Hub : Genes

Hoxb9

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 Adipose gene expression ENSRNOG00000007573 0.09 0.08 1.6e-04 0.03 0.02 0.04 0.03 2.3e-04 1.7e-03 1.8e-05 2.9e-04

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 strong Z-scores (below -2 or above 2): lower negative Z-scores are darker blue, higher positive Z-scores are darker red.

Trait Avg chi2 ratio Avg chi2 Max chi2 1
BMI with tail12.139.139.1-6.3
BMI without tail0.10.30.3-0.5
Body weight0.62.72.7-1.6
Epididymis fat weight0.00.00.0-0.1
Glucose0.81.31.3-1.1
Heart weight0.50.70.7-0.8
Left kidney weight0.00.00.00.1
Right kidney weight0.41.31.3-1.1
Tail length14.042.242.26.5
Length with tail5.821.421.44.6
Length without tail0.10.10.1-0.4
Liver weight, left0.81.21.21.1
Liver weight, right0.10.10.10.4
Parametrial fat weight0.40.70.70.8
Retroperitoneal fat weight0.00.10.1-0.4
Intraocular pressure0.81.11.11.0
Extensor digitorum longus weight1.24.94.9-2.2
Soleus weight0.92.62.6-1.6
Tibialis anterior weight0.00.00.00.0
Tibia length0.41.11.1-1.0
Number of licking bursts1.21.51.51.2
Food consumed during 24 hour testing period1.72.12.11.4
Times rat made contact with spout1.31.51.51.2
Mean time between licks in bursts1.31.81.8-1.3
Mean num. licks in bursts0.10.10.1-0.4
Std. dev. time between licks in bursts0.20.30.3-0.5
Water consumed over 24 hours0.00.00.0-0.2
Indifference point 0 sec1.52.52.5-1.6
Indifference point AUC0.00.00.0-0.1
Indifference point function ln k0.20.20.20.5
Indifference point function log k0.20.20.20.5
Delay discounting total patch changes 0 sec1.83.03.0-1.7
Delay discounting total patch changes 12 sec0.10.10.1-0.3
Delay discounting total patch changes 18 sec2.53.23.2-1.8
Delay discounting total patch changes 24 sec0.81.01.0-1.0
Delay discounting total patch changes 6 sec0.81.31.3-1.1
Delay discounting time to switch 0 sec0.10.20.20.4
Delay discounting water rate 0 sec1.72.72.7-1.6
Delay discounting water rate 12 sec1.01.41.4-1.2
Delay discounting water rate 18 sec0.30.40.4-0.6
Delay discounting water rate 24 sec1.42.02.0-1.4
Delay discounting water rate 6 sec0.10.10.1-0.4
Locomotor activity0.00.00.0-0.0
Locomotor testing distance0.10.10.1-0.3
Locomotor testing rearing0.30.50.5-0.7
Light reinforcement 10.10.10.10.4
Light reinforcement 20.91.21.21.1
Reaction time number correct3.85.45.4-2.3
Reaction time mean minus median3.03.93.92.0
Reaction time mean minus median AUC5.06.36.32.5
Reaction time num false alarms1.52.12.11.5
Reaction time num false alarms AUC1.52.12.11.4
Reaction time trials correct on left3.85.45.4-2.3
Reaction time trials on left3.65.15.1-2.3
Reaction time mean3.14.34.32.1
Reaction time mean AUC3.64.84.82.2
Median of all reaction times1.92.62.61.6
Reaction time omissions2.43.23.21.8
Reaction time false alarm rate3.75.35.32.3
Reaction time premature initiation rate0.10.10.10.3
Reaction time premature initiations0.50.70.7-0.9
Std. dev. reaction times3.95.45.42.3
Reaction time trials completed3.65.15.1-2.3
Reaction time trials AUC3.75.35.3-2.3
Social response proportion2.62.92.91.7
Social responses0.00.00.0-0.2
Social time0.20.20.2-0.5
Conditioned locomotion2.83.43.4-1.8
Cocaine response after cond. corrected3.84.24.2-2.1
Cocaine response after cond. not corrected2.02.22.2-1.5
Cocaine response before conditioning2.42.92.91.7
Saline control response0.91.31.3-1.1
Condit. Reinf. active minus inactive responses0.80.90.91.0
Condit. Reinf. active-inactive response ratio1.51.61.61.3
Condit. Reinf. active responses0.20.30.30.6
Condit. Reinf. inactive responses0.30.40.4-0.6
Condit. Reinf. lever presses0.10.10.10.3
Condit. Reinf. lever reinforcers received0.20.20.20.5
Pavlov. Cond. lever latency2.33.23.21.8
Pavlov. Cond. magazine entry latency0.20.30.30.5
Pavlov. Cond. change in total contacts0.60.80.8-0.9
Pavlov. Cond. index score0.30.40.4-0.7
Pavlov. Cond. latency score0.10.20.2-0.4
Pavlov. Cond. lever contacts1.62.32.3-1.5
Pavlov. Cond. magazine entry number0.00.00.00.2
Pavlov. Cond. intertrial magazine entries1.11.41.41.2
Pavlov. Cond. lever-magazine prob. diff.0.50.60.6-0.8
Pavlov. Cond. response bias0.91.21.2-1.1
Conditioned reinforcement - actives3.53.43.41.8
Conditioned reinforcement - inactives0.00.00.0-0.2
Conditioned locomotion1.41.71.71.3
Intermittent access intake day 1-15 change0.10.10.1-0.4
Intermittent access intake escalation0.00.00.00.1
Intermittent access intake escalation 20.20.10.1-0.4
Intermitt. access day 1 inactive lever presses0.10.10.1-0.4
Intermitt. access day 15 inactive lever presses3.53.83.8-2.0
Intermitt. access escalation Index2.92.62.61.6
Intermittent access day 1 total infusions2.02.32.31.5
Intermittent access day 15 total infusions2.32.52.51.6
Intermittent access terminal intake (last 3 days)0.91.01.01.0
Intermittent access total infusions0.91.01.01.0
Intermittent access day 1 locomotion5.15.25.22.3
Intermittent access day 15 total locomotion2.52.72.71.6
Intermittent access total locomotion4.24.84.82.2
Intermittent access standard deviation0.20.30.3-0.5
Cocaine induced anxiety0.00.00.00.1
Post-drug Anxiety0.80.90.91.0
Baseline Anxiety0.00.00.0-0.2
Lifetime Intake0.80.90.90.9
Incentive Sensitization - Responses0.50.50.50.7
Incentive Sensitization - Breakpoint0.20.20.20.5
Progressive ratio test 1 active lever presses2.32.32.31.5
Progressive ratio test 1 breakpoint2.02.12.11.4
Progressive ratio test 1 inactive lever presses0.40.40.4-0.6
Progressive ratio test 2 active lever presses2.93.13.11.8
Progressive ratio test 2 breakpoint1.71.91.91.4
Progressive ratio test 2 inactive lever presses0.00.00.0-0.0
Total sessions with >9 infusions3.13.43.41.9
Short access day 1 total inactive lever presses0.80.90.9-0.9
Short access day 10 total inactive lever presses2.83.03.0-1.7
Short access day 1 total infusions0.00.00.00.1
Short access day 10 total infusions0.80.90.90.9
Short access total infusions0.00.00.00.1
Short access day 1 locomotion0.30.40.40.6
Short access day 10 total locomotion4.24.64.62.1
Short access total locomotion1.71.81.81.3
Compulsive drug intake4.34.34.32.1
One hour access (0.3 mA shock)0.70.80.80.9
One hour access (shock baseline)0.20.20.2-0.5
Number of responses in last shaping day3.83.93.9-2.0
Context. condit. distance diff. score2.02.42.4-1.6
Locomotion velocity, session 10.60.70.70.8
Locomotion distance, session 16.17.97.92.8
Locomotion velocity, session 21.31.51.51.2
Locomotion distance, session 28.211.711.73.4
Locomotion velocity, session 31.01.21.2-1.1
Locomotion distance, session 30.20.30.30.5
Stereotopy head waving bouts, day 32.02.42.4-1.6
Stereotopy head waving duration, day 31.82.22.2-1.5
Locomotion velocity, session 70.70.80.80.9
Locomotion distance, session 75.16.56.52.5
Stereotopy head waving bouts, day 70.10.10.1-0.3
Stereotopy head waving duration, day 70.10.10.1-0.3
Locomotion velocity, session 81.51.71.7-1.3
Locomotion distance, session 80.30.40.40.6
Degree of sensitization distance0.30.30.30.6
Degree of sensitization stereotypy0.30.40.40.6
Condit. Reinf. active minus inactive responses1.71.91.91.4
Condit. Reinf. active-inactive response ratio0.00.00.00.1
Condit. Reinf. active responses2.32.92.91.7
Condit. Reinf. inactive responses1.61.81.81.4
Incentive salience index mean3.03.63.61.9
Condit. Reinf. lever presses3.14.24.22.0
Time in familiar zone, hab. session 10.10.10.1-0.4
Time in novel zone, hab. session 10.60.60.6-0.7
Total zone transitions, hab. session 14.96.96.92.6
Total locomotion distance, hab. session 13.95.65.62.4
Locomotion velocity, hab. session 14.86.86.82.6
Time in familiar zone, hab. session 21.51.61.6-1.3
Time in novel zone, hab. session 20.10.10.10.3
Total zone transitions, hab. session 25.97.77.72.8
Total locomotion distance, hab. session 22.93.83.82.0
Locomotion velocity, hab. session 23.24.44.42.1
Novel to familiar place preference ratio0.00.00.0-0.2
Novelty place preference0.20.20.2-0.4
Time in novel zone, NPP test0.30.30.3-0.6
Total zone transitions, NPP test6.18.78.73.0
Total locomotion distance, NPP test2.43.43.41.8
Locomotion velocity, NPP test2.84.04.02.0
Pavlov. Cond. lever latency0.81.11.1-1.0
Pavlov. Cond. magazine entry latency0.30.40.40.6
Pavlov. Cond. change in total contacts3.43.63.61.9
Pavlov. Cond. index score0.81.11.11.0
Pavlov. Cond. latency score0.81.01.01.0
Pavlov. Cond. lever contacts1.72.02.01.4
Pavlov. Cond. magazine entry number0.70.90.9-1.0
Pavlov. Cond. intertrial magazine entries1.31.51.51.2
Pavlov. Cond. lever-magazine prob. diff.0.70.90.90.9
Pavlov. Cond. response bias0.50.60.60.8
Bone: apparent density0.61.01.0-1.0
Bone surface0.30.50.5-0.7
Bone volume0.50.80.8-0.9
Bone: connectivity density0.40.60.6-0.8
Bone: cortical apparent density2.53.23.21.8
Bone: cortical area0.50.80.8-0.9
Bone: cortical porosity0.10.10.1-0.4
Bone: cortical porosity0.00.00.0-0.2
Bone: cortical thickness0.81.31.3-1.1
Bone: cortical thickness0.10.10.10.2
Bone: cortical tissue density2.93.73.71.9
Bone: elastic displacement0.00.00.00.1
Bone: elastic work0.00.00.00.1
Bone: endosteal estimation0.10.10.10.4
Bone: endosteal perimeter0.00.00.0-0.1
Bone: final force0.00.00.00.0
Bone: final moment0.00.00.0-0.2
Bone: marrow area0.10.20.20.4
Bone: maximum diameter0.00.10.1-0.3
Bone: maximum force0.20.40.4-0.6
Bone: maximum moment0.40.60.6-0.8
Bone: minimum diameter0.00.00.00.2
Bone: periosteal estimation0.10.10.1-0.4
Bone: periosteal perimeter1.11.81.8-1.3
Bone: post-yield work1.21.61.6-1.3
Bone: stiffness0.00.00.0-0.1
Bone: tissue strength1.61.51.5-1.2
Bone: trabecular number0.00.10.10.2
Bone: trabecular spacing0.00.00.0-0.2
Bone: trabecular thickness3.44.14.1-2.0
Bone: trabecular tissue density0.00.00.00.1
Breakpoint value in progressive ratio session2.02.22.21.5
Distance traveled before self-admin4.14.44.42.1
Distance traveled after self-admin0.40.40.40.7
Delta time in closed arm before/after self-admin0.30.30.3-0.6
Delta time in open arm before/after self-admin0.40.30.3-0.6
Diff in mean of infusions in LGA sessions2.22.52.51.6
Extinction: sum of active levers before priming0.40.40.40.7
Active lever presses in extinction session 60.00.00.00.1
Delta distance traveled before/after self-admin1.61.71.7-1.3
Delta ambulatory time before/after self-admin1.41.51.5-1.2
Time in closed arm before self-admin4.04.64.6-2.1
Time in closed arm after self-admin5.15.35.3-2.3
Time in open arm before self-admin1.01.01.01.0
Time in open arm after self-admin0.10.10.10.3
Sum of active levers in priming session hrs 5-65.85.75.72.4
Time to tail flick, vehicle, before self-admin0.30.30.30.5
Time to tail flick, vehicle, after self-admin1.51.61.6-1.3
Time to tail flick, test, before self-admin1.11.11.1-1.0
Time to tail flick, test, after self-admin0.40.40.4-0.7
Delta time to tail flick, vehicle, before/after SA3.73.63.6-1.9
Delta time to tail flick, test, before/after SA0.80.70.70.8
Ambulatory time before self-admin2.52.62.61.6
Ambulatory time after self-admin0.20.20.20.5
Total heroin consumption0.10.10.10.3
Area under the delay curve0.10.10.1-0.3
Delay disc. indifference point, 0s delay1.51.71.7-1.3
Delay disc. indifference point, 16s delay1.61.61.6-1.3
Delay disc. indifference point, 2s delay0.00.10.1-0.2
Delay disc. indifference point, 24s delay0.90.90.90.9
Delay disc. indifference point, 4s delay0.00.00.00.0
Delay disc. indifference point, 8s delay0.10.10.10.3
Delay discount exponential model param0.00.00.00.1
Delay discount hyperbolic model param0.00.00.00.2
Fecal boli incidents, locomotor time 11.92.12.1-1.5
Change in fecal boli incidents, locomotor task1.61.51.51.2
Time >=10cm from walls, locomotor time 10.10.10.1-0.3
Bouts of movement, locomotor time 10.50.50.5-0.7
Total resting periods, locomotor time 10.91.01.0-1.0
Rest time, locomotor task time 10.10.10.1-0.4
Distance moved, locomotor task time 12.72.92.91.7
Vertical activity count, locomotor time 10.80.90.90.9
Time >=10cm from walls, locomotor time 20.00.00.00.2
Bouts of movement, locomotor time 20.10.10.1-0.3
Total resting periods, locomotor time 20.20.20.2-0.4
Rest time, locomotor task time 20.00.00.00.1
Distance moved, locomotor task time 20.30.30.30.6
Vertical activity count, locomotor time 20.50.60.60.8
Weight adjusted by age0.20.20.2-0.5
Seeking ratio, delayed vs. immediate footshock4.85.55.5-2.3
Locomotion in novel chamber0.00.00.0-0.2
Locomotion in novel chamber post-restriction0.70.90.9-0.9
Progressive ratio1.41.61.6-1.3
Food seeking constrained by brief footshock0.30.40.40.7
Seeking ratio, punishment vs. effort3.44.24.22.1
Run reversals in cocaine runway, females0.30.30.30.5
Run reversals in cocaine runway, males1.91.81.8-1.3
Latency to leave start box in cocaine runway7.58.28.2-2.9
Latency to leave start box in cocaine runway, F10.411.411.4-3.4
Latency to leave start box in cocaine runway, M0.00.00.0-0.0
Cd content in liver0.10.10.1-0.3
Co content in liver0.00.00.0-0.0
Cu content in liver15.518.718.74.3
Fe content in liver1.51.81.81.3
K content in liver2.62.62.61.6
Mg content in liver3.53.63.61.9
Mn content in liver2.83.23.21.8
Na content in liver2.93.13.11.8
Rb content in liver0.81.01.01.0
Se content in liver0.30.40.4-0.6
Sr content in liver0.00.00.0-0.0
Zn content in liver0.20.30.30.5