Hub : Genes

Gnmt

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 alternative polyA ENSRNOT00000022307 0.16 0.07 0.0e+00 0.2 0.19 0.19 0.2 1.6e-21 7.3e-21 2.0e-20 1.7e-21
2 Liver alternative polyA ENSRNOT00000072812 0.17 0.07 0.0e+00 0.21 0.21 0.21 0.21 7.2e-23 4.1e-23 1.3e-22 3.0e-23
3 Liver gene expression ENSRNOG00000016349 0.35 0.13 0.0e+00 0.32 0.33 0.32 0.31 3.3e-36 3.2e-37 1.7e-36 3.9e-35
4 Liver mRNA stability ENSRNOG00000016349 0.11 0.07 4.7e-07 0.06 0.05 0.05 0.05 7.8e-07 2.7e-06 1.3e-06 1.7e-06

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 4
BMI with tail4.213.714.73.6-3.73.8-3.7
BMI without tail12.626.328.55.0-5.15.3-5.1
Body weight3.113.114.63.5-3.63.8-3.6
Epididymis fat weight2.35.35.32.3-2.32.3-2.3
Glucose5.48.38.52.9-2.92.8-2.9
Heart weight1.42.12.3-1.41.5-1.41.5
Left kidney weight0.10.40.80.5-0.50.9-0.5
Right kidney weight0.00.00.1-0.00.10.30.1
Tail length2.05.96.92.4-2.42.6-2.3
Length with tail0.10.30.60.4-0.40.7-0.4
Length without tail2.75.96.0-2.42.5-2.42.5
Liver weight, left0.40.60.70.8-0.80.8-0.7
Liver weight, right0.61.11.31.0-1.01.1-1.0
Parametrial fat weight6.713.113.53.7-3.63.7-3.6
Retroperitoneal fat weight1.75.76.42.3-2.32.5-2.3
Intraocular pressure1.01.41.9-1.11.1-1.41.1
Extensor digitorum longus weight0.10.30.40.5-0.50.6-0.5
Soleus weight0.41.21.61.1-1.11.2-1.0
Tibialis anterior weight0.20.60.60.7-0.80.8-0.7
Tibia length2.46.87.22.6-2.62.7-2.6
Number of licking bursts3.94.64.82.2-2.22.0-2.2
Food consumed during 24 hour testing period0.60.80.80.9-0.80.8-0.9
Times rat made contact with spout5.66.46.72.6-2.62.4-2.6
Mean time between licks in bursts1.72.42.5-1.61.5-1.61.6
Mean num. licks in bursts0.50.60.6-0.80.8-0.80.8
Std. dev. time between licks in bursts2.42.83.0-1.71.7-1.51.7
Water consumed over 24 hours2.42.83.21.6-1.61.8-1.6
Indifference point 0 sec0.81.21.31.1-1.11.1-1.1
Indifference point AUC0.70.81.00.9-0.91.0-0.9
Indifference point function ln k0.50.70.8-0.80.8-0.90.8
Indifference point function log k0.50.70.8-0.80.8-0.90.8
Delay discounting total patch changes 0 sec1.01.61.71.2-1.21.3-1.3
Delay discounting total patch changes 12 sec0.91.21.81.0-1.01.3-1.0
Delay discounting total patch changes 18 sec1.31.72.21.2-1.31.5-1.3
Delay discounting total patch changes 24 sec0.70.91.30.9-0.91.1-0.9
Delay discounting total patch changes 6 sec2.23.33.81.8-1.81.9-1.8
Delay discounting time to switch 0 sec4.77.27.5-2.72.6-2.72.7
Delay discounting water rate 0 sec2.33.64.81.8-1.82.2-1.8
Delay discounting water rate 12 sec5.27.89.42.7-2.73.1-2.7
Delay discounting water rate 18 sec1.21.61.91.2-1.21.4-1.2
Delay discounting water rate 24 sec1.92.62.81.6-1.61.7-1.6
Delay discounting water rate 6 sec0.10.20.40.4-0.40.6-0.4
Locomotor activity2.84.44.72.2-2.12.0-2.2
Locomotor testing distance2.33.94.12.0-2.01.9-2.0
Locomotor testing rearing3.75.76.02.4-2.42.3-2.5
Light reinforcement 12.13.94.11.9-1.92.0-2.0
Light reinforcement 22.63.43.71.8-1.91.9-1.8
Reaction time number correct0.10.20.2-0.40.4-0.20.5
Reaction time mean minus median0.00.10.1-0.20.2-0.30.2
Reaction time mean minus median AUC0.30.30.5-0.50.5-0.70.5
Reaction time num false alarms0.71.01.0-1.01.0-1.01.0
Reaction time num false alarms AUC0.50.70.7-0.80.8-0.80.8
Reaction time trials correct on left0.10.20.2-0.40.4-0.20.5
Reaction time trials on left0.10.10.2-0.40.3-0.10.4
Reaction time mean0.10.10.2-0.20.3-0.40.2
Reaction time mean AUC0.00.10.1-0.20.2-0.40.2
Median of all reaction times0.00.00.1-0.10.1-0.30.1
Reaction time omissions0.50.70.80.9-0.90.8-0.9
Reaction time false alarm rate0.60.81.0-0.80.9-1.00.8
Reaction time premature initiation rate1.01.41.51.2-1.11.2-1.2
Reaction time premature initiations0.81.11.51.0-1.01.2-1.0
Std. dev. reaction times0.10.10.1-0.30.3-0.40.3
Reaction time trials completed0.10.10.2-0.40.3-0.10.4
Reaction time trials AUC0.00.00.1-0.30.2-0.00.3
Social response proportion1.11.21.5-1.21.1-0.91.2
Social responses2.43.13.5-1.81.9-1.51.8
Social time1.51.92.2-1.51.5-1.11.5
Conditioned locomotion2.02.42.6-1.61.6-1.41.6
Cocaine response after cond. corrected0.20.30.4-0.50.5-0.60.5
Cocaine response after cond. not corrected0.40.40.6-0.60.6-0.80.6
Cocaine response before conditioning0.00.00.10.2-0.20.2-0.2
Saline control response0.00.00.0-0.10.10.10.1
Condit. Reinf. active minus inactive responses0.00.00.10.3-0.3-0.0-0.3
Condit. Reinf. active-inactive response ratio1.01.11.31.1-1.10.7-1.1
Condit. Reinf. active responses0.00.00.00.1-0.1-0.1-0.1
Condit. Reinf. inactive responses0.00.10.1-0.30.3-0.10.3
Condit. Reinf. lever presses0.50.60.70.8-0.80.8-0.8
Condit. Reinf. lever reinforcers received0.00.00.00.1-0.0-0.1-0.1
Pavlov. Cond. lever latency2.33.23.7-1.71.8-1.91.7
Pavlov. Cond. magazine entry latency1.61.92.61.3-1.31.6-1.3
Pavlov. Cond. change in total contacts2.53.53.81.9-1.81.9-1.9
Pavlov. Cond. index score4.35.66.82.3-2.32.6-2.3
Pavlov. Cond. latency score4.65.97.12.3-2.42.7-2.3
Pavlov. Cond. lever contacts2.63.54.41.8-1.82.1-1.8
Pavlov. Cond. magazine entry number0.70.81.4-0.80.8-1.20.8
Pavlov. Cond. intertrial magazine entries0.00.00.00.1-0.1-0.1-0.1
Pavlov. Cond. lever-magazine prob. diff.4.25.46.72.2-2.32.6-2.2
Pavlov. Cond. response bias0.81.11.70.9-1.01.3-0.9
Conditioned reinforcement - actives1.00.91.0-1.01.0-0.81.0
Conditioned reinforcement - inactives0.60.71.00.7-0.71.0-0.8
Conditioned locomotion0.00.00.0-0.00.00.10.0
Intermittent access intake day 1-15 change0.00.00.10.1-0.10.3-0.1
Intermittent access intake escalation0.00.00.0-0.10.00.10.1
Intermittent access intake escalation 20.10.10.10.1-0.20.4-0.2
Intermitt. access day 1 inactive lever presses1.41.51.71.2-1.21.3-1.3
Intermitt. access day 15 inactive lever presses1.82.02.31.3-1.41.5-1.4
Intermitt. access escalation Index0.00.00.00.10.1-0.20.1
Intermittent access day 1 total infusions0.60.70.70.8-0.80.8-0.8
Intermittent access day 15 total infusions0.30.30.40.5-0.50.6-0.5
Intermittent access terminal intake (last 3 days)0.10.10.20.3-0.30.4-0.3
Intermittent access total infusions0.10.10.10.3-0.30.3-0.3
Intermittent access day 1 locomotion0.20.20.30.5-0.50.4-0.5
Intermittent access day 15 total locomotion0.30.30.40.6-0.50.6-0.5
Intermittent access total locomotion0.00.00.00.2-0.10.0-0.1
Intermittent access standard deviation3.23.53.5-1.91.9-1.81.9
Cocaine induced anxiety0.10.10.10.4-0.40.3-0.4
Post-drug Anxiety0.00.00.00.1-0.1-0.0-0.1
Baseline Anxiety0.20.20.2-0.50.5-0.50.5
Lifetime Intake0.10.10.1-0.30.3-0.20.3
Incentive Sensitization - Responses1.11.11.41.0-1.01.2-0.9
Incentive Sensitization - Breakpoint1.11.11.51.1-1.01.2-1.0
Progressive ratio test 1 active lever presses1.11.11.21.1-1.11.0-1.1
Progressive ratio test 1 breakpoint0.90.91.01.0-1.01.0-1.0
Progressive ratio test 1 inactive lever presses0.90.91.20.9-0.91.1-1.0
Progressive ratio test 2 active lever presses1.11.11.41.0-1.01.2-1.0
Progressive ratio test 2 breakpoint1.71.92.21.3-1.31.5-1.3
Progressive ratio test 2 inactive lever presses0.40.50.70.6-0.70.8-0.7
Total sessions with >9 infusions0.00.00.1-0.20.2-0.10.2
Short access day 1 total inactive lever presses0.00.00.10.1-0.10.3-0.1
Short access day 10 total inactive lever presses0.91.01.11.0-0.91.0-0.9
Short access day 1 total infusions0.40.50.5-0.70.7-0.60.7
Short access day 10 total infusions0.00.00.0-0.00.0-0.0-0.0
Short access total infusions0.40.50.5-0.70.7-0.70.7
Short access day 1 locomotion0.80.80.9-0.90.9-0.80.9
Short access day 10 total locomotion2.22.42.7-1.41.5-1.61.6
Short access total locomotion2.52.52.6-1.51.6-1.61.6
Compulsive drug intake0.00.00.0-0.20.2-0.10.1
One hour access (0.3 mA shock)0.30.30.4-0.60.6-0.40.6
One hour access (shock baseline)0.20.20.20.5-0.40.5-0.4
Number of responses in last shaping day0.10.10.10.3-0.30.4-0.3
Context. condit. distance diff. score0.10.20.30.3-0.30.5-0.4
Locomotion velocity, session 10.60.60.70.8-0.80.8-0.7
Locomotion distance, session 12.33.03.41.7-1.71.9-1.7
Locomotion velocity, session 26.17.27.82.7-2.62.8-2.6
Locomotion distance, session 21.42.02.21.4-1.41.5-1.4
Locomotion velocity, session 30.50.60.70.8-0.70.8-0.7
Locomotion distance, session 30.80.91.0-1.01.0-0.81.0
Stereotopy head waving bouts, day 31.31.61.81.3-1.31.2-1.3
Stereotopy head waving duration, day 32.12.62.71.6-1.61.6-1.6
Locomotion velocity, session 70.10.10.30.3-0.30.5-0.3
Locomotion distance, session 70.00.00.10.0-0.10.3-0.1
Stereotopy head waving bouts, day 70.20.20.30.5-0.40.5-0.5
Stereotopy head waving duration, day 70.00.00.0-0.10.1-0.20.1
Locomotion velocity, session 80.70.80.90.9-0.90.9-0.9
Locomotion distance, session 81.01.42.01.1-1.11.4-1.1
Degree of sensitization distance1.71.72.01.2-1.31.4-1.3
Degree of sensitization stereotypy0.40.50.5-0.70.7-0.60.7
Condit. Reinf. active minus inactive responses1.92.12.31.5-1.51.4-1.5
Condit. Reinf. active-inactive response ratio0.30.30.40.6-0.60.5-0.6
Condit. Reinf. active responses3.34.04.22.0-1.92.0-2.0
Condit. Reinf. inactive responses2.53.03.21.7-1.61.8-1.7
Incentive salience index mean2.53.03.31.8-1.71.8-1.7
Condit. Reinf. lever presses4.35.86.62.4-2.32.6-2.3
Time in familiar zone, hab. session 10.60.60.80.7-0.70.9-0.7
Time in novel zone, hab. session 10.90.91.3-0.90.9-1.10.9
Total zone transitions, hab. session 14.15.86.82.3-2.42.6-2.4
Total locomotion distance, hab. session 14.56.47.42.4-2.52.7-2.5
Locomotion velocity, hab. session 14.05.76.82.3-2.32.6-2.3
Time in familiar zone, hab. session 22.32.42.6-1.61.6-1.41.5
Time in novel zone, hab. session 20.40.40.50.7-0.70.5-0.6
Total zone transitions, hab. session 22.93.83.92.0-2.01.9-2.0
Total locomotion distance, hab. session 23.24.24.32.1-2.12.1-2.1
Locomotion velocity, hab. session 22.63.53.51.9-1.91.8-1.9
Novel to familiar place preference ratio0.10.10.10.4-0.40.4-0.3
Novelty place preference0.00.00.00.1-0.10.1-0.1
Time in novel zone, NPP test0.00.00.00.1-0.10.1-0.0
Total zone transitions, NPP test7.110.111.13.1-3.13.3-3.1
Total locomotion distance, NPP test6.48.89.33.0-2.93.1-2.9
Locomotion velocity, NPP test6.99.910.83.1-3.13.3-3.1
Pavlov. Cond. lever latency2.43.14.2-1.71.6-2.01.6
Pavlov. Cond. magazine entry latency0.60.81.10.8-0.81.1-0.8
Pavlov. Cond. change in total contacts1.81.92.51.4-1.31.6-1.3
Pavlov. Cond. index score2.53.24.31.7-1.72.1-1.7
Pavlov. Cond. latency score1.62.13.11.4-1.31.8-1.3
Pavlov. Cond. lever contacts3.44.05.41.9-1.92.3-1.9
Pavlov. Cond. magazine entry number1.82.22.9-1.41.4-1.71.4
Pavlov. Cond. intertrial magazine entries1.01.21.2-1.11.1-1.11.1
Pavlov. Cond. lever-magazine prob. diff.2.32.83.81.6-1.62.0-1.6
Pavlov. Cond. response bias4.25.16.32.2-2.22.5-2.2
Bone: apparent density0.30.50.5-0.70.7-0.70.7
Bone surface1.42.52.6-1.61.6-1.51.6
Bone volume0.50.91.0-1.01.0-0.91.0
Bone: connectivity density0.71.11.3-1.01.0-1.11.0
Bone: cortical apparent density0.70.91.0-1.01.0-0.91.0
Bone: cortical area0.50.81.50.7-0.81.2-0.8
Bone: cortical porosity0.10.10.10.3-0.30.3-0.3
Bone: cortical porosity0.00.00.00.2-0.20.2-0.2
Bone: cortical thickness0.91.52.21.1-1.11.5-1.1
Bone: cortical thickness0.00.00.0-0.10.1-0.00.1
Bone: cortical tissue density0.60.80.8-0.90.9-0.90.9
Bone: elastic displacement0.20.20.3-0.50.5-0.60.5
Bone: elastic work0.00.00.10.2-0.20.3-0.2
Bone: endosteal estimation0.51.11.2-1.11.1-1.01.1
Bone: endosteal perimeter0.00.00.0-0.10.10.10.1
Bone: final force0.40.61.10.6-0.61.0-0.6
Bone: final moment0.30.51.00.6-0.61.0-0.6
Bone: marrow area0.61.31.3-1.11.2-1.11.2
Bone: maximum diameter0.10.20.50.4-0.40.7-0.4
Bone: maximum force0.00.00.10.0-0.00.3-0.0
Bone: maximum moment0.00.00.1-0.10.10.20.1
Bone: minimum diameter0.20.30.60.4-0.40.8-0.4
Bone: periosteal estimation0.00.00.10.0-0.00.3-0.0
Bone: periosteal perimeter0.50.91.50.8-0.81.2-0.8
Bone: post-yield work0.00.00.0-0.10.1-0.00.1
Bone: stiffness0.00.00.0-0.20.20.00.2
Bone: tissue strength0.10.10.1-0.30.3-0.20.3
Bone: trabecular number0.50.80.8-0.90.9-0.80.9
Bone: trabecular spacing0.50.60.70.8-0.80.8-0.8
Bone: trabecular thickness0.81.01.0-1.01.0-1.01.0
Bone: trabecular tissue density0.10.10.1-0.30.3-0.30.3
Breakpoint value in progressive ratio session0.00.00.0-0.10.1-0.00.1
Distance traveled before self-admin0.10.10.2-0.0-0.20.5-0.0
Distance traveled after self-admin3.74.14.42.0-2.12.0-2.0
Delta time in closed arm before/after self-admin0.10.10.10.3-0.30.4-0.3
Delta time in open arm before/after self-admin0.40.40.5-0.60.6-0.70.6
Diff in mean of infusions in LGA sessions0.30.40.50.6-0.60.7-0.5
Extinction: sum of active levers before priming0.00.00.00.0-0.10.0-0.1
Active lever presses in extinction session 60.10.10.10.2-0.30.3-0.3
Delta distance traveled before/after self-admin5.66.06.72.6-2.52.1-2.5
Delta ambulatory time before/after self-admin4.75.15.82.4-2.32.0-2.3
Time in closed arm before self-admin0.10.10.2-0.20.3-0.50.2
Time in closed arm after self-admin0.00.00.00.1-0.1-0.2-0.1
Time in open arm before self-admin2.32.53.61.4-1.51.9-1.4
Time in open arm after self-admin0.30.40.60.6-0.50.8-0.5
Sum of active levers in priming session hrs 5-60.90.81.0-1.00.9-0.81.0
Time to tail flick, vehicle, before self-admin0.10.10.1-0.20.4-0.40.3
Time to tail flick, vehicle, after self-admin2.62.72.9-1.61.6-1.71.7
Time to tail flick, test, before self-admin5.15.15.3-2.22.3-2.22.3
Time to tail flick, test, after self-admin0.40.40.5-0.60.6-0.70.6
Delta time to tail flick, vehicle, before/after SA0.80.80.9-0.90.8-0.80.9
Delta time to tail flick, test, before/after SA1.61.41.51.2-1.21.0-1.2
Ambulatory time before self-admin0.10.10.2-0.50.30.00.5
Ambulatory time after self-admin3.64.04.12.0-2.02.0-2.0
Total heroin consumption0.00.00.1-0.20.00.30.3
Area under the delay curve8.59.19.2-3.03.0-3.03.0
Delay disc. indifference point, 0s delay1.41.62.3-1.21.1-1.51.1
Delay disc. indifference point, 16s delay12.312.412.6-3.53.6-3.53.5
Delay disc. indifference point, 2s delay3.03.33.9-1.71.8-2.01.8
Delay disc. indifference point, 24s delay1.11.11.3-1.01.0-1.21.0
Delay disc. indifference point, 4s delay3.23.33.7-1.91.9-1.61.9
Delay disc. indifference point, 8s delay5.35.55.6-2.42.4-2.32.4
Delay discount exponential model param8.28.68.83.0-3.02.9-2.9
Delay discount hyperbolic model param7.37.87.92.8-2.82.7-2.8
Fecal boli incidents, locomotor time 10.50.50.7-0.80.7-0.40.8
Change in fecal boli incidents, locomotor task0.00.00.1-0.20.2-0.20.2
Time >=10cm from walls, locomotor time 10.20.20.30.4-0.40.6-0.4
Bouts of movement, locomotor time 10.10.10.2-0.30.2-0.40.3
Total resting periods, locomotor time 10.10.10.10.2-0.30.2-0.3
Rest time, locomotor task time 10.91.01.0-1.01.0-1.01.0
Distance moved, locomotor task time 10.10.10.10.3-0.30.2-0.3
Vertical activity count, locomotor time 10.50.50.6-0.70.7-0.80.7
Time >=10cm from walls, locomotor time 20.40.40.60.5-0.60.8-0.5
Bouts of movement, locomotor time 20.30.40.40.6-0.50.6-0.6
Total resting periods, locomotor time 20.10.10.10.3-0.20.2-0.3
Rest time, locomotor task time 20.80.91.0-1.00.9-0.90.9
Distance moved, locomotor task time 21.21.41.51.2-1.21.1-1.2
Vertical activity count, locomotor time 20.10.10.1-0.30.3-0.30.3
Weight adjusted by age0.30.30.40.6-0.60.5-0.6
Seeking ratio, delayed vs. immediate footshock2.32.72.9-1.51.6-1.71.7
Locomotion in novel chamber0.91.11.2-1.11.1-0.91.1
Locomotion in novel chamber post-restriction1.41.71.9-1.31.4-1.11.4
Progressive ratio0.60.70.8-0.90.8-0.70.8
Food seeking constrained by brief footshock0.10.10.10.3-0.30.2-0.2
Seeking ratio, punishment vs. effort0.60.70.91.0-0.90.7-0.9
Run reversals in cocaine runway, females0.60.60.90.7-0.71.0-0.7
Run reversals in cocaine runway, males0.00.00.00.1-0.10.2-0.1
Latency to leave start box in cocaine runway1.82.02.41.4-1.41.5-1.3
Latency to leave start box in cocaine runway, F0.20.20.20.4-0.40.4-0.4
Latency to leave start box in cocaine runway, M5.04.85.32.1-2.12.3-2.1
Cd content in liver1.11.21.4-1.11.1-1.21.1
Co content in liver0.00.00.00.2-0.20.0-0.2
Cu content in liver0.50.60.7-0.80.8-0.70.8
Fe content in liver0.50.60.7-0.80.8-0.50.8
K content in liver0.40.40.5-0.60.6-0.70.6
Mg content in liver2.02.12.2-1.51.5-1.31.5
Mn content in liver0.81.01.11.0-1.10.7-1.0
Na content in liver0.10.10.20.2-0.20.4-0.2
Rb content in liver6.98.68.9-3.03.0-2.83.0
Se content in liver0.10.10.10.4-0.40.3-0.4
Sr content in liver0.80.70.70.9-0.90.8-0.9
Zn content in liver5.05.55.7-2.42.4-2.22.4