Hub : Genes

Amdhd1

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 Amdhd1 0.38 0.1 0.0e+00 0.35 0.35 0.37 0.36 2.0e-40 8.2e-41 1.6e-42 2.3e-42
2 Liver mRNA stability Amdhd1 0.11 0.05 9.2e-13 0.09 0.08 0.05 0.08 1.2e-10 2.2e-09 1.4e-06 2.6e-09

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 density0.20.30.3-0.5-0.6
Area under the delay curve0.00.00.00.0-0.0
BMI with tail1.65.05.82.42.1
BMI without tail4.59.310.43.22.9
Body weight10.544.051.27.26.1
Weight adjusted by age2.73.13.41.71.9
Bone surface0.00.00.00.1-0.1
Bone volume0.00.00.10.30.0
Breakpoint value in progressive ratio session0.40.40.5-0.7-0.6
Number of licking bursts0.20.20.3-0.5-0.3
Context. condit. distance diff. score1.72.02.21.31.5
Locomotion velocity, session 10.00.00.1-0.2-0.2
Locomotion distance, session 10.10.20.20.40.3
Locomotion velocity, session 20.00.00.0-0.0-0.1
Locomotion distance, session 20.30.40.50.70.5
Locomotion velocity, session 31.82.12.21.51.4
Locomotion distance, session 31.92.02.21.51.4
Stereotopy head waving bouts, day 32.12.52.5-1.6-1.6
Stereotopy head waving duration, day 30.70.80.9-0.9-0.9
Locomotion velocity, session 72.93.13.21.81.7
Locomotion distance, session 70.91.11.21.11.0
Stereotopy head waving bouts, day 70.00.00.0-0.10.0
Stereotopy head waving duration, day 70.10.10.2-0.4-0.3
Locomotion velocity, session 81.51.82.01.31.4
Locomotion distance, session 85.68.28.22.92.9
Degree of sensitization distance0.40.40.4-0.6-0.6
Degree of sensitization stereotypy0.10.10.2-0.4-0.2
Conditioned locomotion0.10.10.10.40.2
Cocaine response after cond. corrected0.50.50.6-0.6-0.8
Cocaine response after cond. not corrected0.20.30.4-0.4-0.6
Cocaine response before conditioning0.10.10.10.20.3
Saline control response0.10.10.20.40.2
Bone: connectivity density0.71.21.3-1.2-1.0
Bone: cortical apparent density2.02.72.71.61.7
Bone: cortical area0.50.81.21.10.6
Bone: cortical porosity0.10.10.2-0.2-0.4
Bone: cortical porosity0.00.00.00.1-0.2
Bone: cortical thickness0.20.30.60.80.2
Bone: cortical thickness0.60.70.9-0.7-0.9
Bone: cortical tissue density2.22.93.11.71.8
Condit. Reinf. active minus inactive responses0.40.50.8-0.9-0.5
Condit. Reinf. active-inactive response ratio1.51.61.8-1.4-1.2
Condit. Reinf. active responses1.72.12.7-1.6-1.3
Condit. Reinf. inactive responses1.31.51.8-1.4-1.1
Incentive salience index mean0.10.10.1-0.4-0.1
Condit. Reinf. lever presses0.20.20.30.40.5
Condit. Reinf. active minus inactive responses0.00.00.10.00.2
Condit. Reinf. active-inactive response ratio0.00.00.0-0.00.1
Condit. Reinf. active responses0.10.10.10.20.4
Condit. Reinf. inactive responses0.00.00.00.00.1
Condit. Reinf. lever presses0.20.30.30.50.5
Condit. Reinf. lever reinforcers received0.20.30.40.50.7
Conditioned reinforcement - actives0.00.00.0-0.2-0.1
Conditioned reinforcement - inactives0.10.20.2-0.4-0.4
Conditioned locomotion0.40.50.50.70.7
Patch foraging indifference point 0 sec0.00.00.0-0.10.1
Patch foraging indifference point AUC0.00.00.0-0.00.2
Delay disc. indifference point, 0s delay0.10.10.2-0.4-0.3
Delay disc. indifference point, 16s delay0.00.00.00.1-0.1
Delay disc. indifference point, 2s delay1.11.21.21.11.1
Delay disc. indifference point, 24s delay2.42.32.31.51.5
Delay disc. indifference point, 4s delay0.20.20.3-0.3-0.5
Delay disc. indifference point, 8s delay0.10.10.1-0.4-0.3
Indifference point function ln k0.10.10.20.40.2
Indifference point function log k0.10.10.20.40.2
Patch foraging total patch changes 0 sec0.00.00.10.00.3
Patch foraging total patch changes 12 sec0.30.40.50.60.7
Patch foraging total patch changes 18 sec0.10.10.2-0.40.1
Patch foraging total patch changes 24 sec0.30.40.50.50.7
Patch foraging total patch changes 6 sec0.10.10.2-0.4-0.0
Patch foraging time to switch 0 sec0.50.81.2-0.7-1.1
Patch foraging water rate 0 sec3.14.95.52.12.3
Patch foraging water rate 12 sec1.01.51.71.31.1
Patch foraging water rate 18 sec0.00.00.0-0.0-0.0
Patch foraging water rate 24 sec5.27.27.32.72.7
Patch foraging water rate 6 sec7.511.011.13.33.3
Seeking ratio, delayed vs. immediate footshock0.40.40.6-0.5-0.8
Distance traveled before self-admin0.10.10.10.30.3
Distance traveled after self-admin0.50.60.70.90.6
Extensor digitorum longus weight0.10.30.6-0.3-0.8
Bone: elastic displacement2.73.03.1-1.8-1.7
Bone: elastic work1.82.32.7-1.4-1.6
Bone: endosteal estimation0.30.60.7-0.7-0.8
Bone: endosteal perimeter0.71.51.71.31.2
Epididymis fat weight3.27.58.32.92.6
Delta time in closed arm before/after self-admin0.10.10.2-0.2-0.4
Delta time in open arm before/after self-admin0.20.20.2-0.5-0.3
Diff in mean of infusions in LGA sessions1.41.51.9-1.1-1.4
Delay discount exponential model param0.00.10.1-0.3-0.2
Extinction: sum of active levers before priming0.70.70.7-0.8-0.9
Active lever presses in extinction session 60.10.10.20.40.3
Bone: final force0.10.10.3-0.1-0.5
Bone: final moment0.10.20.4-0.1-0.6
Food consumed during 24 hour testing period0.20.20.30.50.4
Glucose0.00.00.00.20.1
Heart weight0.10.10.10.20.3
Delay discount hyperbolic model param0.10.10.1-0.3-0.2
Intermittent access intake day 1-15 change0.10.10.2-0.4-0.3
Intermittent access intake escalation0.30.30.4-0.6-0.4
Intermittent access intake escalation 20.10.10.1-0.3-0.2
Intermitt. access day 1 inactive lever presses6.77.27.3-2.7-2.7
Intermitt. access day 15 inactive lever presses0.00.00.10.00.3
Intermitt. access escalation Index0.10.10.2-0.4-0.2
Intermittent access day 1 total infusions0.50.60.80.90.6
Intermittent access day 15 total infusions0.60.70.80.90.8
Intermittent access terminal intake (last 3 days)1.31.41.61.31.1
Intermittent access total infusions0.70.80.91.00.8
Intermittent access day 1 locomotion0.30.30.40.60.4
Intermittent access day 15 total locomotion0.70.80.90.81.0
Intermittent access total locomotion0.30.40.40.60.5
Intermittent access standard deviation0.10.10.10.30.3
Left kidney weight3.610.111.13.33.0
Right kidney weight2.26.37.22.72.3
Cocaine induced anxiety0.00.00.10.00.3
Post-drug Anxiety0.00.00.0-0.1-0.0
Baseline Anxiety0.10.10.1-0.2-0.4
Tail length9.127.731.65.64.9
Length with tail14.051.357.07.66.7
Length without tail7.416.317.94.23.8
Times rat made contact with spout0.00.00.1-0.1-0.3
Lifetime Intake1.41.51.61.31.2
Liver weight, left1.32.12.71.61.2
Liver weight, right1.42.32.91.71.3
Locomotor activity6.29.911.03.33.0
Locomotor testing distance2.94.85.02.22.1
Locomotor testing rearing0.30.40.50.70.6
Locomotion in novel chamber1.92.32.41.51.5
Locomotion in novel chamber post-restriction0.20.30.4-0.4-0.6
Fecal boli incidents, locomotor time 10.00.00.10.30.2
Change in fecal boli incidents, locomotor task0.00.00.1-0.3-0.1
Time >=10cm from walls, locomotor time 10.00.00.1-0.20.1
Bouts of movement, locomotor time 10.40.50.5-0.7-0.6
Total resting periods, locomotor time 10.40.50.5-0.7-0.7
Rest time, locomotor task time 10.80.91.0-1.0-0.9
Distance moved, locomotor task time 10.20.20.20.50.4
Vertical activity count, locomotor time 13.13.33.61.91.7
Time >=10cm from walls, locomotor time 20.20.20.4-0.7-0.1
Bouts of movement, locomotor time 20.30.30.30.60.5
Total resting periods, locomotor time 20.30.30.30.50.5
Rest time, locomotor task time 20.40.50.7-0.8-0.6
Distance moved, locomotor task time 20.00.00.00.20.1
Vertical activity count, locomotor time 21.92.12.41.51.4
Light reinforcement 11.22.22.51.41.6
Light reinforcement 21.01.31.3-1.1-1.1
Bone: marrow area0.20.50.6-0.6-0.8
Bone: maximum diameter0.91.61.91.41.2
Bone: maximum force0.20.30.5-0.3-0.7
Bone: maximum moment0.20.40.7-0.3-0.8
Mean time between licks in bursts0.60.81.00.81.0
Mean num. licks in bursts0.00.00.1-0.1-0.3
Cd content in liver0.20.20.30.40.5
Co content in liver2.02.42.61.61.5
Cu content in liver0.30.40.70.80.3
Fe content in liver0.40.50.50.70.7
K content in liver0.20.20.4-0.3-0.6
Mg content in liver0.10.10.1-0.1-0.3
Mn content in liver0.00.00.00.1-0.2
Na content in liver0.00.00.00.1-0.0
Rb content in liver1.62.02.1-1.4-1.5
Se content in liver1.31.61.71.31.2
Sr content in liver0.10.10.1-0.2-0.3
Zn content in liver1.31.51.51.21.2
Bone: minimum diameter2.85.15.92.42.1
Time in familiar zone, hab. session 10.20.20.30.40.5
Time in novel zone, hab. session 11.81.71.8-1.3-1.3
Total zone transitions, hab. session 13.65.05.22.22.3
Total locomotion distance, hab. session 14.26.06.52.32.6
Locomotion velocity, hab. session 15.78.18.92.73.0
Time in familiar zone, hab. session 20.00.00.00.10.1
Time in novel zone, hab. session 20.30.30.4-0.6-0.5
Total zone transitions, hab. session 20.60.80.90.90.9
Total locomotion distance, hab. session 20.40.60.70.60.9
Locomotion velocity, hab. session 20.71.01.20.91.1
Novel to familiar place preference ratio0.50.50.50.60.7
Novelty place preference0.20.20.30.40.5
Time in novel zone, NPP test0.30.30.30.50.5
Total zone transitions, NPP test1.31.92.01.41.3
Total locomotion distance, NPP test1.21.71.81.31.4
Locomotion velocity, NPP test0.81.11.31.01.1
Intraocular pressure2.43.43.8-1.9-1.7
Delta distance traveled before/after self-admin0.10.10.10.40.1
Delta ambulatory time before/after self-admin0.10.10.1-0.2-0.4
Parametrial fat weight0.10.20.30.60.4
Pavlov. Cond. lever latency0.60.80.80.90.9
Pavlov. Cond. magazine entry latency0.10.10.2-0.4-0.1
Pavlov. Cond. change in total contacts0.70.80.9-1.0-0.8
Pavlov. Cond. index score0.20.20.3-0.6-0.4
Pavlov. Cond. latency score0.30.40.5-0.7-0.5
Pavlov. Cond. lever contacts0.00.00.0-0.1-0.0
Pavlov. Cond. magazine entry number0.00.00.00.20.0
Pavlov. Cond. intertrial magazine entries0.00.00.00.20.1
Pavlov. Cond. lever-magazine prob. diff.0.10.10.2-0.4-0.3
Pavlov. Cond. response bias0.00.00.0-0.20.0
Pavlov. Cond. lever latency0.20.30.4-0.5-0.6
Pavlov. Cond. magazine entry latency1.01.11.50.81.2
Pavlov. Cond. change in total contacts3.64.95.32.12.3
Pavlov. Cond. index score1.51.92.21.31.5
Pavlov. Cond. latency score1.21.51.71.11.3
Pavlov. Cond. lever contacts0.30.40.40.60.7
Pavlov. Cond. magazine entry number1.82.22.8-1.3-1.7
Pavlov. Cond. intertrial magazine entries0.10.10.10.40.3
Pavlov. Cond. lever-magazine prob. diff.1.41.82.01.21.4
Pavlov. Cond. response bias0.81.11.31.01.1
Time in closed arm before self-admin0.50.60.70.60.9
Time in closed arm after self-admin0.10.10.10.20.2
Time in open arm before self-admin0.00.00.0-0.2-0.2
Time in open arm after self-admin0.10.10.2-0.4-0.3
Bone: periosteal estimation0.10.20.30.60.2
Bone: periosteal perimeter0.61.01.31.10.9
Bone: post-yield work0.40.60.7-0.7-0.9
Progressive ratio test 1 active lever presses1.31.41.91.40.9
Progressive ratio test 1 breakpoint1.51.52.11.41.0
Progressive ratio test 1 inactive lever presses0.20.20.2-0.4-0.5
Progressive ratio test 2 active lever presses0.80.91.01.00.9
Progressive ratio test 2 breakpoint0.70.80.91.00.8
Progressive ratio test 2 inactive lever presses0.00.00.00.10.0
Incentive Sensitization - Responses0.30.40.40.60.6
Incentive Sensitization - Breakpoint0.30.30.30.50.5
Sum of active levers in priming session hrs 5-60.10.10.10.10.3
Progressive ratio0.30.40.6-0.7-0.4
Food seeking constrained by brief footshock0.20.20.30.50.4
Seeking ratio, punishment vs. effort0.20.30.40.70.4
Retroperitoneal fat weight4.213.915.03.93.6
Reaction time number correct0.30.40.50.70.7
Reaction time mean minus median0.50.60.7-0.8-0.8
Reaction time mean minus median AUC0.71.01.0-1.0-0.9
Reaction time num false alarms2.02.73.0-1.5-1.7
Reaction time num false alarms AUC2.43.33.6-1.7-1.9
Reaction time trials correct on left0.30.40.50.70.7
Reaction time trials on left0.20.40.40.60.6
Reaction time mean0.30.50.6-0.6-0.8
Reaction time mean AUC0.50.60.8-0.7-0.9
Median of all reaction times0.10.20.3-0.3-0.6
Reaction time omissions2.53.53.5-1.8-1.9
Reaction time false alarm rate3.04.24.5-2.0-2.1
Reaction time premature initiation rate0.20.20.40.30.6
Reaction time premature initiations0.40.60.90.60.9
Std. dev. reaction times1.01.41.5-1.1-1.2
Reaction time trials completed0.20.40.40.60.6
Reaction time trials AUC0.30.40.50.70.7
Run reversals in cocaine runway, females0.50.50.70.90.5
Run reversals in cocaine runway, males0.10.10.10.10.4
Latency to leave start box in cocaine runway1.41.51.71.11.3
Latency to leave start box in cocaine runway, F0.10.10.20.20.4
Latency to leave start box in cocaine runway, M3.43.33.51.81.9
Std. dev. time between licks in bursts0.30.40.60.40.8
Total sessions with >9 infusions1.41.61.81.31.2
Short access day 1 total inactive lever presses2.02.22.6-1.4-1.6
Short access day 10 total inactive lever presses0.20.20.3-0.6-0.4
Short access day 1 total infusions0.80.91.11.10.8
Short access day 10 total infusions2.12.42.71.71.4
Short access total infusions2.52.83.11.81.6
Short access day 1 locomotion0.70.81.21.10.7
Short access day 10 total locomotion1.01.11.2-1.0-1.1
Short access total locomotion0.00.00.00.2-0.1
One hour access (0.3 mA shock)2.32.73.01.51.7
Compulsive drug intake0.80.81.00.71.0
One hour access (shock baseline)0.50.60.60.80.7
Social response proportion2.83.03.92.01.5
Social responses4.25.36.02.52.2
Social time0.30.50.8-0.4-0.9
Soleus weight0.00.10.10.30.1
Bone: stiffness0.20.30.60.70.0
Tibialis anterior weight0.82.73.7-1.3-1.9
Time to tail flick, vehicle, before self-admin1.11.11.40.91.2
Time to tail flick, vehicle, after self-admin3.63.84.0-1.9-2.0
Time to tail flick, test, before self-admin0.70.70.80.90.7
Time to tail flick, test, after self-admin0.30.30.30.40.6
Delta time to tail flick, vehicle, before/after SA3.93.84.3-1.8-2.1
Delta time to tail flick, test, before/after SA0.00.00.0-0.20.1
Tibia length9.727.429.75.55.0
Ambulatory time before self-admin0.00.00.00.10.0
Ambulatory time after self-admin1.31.41.81.31.0
Bone: tissue strength0.20.20.4-0.2-0.6
Total heroin consumption0.60.70.70.80.9
Bone: trabecular number0.91.41.5-1.2-1.2
Bone: trabecular spacing0.40.60.80.60.9
Bone: trabecular thickness0.20.20.30.60.3
Bone: trabecular tissue density0.40.50.60.70.8
Water consumed over 24 hours0.30.30.5-0.5-0.7
Number of responses in last shaping day0.20.20.20.50.4