Hub : Genes

Garem2

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 ENSRNOG00000048004 0.04 0.04 8.3e-04 0.02 0.02 0.02 0.02 2.5e-03 2e-03 2.2e-03 4.1e-03
2 Brain mRNA stability ENSRNOG00000048004 0.06 0.05 1.7e-05 0.05 0.05 0.04 0.04 2.1e-05 2e-05 4.7e-05 5.4e-05
3 Liver gene expression ENSRNOG00000048004 0.04 0.04 4.7e-04 0.02 0.01 0.01 0.01 4.6e-03 2e-02 1.1e-02 1.6e-02

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 2 3
BMI with tail2.68.38.6-2.92.9-2.8
BMI without tail0.40.91.1-1.01.1-0.7
Body weight2.18.78.8-3.02.9-3.0
Epididymis fat weight15.435.938.4-6.26.2-5.6
Glucose0.20.30.4-0.60.6-0.3
Heart weight4.36.26.7-2.62.6-2.3
Left kidney weight0.41.21.51.2-1.20.8
Right kidney weight0.10.30.4-0.50.5-0.7
Tail length0.20.50.60.6-0.60.8
Length with tail0.10.40.7-0.50.5-0.8
Length without tail0.20.30.8-0.40.3-0.9
Liver weight, left0.91.51.7-1.31.3-1.1
Liver weight, right5.99.810.9-3.03.0-3.3
Parametrial fat weight9.518.619.1-4.44.4-4.2
Retroperitoneal fat weight29.196.2101.4-10.010.1-9.3
Intraocular pressure4.76.77.8-2.52.5-2.8
Extensor digitorum longus weight2.08.28.42.9-2.82.9
Soleus weight2.67.57.72.7-2.72.8
Tibialis anterior weight0.72.52.61.6-1.61.5
Tibia length0.92.53.4-1.41.4-1.8
Number of licking bursts1.21.51.6-1.31.2-1.1
Food consumed during 24 hour testing period0.00.10.1-0.30.3-0.1
Times rat made contact with spout0.50.60.60.8-0.80.8
Mean time between licks in bursts1.62.22.5-1.61.6-1.3
Mean num. licks in bursts1.41.71.91.4-1.41.2
Std. dev. time between licks in bursts0.81.01.1-1.01.0-0.9
Water consumed over 24 hours0.00.00.00.1-0.10.1
Indifference point 0 sec0.91.52.7-1.00.9-1.6
Indifference point AUC0.00.00.10.0-0.00.4
Indifference point function ln k1.52.12.31.5-1.51.3
Indifference point function log k1.52.12.31.5-1.51.3
Delay discounting total patch changes 0 sec0.91.52.8-0.90.9-1.7
Delay discounting total patch changes 12 sec1.21.62.3-1.21.1-1.5
Delay discounting total patch changes 18 sec1.11.52.0-1.11.1-1.4
Delay discounting total patch changes 24 sec1.41.82.5-1.21.2-1.6
Delay discounting total patch changes 6 sec1.92.93.0-1.71.7-1.7
Delay discounting time to switch 0 sec0.30.50.5-0.70.7-0.7
Delay discounting water rate 0 sec0.91.51.91.3-1.40.9
Delay discounting water rate 12 sec0.10.10.2-0.30.3-0.5
Delay discounting water rate 18 sec0.91.21.41.2-1.20.9
Delay discounting water rate 24 sec0.10.20.4-0.30.3-0.6
Delay discounting water rate 6 sec0.10.10.20.4-0.40.2
Locomotor activity0.71.11.5-0.90.9-1.2
Locomotor testing distance0.40.70.9-0.80.8-0.9
Locomotor testing rearing0.30.40.60.8-0.80.3
Light reinforcement 10.30.60.80.9-0.90.4
Light reinforcement 21.11.51.61.2-1.31.1
Reaction time number correct0.20.20.40.4-0.40.6
Reaction time mean minus median0.10.10.3-0.10.10.6
Reaction time mean minus median AUC0.10.10.1-0.30.30.2
Reaction time num false alarms2.23.04.3-1.61.5-2.1
Reaction time num false alarms AUC2.23.04.2-1.61.5-2.0
Reaction time trials correct on left0.20.20.40.4-0.40.6
Reaction time trials on left0.20.20.30.4-0.40.6
Reaction time mean0.00.00.1-0.20.20.2
Reaction time mean AUC0.00.00.1-0.10.10.3
Median of all reaction times0.00.00.0-0.00.00.2
Reaction time omissions0.20.20.3-0.50.5-0.4
Reaction time false alarm rate2.63.74.8-1.81.7-2.2
Reaction time premature initiation rate0.20.20.3-0.40.4-0.5
Reaction time premature initiations0.00.00.0-0.20.2-0.2
Std. dev. reaction times0.10.20.3-0.50.50.1
Reaction time trials completed0.20.20.30.4-0.40.6
Reaction time trials AUC0.20.30.40.5-0.50.6
Social response proportion0.10.10.10.4-0.30.4
Social responses0.20.20.3-0.40.4-0.5
Social time0.10.10.10.3-0.30.3
Conditioned locomotion4.14.95.92.1-2.12.4
Cocaine response after cond. corrected0.20.20.20.4-0.40.5
Cocaine response after cond. not corrected0.80.91.00.9-0.91.0
Cocaine response before conditioning2.32.83.11.6-1.61.8
Saline control response1.21.62.01.4-1.40.9
Condit. Reinf. active minus inactive responses1.31.61.81.2-1.21.3
Condit. Reinf. active-inactive response ratio0.70.80.90.8-0.80.9
Condit. Reinf. active responses0.71.01.21.0-1.01.1
Condit. Reinf. inactive responses0.10.20.20.4-0.40.4
Condit. Reinf. lever presses1.01.41.51.2-1.21.2
Condit. Reinf. lever reinforcers received0.60.91.00.9-0.91.0
Pavlov. Cond. lever latency0.91.21.4-1.01.0-1.2
Pavlov. Cond. magazine entry latency0.00.00.0-0.10.10.2
Pavlov. Cond. change in total contacts0.10.10.30.2-0.10.6
Pavlov. Cond. index score0.40.50.80.6-0.60.9
Pavlov. Cond. latency score0.40.50.80.6-0.60.9
Pavlov. Cond. lever contacts0.20.30.40.5-0.50.7
Pavlov. Cond. magazine entry number0.10.10.10.3-0.3-0.0
Pavlov. Cond. intertrial magazine entries2.83.64.1-1.81.8-2.0
Pavlov. Cond. lever-magazine prob. diff.0.10.20.40.3-0.30.6
Pavlov. Cond. response bias0.50.61.00.7-0.71.0
Conditioned reinforcement - actives4.24.24.52.0-2.02.1
Conditioned reinforcement - inactives5.46.16.42.5-2.52.3
Conditioned locomotion3.44.14.42.1-2.11.9
Intermittent access intake day 1-15 change1.61.61.91.4-1.41.0
Intermittent access intake escalation0.90.91.01.0-1.00.7
Intermittent access intake escalation 20.10.10.3-0.20.2-0.6
Intermitt. access day 1 inactive lever presses0.00.00.10.2-0.30.1
Intermitt. access day 15 inactive lever presses1.71.82.01.3-1.31.4
Intermitt. access escalation Index2.82.52.6-1.61.6-1.5
Intermittent access day 1 total infusions3.94.44.72.1-2.12.2
Intermittent access day 15 total infusions4.24.64.92.2-2.22.0
Intermittent access terminal intake (last 3 days)3.74.04.12.0-2.02.0
Intermittent access total infusions5.35.95.92.4-2.42.4
Intermittent access day 1 locomotion2.32.42.61.6-1.61.4
Intermittent access day 15 total locomotion0.40.40.50.7-0.70.6
Intermittent access total locomotion0.81.01.11.1-1.10.8
Intermittent access standard deviation0.50.50.80.9-0.90.2
Cocaine induced anxiety0.00.10.10.2-0.20.3
Post-drug Anxiety1.41.61.6-1.31.2-1.3
Baseline Anxiety1.51.61.6-1.21.2-1.3
Lifetime Intake6.16.86.92.6-2.62.6
Incentive Sensitization - Responses1.31.31.71.2-1.30.9
Incentive Sensitization - Breakpoint0.80.81.11.0-1.00.6
Progressive ratio test 1 active lever presses3.03.13.31.8-1.81.7
Progressive ratio test 1 breakpoint2.32.32.51.6-1.61.5
Progressive ratio test 1 inactive lever presses5.76.16.42.4-2.42.5
Progressive ratio test 2 active lever presses2.12.32.61.6-1.61.3
Progressive ratio test 2 breakpoint2.22.52.81.7-1.71.4
Progressive ratio test 2 inactive lever presses3.03.43.71.9-1.91.7
Total sessions with >9 infusions6.87.47.82.8-2.82.6
Short access day 1 total inactive lever presses2.83.13.31.8-1.71.8
Short access day 10 total inactive lever presses0.10.10.1-0.20.2-0.2
Short access day 1 total infusions5.25.55.92.3-2.32.4
Short access day 10 total infusions6.87.47.52.7-2.72.7
Short access total infusions5.66.26.62.5-2.42.6
Short access day 1 locomotion6.06.46.92.5-2.42.6
Short access day 10 total locomotion1.21.41.61.3-1.31.0
Short access total locomotion2.42.42.61.6-1.61.5
Compulsive drug intake3.63.63.8-1.92.0-1.8
One hour access (0.3 mA shock)2.22.62.71.6-1.61.6
One hour access (shock baseline)6.27.27.52.7-2.72.6
Number of responses in last shaping day2.32.42.81.6-1.71.3
Context. condit. distance diff. score0.20.20.20.5-0.50.3
Locomotion velocity, session 10.80.91.1-0.90.9-1.0
Locomotion distance, session 10.20.20.30.6-0.60.1
Locomotion velocity, session 20.10.10.1-0.20.2-0.4
Locomotion distance, session 20.20.30.6-0.30.3-0.8
Locomotion velocity, session 30.00.00.00.2-0.20.1
Locomotion distance, session 30.10.10.2-0.20.2-0.4
Stereotopy head waving bouts, day 32.12.52.51.6-1.61.6
Stereotopy head waving duration, day 30.60.70.70.8-0.80.9
Locomotion velocity, session 70.00.00.0-0.10.1-0.1
Locomotion distance, session 71.01.31.7-1.11.1-1.3
Stereotopy head waving bouts, day 70.00.00.00.0-0.0-0.1
Stereotopy head waving duration, day 70.40.50.60.7-0.70.8
Locomotion velocity, session 80.60.70.80.8-0.80.9
Locomotion distance, session 80.20.30.40.6-0.60.3
Degree of sensitization distance0.80.80.9-0.90.9-0.9
Degree of sensitization stereotypy0.30.30.4-0.50.5-0.6
Condit. Reinf. active minus inactive responses2.02.32.4-1.51.6-1.4
Condit. Reinf. active-inactive response ratio1.61.72.0-1.41.4-1.1
Condit. Reinf. active responses0.20.20.2-0.40.5-0.5
Condit. Reinf. inactive responses0.80.91.21.1-1.10.7
Incentive salience index mean0.20.30.3-0.50.5-0.6
Condit. Reinf. lever presses0.40.60.70.8-0.90.6
Time in familiar zone, hab. session 10.90.81.0-0.90.8-1.0
Time in novel zone, hab. session 10.20.20.3-0.50.5-0.4
Total zone transitions, hab. session 10.10.10.20.4-0.40.3
Total locomotion distance, hab. session 10.70.91.01.0-1.01.0
Locomotion velocity, hab. session 11.41.92.11.4-1.31.5
Time in familiar zone, hab. session 20.30.30.3-0.60.5-0.6
Time in novel zone, hab. session 20.00.00.0-0.10.1-0.0
Total zone transitions, hab. session 20.40.51.0-0.50.5-1.0
Total locomotion distance, hab. session 20.30.40.4-0.60.6-0.6
Locomotion velocity, hab. session 20.10.20.2-0.40.4-0.5
Novel to familiar place preference ratio0.60.60.9-0.70.7-0.9
Novelty place preference0.90.91.3-0.90.9-1.1
Time in novel zone, NPP test0.90.91.3-0.90.8-1.1
Total zone transitions, NPP test0.60.81.01.0-1.00.6
Total locomotion distance, NPP test1.01.31.61.3-1.30.9
Locomotion velocity, NPP test1.31.92.21.5-1.51.2
Pavlov. Cond. lever latency0.40.50.6-0.70.7-0.5
Pavlov. Cond. magazine entry latency0.10.10.1-0.30.2-0.4
Pavlov. Cond. change in total contacts0.00.00.00.2-0.2-0.1
Pavlov. Cond. index score0.00.00.00.2-0.2-0.1
Pavlov. Cond. latency score0.00.00.00.1-0.1-0.2
Pavlov. Cond. lever contacts0.30.40.50.7-0.70.5
Pavlov. Cond. magazine entry number0.00.00.00.0-0.00.1
Pavlov. Cond. intertrial magazine entries2.22.72.91.6-1.61.7
Pavlov. Cond. lever-magazine prob. diff.0.30.30.40.6-0.70.4
Pavlov. Cond. response bias0.81.01.11.0-1.00.9
Bone: apparent density2.94.74.82.2-2.22.1
Bone surface0.50.80.90.9-1.00.8
Bone volume1.42.42.61.6-1.61.5
Bone: connectivity density1.72.62.91.7-1.71.5
Bone: cortical apparent density0.00.10.20.1-0.10.4
Bone: cortical area0.10.10.2-0.30.2-0.5
Bone: cortical porosity3.74.04.12.0-2.02.0
Bone: cortical porosity3.03.23.51.7-1.71.9
Bone: cortical thickness0.30.50.5-0.70.7-0.6
Bone: cortical thickness0.40.40.50.7-0.70.6
Bone: cortical tissue density0.00.00.10.0-0.00.3
Bone: elastic displacement1.92.12.91.3-1.31.7
Bone: elastic work0.50.71.10.7-0.71.0
Bone: endosteal estimation0.00.10.10.3-0.4-0.1
Bone: endosteal perimeter0.00.00.1-0.0-0.0-0.3
Bone: final force0.00.00.1-0.10.1-0.3
Bone: final moment0.00.00.0-0.10.1-0.2
Bone: marrow area0.00.10.20.4-0.4-0.0
Bone: maximum diameter0.00.00.1-0.0-0.0-0.3
Bone: maximum force0.00.00.1-0.20.1-0.3
Bone: maximum moment0.00.00.0-0.10.1-0.2
Bone: minimum diameter0.71.21.9-1.00.9-1.4
Bone: periosteal estimation0.00.10.20.4-0.4-0.1
Bone: periosteal perimeter0.00.00.1-0.10.1-0.3
Bone: post-yield work1.72.32.61.6-1.61.3
Bone: stiffness0.20.30.5-0.40.4-0.7
Bone: tissue strength0.40.40.6-0.70.8-0.3
Bone: trabecular number3.04.75.12.2-2.22.0
Bone: trabecular spacing0.91.11.3-1.01.0-1.1
Bone: trabecular thickness0.50.60.60.7-0.70.8
Bone: trabecular tissue density0.20.30.60.4-0.40.7
Breakpoint value in progressive ratio session1.01.11.21.1-1.11.0
Distance traveled before self-admin0.20.20.50.4-0.30.7
Distance traveled after self-admin0.30.30.5-0.40.5-0.7
Delta time in closed arm before/after self-admin0.40.30.5-0.50.5-0.7
Delta time in open arm before/after self-admin0.00.00.00.2-0.20.2
Diff in mean of infusions in LGA sessions0.00.00.10.2-0.20.2
Extinction: sum of active levers before priming0.40.40.60.7-0.80.3
Active lever presses in extinction session 61.71.61.91.3-1.41.1
Delta distance traveled before/after self-admin1.92.02.4-1.41.3-1.5
Delta ambulatory time before/after self-admin0.50.50.8-0.60.6-0.9
Time in closed arm before self-admin0.20.20.3-0.40.4-0.5
Time in closed arm after self-admin0.70.70.7-0.80.8-0.9
Time in open arm before self-admin0.00.00.0-0.10.10.1
Time in open arm after self-admin0.30.30.40.5-0.50.7
Sum of active levers in priming session hrs 5-60.30.30.7-0.40.3-0.8
Time to tail flick, vehicle, before self-admin0.50.50.5-0.70.7-0.7
Time to tail flick, vehicle, after self-admin5.25.66.9-2.52.6-1.8
Time to tail flick, test, before self-admin1.31.31.61.0-1.11.3
Time to tail flick, test, after self-admin1.01.01.11.0-1.00.9
Delta time to tail flick, vehicle, before/after SA1.81.82.3-1.41.5-1.0
Delta time to tail flick, test, before/after SA1.51.31.61.2-1.30.9
Ambulatory time before self-admin0.20.20.30.3-0.30.5
Ambulatory time after self-admin0.10.10.3-0.30.3-0.5
Total heroin consumption1.41.71.71.3-1.31.3
Area under the delay curve0.00.00.0-0.20.20.1
Delay disc. indifference point, 0s delay1.11.21.2-1.11.1-1.0
Delay disc. indifference point, 16s delay0.10.10.1-0.30.3-0.1
Delay disc. indifference point, 2s delay0.10.10.1-0.30.3-0.3
Delay disc. indifference point, 24s delay2.52.42.51.6-1.61.5
Delay disc. indifference point, 4s delay0.20.20.3-0.50.5-0.2
Delay disc. indifference point, 8s delay0.10.10.20.1-0.10.5
Delay discount exponential model param0.00.00.1-0.00.0-0.4
Delay discount hyperbolic model param0.00.00.10.1-0.1-0.3
Fecal boli incidents, locomotor time 12.62.83.41.8-1.81.4
Change in fecal boli incidents, locomotor task3.43.33.3-1.81.8-1.8
Time >=10cm from walls, locomotor time 10.40.40.40.7-0.70.6
Bouts of movement, locomotor time 10.00.00.00.0-0.00.1
Total resting periods, locomotor time 10.00.00.00.1-0.10.2
Rest time, locomotor task time 10.00.00.00.1-0.10.2
Distance moved, locomotor task time 10.10.20.2-0.40.4-0.3
Vertical activity count, locomotor time 10.20.20.2-0.50.5-0.1
Time >=10cm from walls, locomotor time 21.71.81.81.4-1.41.4
Bouts of movement, locomotor time 20.60.70.7-0.80.8-0.8
Total resting periods, locomotor time 20.70.80.8-0.90.9-0.9
Rest time, locomotor task time 20.00.00.0-0.10.10.1
Distance moved, locomotor task time 20.10.10.10.2-0.20.3
Vertical activity count, locomotor time 20.40.50.50.6-0.60.7
Weight adjusted by age0.30.30.4-0.60.6-0.5
Seeking ratio, delayed vs. immediate footshock0.00.00.1-0.10.0-0.3
Locomotion in novel chamber0.40.40.5-0.70.7-0.5
Locomotion in novel chamber post-restriction3.13.64.0-1.91.8-2.0
Progressive ratio0.10.10.20.4-0.50.1
Food seeking constrained by brief footshock13.716.719.44.3-4.43.4
Seeking ratio, punishment vs. effort1.51.81.81.4-1.31.3
Run reversals in cocaine runway, females0.50.50.70.6-0.60.8
Run reversals in cocaine runway, males1.11.11.11.1-1.11.0
Latency to leave start box in cocaine runway0.80.91.80.7-0.61.3
Latency to leave start box in cocaine runway, F0.20.20.50.3-0.30.7
Latency to leave start box in cocaine runway, M2.32.23.01.4-1.31.7
Cd content in liver0.50.61.0-0.60.6-1.0
Co content in liver4.85.75.82.4-2.42.4
Cu content in liver0.00.10.10.3-0.30.0
Fe content in liver0.10.10.10.4-0.40.1
K content in liver2.12.12.6-1.41.3-1.6
Mg content in liver2.22.33.3-1.31.3-1.8
Mn content in liver0.30.30.5-0.50.5-0.7
Na content in liver1.81.92.11.4-1.51.2
Rb content in liver0.60.81.3-0.70.7-1.2
Se content in liver1.11.42.0-1.01.0-1.4
Sr content in liver0.00.00.0-0.20.2-0.1
Zn content in liver1.82.02.7-1.31.2-1.7