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 3.8e-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 density1.22.12.51.3-1.6
Area under the delay curve0.10.10.1-0.40.3
BMI with tail0.51.61.7-1.31.2
BMI without tail0.00.00.0-0.10.1
Body weight0.62.62.7-1.61.6
Weight adjusted by age1.52.32.3-1.51.5
Bone surface0.71.21.31.0-1.2
Bone volume0.71.21.41.0-1.2
Breakpoint value in progressive ratio session0.20.20.2-0.50.5
Number of licking bursts0.00.00.0-0.10.1
Context. condit. distance diff. score0.80.90.91.0-1.0
Locomotion velocity, session 10.20.20.2-0.50.4
Locomotion distance, session 10.00.00.0-0.0-0.1
Locomotion velocity, session 20.10.10.10.3-0.3
Locomotion distance, session 20.00.00.10.1-0.3
Locomotion velocity, session 30.60.60.7-0.80.8
Locomotion distance, session 30.00.00.00.0-0.1
Stereotopy head waving bouts, day 30.70.80.9-0.81.0
Stereotopy head waving duration, day 32.32.83.1-1.61.8
Locomotion velocity, session 73.74.14.32.0-2.1
Locomotion distance, session 73.13.94.21.9-2.1
Stereotopy head waving bouts, day 71.01.21.4-1.01.2
Stereotopy head waving duration, day 71.72.02.4-1.31.5
Locomotion velocity, session 80.00.00.00.2-0.1
Locomotion distance, session 80.60.90.90.9-1.0
Degree of sensitization distance4.74.84.82.2-2.2
Degree of sensitization stereotypy0.70.70.9-0.71.0
Conditioned locomotion0.10.10.10.3-0.3
Cocaine response after cond. corrected0.40.50.6-0.80.7
Cocaine response after cond. not corrected0.30.40.4-0.70.6
Cocaine response before conditioning0.20.20.30.6-0.3
Saline control response0.10.10.20.4-0.2
Bone: connectivity density2.64.04.41.9-2.1
Bone: cortical apparent density0.00.00.10.1-0.2
Bone: cortical area0.00.00.00.1-0.1
Bone: cortical porosity1.11.21.3-1.11.1
Bone: cortical porosity0.60.60.7-0.80.8
Bone: cortical thickness0.00.00.00.1-0.0
Bone: cortical thickness0.00.00.10.3-0.0
Bone: cortical tissue density0.00.10.10.2-0.3
Condit. Reinf. active minus inactive responses0.80.91.1-1.00.8
Condit. Reinf. active-inactive response ratio2.72.82.9-1.71.7
Condit. Reinf. active responses0.00.10.1-0.30.1
Condit. Reinf. inactive responses2.53.03.21.7-1.8
Incentive salience index mean1.21.51.8-1.31.0
Condit. Reinf. lever presses0.60.91.2-1.10.7
Condit. Reinf. active minus inactive responses0.50.60.91.0-0.6
Condit. Reinf. active-inactive response ratio0.10.10.1-0.10.4
Condit. Reinf. active responses1.21.62.11.4-1.1
Condit. Reinf. inactive responses2.22.82.91.7-1.6
Condit. Reinf. lever presses0.30.40.40.7-0.5
Condit. Reinf. lever reinforcers received0.91.31.71.3-0.9
Conditioned reinforcement - actives1.01.71.71.3-1.3
Conditioned reinforcement - inactives3.04.44.52.1-2.1
Conditioned locomotion0.10.20.20.4-0.4
Patch foraging indifference point 0 sec1.93.64.32.1-1.7
Patch foraging indifference point AUC0.20.30.3-0.60.6
Delay disc. indifference point, 0s delay0.20.20.20.5-0.5
Delay disc. indifference point, 16s delay0.20.20.20.4-0.4
Delay disc. indifference point, 2s delay1.51.71.7-1.31.3
Delay disc. indifference point, 24s delay0.20.30.3-0.50.5
Delay disc. indifference point, 4s delay1.92.02.0-1.41.4
Delay disc. indifference point, 8s delay0.00.00.00.1-0.1
Indifference point function ln k0.00.00.00.10.0
Indifference point function log k0.00.00.00.10.0
Patch foraging total patch changes 0 sec1.42.73.21.8-1.4
Patch foraging total patch changes 12 sec0.70.91.11.0-0.9
Patch foraging total patch changes 18 sec1.42.12.31.5-1.4
Patch foraging total patch changes 24 sec0.00.00.0-0.00.2
Patch foraging total patch changes 6 sec0.30.40.50.7-0.6
Patch foraging time to switch 0 sec0.40.91.00.9-1.0
Patch foraging water rate 0 sec0.20.40.4-0.60.7
Patch foraging water rate 12 sec0.40.91.0-0.91.0
Patch foraging water rate 18 sec2.23.43.6-1.81.9
Patch foraging water rate 24 sec0.00.10.1-0.20.2
Patch foraging water rate 6 sec1.92.72.7-1.71.6
Seeking ratio, delayed vs. immediate footshock1.31.61.61.3-1.2
Distance traveled before self-admin0.81.11.2-1.11.0
Distance traveled after self-admin2.02.52.8-1.51.7
Extensor digitorum longus weight13.653.453.7-7.37.3
Bone: elastic displacement0.30.40.40.6-0.6
Bone: elastic work0.20.20.20.5-0.5
Bone: endosteal estimation0.10.10.2-0.40.2
Bone: endosteal perimeter0.00.10.1-0.30.1
Epididymis fat weight0.72.42.61.5-1.6
Delta time in closed arm before/after self-admin4.13.84.02.0-1.9
Delta time in open arm before/after self-admin0.00.00.1-0.20.2
Diff in mean of infusions in LGA sessions1.51.82.0-1.41.3
Delay discount exponential model param0.50.50.50.7-0.7
Extinction: sum of active levers before priming2.02.32.41.6-1.4
Active lever presses in extinction session 60.20.20.20.4-0.4
Bone: final force0.10.20.2-0.50.4
Bone: final moment0.10.10.2-0.40.3
Food consumed during 24 hour testing period0.20.20.20.5-0.5
Glucose0.00.00.0-0.10.1
Heart weight0.50.70.80.8-0.9
Delay discount hyperbolic model param0.60.60.60.8-0.8
Intermittent access intake day 1-15 change1.83.73.92.0-1.9
Intermittent access intake escalation1.93.94.12.0-1.9
Intermittent access intake escalation 21.51.81.91.4-1.3
Intermitt. access day 1 inactive lever presses0.00.00.00.1-0.1
Intermitt. access day 15 inactive lever presses0.00.00.00.1-0.2
Intermitt. access escalation Index0.10.10.1-0.30.2
Intermittent access day 1 total infusions0.00.00.0-0.10.0
Intermittent access day 15 total infusions1.72.52.61.6-1.6
Intermittent access terminal intake (last 3 days)1.11.41.51.2-1.2
Intermittent access total infusions1.21.41.41.2-1.2
Intermittent access day 1 locomotion0.00.00.00.0-0.1
Intermittent access day 15 total locomotion0.30.50.50.7-0.6
Intermittent access total locomotion0.10.10.10.4-0.3
Intermittent access standard deviation0.10.30.30.6-0.5
Left kidney weight0.00.10.1-0.30.4
Right kidney weight0.00.00.0-0.10.1
Cocaine induced anxiety0.00.00.0-0.10.1
Post-drug Anxiety0.80.80.80.9-0.9
Baseline Anxiety0.40.40.40.6-0.6
Tail length0.52.02.11.4-1.4
Length with tail0.00.10.1-0.20.4
Length without tail2.06.66.8-2.52.6
Times rat made contact with spout0.60.70.70.8-0.8
Lifetime Intake0.70.80.80.9-0.9
Liver weight, left2.03.33.4-1.91.8
Liver weight, right0.40.70.9-0.80.9
Locomotor activity1.42.12.7-1.31.6
Locomotor testing distance0.10.10.20.5-0.2
Locomotor testing rearing0.20.50.70.8-0.5
Locomotion in novel chamber0.50.60.60.8-0.8
Locomotion in novel chamber post-restriction0.50.90.9-0.90.9
Fecal boli incidents, locomotor time 11.01.51.6-1.21.3
Change in fecal boli incidents, locomotor task0.30.30.4-0.60.5
Time >=10cm from walls, locomotor time 10.70.80.80.9-0.9
Bouts of movement, locomotor time 15.15.75.8-2.42.4
Total resting periods, locomotor time 15.05.65.6-2.42.4
Rest time, locomotor task time 12.12.62.8-1.71.6
Distance moved, locomotor task time 12.43.53.81.9-1.8
Vertical activity count, locomotor time 10.51.31.31.1-1.1
Time >=10cm from walls, locomotor time 20.30.50.5-0.70.6
Bouts of movement, locomotor time 23.25.15.2-2.22.3
Total resting periods, locomotor time 23.15.55.5-2.32.3
Rest time, locomotor task time 20.91.11.3-1.11.0
Distance moved, locomotor task time 23.13.73.92.0-1.9
Vertical activity count, locomotor time 20.40.50.50.7-0.7
Light reinforcement 12.25.45.42.3-2.3
Light reinforcement 20.60.91.20.8-1.1
Bone: marrow area0.00.10.1-0.30.1
Bone: maximum diameter0.30.50.5-0.70.7
Bone: maximum force0.30.50.5-0.70.7
Bone: maximum moment0.20.30.3-0.50.5
Mean time between licks in bursts0.92.22.31.4-1.5
Mean num. licks in bursts0.30.50.50.7-0.7
Cd content in liver1.31.51.5-1.21.2
Co content in liver5.56.46.6-2.62.5
Cu content in liver0.60.70.7-0.90.8
Fe content in liver1.72.12.11.4-1.4
K content in liver1.11.01.01.0-1.0
Mg content in liver2.72.72.91.7-1.6
Mn content in liver2.83.13.41.8-1.7
Na content in liver1.11.11.1-1.11.1
Rb content in liver0.00.10.10.3-0.2
Se content in liver0.91.11.11.1-1.0
Sr content in liver0.00.00.00.1-0.0
Zn content in liver0.00.00.10.2-0.2
Bone: minimum diameter0.10.20.3-0.50.4
Time in familiar zone, hab. session 10.00.00.0-0.10.1
Time in novel zone, hab. session 11.21.21.4-1.01.2
Total zone transitions, hab. session 10.20.30.3-0.60.5
Total locomotion distance, hab. session 10.00.00.00.00.0
Locomotion velocity, hab. session 10.10.10.10.3-0.3
Time in familiar zone, hab. session 22.12.22.4-1.51.4
Time in novel zone, hab. session 20.80.81.01.0-0.9
Total zone transitions, hab. session 21.51.92.0-1.41.4
Total locomotion distance, hab. session 20.30.40.5-0.70.6
Locomotion velocity, hab. session 20.70.91.0-1.00.9
Novel to familiar place preference ratio1.61.72.01.4-1.2
Novelty place preference1.31.41.61.3-1.1
Time in novel zone, NPP test0.70.70.90.9-0.8
Total zone transitions, NPP test0.10.20.20.4-0.5
Total locomotion distance, NPP test2.53.43.51.9-1.8
Locomotion velocity, NPP test2.43.33.31.8-1.8
Intraocular pressure0.40.50.60.7-0.7
Delta distance traveled before/after self-admin2.42.52.9-1.41.7
Delta ambulatory time before/after self-admin2.12.52.9-1.51.7
Parametrial fat weight2.45.66.02.5-2.3
Pavlov. Cond. lever latency0.00.00.00.00.0
Pavlov. Cond. magazine entry latency0.00.00.00.1-0.2
Pavlov. Cond. change in total contacts1.11.11.2-1.11.0
Pavlov. Cond. index score0.10.10.1-0.30.3
Pavlov. Cond. latency score0.00.00.0-0.10.1
Pavlov. Cond. lever contacts0.00.00.00.0-0.1
Pavlov. Cond. magazine entry number0.30.40.50.7-0.6
Pavlov. Cond. intertrial magazine entries0.10.10.10.3-0.3
Pavlov. Cond. lever-magazine prob. diff.0.20.20.2-0.50.4
Pavlov. Cond. response bias0.10.20.2-0.40.4
Pavlov. Cond. lever latency0.30.40.40.6-0.7
Pavlov. Cond. magazine entry latency0.00.00.10.2-0.3
Pavlov. Cond. change in total contacts1.11.81.9-1.31.4
Pavlov. Cond. index score0.40.50.5-0.70.7
Pavlov. Cond. latency score0.30.40.5-0.70.6
Pavlov. Cond. lever contacts0.10.20.2-0.40.4
Pavlov. Cond. magazine entry number0.00.00.0-0.00.1
Pavlov. Cond. intertrial magazine entries5.27.88.12.7-2.9
Pavlov. Cond. lever-magazine prob. diff.0.50.70.7-0.80.8
Pavlov. Cond. response bias0.20.20.3-0.50.5
Time in closed arm before self-admin1.21.51.7-1.31.1
Time in closed arm after self-admin0.00.00.0-0.10.0
Time in open arm before self-admin0.00.00.0-0.10.2
Time in open arm after self-admin0.00.00.00.20.1
Bone: periosteal estimation0.00.10.1-0.30.1
Bone: periosteal perimeter0.00.00.0-0.10.1
Bone: post-yield work0.20.30.40.6-0.5
Progressive ratio test 1 active lever presses0.10.10.2-0.40.3
Progressive ratio test 1 breakpoint0.20.20.2-0.50.4
Progressive ratio test 1 inactive lever presses0.71.11.21.0-1.1
Progressive ratio test 2 active lever presses0.00.00.00.2-0.2
Progressive ratio test 2 breakpoint0.00.00.00.2-0.1
Progressive ratio test 2 inactive lever presses0.20.40.40.6-0.6
Incentive Sensitization - Responses0.20.40.40.6-0.6
Incentive Sensitization - Breakpoint0.40.50.50.7-0.7
Sum of active levers in priming session hrs 5-60.00.00.10.3-0.1
Progressive ratio0.00.00.0-0.10.1
Food seeking constrained by brief footshock2.42.93.1-1.81.6
Seeking ratio, punishment vs. effort0.71.11.1-1.01.0
Retroperitoneal fat weight0.10.60.60.8-0.8
Reaction time number correct0.40.70.8-0.80.9
Reaction time mean minus median0.10.20.3-0.50.3
Reaction time mean minus median AUC0.10.10.2-0.50.3
Reaction time num false alarms0.00.00.0-0.10.1
Reaction time num false alarms AUC0.00.00.0-0.10.1
Reaction time trials correct on left0.40.70.8-0.80.9
Reaction time trials on left0.30.50.6-0.70.8
Reaction time mean0.20.30.4-0.60.5
Reaction time mean AUC0.40.60.7-0.80.7
Median of all reaction times0.20.30.3-0.60.5
Reaction time omissions1.82.62.81.5-1.7
Reaction time false alarm rate0.10.20.20.4-0.4
Reaction time premature initiation rate2.23.03.1-1.81.7
Reaction time premature initiations2.34.04.1-2.02.0
Std. dev. reaction times0.10.20.3-0.60.4
Reaction time trials completed0.30.50.6-0.70.8
Reaction time trials AUC0.20.50.5-0.60.7
Run reversals in cocaine runway, females2.92.93.11.7-1.8
Run reversals in cocaine runway, males2.02.02.0-1.41.4
Latency to leave start box in cocaine runway0.40.40.4-0.70.6
Latency to leave start box in cocaine runway, F1.21.41.5-1.21.2
Latency to leave start box in cocaine runway, M0.10.10.10.3-0.3
Std. dev. time between licks in bursts0.91.21.31.1-1.1
Total sessions with >9 infusions0.10.10.1-0.30.2
Short access day 1 total inactive lever presses0.10.20.20.4-0.4
Short access day 10 total inactive lever presses0.10.20.30.4-0.5
Short access day 1 total infusions0.10.10.1-0.30.2
Short access day 10 total infusions0.30.40.4-0.70.6
Short access total infusions0.00.00.1-0.30.2
Short access day 1 locomotion0.81.01.0-1.01.0
Short access day 10 total locomotion0.00.00.00.1-0.1
Short access total locomotion0.10.10.2-0.40.3
One hour access (0.3 mA shock)0.80.91.01.0-0.9
Compulsive drug intake0.80.91.11.0-0.9
One hour access (shock baseline)0.00.00.0-0.10.0
Social response proportion0.00.00.0-0.10.2
Social responses1.52.02.21.5-1.3
Social time0.60.80.90.9-0.9
Soleus weight1.23.73.9-1.92.0
Bone: stiffness0.61.01.0-1.01.0
Tibialis anterior weight8.829.830.2-5.45.5
Time to tail flick, vehicle, before self-admin0.70.70.80.9-0.8
Time to tail flick, vehicle, after self-admin2.02.63.1-1.81.5
Time to tail flick, test, before self-admin2.72.82.81.7-1.7
Time to tail flick, test, after self-admin2.42.42.61.5-1.6
Delta time to tail flick, vehicle, before/after SA0.30.30.4-0.60.5
Delta time to tail flick, test, before/after SA0.00.00.00.1-0.2
Tibia length1.23.43.81.7-2.0
Ambulatory time before self-admin0.30.50.5-0.70.7
Ambulatory time after self-admin4.55.35.6-2.22.4
Bone: tissue strength0.10.10.10.3-0.3
Total heroin consumption0.60.70.8-0.90.8
Bone: trabecular number2.43.94.21.9-2.1
Bone: trabecular spacing2.43.23.4-1.81.8
Bone: trabecular thickness1.11.31.41.1-1.2
Bone: trabecular tissue density1.31.82.1-1.31.4
Water consumed over 24 hours1.41.91.9-1.41.4
Number of responses in last shaping day0.70.80.8-0.90.8