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 0.41 0.11 0.0e+00 0.34 0.36 0.36 0.37 1.6e-38 4.9e-41 9.5e-42 8.0e-43
2 Liver mRNA stability Amdhd1 0.11 0.05 1.3e-12 0.09 0.08 0.07 0.08 5.5e-10 1.8e-09 1.8e-08 4.3e-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 density0.20.30.40.40.6
Area under the delay curve0.00.00.0-0.10.0
BMI with tail2.17.28.6-2.9-2.4
BMI without tail3.510.612.9-3.6-2.9
Body weight12.052.762.9-7.9-6.5
Weight adjusted by age1.31.92.3-1.3-1.5
Bone surface0.00.00.1-0.30.0
Bone volume0.10.10.2-0.5-0.1
Breakpoint value in progressive ratio session0.30.30.40.60.5
Number of licking bursts0.10.10.20.40.3
Context. condit. distance diff. score1.51.82.2-1.2-1.5
Locomotion velocity, session 10.00.00.10.10.3
Locomotion distance, session 10.10.20.2-0.5-0.3
Locomotion velocity, session 20.00.00.0-0.00.0
Locomotion distance, session 20.30.40.6-0.7-0.5
Locomotion velocity, session 31.71.92.1-1.3-1.4
Locomotion distance, session 31.71.81.9-1.4-1.3
Stereotopy head waving bouts, day 32.42.93.11.71.6
Stereotopy head waving duration, day 30.81.01.11.00.9
Locomotion velocity, session 73.03.33.5-1.9-1.7
Locomotion distance, session 70.81.11.1-1.1-1.0
Stereotopy head waving bouts, day 70.00.00.00.20.1
Stereotopy head waving duration, day 70.10.10.10.30.3
Locomotion velocity, session 81.62.02.0-1.4-1.4
Locomotion distance, session 85.37.77.8-2.8-2.8
Degree of sensitization distance0.40.40.40.60.6
Degree of sensitization stereotypy0.00.00.10.20.2
Conditioned locomotion0.10.10.1-0.3-0.2
Cocaine response after cond. corrected0.30.40.60.50.8
Cocaine response after cond. not corrected0.20.20.30.40.6
Cocaine response before conditioning0.10.10.1-0.2-0.4
Saline control response0.10.10.2-0.5-0.3
Bone: connectivity density0.61.01.01.01.0
Bone: cortical apparent density1.92.62.6-1.6-1.6
Bone: cortical area0.60.91.4-1.2-0.7
Bone: cortical porosity0.00.00.00.00.2
Bone: cortical porosity0.00.00.10.10.3
Bone: cortical thickness0.30.50.8-0.9-0.4
Bone: cortical thickness0.40.40.60.50.8
Bone: cortical tissue density2.12.93.0-1.7-1.7
Condit. Reinf. active minus inactive responses0.50.60.90.90.5
Condit. Reinf. active-inactive response ratio1.61.71.91.41.2
Condit. Reinf. active responses1.72.12.71.61.3
Condit. Reinf. inactive responses1.21.51.71.31.1
Incentive salience index mean0.10.10.20.40.0
Condit. Reinf. lever presses0.20.30.3-0.5-0.5
Condit. Reinf. active minus inactive responses0.00.10.1-0.1-0.3
Condit. Reinf. active-inactive response ratio0.00.00.00.0-0.2
Condit. Reinf. active responses0.10.10.2-0.2-0.4
Condit. Reinf. inactive responses0.00.00.00.1-0.1
Condit. Reinf. lever presses0.30.40.4-0.6-0.6
Condit. Reinf. lever reinforcers received0.30.40.5-0.5-0.7
Conditioned reinforcement - actives0.00.10.10.30.2
Conditioned reinforcement - inactives0.60.81.01.00.8
Conditioned locomotion0.00.10.1-0.1-0.3
Patch foraging indifference point 0 sec0.00.00.0-0.0-0.1
Patch foraging indifference point AUC0.10.10.1-0.3-0.3
Delay disc. indifference point, 0s delay0.10.10.10.40.3
Delay disc. indifference point, 16s delay0.00.00.0-0.20.1
Delay disc. indifference point, 2s delay1.21.31.5-1.1-1.2
Delay disc. indifference point, 24s delay2.12.32.4-1.5-1.5
Delay disc. indifference point, 4s delay0.20.20.30.40.5
Delay disc. indifference point, 8s delay0.10.10.10.30.3
Indifference point function ln k0.10.10.1-0.4-0.2
Indifference point function log k0.10.10.1-0.4-0.2
Patch foraging total patch changes 0 sec0.00.00.1-0.1-0.3
Patch foraging total patch changes 12 sec0.60.70.9-0.9-0.8
Patch foraging total patch changes 18 sec0.00.00.10.1-0.3
Patch foraging total patch changes 24 sec0.40.70.7-0.9-0.8
Patch foraging total patch changes 6 sec0.00.00.00.2-0.0
Patch foraging time to switch 0 sec0.40.91.30.71.1
Patch foraging water rate 0 sec2.34.95.4-2.1-2.3
Patch foraging water rate 12 sec0.81.72.0-1.4-1.1
Patch foraging water rate 18 sec0.00.00.00.10.1
Patch foraging water rate 24 sec5.17.17.3-2.6-2.7
Patch foraging water rate 6 sec7.410.710.9-3.3-3.3
Seeking ratio, delayed vs. immediate footshock0.40.50.70.60.8
Distance traveled before self-admin0.40.50.5-0.7-0.7
Distance traveled after self-admin0.10.10.1-0.3-0.2
Extensor digitorum longus weight0.10.20.40.10.6
Bone: elastic displacement2.73.23.31.81.7
Bone: elastic work1.92.52.71.51.6
Bone: endosteal estimation0.20.30.40.50.6
Bone: endosteal perimeter0.71.61.7-1.3-1.2
Epididymis fat weight2.68.99.3-3.0-2.9
Delta time in closed arm before/after self-admin0.20.20.40.20.6
Delta time in open arm before/after self-admin0.40.40.60.80.5
Diff in mean of infusions in LGA sessions0.30.30.40.50.6
Delay discount exponential model param0.00.10.10.30.2
Extinction: sum of active levers before priming0.50.50.60.60.8
Active lever presses in extinction session 60.60.60.6-0.8-0.7
Bone: final force0.10.20.40.20.6
Bone: final moment0.20.30.50.20.7
Food consumed during 24 hour testing period0.30.40.6-0.8-0.5
Glucose0.00.00.00.00.1
Heart weight1.93.03.1-1.8-1.7
Delay discount hyperbolic model param0.10.10.20.40.3
Intermittent access intake day 1-15 change0.10.20.2-0.3-0.5
Intermittent access intake escalation0.10.20.2-0.4-0.5
Intermittent access intake escalation 20.30.40.4-0.7-0.6
Intermitt. access day 1 inactive lever presses2.49.19.13.03.0
Intermitt. access day 15 inactive lever presses0.00.00.10.3-0.0
Intermitt. access escalation Index0.00.00.0-0.1-0.2
Intermittent access day 1 total infusions0.00.00.0-0.10.0
Intermittent access day 15 total infusions0.30.40.5-0.7-0.6
Intermittent access terminal intake (last 3 days)0.40.50.6-0.8-0.7
Intermittent access total infusions0.10.10.1-0.3-0.3
Intermittent access day 1 locomotion0.00.00.10.10.3
Intermittent access day 15 total locomotion0.10.20.4-0.3-0.6
Intermittent access total locomotion0.10.10.1-0.3-0.2
Intermittent access standard deviation0.10.30.30.50.5
Left kidney weight5.224.026.7-5.2-4.6
Right kidney weight3.817.519.7-4.4-3.9
Cocaine induced anxiety0.00.00.00.2-0.0
Post-drug Anxiety0.00.00.0-0.1-0.2
Baseline Anxiety0.40.50.6-0.8-0.5
Tail length9.737.843.9-6.6-5.6
Length with tail13.558.668.9-8.3-7.0
Length without tail8.126.230.5-5.5-4.7
Times rat made contact with spout0.00.00.1-0.10.3
Lifetime Intake0.40.40.4-0.6-0.7
Liver weight, left1.52.54.1-2.0-0.9
Liver weight, right2.03.44.9-2.2-1.4
Locomotor activity6.410.011.2-3.3-3.0
Locomotor testing distance3.05.55.7-2.4-2.3
Locomotor testing rearing0.20.40.4-0.7-0.7
Locomotion in novel chamber2.43.13.1-1.8-1.7
Locomotion in novel chamber post-restriction0.20.30.40.50.6
Fecal boli incidents, locomotor time 10.00.00.1-0.3-0.1
Change in fecal boli incidents, locomotor task0.30.30.40.60.4
Time >=10cm from walls, locomotor time 10.00.00.10.2-0.2
Bouts of movement, locomotor time 10.40.40.40.70.6
Total resting periods, locomotor time 10.50.50.50.70.7
Rest time, locomotor task time 10.60.80.80.90.9
Distance moved, locomotor task time 10.20.40.4-0.6-0.6
Vertical activity count, locomotor time 11.64.04.0-2.0-2.0
Time >=10cm from walls, locomotor time 20.10.20.40.6-0.0
Bouts of movement, locomotor time 20.10.20.2-0.5-0.5
Total resting periods, locomotor time 20.10.20.2-0.4-0.5
Rest time, locomotor task time 20.50.60.80.90.7
Distance moved, locomotor task time 20.10.10.1-0.4-0.3
Vertical activity count, locomotor time 21.92.62.8-1.7-1.5
Light reinforcement 11.02.42.7-1.4-1.7
Light reinforcement 20.71.01.11.01.0
Bone: marrow area0.10.30.40.50.6
Bone: maximum diameter1.22.22.6-1.6-1.3
Bone: maximum force0.10.20.30.20.6
Bone: maximum moment0.10.30.40.30.7
Mean time between licks in bursts0.10.30.4-0.5-0.7
Mean num. licks in bursts0.00.10.10.10.3
Cd content in liver0.10.20.20.50.3
Co content in liver0.50.60.6-0.7-0.8
Cu content in liver0.10.10.2-0.20.4
Fe content in liver0.20.20.3-0.4-0.5
K content in liver0.20.20.40.10.6
Mg content in liver0.30.30.50.40.7
Mn content in liver0.10.20.3-0.5-0.2
Na content in liver0.10.10.1-0.4-0.2
Rb content in liver1.72.02.41.31.5
Se content in liver0.40.40.4-0.7-0.7
Sr content in liver0.00.00.10.20.1
Zn content in liver3.94.34.3-2.1-2.1
Bone: minimum diameter3.25.86.4-2.5-2.3
Time in familiar zone, hab. session 10.30.30.4-0.6-0.5
Time in novel zone, hab. session 12.02.02.31.51.3
Total zone transitions, hab. session 13.65.05.3-2.2-2.3
Total locomotion distance, hab. session 14.36.06.5-2.4-2.5
Locomotion velocity, hab. session 15.78.18.8-2.7-3.0
Time in familiar zone, hab. session 20.00.00.0-0.2-0.1
Time in novel zone, hab. session 20.40.40.50.70.5
Total zone transitions, hab. session 20.60.70.9-0.7-0.9
Total locomotion distance, hab. session 20.40.50.7-0.6-0.8
Locomotion velocity, hab. session 20.70.91.1-0.8-1.1
Novel to familiar place preference ratio0.40.40.5-0.6-0.7
Novelty place preference0.20.20.3-0.4-0.5
Time in novel zone, NPP test0.20.20.3-0.5-0.5
Total zone transitions, NPP test1.21.71.9-1.3-1.4
Total locomotion distance, NPP test1.21.61.8-1.2-1.3
Locomotion velocity, NPP test0.81.11.3-0.9-1.1
Intraocular pressure2.94.25.02.21.8
Delta distance traveled before/after self-admin0.20.20.30.40.6
Delta ambulatory time before/after self-admin0.50.60.70.60.9
Parametrial fat weight0.71.62.1-1.4-1.0
Pavlov. Cond. lever latency0.40.50.6-0.7-0.7
Pavlov. Cond. magazine entry latency0.10.10.20.4-0.1
Pavlov. Cond. change in total contacts0.70.80.91.00.8
Pavlov. Cond. index score0.20.30.40.60.4
Pavlov. Cond. latency score0.30.40.50.70.5
Pavlov. Cond. lever contacts0.10.10.10.40.4
Pavlov. Cond. magazine entry number0.10.10.1-0.4-0.0
Pavlov. Cond. intertrial magazine entries0.00.00.1-0.2-0.1
Pavlov. Cond. lever-magazine prob. diff.0.10.20.30.50.3
Pavlov. Cond. response bias0.20.30.40.60.4
Pavlov. Cond. lever latency0.20.30.40.50.6
Pavlov. Cond. magazine entry latency0.81.01.4-0.8-1.2
Pavlov. Cond. change in total contacts3.04.85.3-2.1-2.3
Pavlov. Cond. index score1.52.02.3-1.3-1.5
Pavlov. Cond. latency score1.21.61.8-1.2-1.3
Pavlov. Cond. lever contacts0.40.50.6-0.6-0.8
Pavlov. Cond. magazine entry number2.02.43.01.41.7
Pavlov. Cond. intertrial magazine entries0.10.10.1-0.4-0.3
Pavlov. Cond. lever-magazine prob. diff.1.41.92.2-1.3-1.5
Pavlov. Cond. response bias1.01.31.6-1.0-1.3
Time in closed arm before self-admin0.81.01.6-0.7-1.3
Time in closed arm after self-admin0.30.30.3-0.6-0.6
Time in open arm before self-admin0.10.10.10.00.4
Time in open arm after self-admin0.50.60.60.70.8
Bone: periosteal estimation0.20.40.6-0.8-0.5
Bone: periosteal perimeter0.81.31.7-1.3-1.0
Bone: post-yield work0.30.40.50.60.7
Progressive ratio test 1 active lever presses1.72.12.2-1.5-1.4
Progressive ratio test 1 breakpoint1.72.02.1-1.5-1.4
Progressive ratio test 1 inactive lever presses0.30.50.50.70.7
Progressive ratio test 2 active lever presses0.30.30.3-0.6-0.6
Progressive ratio test 2 breakpoint0.30.30.3-0.6-0.6
Progressive ratio test 2 inactive lever presses0.00.00.1-0.2-0.2
Incentive Sensitization - Responses0.20.30.3-0.6-0.5
Incentive Sensitization - Breakpoint0.20.20.2-0.5-0.5
Sum of active levers in priming session hrs 5-60.00.00.0-0.2-0.1
Progressive ratio0.10.10.20.40.1
Food seeking constrained by brief footshock0.20.30.3-0.5-0.6
Seeking ratio, punishment vs. effort0.20.30.4-0.6-0.4
Retroperitoneal fat weight3.113.214.5-3.8-3.5
Reaction time number correct0.10.20.3-0.5-0.5
Reaction time mean minus median0.20.40.40.60.7
Reaction time mean minus median AUC0.30.70.70.80.8
Reaction time num false alarms1.92.73.31.41.8
Reaction time num false alarms AUC2.33.54.11.72.0
Reaction time trials correct on left0.10.20.3-0.5-0.5
Reaction time trials on left0.10.20.2-0.4-0.4
Reaction time mean0.20.30.40.50.7
Reaction time mean AUC0.30.50.60.60.8
Median of all reaction times0.20.30.40.40.6
Reaction time omissions1.92.72.81.61.7
Reaction time false alarm rate2.94.04.51.92.1
Reaction time premature initiation rate0.20.20.4-0.3-0.6
Reaction time premature initiations0.30.50.7-0.5-0.8
Std. dev. reaction times0.61.21.31.01.1
Reaction time trials completed0.10.20.2-0.4-0.4
Reaction time trials AUC0.10.20.3-0.5-0.5
Run reversals in cocaine runway, females0.60.61.0-1.0-0.6
Run reversals in cocaine runway, males0.10.10.2-0.2-0.4
Latency to leave start box in cocaine runway0.91.01.0-1.0-1.0
Latency to leave start box in cocaine runway, F0.00.00.00.1-0.1
Latency to leave start box in cocaine runway, M2.72.52.7-1.6-1.6
Std. dev. time between licks in bursts0.30.40.6-0.3-0.8
Total sessions with >9 infusions0.40.40.5-0.7-0.6
Short access day 1 total inactive lever presses3.03.94.31.92.1
Short access day 10 total inactive lever presses0.71.71.71.31.3
Short access day 1 total infusions0.00.00.00.00.1
Short access day 10 total infusions0.81.01.1-1.0-1.0
Short access total infusions0.70.91.0-0.9-1.0
Short access day 1 locomotion0.00.00.0-0.20.1
Short access day 10 total locomotion2.44.44.72.02.2
Short access total locomotion0.20.30.30.50.6
One hour access (0.3 mA shock)3.13.64.1-1.8-2.0
Compulsive drug intake0.20.30.4-0.4-0.6
One hour access (shock baseline)0.40.60.7-0.8-0.8
Social response proportion2.73.04.0-2.0-1.4
Social responses4.15.36.2-2.5-2.1
Social time0.40.50.90.40.9
Soleus weight0.00.10.2-0.5-0.2
Bone: stiffness0.30.50.9-1.0-0.2
Tibialis anterior weight0.82.63.41.31.8
Time to tail flick, vehicle, before self-admin0.70.80.9-0.8-0.9
Time to tail flick, vehicle, after self-admin2.53.33.31.81.8
Time to tail flick, test, before self-admin0.80.91.1-1.1-0.8
Time to tail flick, test, after self-admin1.11.11.1-1.0-1.0
Delta time to tail flick, vehicle, before/after SA4.24.04.41.92.1
Delta time to tail flick, test, before/after SA0.00.00.10.0-0.2
Tibia length10.228.131.1-5.6-5.0
Ambulatory time before self-admin0.20.30.3-0.6-0.5
Ambulatory time after self-admin0.80.91.2-1.1-0.9
Bone: tissue strength0.20.20.30.00.6
Total heroin consumption0.10.20.2-0.4-0.5
Bone: trabecular number0.61.11.21.01.1
Bone: trabecular spacing0.40.50.8-0.5-0.9
Bone: trabecular thickness0.30.40.6-0.8-0.4
Bone: trabecular tissue density0.50.70.8-0.8-0.9
Water consumed over 24 hours0.10.10.1-0.20.4
Number of responses in last shaping day0.00.00.10.30.1