Chmp7

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 ENSRNOG00000016939 0.38 0.2 0.0e+00 0.34 0.34 0.35 0.34 1.5e-39 2.5e-39 9.9e-40 1.4e-39
2 Brain gene expression ENSRNOG00000016939 0.04 0.04 2.1e-03 0.03 0.03 0.02 0.02 1.9e-03 2.1e-03 2.6e-03 2.9e-03
3 Brain mRNA stability ENSRNOG00000016939 0.05 0.05 2.8e-04 0.04 0.04 0.04 0.04 7.7e-05 1.5e-04 8.7e-05 8.2e-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 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 tail0.41.41.41.2-1.2-1.1
BMI without tail0.71.51.6-1.21.21.2
Body weight0.41.71.71.3-1.3-1.3
Epididymis fat weight2.14.95.3-2.32.22.2
Glucose0.00.00.0-0.10.10.1
Heart weight0.00.00.1-0.10.30.2
Left kidney weight0.20.50.70.8-0.7-0.6
Right kidney weight0.20.50.6-0.60.70.7
Tail length0.92.72.8-1.71.61.7
Length with tail0.10.20.20.5-0.5-0.5
Length without tail3.78.18.32.9-2.8-2.9
Liver weight, left2.23.63.61.9-1.9-1.9
Liver weight, right0.71.21.21.1-1.1-1.1
Parametrial fat weight3.77.27.7-2.62.82.6
Retroperitoneal fat weight0.30.91.1-0.80.91.0
Intraocular pressure0.40.60.7-0.80.70.7
Extensor digitorum longus weight12.550.250.97.1-7.1-7.0
Soleus weight0.92.62.81.6-1.7-1.5
Tibialis anterior weight8.027.728.35.3-5.3-5.2
Tibia length1.23.43.5-1.81.91.8
Number of licking bursts0.00.00.00.1-0.1-0.1
Food consumed during 24 hour testing period0.20.30.3-0.50.50.6
Times rat made contact with spout0.40.50.5-0.70.70.7
Mean time between licks in bursts2.02.82.8-1.71.71.7
Mean num. licks in bursts0.40.40.5-0.70.70.7
Std. dev. time between licks in bursts1.41.71.7-1.31.31.3
Water consumed over 24 hours1.41.61.61.3-1.3-1.2
Indifference point 0 sec2.13.43.6-1.91.81.8
Indifference point AUC0.70.81.00.8-0.9-1.0
Indifference point function ln k0.00.00.0-0.10.20.2
Indifference point function log k0.00.00.0-0.10.20.2
Delay discounting total patch changes 0 sec1.72.73.0-1.71.61.6
Delay discounting total patch changes 12 sec0.60.81.0-1.00.80.8
Delay discounting total patch changes 18 sec1.62.12.6-1.61.41.4
Delay discounting total patch changes 24 sec0.00.00.0-0.1-0.1-0.1
Delay discounting total patch changes 6 sec0.20.40.5-0.70.60.5
Delay discounting time to switch 0 sec0.71.11.1-1.01.01.0
Delay discounting water rate 0 sec0.30.50.50.7-0.7-0.7
Delay discounting water rate 12 sec0.50.80.91.0-0.9-0.8
Delay discounting water rate 18 sec2.73.63.92.0-1.9-1.8
Delay discounting water rate 24 sec0.00.00.10.3-0.1-0.1
Delay discounting water rate 6 sec1.92.72.91.7-1.7-1.6
Locomotor activity1.42.22.31.5-1.4-1.5
Locomotor testing distance0.00.00.0-0.00.10.1
Locomotor testing rearing0.20.40.4-0.60.60.6
Light reinforcement 13.25.96.0-2.42.42.4
Light reinforcement 21.11.51.6-1.31.31.1
Reaction time number correct0.50.60.70.8-0.8-0.8
Reaction time mean minus median0.20.20.30.4-0.5-0.5
Reaction time mean minus median AUC0.10.20.20.4-0.5-0.4
Reaction time num false alarms0.00.00.00.2-0.10.1
Reaction time num false alarms AUC0.00.00.1-0.00.20.3
Reaction time trials correct on left0.50.60.70.8-0.8-0.8
Reaction time trials on left0.30.50.50.7-0.7-0.6
Reaction time mean0.30.40.50.5-0.7-0.6
Reaction time mean AUC0.50.60.70.7-0.9-0.8
Median of all reaction times0.10.10.20.3-0.5-0.4
Reaction time omissions1.92.52.9-1.71.61.4
Reaction time false alarm rate0.20.30.3-0.40.50.6
Reaction time premature initiation rate1.52.02.11.4-1.4-1.4
Reaction time premature initiations2.13.03.11.7-1.7-1.7
Std. dev. reaction times0.20.30.40.5-0.6-0.6
Reaction time trials completed0.30.50.50.7-0.7-0.6
Reaction time trials AUC0.30.40.50.7-0.7-0.6
Social response proportion0.00.00.10.3-0.2-0.2
Social responses1.11.41.5-1.21.21.2
Social time0.50.60.7-0.70.80.9
Conditioned locomotion0.00.00.0-0.20.20.2
Cocaine response after cond. corrected0.30.30.30.5-0.6-0.5
Cocaine response after cond. not corrected0.20.20.20.4-0.5-0.4
Cocaine response before conditioning0.10.20.2-0.40.40.4
Saline control response0.20.30.3-0.50.50.5
Condit. Reinf. active minus inactive responses0.30.40.4-0.60.60.6
Condit. Reinf. active-inactive response ratio0.10.10.20.4-0.4-0.4
Condit. Reinf. active responses0.91.21.3-1.11.11.2
Condit. Reinf. inactive responses2.32.92.9-1.71.71.7
Condit. Reinf. lever presses0.10.10.1-0.30.30.3
Condit. Reinf. lever reinforcers received0.60.80.9-0.90.90.9
Pavlov. Cond. lever latency0.30.50.5-0.70.70.7
Pavlov. Cond. magazine entry latency0.10.10.1-0.30.30.3
Pavlov. Cond. change in total contacts1.62.32.31.5-1.5-1.5
Pavlov. Cond. index score0.50.60.70.8-0.8-0.8
Pavlov. Cond. latency score0.30.40.40.6-0.6-0.6
Pavlov. Cond. lever contacts0.40.50.50.7-0.7-0.7
Pavlov. Cond. magazine entry number0.00.10.10.2-0.2-0.2
Pavlov. Cond. intertrial magazine entries6.38.18.1-2.82.82.9
Pavlov. Cond. lever-magazine prob. diff.0.60.80.80.9-0.9-0.9
Pavlov. Cond. response bias0.40.60.60.8-0.8-0.8
Conditioned reinforcement - actives2.72.72.7-1.61.71.6
Conditioned reinforcement - inactives3.03.43.5-1.81.81.9
Conditioned locomotion1.01.21.3-1.11.11.1
Intermittent access intake day 1-15 change2.12.12.2-1.51.41.5
Intermittent access intake escalation1.41.41.4-1.21.11.2
Intermittent access intake escalation 20.40.40.5-0.70.60.7
Intermitt. access day 1 inactive lever presses0.10.10.1-0.30.30.3
Intermitt. access day 15 inactive lever presses0.00.00.0-0.10.10.0
Intermitt. access escalation Index0.50.40.50.7-0.6-0.7
Intermittent access day 1 total infusions0.00.00.0-0.20.20.2
Intermittent access day 15 total infusions1.01.11.1-1.01.01.1
Intermittent access terminal intake (last 3 days)0.20.20.3-0.50.40.5
Intermittent access total infusions0.40.50.5-0.70.70.7
Intermittent access day 1 locomotion0.30.40.4-0.60.60.6
Intermittent access day 15 total locomotion1.61.71.8-1.31.31.3
Intermittent access total locomotion0.50.50.5-0.70.70.7
Intermittent access standard deviation1.31.41.7-1.21.11.3
Cocaine induced anxiety0.20.20.30.4-0.4-0.5
Post-drug Anxiety0.50.50.5-0.70.70.7
Baseline Anxiety0.91.01.1-0.90.91.1
Lifetime Intake0.40.50.5-0.70.70.7
Incentive Sensitization - Responses1.01.01.1-1.01.01.0
Incentive Sensitization - Breakpoint1.41.51.5-1.21.21.2
Progressive ratio test 1 active lever presses0.20.20.30.5-0.5-0.5
Progressive ratio test 1 breakpoint0.10.10.10.3-0.3-0.3
Progressive ratio test 1 inactive lever presses1.51.61.7-1.31.31.2
Progressive ratio test 2 active lever presses0.20.20.2-0.50.50.4
Progressive ratio test 2 breakpoint0.20.30.3-0.50.50.5
Progressive ratio test 2 inactive lever presses0.40.40.4-0.60.70.7
Total sessions with >9 infusions0.00.00.0-0.10.10.0
Short access day 1 total inactive lever presses0.50.50.6-0.70.80.6
Short access day 10 total inactive lever presses0.40.40.5-0.60.60.7
Short access day 1 total infusions0.10.10.10.3-0.3-0.4
Short access day 10 total infusions0.00.00.0-0.10.20.1
Short access total infusions0.20.20.2-0.40.50.4
Short access day 1 locomotion0.20.20.20.5-0.5-0.5
Short access day 10 total locomotion0.50.50.6-0.80.80.6
Short access total locomotion0.70.70.7-0.80.90.8
Compulsive drug intake0.00.00.00.1-0.1-0.1
One hour access (0.3 mA shock)0.30.30.3-0.60.50.6
One hour access (shock baseline)0.00.00.00.0-0.0-0.1
Number of responses in last shaping day0.00.00.10.1-0.0-0.2
Context. condit. distance diff. score0.81.01.1-1.01.01.0
Locomotion velocity, session 10.20.20.20.4-0.4-0.4
Locomotion distance, session 10.00.00.0-0.10.00.0
Locomotion velocity, session 20.00.10.1-0.20.20.3
Locomotion distance, session 20.00.00.0-0.20.20.2
Locomotion velocity, session 30.50.60.60.7-0.8-0.8
Locomotion distance, session 30.00.00.0-0.10.10.1
Stereotopy head waving bouts, day 30.70.90.90.9-1.0-1.0
Stereotopy head waving duration, day 32.73.33.31.8-1.8-1.8
Locomotion velocity, session 74.34.74.8-2.22.22.2
Locomotion distance, session 73.44.44.4-2.12.12.1
Stereotopy head waving bouts, day 71.61.82.01.4-1.3-1.4
Stereotopy head waving duration, day 72.32.93.01.7-1.6-1.7
Locomotion velocity, session 80.00.00.0-0.10.10.1
Locomotion distance, session 80.60.90.9-1.00.91.0
Degree of sensitization distance4.94.95.0-2.22.22.2
Degree of sensitization stereotypy1.01.11.31.1-1.0-1.1
Condit. Reinf. active minus inactive responses0.60.70.70.7-0.9-0.8
Condit. Reinf. active-inactive response ratio2.62.82.91.6-1.7-1.7
Condit. Reinf. active responses0.00.00.00.0-0.1-0.1
Condit. Reinf. inactive responses3.03.53.6-1.91.91.9
Incentive salience index mean0.91.01.11.0-1.1-1.1
Condit. Reinf. lever presses0.30.40.40.6-0.6-0.6
Time in familiar zone, hab. session 10.00.00.00.1-0.1-0.1
Time in novel zone, hab. session 11.41.31.41.1-1.2-1.2
Total zone transitions, hab. session 10.20.30.40.5-0.6-0.6
Total locomotion distance, hab. session 10.00.00.0-0.0-0.1-0.0
Locomotion velocity, hab. session 10.10.10.1-0.30.30.3
Time in familiar zone, hab. session 22.02.02.11.4-1.4-1.4
Time in novel zone, hab. session 20.70.70.8-0.90.80.9
Total zone transitions, hab. session 21.51.92.01.4-1.4-1.4
Total locomotion distance, hab. session 20.30.40.40.6-0.6-0.6
Locomotion velocity, hab. session 20.60.80.80.9-0.9-0.9
Novel to familiar place preference ratio1.51.61.6-1.31.31.3
Novelty place preference1.21.21.3-1.11.11.1
Time in novel zone, NPP test0.60.60.6-0.80.80.8
Total zone transitions, NPP test0.10.20.2-0.50.40.4
Total locomotion distance, NPP test2.53.43.5-1.91.81.8
Locomotion velocity, NPP test2.43.43.5-1.91.81.8
Pavlov. Cond. lever latency0.00.00.00.0-0.1-0.0
Pavlov. Cond. magazine entry latency0.00.00.1-0.20.20.2
Pavlov. Cond. change in total contacts1.01.01.11.0-1.0-1.0
Pavlov. Cond. index score0.00.10.10.2-0.2-0.3
Pavlov. Cond. latency score0.00.00.00.1-0.1-0.1
Pavlov. Cond. lever contacts0.00.00.0-0.10.10.1
Pavlov. Cond. magazine entry number0.40.50.6-0.70.70.7
Pavlov. Cond. intertrial magazine entries0.10.10.1-0.30.30.3
Pavlov. Cond. lever-magazine prob. diff.0.10.20.20.4-0.4-0.4
Pavlov. Cond. response bias0.10.10.20.4-0.3-0.4
Bone: apparent density1.62.62.7-1.61.61.7
Bone surface0.61.11.2-1.01.11.1
Bone volume0.81.31.3-1.11.11.2
Bone: connectivity density3.04.84.9-2.12.22.2
Bone: cortical apparent density0.00.00.0-0.20.20.2
Bone: cortical area0.00.00.0-0.10.10.1
Bone: cortical porosity1.41.51.51.2-1.2-1.2
Bone: cortical porosity0.60.60.60.8-0.8-0.8
Bone: cortical thickness0.00.00.0-0.20.20.2
Bone: cortical thickness0.00.00.0-0.20.20.2
Bone: cortical tissue density0.00.00.0-0.20.20.2
Bone: elastic displacement0.50.60.6-0.80.70.7
Bone: elastic work0.30.30.4-0.60.60.6
Bone: endosteal estimation0.10.20.30.5-0.5-0.4
Bone: endosteal perimeter0.10.10.10.4-0.3-0.3
Bone: final force0.10.20.20.4-0.4-0.4
Bone: final moment0.10.10.10.4-0.4-0.4
Bone: marrow area0.00.10.10.4-0.3-0.3
Bone: maximum diameter0.30.60.60.8-0.7-0.7
Bone: maximum force0.20.40.40.6-0.6-0.6
Bone: maximum moment0.10.20.20.5-0.5-0.4
Bone: minimum diameter0.10.20.20.5-0.4-0.4
Bone: periosteal estimation0.00.00.10.2-0.2-0.2
Bone: periosteal perimeter0.00.00.00.1-0.0-0.0
Bone: post-yield work0.20.20.2-0.50.50.5
Bone: stiffness0.60.90.90.9-0.9-0.9
Bone: tissue strength0.10.10.1-0.30.30.3
Bone: trabecular number2.84.34.5-2.02.12.1
Bone: trabecular spacing2.43.13.21.8-1.8-1.7
Bone: trabecular thickness1.21.41.5-1.21.21.2
Bone: trabecular tissue density1.42.02.11.4-1.4-1.5
Breakpoint value in progressive ratio session0.20.20.30.3-0.5-0.5
Distance traveled before self-admin0.91.01.11.1-1.0-0.9
Distance traveled after self-admin2.02.22.41.5-1.5-1.4
Delta time in closed arm before/after self-admin2.12.12.1-1.41.41.5
Delta time in open arm before/after self-admin0.00.00.1-0.20.10.2
Diff in mean of infusions in LGA sessions3.13.43.61.8-1.9-1.9
Extinction: sum of active levers before priming2.52.52.7-1.61.51.6
Active lever presses in extinction session 60.20.10.3-0.50.30.3
Delta distance traveled before/after self-admin2.22.42.41.5-1.5-1.5
Delta ambulatory time before/after self-admin2.02.22.31.5-1.4-1.5
Time in closed arm before self-admin1.61.92.01.4-1.3-1.4
Time in closed arm after self-admin0.50.50.60.8-0.6-0.7
Time in open arm before self-admin0.20.20.20.4-0.4-0.5
Time in open arm after self-admin0.10.10.1-0.30.20.2
Sum of active levers in priming session hrs 5-60.00.00.0-0.2-0.00.0
Time to tail flick, vehicle, before self-admin0.70.70.8-0.90.80.8
Time to tail flick, vehicle, after self-admin2.02.22.21.5-1.5-1.4
Time to tail flick, test, before self-admin0.80.70.8-0.90.90.8
Time to tail flick, test, after self-admin3.53.63.7-1.91.91.9
Delta time to tail flick, vehicle, before/after SA0.30.30.40.6-0.6-0.5
Delta time to tail flick, test, before/after SA0.40.30.4-0.50.50.6
Ambulatory time before self-admin0.70.70.70.8-0.9-0.8
Ambulatory time after self-admin3.33.63.92.0-1.9-1.9
Total heroin consumption0.40.40.50.6-0.7-0.7
Area under the delay curve0.00.00.10.2-0.2-0.2
Delay disc. indifference point, 0s delay0.30.30.3-0.60.50.5
Delay disc. indifference point, 16s delay0.20.20.2-0.50.40.4
Delay disc. indifference point, 2s delay1.51.71.71.3-1.3-1.3
Delay disc. indifference point, 24s delay0.30.30.30.5-0.5-0.5
Delay disc. indifference point, 4s delay1.61.71.71.3-1.3-1.3
Delay disc. indifference point, 8s delay0.00.00.0-0.20.10.1
Delay discount exponential model param0.20.30.3-0.50.50.5
Delay discount hyperbolic model param0.60.60.6-0.70.80.8
Fecal boli incidents, locomotor time 10.90.91.01.0-1.0-0.9
Change in fecal boli incidents, locomotor task0.10.10.20.3-0.2-0.4
Time >=10cm from walls, locomotor time 10.60.60.8-0.90.80.7
Bouts of movement, locomotor time 15.05.55.82.4-2.3-2.4
Total resting periods, locomotor time 15.05.55.72.4-2.3-2.4
Rest time, locomotor task time 13.33.63.81.9-1.9-2.0
Distance moved, locomotor task time 13.23.53.7-1.91.81.9
Vertical activity count, locomotor time 11.11.21.2-1.11.11.1
Time >=10cm from walls, locomotor time 20.40.40.40.6-0.6-0.6
Bouts of movement, locomotor time 23.63.84.12.0-1.8-2.0
Total resting periods, locomotor time 24.14.34.62.2-2.0-2.1
Rest time, locomotor task time 20.91.11.21.0-1.0-1.1
Distance moved, locomotor task time 22.83.33.7-1.81.71.9
Vertical activity count, locomotor time 20.30.30.4-0.60.50.6
Weight adjusted by age2.02.22.31.5-1.5-1.5
Seeking ratio, delayed vs. immediate footshock1.31.51.6-1.11.21.3
Locomotion in novel chamber0.20.20.2-0.40.50.5
Locomotion in novel chamber post-restriction0.60.70.80.9-0.8-0.8
Progressive ratio0.10.10.1-0.40.40.3
Food seeking constrained by brief footshock1.31.61.71.3-1.3-1.3
Seeking ratio, punishment vs. effort0.91.11.11.1-1.1-1.0
Run reversals in cocaine runway, females4.04.04.1-2.02.02.0
Run reversals in cocaine runway, males2.52.42.41.5-1.5-1.5
Latency to leave start box in cocaine runway0.60.60.70.8-0.8-0.8
Latency to leave start box in cocaine runway, F1.51.61.81.3-1.3-1.2
Latency to leave start box in cocaine runway, M1.31.21.2-1.11.11.1
Cd content in liver0.20.20.3-0.50.50.4
Co content in liver3.94.64.82.1-2.2-2.1
Cu content in liver0.60.70.80.8-0.8-0.9
Fe content in liver2.22.62.9-1.61.71.6
K content in liver0.50.50.6-0.80.80.7
Mg content in liver1.21.21.3-1.11.11.0
Mn content in liver2.02.32.4-1.51.51.5
Na content in liver0.70.80.90.8-0.8-0.9
Rb content in liver0.30.40.4-0.60.70.6
Se content in liver0.91.11.2-1.01.11.0
Sr content in liver0.40.40.4-0.60.60.6
Zn content in liver1.11.21.31.1-1.1-1.1