5-0.70.6
Patch foraging time to switch 0 sec0.20.91.0-0.91.0
Patch foraging water rate 0 sec0.10.40.40.6-0.7
Patch foraging water rate 12 sec0.20.91.00.9-1.0
Patch foraging water rate 18 sec1.53.43.61.8-1.9
Patch foraging water rate 24 sec0.00.10.10.2-0.2
Patch foraging water rate 6 sec1.82.72.71.7-1.6
Seeking ratio, delayed vs. immediate footshock1.11.61.6-1.31.2
Distance traveled before self-admin0.51.11.21.1-1.0
Distance traveled after self-admin1.42.52.81.5-1.7
Extensor digitorum longus weight13.453.453.77.3-7.3
Bone: elastic displacement0.30.40.4-0.60.6
Bone: elastic work0.20.20.2-0.50.5
Bone: endosteal estimation0.00.10.20.4-0.2
Bone: endosteal perimeter0.00.10.10.3-0.1
Epididymis fat weight0.52.42.6-1.51.6
Delta time in closed arm before/after self-admin4.13.84.0-2.01.9
Delta time in open arm before/after self-admin0.00.00.10.2-0.2
Diff in mean of infusions in LGA sessions1.01.82.01.4-1.3
Delay discount exponential model param0.40.50.5-0.70.7
Extinction: sum of active levers before priming1.52.32.4-1.61.4
Active lever presses in extinction session 60.20.20.2-0.40.4
Bone: final force0.10.20.20.5-0.4
Bone: final moment0.10.10.20.4-0.3
Food consumed during 24 hour testing period0.10.20.2-0.50.5
Glucose0.00.00.00.1-0.1
Heart weight0.50.70.8-0.80.9
Delay discount hyperbolic model param0.50.60.6-0.80.8
Intermittent access intake day 1-15 change0.73.73.9-2.01.9
Intermittent access intake escalation0.73.94.1-2.01.9
Intermittent access intake escalation 21.01.81.9-1.41.3
Intermitt. access day 1 inactive lever presses0.00.00.0-0.10.1
Intermitt. access day 15 inactive lever presses0.00.00.0-0.10.2
Intermitt. access escalation Index0.00.10.10.3-0.2
Intermittent access day 1 total infusions0.00.00.00.1-0.0
Intermittent access day 15 total infusions1.02.52.6-1.61.6
Intermittent access terminal intake (last 3 days)0.81.41.5-1.21.2
Intermittent access total infusions1.21.41.4-1.21.2
Intermittent access day 1 locomotion0.00.00.0-0.00.1
Intermittent access day 15 total locomotion0.10.50.5-0.70.6
Intermittent access total locomotion0.10.10.1-0.40.3
Intermittent access standard deviation0.10.30.3-0.60.5
Left kidney weight0.00.10.10.3-0.4
Right kidney weight0.00.00.00.1-0.1
Cocaine induced anxiety0.00.00.00.1-0.1
Post-drug Anxiety0.70.80.8-0.90.9
Baseline Anxiety0.30.40.4-0.60.6
Tail length0.42.02.1-1.41.4
Length with tail0.00.10.10.2-0.4
Length without tail1.26.66.82.5-2.6
Times rat made contact with spout0.60.70.7-0.80.8
Lifetime Intake0.60.80.8-0.90.9
Liver weight, left1.93.33.41.9-1.8
Liver weight, right0.40.70.90.8-0.9
Locomotor activity1.42.12.71.3-1.6
Locomotor testing distance0.10.10.2-0.50.2
Locomotor testing rearing0.10.50.7-0.80.5
Locomotion in novel chamber0.50.60.6-0.80.8
Locomotion in novel chamber post-restriction0.30.90.90.9-0.9
Fecal boli incidents, locomotor time 10.61.51.61.2-1.3
Change in fecal boli incidents, locomotor task0.30.30.40.6-0.5
Time >=10cm from walls, locomotor time 10.60.80.8-0.90.9
Bouts of movement, locomotor time 14.45.75.82.4-2.4
Total resting periods, locomotor time 14.85.65.62.4-2.4
Rest time, locomotor task time 11.62.62.81.7-1.6
Distance moved, locomotor task time 11.23.53.8-1.91.8
Vertical activity count, locomotor time 10.21.31.3-1.11.1
Time >=10cm from walls, locomotor time 20.20.50.50.7-0.6
Bouts of movement, locomotor time 21.55.15.22.2-2.3
Total resting periods, locomotor time 21.45.55.52.3-2.3
Rest time, locomotor task time 20.71.11.31.1-1.0
Distance moved, locomotor task time 22.83.73.9-2.01.9
Vertical activity count, locomotor time 20.20.50.5-0.70.7
Light reinforcement 11.25.45.4-2.32.3
Light reinforcement 20.40.91.2-0.81.1
Bone: marrow area0.00.10.10.3-0.1
Bone: maximum diameter0.30.50.50.7-0.7
Bone: maximum force0.20.50.50.7-0.7
Bone: maximum moment0.10.30.30.5-0.5
Mean time between licks in bursts0.42.22.3-1.41.5
Mean num. licks in bursts0.20.50.5-0.70.7
Cd content in liver1.31.51.51.2-1.2
Co content in liver5.46.46.62.6-2.5
Cu content in liver0.60.70.70.9-0.8
Fe content in liver1.72.12.1-1.41.4
K content in liver1.01.01.0-1.01.0
Mg content in liver2.52.72.9-1.71.6
Mn content in liver2.73.13.4-1.81.7
Na content in liver1.01.11.11.1-1.1
Rb content in liver0.00.10.1-0.30.2
Se content in liver0.91.11.1-1.11.0
Sr content in liver0.00.00.0-0.10.0
Zn content in liver0.00.00.1-0.20.2
Bone: minimum diameter0.10.20.30.5-0.4
Time in familiar zone, hab. session 10.00.00.00.1-0.1
Time in novel zone, hab. session 11.11.21.41.0-1.2
Total zone transitions, hab. session 10.20.30.30.6-0.5
Total locomotion distance, hab. session 10.00.00.0-0.0-0.0
Locomotion velocity, hab. session 10.10.10.1-0.30.3
Time in familiar zone, hab. session 21.92.22.41.5-1.4
Time in novel zone, hab. session 20.80.81.0-1.00.9
Total zone transitions, hab. session 21.51.92.01.4-1.4
Total locomotion distance, hab. session 20.30.40.50.7-0.6
Locomotion velocity, hab. session 20.70.91.01.0-0.9
Novel to familiar place preference ratio1.31.72.0-1.41.2
Novelty place preference1.11.41.6-1.31.1
Time in novel zone, NPP test0.60.70.9-0.90.8
Total zone transitions, NPP test0.10.20.2-0.40.5
Total locomotion distance, NPP test2.53.43.5-1.91.8
Locomotion velocity, NPP test2.33.33.3-1.81.8
Intraocular pressure0.30.50.6-0.70.7
Delta distance traveled before/after self-admin2.32.52.91.4-1.7
Delta ambulatory time before/after self-admin1.52.52.91.5-1.7
Parametrial fat weight2.45.66.0-2.52.3
Pavlov. Cond. lever latency0.00.00.0-0.0-0.0
Pavlov. Cond. magazine entry latency0.00.00.0-0.10.2
Pavlov. Cond. change in total contacts1.11.11.21.1-1.0
Pavlov. Cond. index score0.10.10.10.3-0.3
Pavlov. Cond. latency score0.00.00.00.1-0.1
Pavlov. Cond. lever contacts0.00.00.0-0.00.1
Pavlov. Cond. magazine entry number0.30.40.5-0.70.6
Pavlov. Cond. intertrial magazine entries0.10.10.1-0.30.3
Pavlov. Cond. lever-magazine prob. diff.0.20.20.20.5-0.4
Pavlov. Cond. response bias0.10.20.20.4-0.4
Pavlov. Cond. lever latency0.30.40.4-0.60.7
Pavlov. Cond. magazine entry latency0.00.00.1-0.20.3
Pavlov. Cond. change in total contacts0.71.81.91.3-1.4
Pavlov. Cond. index score0.30.50.50.7-0.7
Pavlov. Cond. latency score0.20.40.50.7-0.6
Pavlov. Cond. lever contacts0.10.20.20.4-0.4
Pavlov. Cond. magazine entry number0.00.00.00.0-0.1
Pavlov. Cond. intertrial magazine entries3.67.88.1-2.72.9
Pavlov. Cond. lever-magazine prob. diff.0.40.70.70.8-0.8
Pavlov. Cond. response bias0.20.20.30.5-0.5
Time in closed arm before self-admin0.91.51.71.3-1.1
Time in closed arm after self-admin0.00.00.00.1-0.0
Time in open arm before self-admin0.00.00.00.1-0.2
Time in open arm after self-admin0.00.00.0-0.2-0.1
Bone: periosteal estimation0.00.10.10.3-0.1
Bone: periosteal perimeter0.00.00.00.1-0.1
Bone: post-yield work0.20.30.4-0.60.5
Progressive ratio test 1 active lever presses0.10.10.20.4-0.3
Progressive ratio test 1 breakpoint0.10.20.20.5-0.4
Progressive ratio test 1 inactive lever presses0.41.11.2-1.01.1
Progressive ratio test 2 active lever presses0.00.00.0-0.20.2
Progressive ratio test 2 breakpoint0.00.00.0-0.20.1
Progressive ratio test 2 inactive lever presses0.10.40.4-0.60.6
Incentive Sensitization - Responses0.10.40.4-0.60.6
Incentive Sensitization - Breakpoint0.20.50.5-0.70.7
Sum of active levers in priming session hrs 5-60.00.00.1-0.30.1
Progressive ratio0.00.00.00.1-0.1
Food seeking constrained by brief footshock2.32.93.11.8-1.6
Seeking ratio, punishment vs. effort0.51.11.11.0-1.0
Retroperitoneal fat weight0.10.60.6-0.80.8
Reaction time number correct0.20.70.80.8-0.9
Reaction time mean minus median0.00.20.30.5-0.3
Reaction time mean minus median AUC0.00.10.20.5-0.3
Reaction time num false alarms0.00.00.00.1-0.1
Reaction time num false alarms AUC0.00.00.00.1-0.1
Reaction time trials correct on left0.20.70.80.8-0.9
Reaction time trials on left0.20.50.60.7-0.8
Reaction time mean0.10.30.40.6-0.5
Reaction time mean AUC0.20.60.70.8-0.7
Median of all reaction times0.20.30.30.6-0.5
Reaction time omissions1.62.62.8-1.51.7
Reaction time false alarm rate0.10.20.2-0.40.4
Reaction time premature initiation rate2.03.03.11.8-1.7
Reaction time premature initiations1.34.04.12.0-2.0
Std. dev. reaction times0.10.20.30.6-0.4
Reaction time trials completed0.20.50.60.7-0.8
Reaction time trials AUC0.10.50.50.6-0.7
Run reversals in cocaine runway, females2.62.93.1-1.71.8
Run reversals in cocaine runway, males1.82.02.01.4-1.4
Latency to leave start box in cocaine runway0.30.40.40.7-0.6
Latency to leave start box in cocaine runway, F1.11.41.51.2-1.2
Latency to leave start box in cocaine runway, M0.10.10.1-0.30.3
Std. dev. time between licks in bursts0.71.21.3-1.11.1
Total sessions with >9 infusions0.10.10.10.3-0.2
Short access day 1 total inactive lever presses0.10.20.2-0.40.4
Short access day 10 total inactive lever presses0.00.20.3-0.40.5
Short access day 1 total infusions0.00.10.10.3-0.2
Short access day 10 total infusions0.20.40.40.7-0.6
Short access total infusions0.00.00.10.3-0.2
Short access day 1 locomotion0.61.01.01.0-1.0
Short access day 10 total locomotion0.00.00.0-0.10.1
Short access total locomotion0.10.10.20.4-0.3
One hour access (0.3 mA shock)0.70.91.0-1.00.9
Compulsive drug intake0.60.91.1-1.00.9
One hour access (shock baseline)0.00.00.00.1-0.0
Social response proportion0.00.00.00.1-0.2
Social responses1.52.02.2-1.51.3
Social time0.50.80.9-0.90.9
Soleus weight1.23.73.91.9-2.0
Bone: stiffness0.61.01.01.0-1.0
Tibialis anterior weight8.729.830.25.4-5.5
Time to tail flick, vehicle, before self-admin0.60.70.8-0.90.8
Time to tail flick, vehicle, after self-admin1.32.63.11.8-1.5
Time to tail flick, test, before self-admin2.42.82.8-1.71.7
Time to tail flick, test, after self-admin2.32.42.6-1.51.6
Delta time to tail flick, vehicle, before/after SA0.30.30.40.6-0.5
Delta time to tail flick, test, before/after SA0.00.00.0-0.10.2
Tibia length1.23.43.8-1.72.0
Ambulatory time before self-admin0.20.50.50.7-0.7
Ambulatory time after self-admin3.35.35.62.2-2.4
Bone: tissue strength0.10.10.1-0.30.3
Total heroin consumption0.60.70.80.9-0.8
Bone: trabecular number2.13.94.2-1.92.1
Bone: trabecular spacing2.23.23.41.8-1.8
Bone: trabecular thickness1.01.31.4-1.11.2
Bone: trabecular tissue density1.11.82.11.3-1.4
Water consumed over 24 hours1.01.91.91.4-1.4
Number of responses in last shaping day0.60.80.80.9-0.8