Hub : Genes

RGD1562683

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 Brain gene expression RGD1562683 0.07 0.04 4.8e-07 0.07 0.07 0.06 0.07 7.5e-07 6.8e-07 6.0e-06 9.0e-07
2 PL gene expression RGD1562683 0.03 0.02 9.7e-03 0.01 0.01 0 0 4.1e-02 6.0e-02 1.9e-01 2.4e-01
3 Adipose gene expression RGD1562683 0.03 0.02 4.9e-04 0.03 0.02 0.02 0.02 3.0e-04 1.9e-03 1.6e-03 1.0e-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 3
Bone: apparent density0.10.10.4-0.6-0.20.0
Area under the delay curve0.50.81.8-0.2-1.3-0.8
BMI with tail0.41.32.8-1.70.6-0.9
BMI without tail0.00.20.3-0.5-0.50.2
Body weight0.00.10.2-0.3-0.5-0.1
Weight adjusted by age0.41.01.51.1-1.20.6
Bone surface4.28.29.7-3.12.4-3.0
Bone volume2.14.15.6-2.41.6-2.1
Breakpoint value in progressive ratio session0.20.30.6-0.00.8-0.6
Number of licking bursts0.20.71.10.3-1.10.9
Context. condit. distance diff. score0.20.20.50.2-0.2-0.7
Locomotion velocity, session 10.10.10.2-0.10.4-0.1
Locomotion distance, session 10.91.22.1-0.61.1-1.4
Locomotion velocity, session 20.10.20.3-0.00.6-0.4
Locomotion distance, session 20.10.10.3-0.0-0.3-0.6
Locomotion velocity, session 34.24.88.4-1.82.9-1.8
Locomotion distance, session 30.91.11.8-1.40.9-0.7
Stereotopy head waving bouts, day 31.31.53.3-0.41.81.0
Stereotopy head waving duration, day 30.81.02.3-0.41.50.7
Locomotion velocity, session 71.01.11.21.1-1.01.1
Locomotion distance, session 71.01.32.60.9-1.60.7
Stereotopy head waving bouts, day 72.02.46.1-0.92.5-0.6
Stereotopy head waving duration, day 71.92.45.5-0.82.3-1.0
Locomotion velocity, session 82.93.55.4-1.72.3-1.6
Locomotion distance, session 80.20.41.00.0-0.2-1.0
Degree of sensitization distance1.71.82.41.6-1.50.9
Degree of sensitization stereotypy2.52.84.7-1.22.2-1.5
Conditioned locomotion0.81.01.51.2-0.80.9
Cocaine response after cond. corrected0.10.20.30.60.4-0.0
Cocaine response after cond. not corrected0.10.20.50.70.1-0.0
Cocaine response before conditioning0.10.10.2-0.1-0.3-0.4
Saline control response1.42.02.6-1.01.6-1.6
Bone: connectivity density0.91.52.5-1.60.7-1.2
Bone: cortical apparent density0.00.00.00.1-0.20.0
Bone: cortical area0.20.40.9-0.01.0-0.5
Bone: cortical porosity0.70.81.30.8-1.10.6
Bone: cortical porosity0.60.60.90.8-1.00.5
Bone: cortical thickness1.62.74.62.1-0.91.6
Bone: cortical thickness0.40.50.80.9-0.70.5
Bone: cortical tissue density0.00.00.00.0-0.20.0
Condit. Reinf. active minus inactive responses0.00.00.10.3-0.00.2
Condit. Reinf. active-inactive response ratio0.30.30.60.8-0.10.6
Condit. Reinf. active responses0.00.00.10.2-0.1-0.3
Condit. Reinf. inactive responses0.10.10.1-0.20.3-0.4
Incentive salience index mean0.10.20.30.5-0.50.2
Condit. Reinf. lever presses0.30.40.60.8-0.70.2
Condit. Reinf. active minus inactive responses0.81.33.0-0.70.6-1.7
Condit. Reinf. active-inactive response ratio0.30.41.0-0.4-0.4-1.0
Condit. Reinf. active responses1.52.23.0-0.91.7-1.7
Condit. Reinf. inactive responses1.31.94.2-0.72.0-1.0
Condit. Reinf. lever presses0.91.31.8-0.81.4-1.2
Condit. Reinf. lever reinforcers received1.82.53.3-1.11.8-1.8
Conditioned reinforcement - actives0.51.93.21.2-1.81.0
Conditioned reinforcement - inactives1.64.37.92.8-0.92.0
Conditioned locomotion0.20.30.90.9-0.10.3
Patch foraging indifference point 0 sec0.71.93.51.9-0.31.4
Patch foraging indifference point AUC0.61.41.9-0.71.4-1.3
Delay disc. indifference point, 0s delay0.50.60.8-0.5-0.9-0.9
Delay disc. indifference point, 16s delay0.10.10.4-0.2-0.60.0
Delay disc. indifference point, 2s delay0.40.40.7-0.7-0.8-0.4
Delay disc. indifference point, 24s delay0.60.91.71.0-1.30.3
Delay disc. indifference point, 4s delay0.80.91.4-0.6-0.9-1.2
Delay disc. indifference point, 8s delay0.50.82.00.4-1.4-0.4
Indifference point function ln k0.61.72.41.5-1.50.8
Indifference point function log k0.61.72.41.5-1.50.8
Patch foraging total patch changes 0 sec0.51.32.61.6-0.11.2
Patch foraging total patch changes 12 sec0.70.92.5-0.11.6-0.5
Patch foraging total patch changes 18 sec0.20.61.4-0.01.2-0.6
Patch foraging total patch changes 24 sec0.20.71.5-0.20.8-1.2
Patch foraging total patch changes 6 sec0.71.13.10.41.80.3
Patch foraging time to switch 0 sec0.10.20.5-0.7-0.3-0.0
Patch foraging water rate 0 sec0.41.43.3-0.81.8-0.5
Patch foraging water rate 12 sec0.41.52.31.5-0.91.1
Patch foraging water rate 18 sec0.10.20.5-0.70.3-0.1
Patch foraging water rate 24 sec0.20.30.50.6-0.7-0.2
Patch foraging water rate 6 sec0.00.00.10.3-0.1-0.3
Seeking ratio, delayed vs. immediate footshock0.71.01.70.0-1.11.3
Distance traveled before self-admin0.10.30.80.00.9-0.2
Distance traveled after self-admin0.30.50.7-0.9-0.7-0.4
Extensor digitorum longus weight3.815.320.3-4.53.8-3.4
Bone: elastic displacement0.50.61.10.6-0.61.0
Bone: elastic work0.10.10.30.20.20.5
Bone: endosteal estimation3.38.110.2-3.22.1-3.1
Bone: endosteal perimeter2.04.86.3-2.02.0-2.5
Epididymis fat weight0.42.04.3-1.00.9-2.1
Delta time in closed arm before/after self-admin0.70.61.2-0.8-1.1-0.2
Delta time in open arm before/after self-admin0.40.40.7-0.70.8-0.3
Diff in mean of infusions in LGA sessions1.12.03.9-0.32.0-1.4
Delay discount exponential model param0.60.71.70.21.30.7
Extinction: sum of active levers before priming0.30.40.70.30.9-0.6
Active lever presses in extinction session 61.41.41.61.31.11.2
Bone: final force0.40.71.2-0.51.1-0.8
Bone: final moment0.50.81.3-0.51.1-0.9
Food consumed during 24 hour testing period0.30.71.01.0-0.40.9
Glucose5.28.29.9-2.73.1-2.7
Heart weight0.10.10.4-0.1-0.70.0
Delay discount hyperbolic model param0.60.81.70.31.30.8
Intermittent access intake day 1-15 change0.21.22.11.5-0.11.2
Intermittent access intake escalation0.20.91.81.3-0.21.0
Intermittent access intake escalation 20.20.40.80.90.60.2
Intermitt. access day 1 inactive lever presses0.23.25.02.2-1.61.4
Intermitt. access day 15 inactive lever presses0.21.23.41.80.50.3
Intermitt. access escalation Index0.20.50.80.8-0.90.4
Intermittent access day 1 total infusions0.51.52.01.4-1.11.2
Intermittent access day 15 total infusions1.43.46.42.5-0.81.8
Intermittent access terminal intake (last 3 days)1.52.75.62.4-1.01.2
Intermittent access total infusions2.22.64.42.1-1.11.6
Intermittent access day 1 locomotion1.52.73.91.8-2.01.1
Intermittent access day 15 total locomotion0.31.23.21.80.40.5
Intermittent access total locomotion2.53.17.12.7-0.91.1
Intermittent access standard deviation0.10.60.90.81.00.6
Left kidney weight1.310.416.43.0-4.12.5
Right kidney weight1.49.710.43.1-3.23.0
Cocaine induced anxiety0.10.20.40.60.20.5
Post-drug Anxiety0.40.50.9-0.00.7-1.0
Baseline Anxiety0.20.40.5-0.5-0.7-0.6
Tail length0.94.97.02.6-1.62.2
Length with tail0.31.41.91.4-1.30.8
Length without tail0.00.20.4-0.10.4-0.7
Times rat made contact with spout8.19.313.43.7-2.42.9
Lifetime Intake1.62.02.31.5-1.21.5
Liver weight, left5.79.910.43.1-3.23.1
Liver weight, right2.74.75.91.7-2.32.4
Locomotor activity2.03.14.91.9-2.20.9
Locomotor testing distance0.51.31.51.2-1.21.0
Locomotor testing rearing0.20.71.60.6-1.30.2
Locomotion in novel chamber0.10.10.30.50.10.2
Locomotion in novel chamber post-restriction0.10.20.6-0.70.2-0.1
Fecal boli incidents, locomotor time 10.20.51.40.1-1.2-0.2
Change in fecal boli incidents, locomotor task1.71.82.91.7-1.30.8
Time >=10cm from walls, locomotor time 10.30.41.21.1-0.20.1
Bouts of movement, locomotor time 10.10.10.2-0.10.5-0.1
Total resting periods, locomotor time 10.10.10.20.10.4-0.2
Rest time, locomotor task time 10.91.53.6-0.9-0.3-1.9
Distance moved, locomotor task time 10.41.23.20.6-0.11.8
Vertical activity count, locomotor time 10.10.61.1-0.00.81.0
Time >=10cm from walls, locomotor time 20.10.30.6-0.80.5-0.4
Bouts of movement, locomotor time 20.92.95.9-1.11.2-2.4
Total resting periods, locomotor time 20.41.54.0-0.40.6-2.0
Rest time, locomotor task time 20.20.40.60.8-0.4-0.6
Distance moved, locomotor task time 20.40.50.9-0.90.40.7
Vertical activity count, locomotor time 20.40.92.1-1.50.6-0.2
Light reinforcement 10.10.61.0-0.8-0.4-1.0
Light reinforcement 22.55.77.7-2.61.7-2.8
Bone: marrow area3.68.810.8-3.32.2-3.3
Bone: maximum diameter1.22.53.0-1.21.7-1.7
Bone: maximum force0.40.71.5-0.71.2-0.6
Bone: maximum moment0.40.71.2-0.61.1-0.7
Mean time between licks in bursts0.52.93.61.7-1.51.9
Mean num. licks in bursts0.41.02.51.60.00.7
Cd content in liver0.60.71.4-1.20.8-0.3
Co content in liver0.30.40.7-0.5-0.5-0.8
Cu content in liver0.30.30.50.6-0.40.7
Fe content in liver0.40.50.90.51.00.6
K content in liver0.20.20.5-0.70.1-0.3
Mg content in liver0.30.30.7-0.80.2-0.5
Mn content in liver0.60.61.3-0.80.2-1.1
Na content in liver3.94.44.7-1.92.2-2.2
Rb content in liver0.60.71.20.6-1.10.8
Se content in liver0.70.81.70.9-0.21.3
Sr content in liver1.31.11.71.0-1.30.8
Zn content in liver0.00.00.10.1-0.00.3
Bone: minimum diameter4.17.88.9-2.93.0-2.5
Time in familiar zone, hab. session 10.10.10.3-0.1-0.1-0.6
Time in novel zone, hab. session 10.30.30.6-0.80.60.3
Total zone transitions, hab. session 10.71.01.51.2-1.20.4
Total locomotion distance, hab. session 11.01.41.71.3-1.30.9
Locomotion velocity, hab. session 11.11.51.91.3-1.40.9
Time in familiar zone, hab. session 21.11.33.0-0.90.2-1.7
Time in novel zone, hab. session 20.80.92.20.6-0.21.5
Total zone transitions, hab. session 20.50.71.20.7-1.1-0.6
Total locomotion distance, hab. session 21.52.04.11.3-2.00.4
Locomotion velocity, hab. session 21.41.83.81.2-2.00.3
Novel to familiar place preference ratio0.20.20.6-0.2-0.10.8
Novelty place preference0.20.20.4-0.6-0.00.5
Time in novel zone, NPP test0.20.20.6-0.70.10.3
Total zone transitions, NPP test0.20.20.60.3-0.1-0.8
Total locomotion distance, NPP test0.20.20.50.4-0.70.2
Locomotion velocity, NPP test0.30.40.70.6-0.80.3
Intraocular pressure0.10.10.2-0.5-0.10.4
Delta distance traveled before/after self-admin1.41.53.5-0.8-1.9-0.5
Delta ambulatory time before/after self-admin0.91.63.6-0.9-1.9-0.5
Parametrial fat weight3.27.515.1-3.91.3-2.4
Pavlov. Cond. lever latency0.00.00.1-0.3-0.00.1
Pavlov. Cond. magazine entry latency0.50.70.70.8-0.80.8
Pavlov. Cond. change in total contacts0.10.10.20.4-0.50.2
Pavlov. Cond. index score0.10.10.20.4-0.30.4
Pavlov. Cond. latency score0.20.20.20.5-0.50.4
Pavlov. Cond. lever contacts0.00.10.10.30.3-0.0
Pavlov. Cond. magazine entry number0.20.20.3-0.30.5-0.5
Pavlov. Cond. intertrial magazine entries3.33.98.8-1.23.0-1.2
Pavlov. Cond. lever-magazine prob. diff.0.10.10.10.3-0.20.3
Pavlov. Cond. response bias0.10.20.30.6-0.20.5
Pavlov. Cond. lever latency1.11.52.31.0-1.21.5
Pavlov. Cond. magazine entry latency0.10.10.20.40.1-0.4
Pavlov. Cond. change in total contacts0.51.21.9-1.00.8-1.4
Pavlov. Cond. index score0.20.40.6-0.00.8-0.7
Pavlov. Cond. latency score0.10.20.40.20.3-0.6
Pavlov. Cond. lever contacts1.21.82.4-1.11.3-1.6
Pavlov. Cond. magazine entry number0.10.20.50.1-0.00.7
Pavlov. Cond. intertrial magazine entries0.20.40.9-0.51.0-0.4
Pavlov. Cond. lever-magazine prob. diff.0.20.30.50.10.6-0.7
Pavlov. Cond. response bias1.11.52.0-1.01.3-1.4
Time in closed arm before self-admin0.30.61.4-0.60.3-1.2
Time in closed arm after self-admin2.22.53.3-1.8-1.6-1.2
Time in open arm before self-admin0.10.10.20.1-0.40.2
Time in open arm after self-admin1.01.13.1-0.21.8-0.3
Bone: periosteal estimation1.63.84.1-1.92.0-2.0
Bone: periosteal perimeter0.81.62.4-0.91.5-1.3
Bone: post-yield work0.61.02.2-0.71.5-0.6
Progressive ratio test 1 active lever presses2.03.53.91.8-2.01.8
Progressive ratio test 1 breakpoint1.93.23.71.7-1.91.7
Progressive ratio test 1 inactive lever presses1.64.25.62.4-1.42.3
Progressive ratio test 2 active lever presses3.14.47.02.7-1.12.3
Progressive ratio test 2 breakpoint3.24.16.62.6-1.02.2
Progressive ratio test 2 inactive lever presses1.34.010.33.2-0.41.3
Incentive Sensitization - Responses0.61.83.81.90.21.3
Incentive Sensitization - Breakpoint0.81.94.22.00.21.2
Sum of active levers in priming session hrs 5-60.50.40.80.60.90.3
Progressive ratio0.10.20.5-0.40.7-0.1
Food seeking constrained by brief footshock1.01.32.21.0-0.81.5
Seeking ratio, punishment vs. effort0.40.81.00.9-0.81.0
Retroperitoneal fat weight1.77.612.7-3.61.6-2.8
Reaction time number correct0.00.10.20.00.5-0.1
Reaction time mean minus median0.10.51.51.2-0.40.0
Reaction time mean minus median AUC0.10.40.90.90.4-0.4
Reaction time num false alarms2.03.35.21.7-1.42.3
Reaction time num false alarms AUC1.43.34.11.5-1.82.0
Reaction time trials correct on left0.00.10.20.00.5-0.1
Reaction time trials on left0.00.10.3-0.00.5-0.2
Reaction time mean0.00.00.0-0.10.00.2
Reaction time mean AUC0.00.00.00.20.20.2
Median of all reaction times0.10.10.4-0.60.10.1
Reaction time omissions0.10.10.30.1-0.2-0.5
Reaction time false alarm rate2.33.24.01.4-1.92.0
Reaction time premature initiation rate1.21.83.5-1.30.4-1.9
Reaction time premature initiations0.51.53.0-1.00.7-1.7
Std. dev. reaction times0.20.51.21.1-0.50.4
Reaction time trials completed0.00.10.3-0.00.5-0.2
Reaction time trials AUC0.10.30.6-0.30.7-0.3
Run reversals in cocaine runway, females0.60.71.61.3-0.70.2
Run reversals in cocaine runway, males0.10.20.30.30.1-0.6
Latency to leave start box in cocaine runway0.20.30.4-0.2-0.6-0.6
Latency to leave start box in cocaine runway, F0.30.30.9-0.1-1.0-0.1
Latency to leave start box in cocaine runway, M0.40.41.0-0.10.3-1.0
Std. dev. time between licks in bursts0.30.61.41.20.10.7
Total sessions with >9 infusions0.70.91.50.6-0.81.2
Short access day 1 total inactive lever presses0.91.83.01.7-0.21.6
Short access day 10 total inactive lever presses0.00.20.60.10.70.3
Short access day 1 total infusions0.71.43.20.5-0.91.8
Short access day 10 total infusions0.40.71.20.1-1.01.1
Short access total infusions0.60.91.50.4-1.01.2
Short access day 1 locomotion1.32.13.31.2-1.21.8
Short access day 10 total locomotion0.10.30.9-0.0-0.3-1.0
Short access total locomotion0.10.20.40.5-0.6-0.1
One hour access (0.3 mA shock)1.92.24.82.2-0.41.3
Compulsive drug intake0.50.81.2-1.00.5-1.1
One hour access (shock baseline)1.43.66.72.6-0.32.0
Social response proportion0.70.91.81.0-1.30.3
Social responses0.70.92.40.6-1.50.2
Social time0.10.10.2-0.20.1-0.5
Soleus weight1.23.75.8-1.81.4-2.4
Bone: stiffness0.00.10.20.00.50.1
Tibialis anterior weight7.024.232.6-5.74.7-4.2
Time to tail flick, vehicle, before self-admin2.02.45.71.3-0.22.4
Time to tail flick, vehicle, after self-admin0.40.81.3-0.90.5-1.2
Time to tail flick, test, before self-admin1.61.84.60.8-2.10.5
Time to tail flick, test, after self-admin0.80.92.50.4-1.6-0.1
Delta time to tail flick, vehicle, before/after SA2.02.14.7-1.10.6-2.2
Delta time to tail flick, test, before/after SA0.00.00.1-0.10.3-0.1
Tibia length0.10.10.20.3-0.30.5
Ambulatory time before self-admin0.30.82.3-0.31.5-0.3
Ambulatory time after self-admin0.40.61.4-1.20.0-0.6
Bone: tissue strength0.50.50.80.7-0.90.6
Total heroin consumption0.60.61.51.2-0.7-0.1
Bone: trabecular number0.10.20.3-0.6-0.1-0.4
Bone: trabecular spacing2.74.05.32.3-2.11.5
Bone: trabecular thickness0.81.11.8-1.31.0-0.7
Bone: trabecular tissue density0.81.52.61.1-1.60.8
Water consumed over 24 hours0.20.40.80.9-0.60.5
Number of responses in last shaping day1.92.43.91.4-2.01.2