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 4.3e-03 0.01 0.01 0.01 0.01 2.2e-02 1.3e-02 3.3e-02 4.5e-02
2 Adipose gene expression Hoxb4 0.11 0.08 4.4e-06 0.04 0.03 0.03 0.04 4.0e-05 4.1e-04 8.2e-04 1.8e-05

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 density1.52.62.91.5-1.7
Area under the delay curve0.10.10.1-0.30.3
BMI with tail15.550.357.97.6-6.5
BMI without tail1.22.52.51.6-1.6
Body weight0.72.93.51.9-1.6
Weight adjusted by age0.80.91.3-0.61.1
Bone surface0.50.81.00.8-1.0
Bone volume1.32.22.51.4-1.6
Breakpoint value in progressive ratio session4.04.44.6-2.02.1
Number of licking bursts0.30.30.5-0.70.4
Context. condit. distance diff. score0.40.50.80.9-0.4
Locomotion velocity, session 10.20.30.50.2-0.7
Locomotion distance, session 13.03.95.0-2.21.7
Locomotion velocity, session 21.01.11.4-1.21.0
Locomotion distance, session 23.95.47.1-2.71.9
Locomotion velocity, session 30.10.10.10.40.0
Locomotion distance, session 32.62.83.3-1.51.8
Stereotopy head waving bouts, day 34.65.55.52.3-2.4
Stereotopy head waving duration, day 33.54.24.22.0-2.1
Locomotion velocity, session 71.21.31.4-1.11.2
Locomotion distance, session 75.57.07.8-2.82.5
Stereotopy head waving bouts, day 70.60.70.80.7-0.9
Stereotopy head waving duration, day 70.30.30.40.6-0.6
Locomotion velocity, session 80.20.30.50.7-0.3
Locomotion distance, session 80.60.90.9-0.91.0
Degree of sensitization distance0.00.00.0-0.20.0
Degree of sensitization stereotypy0.10.10.1-0.40.2
Conditioned locomotion1.31.51.91.4-1.1
Cocaine response after cond. corrected5.86.57.22.7-2.4
Cocaine response after cond. not corrected3.23.53.92.0-1.8
Cocaine response before conditioning2.63.23.6-1.91.6
Saline control response0.00.00.10.10.3
Bone: connectivity density0.10.20.20.5-0.5
Bone: cortical apparent density6.99.110.3-2.83.2
Bone: cortical area0.20.20.30.6-0.4
Bone: cortical porosity0.50.50.60.7-0.7
Bone: cortical porosity0.40.40.50.6-0.7
Bone: cortical thickness0.10.20.30.10.6
Bone: cortical thickness1.01.21.2-1.11.1
Bone: cortical tissue density7.49.810.9-2.93.3
Condit. Reinf. active minus inactive responses0.30.40.7-0.80.3
Condit. Reinf. active-inactive response ratio0.10.10.20.3-0.5
Condit. Reinf. active responses0.30.40.7-0.90.2
Condit. Reinf. inactive responses0.50.61.0-1.00.6
Incentive salience index mean0.70.91.5-1.20.6
Condit. Reinf. lever presses1.41.82.5-1.61.1
Condit. Reinf. active minus inactive responses0.10.10.2-0.1-0.4
Condit. Reinf. active-inactive response ratio0.20.20.40.1-0.6
Condit. Reinf. active responses0.00.00.0-0.2-0.1
Condit. Reinf. inactive responses0.10.10.2-0.20.4
Condit. Reinf. lever presses0.81.01.2-1.01.1
Condit. Reinf. lever reinforcers received0.00.10.1-0.30.2
Conditioned reinforcement - actives0.50.50.90.2-0.9
Conditioned reinforcement - inactives0.10.10.1-0.30.3
Conditioned locomotion2.12.63.81.1-2.0
Patch foraging indifference point 0 sec0.91.51.71.3-1.1
Patch foraging indifference point AUC0.10.10.1-0.30.3
Delay disc. indifference point, 0s delay0.40.50.7-0.40.9
Delay disc. indifference point, 16s delay0.50.50.70.8-0.6
Delay disc. indifference point, 2s delay0.10.10.1-0.30.2
Delay disc. indifference point, 24s delay0.60.60.8-0.90.6
Delay disc. indifference point, 4s delay2.42.52.8-1.51.7
Delay disc. indifference point, 8s delay0.10.10.1-0.40.3
Indifference point function ln k0.00.00.0-0.10.2
Indifference point function log k0.00.00.0-0.10.2
Patch foraging total patch changes 0 sec1.01.61.91.4-1.2
Patch foraging total patch changes 12 sec0.10.10.20.3-0.4
Patch foraging total patch changes 18 sec1.82.32.51.6-1.4
Patch foraging total patch changes 24 sec1.72.02.71.2-1.6
Patch foraging total patch changes 6 sec0.81.11.31.1-1.0
Patch foraging time to switch 0 sec0.00.00.1-0.1-0.2
Patch foraging water rate 0 sec1.11.82.31.5-1.1
Patch foraging water rate 12 sec0.10.10.20.50.2
Patch foraging water rate 18 sec0.20.20.4-0.20.7
Patch foraging water rate 24 sec0.91.31.71.3-0.9
Patch foraging water rate 6 sec0.00.00.00.1-0.1
Seeking ratio, delayed vs. immediate footshock0.70.81.21.1-0.6
Distance traveled before self-admin1.11.11.8-1.30.7
Distance traveled after self-admin0.60.60.80.6-0.9
Extensor digitorum longus weight0.31.22.01.4-0.5
Bone: elastic displacement0.10.10.10.2-0.3
Bone: elastic work0.00.00.00.10.0
Bone: endosteal estimation0.30.61.00.4-1.0
Bone: endosteal perimeter0.51.11.60.7-1.3
Epididymis fat weight0.00.10.10.4-0.1
Delta time in closed arm before/after self-admin0.10.10.10.10.4
Delta time in open arm before/after self-admin0.10.10.1-0.20.4
Diff in mean of infusions in LGA sessions0.80.81.3-1.10.6
Delay discount exponential model param0.20.20.20.4-0.4
Extinction: sum of active levers before priming1.41.41.6-1.11.3
Active lever presses in extinction session 60.10.10.20.2-0.4
Bone: final force0.20.40.50.5-0.7
Bone: final moment0.30.50.60.6-0.8
Food consumed during 24 hour testing period1.82.22.3-1.51.4
Glucose0.71.11.31.2-0.9
Heart weight1.92.63.11.5-1.7
Delay discount hyperbolic model param0.30.40.40.6-0.6
Intermittent access intake day 1-15 change2.72.73.81.2-2.0
Intermittent access intake escalation2.42.33.61.0-1.9
Intermittent access intake escalation 22.12.13.01.1-1.7
Intermitt. access day 1 inactive lever presses0.00.00.1-0.10.2
Intermitt. access day 15 inactive lever presses0.80.91.11.0-0.8
Intermitt. access escalation Index0.70.61.20.2-1.1
Intermittent access day 1 total infusions0.70.81.0-0.81.0
Intermittent access day 15 total infusions0.10.10.1-0.2-0.3
Intermittent access terminal intake (last 3 days)0.10.10.1-0.0-0.4
Intermittent access total infusions0.00.00.1-0.20.1
Intermittent access day 1 locomotion0.90.91.2-1.10.8
Intermittent access day 15 total locomotion0.20.20.3-0.2-0.6
Intermittent access total locomotion0.20.20.4-0.2-0.6
Intermittent access standard deviation2.52.63.91.2-2.0
Left kidney weight0.00.00.0-0.00.1
Right kidney weight0.41.11.21.1-1.0
Cocaine induced anxiety0.10.10.10.2-0.4
Post-drug Anxiety0.50.50.8-0.90.6
Baseline Anxiety0.00.00.00.00.0
Tail length13.941.949.0-7.05.9
Length with tail7.728.331.6-5.65.0
Length without tail0.10.10.2-0.20.5
Times rat made contact with spout0.20.20.4-0.60.3
Lifetime Intake0.10.10.2-0.40.3
Liver weight, left0.81.21.6-1.30.9
Liver weight, right0.71.11.3-1.11.0
Locomotor activity0.40.60.80.7-0.9
Locomotor testing distance0.71.21.41.0-1.2
Locomotor testing rearing0.10.10.10.2-0.3
Locomotion in novel chamber0.50.60.9-0.51.0
Locomotion in novel chamber post-restriction1.51.82.11.5-1.2
Fecal boli incidents, locomotor time 13.53.83.91.9-2.0
Change in fecal boli incidents, locomotor task2.92.73.2-1.51.8
Time >=10cm from walls, locomotor time 10.20.20.4-0.30.6
Bouts of movement, locomotor time 10.10.10.10.4-0.2
Total resting periods, locomotor time 10.30.30.40.7-0.4
Rest time, locomotor task time 10.30.30.40.4-0.6
Distance moved, locomotor task time 11.71.82.1-1.41.3
Vertical activity count, locomotor time 10.60.60.8-0.70.9
Time >=10cm from walls, locomotor time 20.60.70.9-0.70.9
Bouts of movement, locomotor time 20.10.10.10.2-0.4
Total resting periods, locomotor time 20.10.10.20.3-0.4
Rest time, locomotor task time 20.80.91.2-0.81.1
Distance moved, locomotor task time 20.20.20.2-0.40.5
Vertical activity count, locomotor time 20.00.00.0-0.10.1
Light reinforcement 10.20.30.50.4-0.7
Light reinforcement 20.10.10.2-0.4-0.1
Bone: marrow area0.20.40.70.3-0.9
Bone: maximum diameter0.51.01.40.8-1.2
Bone: maximum force0.61.11.21.0-1.1
Bone: maximum moment0.71.21.21.1-1.1
Mean time between licks in bursts0.30.40.80.9-0.2
Mean num. licks in bursts0.00.00.00.00.2
Cd content in liver0.40.40.7-0.50.8
Co content in liver0.00.00.00.2-0.2
Cu content in liver3.94.77.6-2.81.4
Fe content in liver1.41.72.1-1.41.1
K content in liver0.20.20.3-0.3-0.6
Mg content in liver1.11.11.8-1.30.6
Mn content in liver3.33.74.5-2.11.7
Na content in liver0.50.61.1-0.1-1.1
Rb content in liver0.00.00.1-0.3-0.0
Se content in liver0.30.40.50.5-0.7
Sr content in liver2.01.82.4-1.11.6
Zn content in liver0.00.00.0-0.1-0.2
Bone: minimum diameter0.00.10.10.2-0.4
Time in familiar zone, hab. session 10.50.40.6-0.50.8
Time in novel zone, hab. session 13.03.03.21.6-1.8
Total zone transitions, hab. session 16.69.39.5-3.13.0
Total locomotion distance, hab. session 13.14.45.2-2.31.9
Locomotion velocity, hab. session 14.05.76.7-2.62.2
Time in familiar zone, hab. session 20.70.71.11.0-0.6
Time in novel zone, hab. session 20.10.10.1-0.40.2
Total zone transitions, hab. session 22.73.54.6-2.11.5
Total locomotion distance, hab. session 20.20.30.6-0.80.0
Locomotion velocity, hab. session 20.30.40.8-0.90.1
Novel to familiar place preference ratio0.80.81.1-0.71.0
Novelty place preference0.90.91.3-0.71.1
Time in novel zone, NPP test0.60.71.0-0.61.0
Total zone transitions, NPP test4.26.07.4-2.72.2
Total locomotion distance, NPP test1.11.52.1-1.40.9
Locomotion velocity, NPP test1.62.33.0-1.71.2
Intraocular pressure1.52.12.2-1.51.4
Delta distance traveled before/after self-admin2.22.43.11.8-1.3
Delta ambulatory time before/after self-admin2.72.93.61.9-1.5
Parametrial fat weight0.00.10.1-0.3-0.1
Pavlov. Cond. lever latency1.31.71.71.3-1.3
Pavlov. Cond. magazine entry latency0.10.10.1-0.30.1
Pavlov. Cond. change in total contacts2.83.03.6-1.91.6
Pavlov. Cond. index score0.60.80.9-1.00.8
Pavlov. Cond. latency score0.70.91.0-1.00.9
Pavlov. Cond. lever contacts2.12.52.7-1.61.5
Pavlov. Cond. magazine entry number0.30.40.50.7-0.5
Pavlov. Cond. intertrial magazine entries0.60.70.9-0.90.7
Pavlov. Cond. lever-magazine prob. diff.0.60.70.8-0.90.8
Pavlov. Cond. response bias0.60.70.8-0.90.8
Pavlov. Cond. lever latency0.91.21.5-1.20.9
Pavlov. Cond. magazine entry latency0.60.70.8-0.80.9
Pavlov. Cond. change in total contacts0.20.20.30.5-0.4
Pavlov. Cond. index score0.20.20.30.6-0.4
Pavlov. Cond. latency score0.10.10.10.3-0.2
Pavlov. Cond. lever contacts0.60.91.11.0-0.8
Pavlov. Cond. magazine entry number0.00.00.0-0.0-0.2
Pavlov. Cond. intertrial magazine entries1.52.02.2-1.51.3
Pavlov. Cond. lever-magazine prob. diff.0.30.30.40.6-0.5
Pavlov. Cond. response bias0.50.70.80.9-0.7
Time in closed arm before self-admin2.12.42.91.7-1.4
Time in closed arm after self-admin1.61.72.51.6-0.9
Time in open arm before self-admin0.60.70.9-0.61.0
Time in open arm after self-admin0.80.81.1-0.71.1
Bone: periosteal estimation0.50.91.20.8-1.1
Bone: periosteal perimeter0.71.21.21.1-1.0
Bone: post-yield work0.30.40.60.8-0.4
Progressive ratio test 1 active lever presses0.70.70.8-0.80.9
Progressive ratio test 1 breakpoint1.01.01.2-0.91.1
Progressive ratio test 1 inactive lever presses0.10.10.20.40.0
Progressive ratio test 2 active lever presses0.40.40.6-0.80.5
Progressive ratio test 2 breakpoint0.20.20.3-0.50.3
Progressive ratio test 2 inactive lever presses0.00.00.0-0.10.2
Incentive Sensitization - Responses0.10.10.2-0.0-0.4
Incentive Sensitization - Breakpoint0.20.20.40.2-0.7
Sum of active levers in priming session hrs 5-64.64.55.5-2.31.9
Progressive ratio0.00.00.10.2-0.1
Food seeking constrained by brief footshock0.60.71.20.4-1.1
Seeking ratio, punishment vs. effort0.10.10.3-0.50.1
Retroperitoneal fat weight0.41.41.90.9-1.4
Reaction time number correct0.20.30.60.80.1
Reaction time mean minus median1.52.02.4-1.51.3
Reaction time mean minus median AUC2.02.63.1-1.81.4
Reaction time num false alarms0.40.60.7-0.80.6
Reaction time num false alarms AUC0.50.70.9-0.90.7
Reaction time trials correct on left0.20.30.60.80.1
Reaction time trials on left0.20.30.50.70.2
Reaction time mean0.40.60.9-0.90.5
Reaction time mean AUC0.60.81.1-1.00.6
Median of all reaction times0.10.10.2-0.4-0.0
Reaction time omissions0.50.60.9-1.00.6
Reaction time false alarm rate0.50.71.1-1.10.4
Reaction time premature initiation rate0.50.71.0-0.71.0
Reaction time premature initiations0.50.71.3-0.41.1
Std. dev. reaction times1.21.62.1-1.51.1
Reaction time trials completed0.20.30.50.70.2
Reaction time trials AUC0.20.30.50.70.2
Run reversals in cocaine runway, females0.20.20.3-0.40.5
Run reversals in cocaine runway, males1.01.01.41.2-0.8
Latency to leave start box in cocaine runway4.24.55.12.3-2.0
Latency to leave start box in cocaine runway, F6.36.98.22.9-2.3
Latency to leave start box in cocaine runway, M0.60.61.10.4-1.0
Std. dev. time between licks in bursts1.11.31.51.0-1.2
Total sessions with >9 infusions0.10.20.2-0.5-0.3
Short access day 1 total inactive lever presses1.82.12.8-1.11.7
Short access day 10 total inactive lever presses0.10.10.20.10.5
Short access day 1 total infusions0.10.10.1-0.30.1
Short access day 10 total infusions0.10.10.10.1-0.4
Short access total infusions0.00.00.0-0.00.1
Short access day 1 locomotion0.60.61.10.3-1.0
Short access day 10 total locomotion0.40.40.7-0.3-0.8
Short access total locomotion0.60.61.20.2-1.1
One hour access (0.3 mA shock)0.70.80.8-0.90.9
Compulsive drug intake8.48.58.8-2.93.0
One hour access (shock baseline)2.42.73.31.5-1.8
Social response proportion1.21.32.0-1.40.9
Social responses0.00.10.1-0.10.3
Social time0.00.10.10.20.3
Soleus weight1.33.94.52.1-1.8
Bone: stiffness0.10.10.20.2-0.4
Tibialis anterior weight0.20.81.1-0.71.0
Time to tail flick, vehicle, before self-admin1.81.92.1-1.31.4
Time to tail flick, vehicle, after self-admin0.30.40.50.7-0.5
Time to tail flick, test, before self-admin0.20.20.30.6-0.4
Time to tail flick, test, after self-admin0.10.10.20.5-0.1
Delta time to tail flick, vehicle, before/after SA2.22.22.61.6-1.3
Delta time to tail flick, test, before/after SA0.40.30.4-0.60.5
Tibia length0.41.21.71.3-0.8
Ambulatory time before self-admin0.70.71.1-1.00.5
Ambulatory time after self-admin0.91.01.20.9-1.1
Bone: tissue strength0.30.30.60.8-0.2
Total heroin consumption1.51.82.4-1.11.6
Bone: trabecular number0.50.81.40.6-1.2
Bone: trabecular spacing0.00.00.00.10.2
Bone: trabecular thickness2.02.43.01.7-1.4
Bone: trabecular tissue density0.10.10.1-0.20.4
Water consumed over 24 hours0.20.30.4-0.30.7
Number of responses in last shaping day0.50.61.11.10.0