Hub : Genes

Hoxb4

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 Hoxb4 0.02 0.01 2.8e-03 0.01 0.01 0.01 0.01 1.3e-02 7.9e-03 2.0e-02 2.3e-02
2 Adipose gene expression Hoxb4 0.1 0.07 7.6e-07 0.05 0.03 0.05 0.02 3.3e-06 1.2e-04 4.5e-06 3.1e-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 density2.03.54.11.7-2.0
Area under the delay curve0.30.40.5-0.50.7
BMI with tail18.162.570.98.4-7.4
BMI without tail1.34.04.82.2-1.8
Body weight1.25.45.82.4-2.2
Weight adjusted by age0.50.81.2-0.71.1
Bone surface0.71.31.61.0-1.3
Bone volume1.93.34.01.6-2.0
Breakpoint value in progressive ratio session2.42.93.2-1.81.6
Number of licking bursts0.20.30.5-0.70.3
Context. condit. distance diff. score0.40.50.80.9-0.5
Locomotion velocity, session 10.10.10.20.2-0.5
Locomotion distance, session 13.44.25.2-2.31.8
Locomotion velocity, session 21.21.41.4-1.21.1
Locomotion distance, session 24.46.17.5-2.72.2
Locomotion velocity, session 30.10.10.10.3-0.0
Locomotion distance, session 32.62.83.4-1.51.9
Stereotopy head waving bouts, day 34.95.75.82.4-2.4
Stereotopy head waving duration, day 33.84.54.62.1-2.2
Locomotion velocity, session 71.41.51.6-1.21.2
Locomotion distance, session 75.77.28.2-2.92.5
Stereotopy head waving bouts, day 70.30.40.40.6-0.7
Stereotopy head waving duration, day 70.20.30.30.6-0.5
Locomotion velocity, session 80.20.20.40.6-0.0
Locomotion distance, session 80.71.11.1-1.01.1
Degree of sensitization distance0.00.00.1-0.30.0
Degree of sensitization stereotypy0.10.10.1-0.40.2
Conditioned locomotion1.21.31.71.3-1.0
Cocaine response after cond. corrected5.66.87.12.7-2.5
Cocaine response after cond. not corrected3.03.53.71.9-1.8
Cocaine response before conditioning2.83.33.7-1.91.7
Saline control response0.30.40.7-0.50.8
Bone: connectivity density0.30.40.50.6-0.7
Bone: cortical apparent density7.29.911.3-2.93.4
Bone: cortical area0.20.30.40.6-0.5
Bone: cortical porosity0.20.20.30.5-0.4
Bone: cortical porosity0.40.40.50.7-0.6
Bone: cortical thickness0.10.20.5-0.10.7
Bone: cortical thickness0.70.81.0-1.00.8
Bone: cortical tissue density7.910.712.1-3.13.5
Condit. Reinf. active minus inactive responses0.40.40.8-0.90.3
Condit. Reinf. active-inactive response ratio0.20.20.30.2-0.6
Condit. Reinf. active responses0.40.40.8-0.90.2
Condit. Reinf. inactive responses0.60.70.9-0.90.7
Incentive salience index mean0.80.91.6-1.30.5
Condit. Reinf. lever presses1.21.72.4-1.51.0
Condit. Reinf. active minus inactive responses0.00.00.1-0.1-0.3
Condit. Reinf. active-inactive response ratio0.20.20.40.1-0.7
Condit. Reinf. active responses0.00.00.0-0.20.1
Condit. Reinf. inactive responses0.30.30.6-0.40.7
Condit. Reinf. lever presses0.81.11.5-0.81.2
Condit. Reinf. lever reinforcers received0.10.20.2-0.40.4
Conditioned reinforcement - actives0.10.20.4-0.2-0.6
Conditioned reinforcement - inactives0.00.00.0-0.1-0.1
Conditioned locomotion1.62.12.81.2-1.7
Patch foraging indifference point 0 sec0.91.71.81.3-1.3
Patch foraging indifference point AUC0.20.30.4-0.30.6
Delay disc. indifference point, 0s delay0.80.81.1-0.71.1
Delay disc. indifference point, 16s delay0.50.50.70.9-0.6
Delay disc. indifference point, 2s delay0.10.10.1-0.40.3
Delay disc. indifference point, 24s delay0.30.40.5-0.70.5
Delay disc. indifference point, 4s delay3.23.43.8-1.72.0
Delay disc. indifference point, 8s delay0.10.10.2-0.30.4
Indifference point function ln k0.00.00.0-0.10.0
Indifference point function log k0.00.00.0-0.10.0
Patch foraging total patch changes 0 sec0.91.71.81.3-1.3
Patch foraging total patch changes 12 sec0.00.00.00.0-0.1
Patch foraging total patch changes 18 sec1.21.81.91.4-1.3
Patch foraging total patch changes 24 sec0.91.52.01.0-1.4
Patch foraging total patch changes 6 sec0.50.70.91.0-0.7
Patch foraging time to switch 0 sec0.00.10.2-0.1-0.4
Patch foraging water rate 0 sec0.91.82.41.6-1.1
Patch foraging water rate 12 sec0.10.20.30.40.5
Patch foraging water rate 18 sec0.10.20.2-0.30.5
Patch foraging water rate 24 sec0.71.01.41.2-0.8
Patch foraging water rate 6 sec0.00.00.00.00.1
Seeking ratio, delayed vs. immediate footshock0.91.11.71.3-0.6
Distance traveled before self-admin0.30.40.8-0.90.2
Distance traveled after self-admin0.20.30.40.4-0.6
Extensor digitorum longus weight0.31.12.11.4-0.4
Bone: elastic displacement0.20.20.20.4-0.5
Bone: elastic work0.00.00.00.0-0.0
Bone: endosteal estimation0.40.81.20.6-1.1
Bone: endosteal perimeter0.91.92.71.1-1.6
Epididymis fat weight0.10.50.60.8-0.6
Delta time in closed arm before/after self-admin0.10.10.10.40.2
Delta time in open arm before/after self-admin1.41.41.5-1.21.2
Diff in mean of infusions in LGA sessions0.50.61.2-1.10.2
Delay discount exponential model param0.50.50.70.6-0.8
Extinction: sum of active levers before priming0.90.91.1-1.00.9
Active lever presses in extinction session 60.10.10.10.3-0.4
Bone: final force0.30.40.60.6-0.8
Bone: final moment0.30.50.60.7-0.8
Food consumed during 24 hour testing period1.62.22.3-1.51.4
Glucose1.62.53.01.7-1.4
Heart weight1.62.52.91.5-1.7
Delay discount hyperbolic model param0.50.50.60.6-0.8
Intermittent access intake day 1-15 change0.30.61.10.2-1.1
Intermittent access intake escalation0.30.51.00.2-1.0
Intermittent access intake escalation 21.82.13.30.9-1.8
Intermitt. access day 1 inactive lever presses0.00.00.0-0.20.0
Intermitt. access day 15 inactive lever presses1.22.53.11.4-1.8
Intermitt. access escalation Index0.00.00.1-0.3-0.1
Intermittent access day 1 total infusions0.10.20.3-0.20.6
Intermittent access day 15 total infusions0.00.00.0-0.1-0.1
Intermittent access terminal intake (last 3 days)0.10.20.30.2-0.5
Intermittent access total infusions0.00.00.00.10.0
Intermittent access day 1 locomotion0.10.20.2-0.50.3
Intermittent access day 15 total locomotion0.00.10.1-0.1-0.3
Intermittent access total locomotion0.20.20.40.1-0.6
Intermittent access standard deviation1.32.73.91.2-2.0
Left kidney weight0.00.10.10.2-0.3
Right kidney weight0.52.22.51.4-1.6
Cocaine induced anxiety0.20.30.40.4-0.6
Post-drug Anxiety0.10.10.3-0.5-0.0
Baseline Anxiety0.80.91.3-1.10.8
Tail length16.664.774.7-8.67.4
Length with tail6.327.231.2-5.64.8
Length without tail0.10.40.60.8-0.5
Times rat made contact with spout0.20.20.3-0.60.2
Lifetime Intake0.00.00.00.1-0.0
Liver weight, left0.00.00.00.10.1
Liver weight, right0.10.20.2-0.40.4
Locomotor activity0.40.60.80.6-0.9
Locomotor testing distance1.01.72.11.2-1.4
Locomotor testing rearing0.00.10.10.1-0.3
Locomotion in novel chamber0.40.50.8-0.60.9
Locomotion in novel chamber post-restriction1.01.72.31.5-1.0
Fecal boli incidents, locomotor time 13.34.85.02.2-2.2
Change in fecal boli incidents, locomotor task3.03.03.4-1.61.8
Time >=10cm from walls, locomotor time 10.50.50.8-0.50.9
Bouts of movement, locomotor time 10.10.10.10.3-0.3
Total resting periods, locomotor time 10.40.40.50.7-0.6
Rest time, locomotor task time 10.50.60.70.6-0.8
Distance moved, locomotor task time 11.31.92.0-1.41.3
Vertical activity count, locomotor time 10.41.01.4-0.81.2
Time >=10cm from walls, locomotor time 20.61.01.3-0.81.1
Bouts of movement, locomotor time 20.10.10.20.1-0.4
Total resting periods, locomotor time 20.10.10.20.2-0.4
Rest time, locomotor task time 20.70.91.1-0.91.0
Distance moved, locomotor task time 20.20.20.3-0.40.6
Vertical activity count, locomotor time 20.00.10.1-0.10.4
Light reinforcement 10.10.30.50.4-0.7
Light reinforcement 20.00.00.1-0.3-0.1
Bone: marrow area0.30.61.00.5-1.0
Bone: maximum diameter0.81.62.11.1-1.4
Bone: maximum force0.71.21.31.0-1.1
Bone: maximum moment0.81.41.41.2-1.2
Mean time between licks in bursts0.20.50.80.9-0.3
Mean num. licks in bursts0.00.00.00.10.2
Cd content in liver0.00.00.0-0.00.1
Co content in liver0.00.00.00.00.1
Cu content in liver4.65.47.9-2.81.7
Fe content in liver0.60.71.0-1.00.6
K content in liver0.20.20.4-0.6-0.3
Mg content in liver3.53.65.1-2.31.4
Mn content in liver4.55.06.1-2.52.0
Na content in liver1.11.22.30.3-1.5
Rb content in liver0.60.70.8-0.90.8
Se content in liver0.40.50.70.6-0.8
Sr content in liver1.61.41.5-1.21.1
Zn content in liver0.10.10.1-0.1-0.4
Bone: minimum diameter0.10.10.20.3-0.5
Time in familiar zone, hab. session 10.50.40.6-0.50.8
Time in novel zone, hab. session 13.13.13.41.7-1.8
Total zone transitions, hab. session 16.99.69.9-3.13.0
Total locomotion distance, hab. session 13.34.65.4-2.32.0
Locomotion velocity, hab. session 14.36.06.9-2.62.3
Time in familiar zone, hab. session 20.70.71.01.0-0.6
Time in novel zone, hab. session 20.10.10.1-0.40.3
Total zone transitions, hab. session 22.83.64.5-2.11.6
Total locomotion distance, hab. session 20.30.30.6-0.80.3
Locomotion velocity, hab. session 20.40.50.8-0.90.4
Novel to familiar place preference ratio0.50.50.7-0.60.8
Novelty place preference0.60.70.9-0.70.9
Time in novel zone, NPP test0.40.50.7-0.50.8
Total zone transitions, NPP test4.86.97.8-2.82.4
Total locomotion distance, NPP test1.31.82.3-1.51.2
Locomotion velocity, NPP test2.02.83.3-1.81.5
Intraocular pressure1.31.91.9-1.41.4
Delta distance traveled before/after self-admin0.60.61.01.0-0.5
Delta ambulatory time before/after self-admin0.80.91.51.2-0.6
Parametrial fat weight0.00.10.20.5-0.1
Pavlov. Cond. lever latency1.31.71.71.3-1.3
Pavlov. Cond. magazine entry latency0.00.00.1-0.30.0
Pavlov. Cond. change in total contacts2.83.03.6-1.91.5
Pavlov. Cond. index score0.70.91.0-1.00.9
Pavlov. Cond. latency score0.70.91.0-1.00.9
Pavlov. Cond. lever contacts2.32.73.0-1.71.6
Pavlov. Cond. magazine entry number0.40.50.60.8-0.6
Pavlov. Cond. intertrial magazine entries0.60.81.0-1.00.7
Pavlov. Cond. lever-magazine prob. diff.0.70.91.0-1.00.9
Pavlov. Cond. response bias0.81.01.1-1.10.9
Pavlov. Cond. lever latency0.81.11.4-1.20.8
Pavlov. Cond. magazine entry latency0.20.30.3-0.50.5
Pavlov. Cond. change in total contacts0.20.30.30.6-0.4
Pavlov. Cond. index score0.20.30.40.6-0.5
Pavlov. Cond. latency score0.10.10.10.4-0.3
Pavlov. Cond. lever contacts0.60.91.31.1-0.7
Pavlov. Cond. magazine entry number0.00.00.0-0.1-0.0
Pavlov. Cond. intertrial magazine entries1.82.72.9-1.61.7
Pavlov. Cond. lever-magazine prob. diff.0.30.30.40.7-0.5
Pavlov. Cond. response bias0.81.01.31.2-0.8
Time in closed arm before self-admin2.53.23.31.8-1.7
Time in closed arm after self-admin2.42.63.31.8-1.4
Time in open arm before self-admin0.70.71.1-0.61.1
Time in open arm after self-admin3.43.74.4-1.82.1
Bone: periosteal estimation0.61.21.50.9-1.2
Bone: periosteal perimeter1.32.22.31.5-1.5
Bone: post-yield work0.40.50.80.9-0.6
Progressive ratio test 1 active lever presses0.81.01.1-0.91.1
Progressive ratio test 1 breakpoint0.70.81.0-0.81.0
Progressive ratio test 1 inactive lever presses0.20.20.40.6-0.3
Progressive ratio test 2 active lever presses0.20.30.3-0.60.5
Progressive ratio test 2 breakpoint0.20.30.3-0.60.5
Progressive ratio test 2 inactive lever presses0.00.00.10.2-0.2
Incentive Sensitization - Responses0.00.00.0-0.1-0.2
Incentive Sensitization - Breakpoint0.10.10.20.1-0.4
Sum of active levers in priming session hrs 5-64.64.24.2-2.12.1
Progressive ratio0.00.00.00.10.0
Food seeking constrained by brief footshock0.70.81.50.4-1.2
Seeking ratio, punishment vs. effort0.10.20.3-0.60.2
Retroperitoneal fat weight0.52.02.11.4-1.5
Reaction time number correct0.10.20.40.60.1
Reaction time mean minus median0.71.72.0-1.41.1
Reaction time mean minus median AUC0.92.22.7-1.61.3
Reaction time num false alarms0.40.60.8-0.90.6
Reaction time num false alarms AUC0.50.81.0-1.00.7
Reaction time trials correct on left0.10.20.40.60.1
Reaction time trials on left0.10.20.30.60.2
Reaction time mean0.30.40.7-0.80.4
Reaction time mean AUC0.30.60.8-0.90.5
Median of all reaction times0.10.10.2-0.4-0.0
Reaction time omissions0.81.21.4-1.20.9
Reaction time false alarm rate0.40.61.0-1.00.4
Reaction time premature initiation rate0.40.50.6-0.60.8
Reaction time premature initiations0.30.61.0-0.41.0
Std. dev. reaction times0.71.31.6-1.31.0
Reaction time trials completed0.10.20.30.60.2
Reaction time trials AUC0.10.20.30.60.2
Run reversals in cocaine runway, females0.10.10.2-0.30.4
Run reversals in cocaine runway, males0.80.81.21.1-0.7
Latency to leave start box in cocaine runway4.45.05.22.3-2.2
Latency to leave start box in cocaine runway, F5.86.67.82.8-2.4
Latency to leave start box in cocaine runway, M0.70.61.10.4-1.0
Std. dev. time between licks in bursts1.21.72.01.2-1.4
Total sessions with >9 infusions0.00.00.10.2-0.2
Short access day 1 total inactive lever presses1.92.42.9-1.41.7
Short access day 10 total inactive lever presses0.41.01.11.0-0.9
Short access day 1 total infusions0.00.10.10.1-0.4
Short access day 10 total infusions0.30.40.70.4-0.8
Short access total infusions0.10.20.20.4-0.5
Short access day 1 locomotion1.72.13.31.0-1.8
Short access day 10 total locomotion1.01.83.00.8-1.7
Short access total locomotion1.31.62.40.9-1.6
One hour access (0.3 mA shock)0.60.70.7-0.80.9
Compulsive drug intake4.35.15.8-2.12.4
One hour access (shock baseline)1.32.02.41.3-1.5
Social response proportion1.31.52.2-1.50.9
Social responses0.00.00.0-0.10.1
Social time0.10.10.10.3-0.2
Soleus weight1.44.14.92.2-1.8
Bone: stiffness0.10.10.10.2-0.4
Tibialis anterior weight0.20.71.1-0.61.1
Time to tail flick, vehicle, before self-admin4.14.34.5-2.02.1
Time to tail flick, vehicle, after self-admin0.40.50.80.9-0.5
Time to tail flick, test, before self-admin0.30.30.40.6-0.5
Time to tail flick, test, after self-admin0.30.30.60.8-0.1
Delta time to tail flick, vehicle, before/after SA4.64.45.12.3-1.9
Delta time to tail flick, test, before/after SA0.50.50.6-0.60.8
Tibia length0.41.11.61.3-0.7
Ambulatory time before self-admin0.10.20.4-0.60.0
Ambulatory time after self-admin0.30.30.40.5-0.7
Bone: tissue strength0.30.30.60.8-0.2
Total heroin consumption1.21.41.4-1.21.2
Bone: trabecular number0.91.52.20.8-1.5
Bone: trabecular spacing0.10.10.2-0.00.4
Bone: trabecular thickness3.24.04.42.1-1.9
Bone: trabecular tissue density0.10.10.1-0.20.4
Water consumed over 24 hours0.10.20.3-0.30.5
Number of responses in last shaping day0.40.50.80.9-0.4