Hoxb3

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 isoform ratio XM_039086075.1 0.02 0.02 7.6e-03 0.02 0.02 0.02 0.02 3.1e-03 7.5e-03 9.1e-03 7.0e-03
2 Adipose mRNA stability Hoxb3 0.06 0.06 1.4e-03 0.02 0 0.01 -0 2.6e-03 8.9e-02 3.3e-02 7.2e-01
3 Adipose gene expression Hoxb3 0.11 0.09 7.7e-10 0.07 0.06 0.08 0.08 6.0e-08 7.5e-07 6.9e-09 6.7e-09
4 NAcc alternative TSS XM_017597314.2 0.07 0.07 6.4e-03 0.02 0.01 0.02 0.02 9.7e-04 1.7e-02 1.7e-03 2.2e-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 density1.52.42.71.61.6-1.61.4
Area under the delay curve0.20.20.30.10.10.5-0.6
BMI with tail16.051.961.47.87.8-6.86.3
BMI without tail1.12.22.71.31.4-1.61.6
Body weight0.93.85.52.32.3-1.51.4
Weight adjusted by age0.40.50.9-0.1-0.30.9-1.0
Bone surface0.40.71.11.01.0-0.80.5
Bone volume1.12.02.11.41.4-1.51.2
Breakpoint value in progressive ratio session4.04.45.6-1.9-2.02.1-2.4
Number of licking bursts0.50.51.1-1.0-0.90.4-0.3
Context. condit. distance diff. score0.70.91.61.31.2-0.50.5
Locomotion velocity, session 10.20.30.6-0.1-0.1-0.70.8
Locomotion distance, session 13.54.56.1-2.5-2.41.7-1.7
Locomotion velocity, session 21.01.21.6-1.2-1.31.0-0.9
Locomotion distance, session 24.76.59.5-3.0-3.12.0-2.0
Locomotion velocity, session 30.20.20.50.70.50.1-0.1
Locomotion distance, session 32.12.33.5-1.1-1.21.9-1.8
Stereotopy head waving bouts, day 34.45.15.92.32.1-2.42.2
Stereotopy head waving duration, day 33.44.04.52.11.9-2.11.9
Locomotion velocity, session 71.11.21.5-1.1-0.91.1-1.2
Locomotion distance, session 75.16.57.0-2.6-2.52.5-2.5
Stereotopy head waving bouts, day 70.40.50.60.70.5-0.80.8
Stereotopy head waving duration, day 70.20.20.30.50.3-0.50.5
Locomotion velocity, session 80.20.30.40.60.6-0.50.2
Locomotion distance, session 80.50.70.9-0.8-0.80.9-0.9
Degree of sensitization distance0.00.00.1-0.3-0.1-0.1-0.1
Degree of sensitization stereotypy0.20.20.4-0.5-0.70.3-0.2
Conditioned locomotion1.41.72.41.51.4-1.21.0
Cocaine response after cond. corrected5.86.56.92.52.6-2.62.5
Cocaine response after cond. not corrected3.33.74.11.92.0-1.91.9
Cocaine response before conditioning2.63.13.5-1.9-1.81.7-1.7
Saline control response0.20.20.50.40.50.2-0.7
Bone: connectivity density0.30.40.70.80.9-0.40.2
Bone: cortical apparent density6.18.09.5-2.7-2.62.9-3.1
Bone: cortical area0.30.40.80.90.9-0.20.1
Bone: cortical porosity0.50.50.70.70.7-0.60.9
Bone: cortical porosity0.40.40.60.50.6-0.60.8
Bone: cortical thickness0.20.30.50.50.40.5-0.7
Bone: cortical thickness0.91.01.9-0.6-0.71.1-1.4
Bone: cortical tissue density6.68.710.0-2.8-2.83.0-3.2
Condit. Reinf. active minus inactive responses0.70.81.4-1.2-1.20.4-0.3
Condit. Reinf. active-inactive response ratio0.10.10.30.1-0.0-0.40.5
Condit. Reinf. active responses0.70.91.6-1.2-1.30.4-0.4
Condit. Reinf. inactive responses0.70.91.2-1.1-1.10.7-0.8
Incentive salience index mean1.31.52.6-1.6-1.60.7-0.5
Condit. Reinf. lever presses1.82.43.6-1.9-1.91.2-1.0
Condit. Reinf. active minus inactive responses0.10.10.3-0.3-0.1-0.30.6
Condit. Reinf. active-inactive response ratio0.30.30.7-0.3-0.2-0.60.9
Condit. Reinf. active responses0.00.00.1-0.20.00.10.2
Condit. Reinf. inactive responses0.10.20.30.00.20.5-0.6
Condit. Reinf. lever presses0.50.71.2-0.7-0.71.1-0.8
Condit. Reinf. lever reinforcers received0.00.00.1-0.30.00.3-0.1
Conditioned reinforcement - actives0.70.71.9-0.30.1-0.91.4
Conditioned reinforcement - inactives0.20.30.8-0.00.30.5-0.9
Conditioned locomotion2.53.07.50.40.6-1.92.7
Patch foraging indifference point 0 sec1.11.82.51.61.3-1.11.3
Patch foraging indifference point AUC0.10.10.2-0.1-0.20.4-0.4
Delay disc. indifference point, 0s delay0.50.61.20.20.21.0-1.1
Delay disc. indifference point, 16s delay0.80.81.31.11.1-0.60.4
Delay disc. indifference point, 2s delay0.10.10.1-0.0-0.10.4-0.3
Delay disc. indifference point, 24s delay0.60.60.6-0.8-0.80.8-0.7
Delay disc. indifference point, 4s delay2.12.23.9-0.8-0.91.9-2.0
Delay disc. indifference point, 8s delay0.10.10.2-0.1-0.10.5-0.4
Indifference point function ln k0.00.00.1-0.2-0.20.20.2
Indifference point function log k0.00.00.1-0.2-0.20.20.2
Patch foraging total patch changes 0 sec1.22.02.91.71.4-1.11.3
Patch foraging total patch changes 12 sec0.10.20.20.50.4-0.30.5
Patch foraging total patch changes 18 sec2.12.63.51.91.8-1.31.4
Patch foraging total patch changes 24 sec1.31.62.01.21.1-1.41.3
Patch foraging total patch changes 6 sec1.01.42.01.41.2-0.91.2
Patch foraging time to switch 0 sec0.00.10.1-0.3-0.2-0.30.3
Patch foraging water rate 0 sec1.32.03.31.81.6-1.11.0
Patch foraging water rate 12 sec0.30.51.01.00.90.3-0.3
Patch foraging water rate 18 sec0.20.30.70.1-0.20.6-0.8
Patch foraging water rate 24 sec1.01.42.21.51.2-1.00.9
Patch foraging water rate 6 sec0.10.10.10.40.3-0.0-0.4
Seeking ratio, delayed vs. immediate footshock1.11.32.61.41.6-0.60.3
Distance traveled before self-admin1.11.11.8-1.3-1.30.9-0.6
Distance traveled after self-admin0.80.82.30.50.6-0.71.5
Extensor digitorum longus weight0.52.03.71.91.9-0.50.7
Bone: elastic displacement0.10.10.30.10.1-0.50.5
Bone: elastic work0.00.00.00.10.10.00.2
Bone: endosteal estimation0.20.40.60.40.5-0.70.8
Bone: endosteal perimeter0.30.71.10.60.7-0.91.1
Epididymis fat weight0.10.30.80.70.90.00.2
Delta time in closed arm before/after self-admin0.10.10.10.20.30.3-0.0
Delta time in open arm before/after self-admin0.10.10.30.1-0.20.4-0.5
Diff in mean of infusions in LGA sessions1.21.31.9-1.4-1.30.8-1.0
Delay discount exponential model param0.20.20.40.00.0-0.60.6
Extinction: sum of active levers before priming1.01.01.4-0.8-0.81.2-1.1
Active lever presses in extinction session 60.10.10.20.20.1-0.30.4
Bone: final force0.20.30.40.60.7-0.50.5
Bone: final moment0.30.50.60.70.8-0.60.6
Food consumed during 24 hour testing period1.92.32.9-1.6-1.71.5-1.3
Glucose0.71.01.41.21.0-1.00.8
Heart weight1.62.32.71.51.6-1.61.4
Delay discount hyperbolic model param0.30.30.70.10.1-0.80.8
Intermittent access intake day 1-15 change2.02.03.11.11.0-1.61.8
Intermittent access intake escalation1.71.73.30.80.7-1.51.8
Intermittent access intake escalation 21.41.42.20.80.8-1.51.4
Intermitt. access day 1 inactive lever presses0.10.10.40.10.30.3-0.7
Intermitt. access day 15 inactive lever presses1.11.22.21.31.5-0.80.4
Intermitt. access escalation Index1.00.92.0-0.3-0.5-1.11.4
Intermittent access day 1 total infusions0.70.81.2-1.1-0.90.9-0.5
Intermittent access day 15 total infusions0.30.30.4-0.7-0.5-0.20.6
Intermittent access terminal intake (last 3 days)0.10.10.2-0.3-0.1-0.30.4
Intermittent access total infusions0.00.00.1-0.3-0.10.10.1
Intermittent access day 1 locomotion1.31.32.6-1.6-1.50.6-0.4
Intermittent access day 15 total locomotion0.30.30.4-0.5-0.5-0.50.6
Intermittent access total locomotion0.50.61.1-0.7-0.6-0.61.0
Intermittent access standard deviation1.71.82.81.11.0-1.71.5
Left kidney weight0.00.00.10.20.20.1-0.2
Right kidney weight0.41.21.61.31.2-0.91.0
Cocaine induced anxiety0.10.10.10.30.4-0.40.3
Post-drug Anxiety0.60.60.7-0.9-0.80.6-0.8
Baseline Anxiety0.00.00.1-0.0-0.30.1-0.3
Tail length14.343.252.5-7.2-7.26.2-5.6
Length with tail7.226.527.8-5.3-5.35.2-4.9
Length without tail0.10.30.40.40.40.6-0.6
Times rat made contact with spout0.50.61.1-1.0-1.00.3-0.3
Lifetime Intake0.10.10.3-0.5-0.50.3-0.1
Liver weight, left0.81.31.3-1.2-1.11.2-1.1
Liver weight, right0.71.12.2-0.6-0.61.3-1.5
Locomotor activity0.30.50.80.60.6-0.90.7
Locomotor testing distance0.71.21.51.01.0-1.21.1
Locomotor testing rearing0.10.20.30.50.6-0.3-0.0
Locomotion in novel chamber0.30.41.0-0.1-0.00.8-1.0
Locomotion in novel chamber post-restriction1.92.32.71.61.5-1.31.6
Fecal boli incidents, locomotor time 12.73.04.11.61.5-2.01.7
Change in fecal boli incidents, locomotor task2.01.82.8-1.2-1.11.7-1.4
Time >=10cm from walls, locomotor time 10.10.10.3-0.10.00.6-0.5
Bouts of movement, locomotor time 10.20.20.50.50.7-0.30.1
Total resting periods, locomotor time 10.40.50.90.81.0-0.50.3
Rest time, locomotor task time 10.20.20.30.30.2-0.50.5
Distance moved, locomotor task time 11.71.92.7-1.6-1.61.1-1.0
Vertical activity count, locomotor time 10.30.30.4-0.6-0.70.6-0.4
Time >=10cm from walls, locomotor time 20.40.40.7-0.5-0.60.8-0.7
Bouts of movement, locomotor time 20.10.10.10.30.3-0.40.3
Total resting periods, locomotor time 20.10.10.20.40.4-0.40.3
Rest time, locomotor task time 20.91.11.7-0.8-0.91.1-1.3
Distance moved, locomotor task time 20.10.10.2-0.4-0.40.3-0.1
Vertical activity count, locomotor time 20.10.10.4-0.0-0.1-0.10.6
Light reinforcement 10.20.30.60.10.2-0.80.7
Light reinforcement 20.30.40.7-0.9-0.8-0.00.2
Bone: marrow area0.10.20.40.30.4-0.50.6
Bone: maximum diameter0.30.60.70.80.8-0.80.8
Bone: maximum force0.61.11.51.21.2-0.80.8
Bone: maximum moment0.71.31.81.31.3-0.90.9
Mean time between licks in bursts0.60.81.61.11.3-0.40.5
Mean num. licks in bursts0.00.00.10.20.10.2-0.3
Cd content in liver0.40.40.9-0.2-0.30.7-0.9
Co content in liver0.00.00.10.20.2-0.30.1
Cu content in liver5.76.911.1-3.3-3.31.8-1.6
Fe content in liver1.51.82.0-1.4-1.41.3-1.4
K content in liver0.30.30.5-0.7-0.6-0.50.3
Mg content in liver1.41.42.3-1.5-1.40.8-1.0
Mn content in liver3.53.95.1-2.2-2.31.7-1.7
Na content in liver0.70.70.9-0.8-0.6-1.01.0
Rb content in liver0.10.10.3-0.3-0.20.3-0.6
Se content in liver0.20.30.40.50.4-0.70.4
Sr content in liver1.31.21.9-0.9-0.91.4-1.0
Zn content in liver0.00.00.1-0.0-0.0-0.30.2
Bone: minimum diameter0.00.00.10.10.3-0.20.2
Time in familiar zone, hab. session 10.30.30.6-0.1-0.10.7-0.8
Time in novel zone, hab. session 12.52.43.41.31.2-1.81.8
Total zone transitions, hab. session 16.59.19.5-3.1-3.03.0-3.0
Total locomotion distance, hab. session 13.24.65.7-2.4-2.21.9-2.0
Locomotion velocity, hab. session 14.15.87.1-2.7-2.52.2-2.3
Time in familiar zone, hab. session 20.80.81.31.11.1-0.70.6
Time in novel zone, hab. session 20.10.10.1-0.3-0.30.3-0.2
Total zone transitions, hab. session 23.34.36.2-2.5-2.41.6-1.5
Total locomotion distance, hab. session 20.50.71.4-1.2-1.10.2-0.1
Locomotion velocity, hab. session 20.70.91.8-1.4-1.30.3-0.2
Novel to familiar place preference ratio0.50.51.0-0.3-0.30.9-1.0
Novelty place preference0.60.61.3-0.2-0.31.0-1.1
Time in novel zone, NPP test0.40.51.0-0.1-0.10.9-1.0
Total zone transitions, NPP test4.76.78.7-2.9-2.92.2-2.1
Total locomotion distance, NPP test1.21.62.4-1.5-1.51.0-0.9
Locomotion velocity, NPP test1.72.53.3-1.8-1.81.3-1.2
Intraocular pressure1.21.72.6-1.1-1.01.6-1.4
Delta distance traveled before/after self-admin2.72.93.71.71.8-1.31.9
Delta ambulatory time before/after self-admin2.83.03.81.71.8-1.52.0
Parametrial fat weight0.00.10.1-0.4-0.40.10.1
Pavlov. Cond. lever latency1.31.71.81.31.3-1.31.2
Pavlov. Cond. magazine entry latency0.10.10.3-0.5-0.40.2-0.0
Pavlov. Cond. change in total contacts3.03.23.9-2.0-2.01.7-1.6
Pavlov. Cond. index score0.70.91.3-1.1-1.00.9-0.6
Pavlov. Cond. latency score0.81.01.4-1.2-1.00.9-0.7
Pavlov. Cond. lever contacts2.22.52.8-1.7-1.71.6-1.4
Pavlov. Cond. magazine entry number0.30.40.60.80.7-0.60.4
Pavlov. Cond. intertrial magazine entries0.70.91.1-1.0-1.00.8-0.9
Pavlov. Cond. lever-magazine prob. diff.0.60.81.1-1.0-0.90.8-0.6
Pavlov. Cond. response bias0.60.70.8-0.9-0.90.9-0.7
Pavlov. Cond. lever latency1.11.52.3-1.5-1.31.0-0.9
Pavlov. Cond. magazine entry latency0.60.71.2-0.9-1.10.7-0.6
Pavlov. Cond. change in total contacts0.30.40.50.70.6-0.50.6
Pavlov. Cond. index score0.20.30.40.60.4-0.60.6
Pavlov. Cond. latency score0.10.10.20.30.1-0.40.4
Pavlov. Cond. lever contacts0.81.01.51.21.0-0.90.8
Pavlov. Cond. magazine entry number0.00.00.0-0.10.10.0-0.1
Pavlov. Cond. intertrial magazine entries1.41.92.5-1.2-1.11.5-1.6
Pavlov. Cond. lever-magazine prob. diff.0.30.40.50.70.5-0.70.7
Pavlov. Cond. response bias0.60.81.01.00.9-0.90.8
Time in closed arm before self-admin2.52.94.81.92.2-1.51.0
Time in closed arm after self-admin2.22.24.41.82.1-0.90.7
Time in open arm before self-admin0.40.40.7-0.6-0.60.9-0.1
Time in open arm after self-admin0.50.51.0-0.4-0.81.0-0.6
Bone: periosteal estimation0.40.81.00.91.0-0.80.8
Bone: periosteal perimeter0.71.21.91.31.4-0.80.8
Bone: post-yield work0.40.61.21.01.1-0.40.1
Progressive ratio test 1 active lever presses0.60.61.1-1.0-0.90.7-0.2
Progressive ratio test 1 breakpoint0.80.81.3-1.1-1.00.9-0.4
Progressive ratio test 1 inactive lever presses0.10.10.30.40.5-0.10.1
Progressive ratio test 2 active lever presses0.30.30.7-0.8-0.50.6-0.1
Progressive ratio test 2 breakpoint0.10.10.3-0.5-0.10.4-0.0
Progressive ratio test 2 inactive lever presses0.10.10.20.20.50.2-0.4
Incentive Sensitization - Responses0.10.10.40.20.6-0.10.2
Incentive Sensitization - Breakpoint0.30.30.70.40.8-0.30.5
Sum of active levers in priming session hrs 5-64.84.65.7-2.4-2.31.9-1.9
Progressive ratio0.20.20.50.50.4-0.1-0.7
Food seeking constrained by brief footshock0.30.40.9-0.00.2-0.80.9
Seeking ratio, punishment vs. effort0.50.60.9-1.0-0.90.20.8
Retroperitoneal fat weight0.41.21.71.01.0-1.11.3
Reaction time number correct0.81.12.61.31.60.1-0.5
Reaction time mean minus median1.62.13.6-1.7-1.91.2-0.6
Reaction time mean minus median AUC2.12.74.5-2.0-2.11.3-0.7
Reaction time num false alarms0.70.91.6-1.3-1.20.7-0.3
Reaction time num false alarms AUC0.71.01.6-1.3-1.30.7-0.4
Reaction time trials correct on left0.81.12.61.31.60.1-0.5
Reaction time trials on left0.71.12.41.31.60.1-0.5
Reaction time mean0.81.12.1-1.4-1.40.50.2
Reaction time mean AUC1.01.32.5-1.5-1.60.60.2
Median of all reaction times0.30.50.8-0.9-0.8-0.10.6
Reaction time omissions0.71.01.8-1.3-1.30.5-0.1
Reaction time false alarm rate1.11.53.2-1.6-1.80.50.0
Reaction time premature initiation rate0.40.50.8-0.5-0.90.8-0.5
Reaction time premature initiations0.30.40.90.0-0.11.0-0.8
Std. dev. reaction times1.42.03.6-1.8-1.91.0-0.3
Reaction time trials completed0.71.12.41.31.60.1-0.5
Reaction time trials AUC0.81.12.51.31.60.2-0.5
Run reversals in cocaine runway, females0.20.20.3-0.5-0.40.5-0.2
Run reversals in cocaine runway, males1.31.31.91.41.4-0.80.9
Latency to leave start box in cocaine runway4.34.66.32.52.4-1.91.6
Latency to leave start box in cocaine runway, F6.57.19.43.13.0-2.42.2
Latency to leave start box in cocaine runway, M0.30.30.70.40.3-0.90.5
Std. dev. time between licks in bursts1.01.21.80.90.9-1.21.4
Total sessions with >9 infusions0.70.81.3-1.1-1.1-0.20.8
Short access day 1 total inactive lever presses2.02.25.6-0.3-0.11.8-2.4
Short access day 10 total inactive lever presses0.60.71.10.81.00.6-1.0
Short access day 1 total infusions0.10.10.2-0.2-0.40.3-0.2
Short access day 10 total infusions0.20.20.4-0.3-0.2-0.40.6
Short access total infusions0.00.00.0-0.1-0.2-0.00.1
Short access day 1 locomotion0.50.51.0-0.2-0.1-1.01.0
Short access day 10 total locomotion0.91.01.4-1.2-1.1-0.80.9
Short access total locomotion0.70.71.2-0.6-0.5-1.11.0
One hour access (0.3 mA shock)0.50.60.9-0.8-0.61.0-0.7
Compulsive drug intake7.47.58.9-2.7-2.63.0-2.7
One hour access (shock baseline)2.12.43.21.21.3-1.81.8
Social response proportion1.81.93.2-1.7-1.80.9-0.8
Social responses0.00.00.1-0.2-0.20.1-0.3
Social time0.00.00.00.00.2-0.0-0.1
Soleus weight1.44.05.12.12.3-1.91.7
Bone: stiffness0.10.10.30.50.5-0.10.1
Tibialis anterior weight0.20.71.5-0.5-0.41.2-0.9
Time to tail flick, vehicle, before self-admin2.22.34.0-1.3-1.31.4-2.0
Time to tail flick, vehicle, after self-admin0.50.51.00.91.0-0.40.5
Time to tail flick, test, before self-admin0.20.20.30.50.5-0.5-0.0
Time to tail flick, test, after self-admin0.20.20.40.60.6-0.20.2
Delta time to tail flick, vehicle, before/after SA2.82.83.61.81.9-1.31.6
Delta time to tail flick, test, before/after SA0.30.30.5-0.5-0.70.6-0.2
Tibia length0.51.42.21.31.5-1.00.9
Ambulatory time before self-admin0.50.50.8-0.9-0.90.7-0.3
Ambulatory time after self-admin1.31.43.20.80.9-0.91.8
Bone: tissue strength0.70.71.41.11.2-0.30.4
Total heroin consumption1.31.52.7-0.9-0.81.4-1.6
Bone: trabecular number0.40.61.10.50.6-1.00.9
Bone: trabecular spacing0.00.00.0-0.0-0.00.10.0
Bone: trabecular thickness2.53.04.52.12.0-1.31.3
Bone: trabecular tissue density0.00.00.1-0.1-0.20.3-0.2
Water consumed over 24 hours0.20.20.4-0.2-0.40.5-0.6
Number of responses in last shaping day1.31.32.81.71.6-0.30.0