Hub : Genes

Tgm6

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 LHb gene expression Tgm6 0.24 0.15 3.1e-04 0.14 0.16 0.1 0.17 3.7e-04 1.5e-04 1.8e-03 7.3e-05

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
Bone: apparent density0.40.70.7-0.8
Area under the delay curve0.20.20.20.5
BMI with tail1.65.15.1-2.3
BMI without tail4.79.79.7-3.1
Body weight6.527.127.1-5.2
Weight adjusted by age3.43.83.8-2.0
Bone surface0.81.31.3-1.2
Bone volume0.71.21.2-1.1
Breakpoint value in progressive ratio session3.43.83.8-1.9
Number of licking bursts0.40.50.50.7
Context. condit. distance diff. score0.10.10.1-0.3
Locomotion velocity, session 10.30.30.3-0.6
Locomotion distance, session 10.30.40.4-0.6
Locomotion velocity, session 20.00.00.00.1
Locomotion distance, session 21.31.81.8-1.3
Locomotion velocity, session 32.02.32.3-1.5
Locomotion distance, session 38.79.59.5-3.1
Stereotopy head waving bouts, day 31.82.12.11.4
Stereotopy head waving duration, day 31.31.61.61.2
Locomotion velocity, session 71.01.11.1-1.0
Locomotion distance, session 71.11.41.4-1.2
Stereotopy head waving bouts, day 70.20.20.2-0.5
Stereotopy head waving duration, day 70.00.00.0-0.1
Locomotion velocity, session 80.40.50.5-0.7
Locomotion distance, session 82.63.83.8-1.9
Degree of sensitization distance2.42.42.41.5
Degree of sensitization stereotypy2.12.32.3-1.5
Conditioned locomotion4.14.84.8-2.2
Cocaine response after cond. corrected0.00.00.00.2
Cocaine response after cond. not corrected0.10.10.10.4
Cocaine response before conditioning0.40.50.50.7
Saline control response7.710.010.0-3.2
Bone: connectivity density0.10.10.1-0.4
Bone: cortical apparent density0.70.90.9-0.9
Bone: cortical area4.66.96.9-2.6
Bone: cortical porosity0.40.40.4-0.7
Bone: cortical porosity1.01.11.1-1.1
Bone: cortical thickness2.33.83.8-2.0
Bone: cortical thickness0.30.40.4-0.6
Bone: cortical tissue density0.50.60.6-0.8
Condit. Reinf. active minus inactive responses1.11.21.2-1.1
Condit. Reinf. active-inactive response ratio0.80.90.9-0.9
Condit. Reinf. active responses1.01.21.2-1.1
Condit. Reinf. inactive responses0.00.00.0-0.1
Incentive salience index mean1.11.31.3-1.1
Condit. Reinf. lever presses0.50.60.6-0.8
Condit. Reinf. active minus inactive responses1.51.81.8-1.3
Condit. Reinf. active-inactive response ratio1.51.51.5-1.2
Condit. Reinf. active responses2.43.43.4-1.8
Condit. Reinf. inactive responses0.50.60.6-0.7
Condit. Reinf. lever presses1.11.41.4-1.2
Condit. Reinf. lever reinforcers received1.82.62.6-1.6
Conditioned reinforcement - actives0.00.00.00.1
Conditioned reinforcement - inactives0.10.10.1-0.4
Conditioned locomotion0.10.10.10.3
Patch foraging indifference point 0 sec0.00.00.00.0
Patch foraging indifference point AUC0.70.80.8-0.9
Delay disc. indifference point, 0s delay2.62.82.81.7
Delay disc. indifference point, 16s delay0.40.40.40.7
Delay disc. indifference point, 2s delay0.00.00.00.1
Delay disc. indifference point, 24s delay2.22.12.11.4
Delay disc. indifference point, 4s delay0.00.00.0-0.2
Delay disc. indifference point, 8s delay0.30.30.30.5
Indifference point function ln k0.10.10.1-0.4
Indifference point function log k0.10.10.1-0.4
Patch foraging total patch changes 0 sec0.00.00.0-0.0
Patch foraging total patch changes 12 sec0.50.60.6-0.8
Patch foraging total patch changes 18 sec0.81.11.11.0
Patch foraging total patch changes 24 sec1.72.12.11.5
Patch foraging total patch changes 6 sec0.30.40.4-0.6
Patch foraging time to switch 0 sec1.62.52.51.6
Patch foraging water rate 0 sec3.25.15.1-2.3
Patch foraging water rate 12 sec0.00.00.00.0
Patch foraging water rate 18 sec0.30.40.4-0.6
Patch foraging water rate 24 sec0.30.50.5-0.7
Patch foraging water rate 6 sec1.52.22.2-1.5
Seeking ratio, delayed vs. immediate footshock0.20.30.30.5
Distance traveled before self-admin5.15.45.4-2.3
Distance traveled after self-admin2.83.13.1-1.8
Extensor digitorum longus weight0.10.30.3-0.5
Bone: elastic displacement0.00.00.00.1
Bone: elastic work0.00.00.0-0.2
Bone: endosteal estimation0.61.41.4-1.2
Bone: endosteal perimeter2.45.05.0-2.2
Epididymis fat weight1.63.83.8-1.9
Delta time in closed arm before/after self-admin0.20.20.20.5
Delta time in open arm before/after self-admin0.60.60.6-0.8
Diff in mean of infusions in LGA sessions0.00.00.0-0.0
Delay discount exponential model param0.10.10.1-0.4
Extinction: sum of active levers before priming0.50.50.5-0.7
Active lever presses in extinction session 60.10.10.10.3
Bone: final force4.67.47.4-2.7
Bone: final moment3.76.16.1-2.5
Food consumed during 24 hour testing period1.11.41.41.2
Glucose0.30.40.4-0.7
Heart weight3.65.25.2-2.3
Delay discount hyperbolic model param0.10.10.1-0.3
Intermittent access intake day 1-15 change0.50.50.5-0.7
Intermittent access intake escalation0.10.10.1-0.2
Intermittent access intake escalation 20.10.10.10.4
Intermitt. access day 1 inactive lever presses0.60.60.60.8
Intermitt. access day 15 inactive lever presses0.00.00.00.2
Intermitt. access escalation Index0.00.00.0-0.1
Intermittent access day 1 total infusions0.00.00.00.0
Intermittent access day 15 total infusions0.00.00.0-0.1
Intermittent access terminal intake (last 3 days)0.00.00.0-0.1
Intermittent access total infusions0.00.00.0-0.0
Intermittent access day 1 locomotion0.20.20.20.5
Intermittent access day 15 total locomotion0.10.10.10.3
Intermittent access total locomotion0.10.10.10.3
Intermittent access standard deviation0.00.00.0-0.2
Left kidney weight1.23.43.4-1.8
Right kidney weight0.92.52.5-1.6
Cocaine induced anxiety6.57.57.52.7
Post-drug Anxiety2.42.72.71.6
Baseline Anxiety0.60.70.7-0.8
Tail length5.316.016.0-4.0
Length with tail4.717.417.4-4.2
Length without tail1.22.62.6-1.6
Times rat made contact with spout0.10.10.10.4
Lifetime Intake0.20.30.3-0.5
Liver weight, left0.10.10.10.3
Liver weight, right0.10.20.2-0.4
Locomotor activity0.10.20.2-0.4
Locomotor testing distance0.20.30.30.6
Locomotor testing rearing0.00.10.1-0.2
Locomotion in novel chamber0.10.10.10.3
Locomotion in novel chamber post-restriction0.70.90.9-0.9
Fecal boli incidents, locomotor time 10.10.10.1-0.3
Change in fecal boli incidents, locomotor task0.10.10.10.3
Time >=10cm from walls, locomotor time 10.10.10.1-0.3
Bouts of movement, locomotor time 11.71.91.91.4
Total resting periods, locomotor time 11.51.61.61.3
Rest time, locomotor task time 10.30.30.30.5
Distance moved, locomotor task time 10.00.00.0-0.2
Vertical activity count, locomotor time 10.30.30.3-0.6
Time >=10cm from walls, locomotor time 20.00.00.0-0.1
Bouts of movement, locomotor time 20.40.40.40.7
Total resting periods, locomotor time 20.50.50.50.7
Rest time, locomotor task time 21.11.31.31.1
Distance moved, locomotor task time 20.10.10.1-0.4
Vertical activity count, locomotor time 20.40.40.4-0.7
Light reinforcement 10.61.21.2-1.1
Light reinforcement 20.50.60.6-0.8
Bone: marrow area0.61.31.3-1.1
Bone: maximum diameter4.99.09.0-3.0
Bone: maximum force1.01.71.7-1.3
Bone: maximum moment0.50.90.9-0.9
Mean time between licks in bursts0.10.10.1-0.3
Mean num. licks in bursts0.20.20.2-0.4
Cd content in liver0.00.00.00.1
Co content in liver0.70.80.8-0.9
Cu content in liver1.82.22.2-1.5
Fe content in liver0.00.00.0-0.1
K content in liver0.50.50.5-0.7
Mg content in liver2.12.22.2-1.5
Mn content in liver2.52.92.9-1.7
Na content in liver0.00.00.0-0.2
Rb content in liver3.13.93.9-2.0
Se content in liver0.70.90.9-0.9
Sr content in liver0.50.50.5-0.7
Zn content in liver0.40.50.5-0.7
Bone: minimum diameter2.44.54.5-2.1
Time in familiar zone, hab. session 11.21.11.11.0
Time in novel zone, hab. session 10.40.40.4-0.6
Total zone transitions, hab. session 10.30.50.5-0.7
Total locomotion distance, hab. session 10.00.00.0-0.2
Locomotion velocity, hab. session 10.10.10.1-0.3
Time in familiar zone, hab. session 21.61.61.61.3
Time in novel zone, hab. session 21.51.51.5-1.2
Total zone transitions, hab. session 23.34.34.3-2.1
Total locomotion distance, hab. session 20.71.01.0-1.0
Locomotion velocity, hab. session 20.30.40.4-0.6
Novel to familiar place preference ratio0.20.20.20.5
Novelty place preference0.50.50.50.7
Time in novel zone, NPP test0.20.20.20.5
Total zone transitions, NPP test0.30.40.4-0.7
Total locomotion distance, NPP test0.20.30.3-0.5
Locomotion velocity, NPP test0.00.00.0-0.1
Intraocular pressure0.00.00.00.1
Delta distance traveled before/after self-admin0.20.20.2-0.5
Delta ambulatory time before/after self-admin0.30.40.40.6
Parametrial fat weight0.00.00.0-0.1
Pavlov. Cond. lever latency0.00.00.00.1
Pavlov. Cond. magazine entry latency0.10.10.1-0.3
Pavlov. Cond. change in total contacts0.20.20.2-0.5
Pavlov. Cond. index score0.10.10.1-0.3
Pavlov. Cond. latency score0.00.00.0-0.1
Pavlov. Cond. lever contacts0.40.50.5-0.7
Pavlov. Cond. magazine entry number0.70.90.90.9
Pavlov. Cond. intertrial magazine entries0.00.00.0-0.1
Pavlov. Cond. lever-magazine prob. diff.0.10.10.1-0.3
Pavlov. Cond. response bias0.70.90.9-0.9
Pavlov. Cond. lever latency4.15.65.62.4
Pavlov. Cond. magazine entry latency0.10.10.1-0.3
Pavlov. Cond. change in total contacts4.05.55.5-2.3
Pavlov. Cond. index score3.84.94.9-2.2
Pavlov. Cond. latency score2.93.63.6-1.9
Pavlov. Cond. lever contacts3.85.25.2-2.3
Pavlov. Cond. magazine entry number0.50.60.60.8
Pavlov. Cond. intertrial magazine entries0.60.80.80.9
Pavlov. Cond. lever-magazine prob. diff.3.44.44.4-2.1
Pavlov. Cond. response bias3.95.35.3-2.3
Time in closed arm before self-admin0.10.10.10.3
Time in closed arm after self-admin0.30.30.30.5
Time in open arm before self-admin0.20.20.20.4
Time in open arm after self-admin0.00.00.0-0.1
Bone: periosteal estimation3.06.26.2-2.5
Bone: periosteal perimeter4.16.86.8-2.6
Bone: post-yield work0.71.01.01.0
Progressive ratio test 1 active lever presses3.53.63.6-1.9
Progressive ratio test 1 breakpoint4.44.54.5-2.1
Progressive ratio test 1 inactive lever presses0.10.10.1-0.3
Progressive ratio test 2 active lever presses0.40.40.4-0.7
Progressive ratio test 2 breakpoint0.40.40.4-0.7
Progressive ratio test 2 inactive lever presses0.00.00.0-0.2
Incentive Sensitization - Responses0.50.50.5-0.7
Incentive Sensitization - Breakpoint0.30.30.3-0.5
Sum of active levers in priming session hrs 5-60.80.80.8-0.9
Progressive ratio3.33.93.92.0
Food seeking constrained by brief footshock0.30.30.3-0.6
Seeking ratio, punishment vs. effort3.54.24.2-2.1
Retroperitoneal fat weight0.10.20.2-0.4
Reaction time number correct0.10.10.1-0.3
Reaction time mean minus median1.11.41.41.2
Reaction time mean minus median AUC0.81.11.11.0
Reaction time num false alarms2.43.33.3-1.8
Reaction time num false alarms AUC2.63.63.6-1.9
Reaction time trials correct on left0.10.10.1-0.3
Reaction time trials on left0.10.10.1-0.4
Reaction time mean0.00.00.00.2
Reaction time mean AUC0.10.10.10.3
Median of all reaction times0.00.00.0-0.1
Reaction time omissions0.20.30.3-0.5
Reaction time false alarm rate1.62.22.2-1.5
Reaction time premature initiation rate0.30.30.30.6
Reaction time premature initiations0.20.20.20.5
Std. dev. reaction times0.00.00.0-0.2
Reaction time trials completed0.10.10.1-0.4
Reaction time trials AUC0.10.20.2-0.4
Run reversals in cocaine runway, females0.00.00.00.2
Run reversals in cocaine runway, males0.90.90.9-0.9
Latency to leave start box in cocaine runway0.20.20.20.5
Latency to leave start box in cocaine runway, F0.80.90.91.0
Latency to leave start box in cocaine runway, M0.10.10.1-0.3
Std. dev. time between licks in bursts1.01.21.2-1.1
Total sessions with >9 infusions0.70.80.8-0.9
Short access day 1 total inactive lever presses0.70.80.80.9
Short access day 10 total inactive lever presses4.34.74.72.2
Short access day 1 total infusions0.10.10.1-0.3
Short access day 10 total infusions0.10.10.1-0.3
Short access total infusions0.50.60.6-0.8
Short access day 1 locomotion0.80.90.90.9
Short access day 10 total locomotion0.00.00.00.1
Short access total locomotion0.00.00.00.1
One hour access (0.3 mA shock)0.00.00.00.2
Compulsive drug intake4.64.64.62.2
One hour access (shock baseline)0.40.40.4-0.7
Social response proportion1.01.11.1-1.0
Social responses4.55.85.8-2.4
Social time0.40.50.5-0.7
Soleus weight0.00.00.0-0.0
Bone: stiffness2.64.14.1-2.0
Tibialis anterior weight0.82.82.8-1.7
Time to tail flick, vehicle, before self-admin2.22.32.31.5
Time to tail flick, vehicle, after self-admin0.00.00.0-0.0
Time to tail flick, test, before self-admin1.11.11.1-1.0
Time to tail flick, test, after self-admin2.42.52.51.6
Delta time to tail flick, vehicle, before/after SA3.93.83.8-2.0
Delta time to tail flick, test, before/after SA4.03.63.61.9
Tibia length4.412.312.3-3.5
Ambulatory time before self-admin4.44.64.6-2.1
Ambulatory time after self-admin3.94.34.3-2.1
Bone: tissue strength0.20.20.2-0.5
Total heroin consumption3.33.83.8-2.0
Bone: trabecular number0.50.80.8-0.9
Bone: trabecular spacing0.10.10.10.3
Bone: trabecular thickness0.60.70.7-0.8
Bone: trabecular tissue density1.92.72.7-1.6
Water consumed over 24 hours0.40.50.50.7
Number of responses in last shaping day0.30.30.30.6