Hcst

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 gene expression Hcst 0.04 0.03 1.2e-05 0.03 0.03 0.02 0.03 1.9e-04 4.2e-04 2.3e-03 4.3e-04
2 Adipose gene expression Hcst 0.29 0.45 0.0e+00 0.12 0.11 0.11 0.12 2.4e-13 1.7e-12 2.2e-12 1.1e-12
3 Brain gene expression Hcst 0.02 0.02 7.0e-03 0.01 0 0.01 0 6.6e-02 2.0e-01 8.2e-02 1.1e-01

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 density0.71.11.50.81.21.2
Area under the delay curve0.40.40.90.90.1-0.7
BMI with tail0.20.61.0-1.0-0.6-0.6
BMI without tail0.00.10.20.20.10.5
Body weight2.510.514.52.93.82.9
Weight adjusted by age0.20.20.3-0.50.50.4
Bone surface1.22.23.31.71.80.7
Bone volume1.32.23.71.51.90.9
Breakpoint value in progressive ratio session1.51.64.32.10.7-0.2
Number of licking bursts4.04.76.2-2.3-1.7-2.5
Context. condit. distance diff. score0.30.31.0-0.00.1-1.0
Locomotion velocity, session 10.30.30.3-0.6-0.50.5
Locomotion distance, session 10.40.60.90.81.0-0.1
Locomotion velocity, session 20.40.51.1-0.4-1.1-0.5
Locomotion distance, session 21.31.92.7-1.2-1.2-1.7
Locomotion velocity, session 30.20.20.4-0.6-0.4-0.2
Locomotion distance, session 31.82.03.31.81.6-0.5
Stereotopy head waving bouts, day 30.60.81.2-0.7-1.10.7
Stereotopy head waving duration, day 31.21.52.5-1.2-1.60.6
Locomotion velocity, session 70.30.30.40.60.7-0.1
Locomotion distance, session 70.20.30.50.30.70.5
Stereotopy head waving bouts, day 71.51.72.5-1.1-1.1-1.6
Stereotopy head waving duration, day 72.12.63.1-1.7-1.8-1.3
Locomotion velocity, session 83.84.55.7-2.0-2.0-2.4
Locomotion distance, session 81.21.84.2-0.9-0.7-2.1
Degree of sensitization distance0.50.50.8-0.8-0.40.9
Degree of sensitization stereotypy2.02.23.7-1.3-1.1-1.9
Conditioned locomotion0.80.91.3-0.6-1.1-1.1
Cocaine response after cond. corrected0.30.40.9-0.2-0.51.0
Cocaine response after cond. not corrected0.60.72.0-0.0-0.31.4
Cocaine response before conditioning1.11.31.71.31.30.8
Saline control response0.20.30.90.2-0.01.0
Bone: connectivity density0.20.30.30.60.60.3
Bone: cortical apparent density1.41.82.7-1.6-1.3-1.1
Bone: cortical area1.21.82.11.41.51.1
Bone: cortical porosity3.23.56.4-1.2-1.6-2.5
Bone: cortical porosity4.14.48.2-1.4-1.7-2.9
Bone: cortical thickness0.40.60.90.70.70.9
Bone: cortical thickness0.50.61.0-1.0-0.80.3
Bone: cortical tissue density1.72.23.1-1.8-1.4-1.2
Condit. Reinf. active minus inactive responses0.20.30.4-0.4-0.7-0.5
Condit. Reinf. active-inactive response ratio0.40.40.7-0.3-0.80.7
Condit. Reinf. active responses2.32.83.4-1.4-1.8-1.8
Condit. Reinf. inactive responses3.44.17.8-1.4-1.5-2.8
Incentive salience index mean0.40.50.7-0.3-0.8-0.9
Condit. Reinf. lever presses0.30.41.10.3-0.4-1.0
Condit. Reinf. active minus inactive responses1.11.32.71.61.00.4
Condit. Reinf. active-inactive response ratio0.10.10.3-0.2-0.1-0.5
Condit. Reinf. active responses2.53.56.12.51.90.8
Condit. Reinf. inactive responses2.93.66.42.51.90.8
Condit. Reinf. lever presses6.08.212.13.52.92.1
Condit. Reinf. lever reinforcers received2.63.66.32.52.10.6
Conditioned reinforcement - actives0.40.41.0-0.3-0.3-1.0
Conditioned reinforcement - inactives1.71.95.00.80.4-2.2
Conditioned locomotion3.13.86.6-1.4-1.6-2.6
Patch foraging indifference point 0 sec0.00.00.10.2-0.0-0.2
Patch foraging indifference point AUC0.40.40.7-0.9-0.7-0.3
Delay disc. indifference point, 0s delay1.31.43.50.70.3-1.9
Delay disc. indifference point, 16s delay0.90.92.41.50.2-0.7
Delay disc. indifference point, 2s delay0.70.81.21.01.1-0.3
Delay disc. indifference point, 24s delay1.31.32.61.61.1-0.0
Delay disc. indifference point, 4s delay0.70.72.00.0-0.5-1.4
Delay disc. indifference point, 8s delay0.10.10.20.40.3-0.1
Indifference point function ln k0.50.71.21.10.70.7
Indifference point function log k0.50.71.21.10.70.7
Patch foraging total patch changes 0 sec0.00.10.20.40.2-0.2
Patch foraging total patch changes 12 sec0.10.10.30.2-0.6-0.1
Patch foraging total patch changes 18 sec0.20.30.7-0.50.1-0.8
Patch foraging total patch changes 24 sec0.50.61.30.61.1-0.3
Patch foraging total patch changes 6 sec0.00.00.1-0.2-0.2-0.1
Patch foraging time to switch 0 sec0.30.51.3-0.5-1.20.1
Patch foraging water rate 0 sec0.81.31.8-1.3-1.0-1.1
Patch foraging water rate 12 sec0.40.61.70.11.3-0.3
Patch foraging water rate 18 sec0.20.30.5-0.7-0.5-0.4
Patch foraging water rate 24 sec0.71.03.0-0.10.3-1.7
Patch foraging water rate 6 sec0.50.81.70.61.3-0.5
Seeking ratio, delayed vs. immediate footshock0.91.01.61.21.3-0.3
Distance traveled before self-admin0.20.30.60.80.10.4
Distance traveled after self-admin3.23.55.82.42.00.8
Extensor digitorum longus weight0.31.12.4-1.0-0.21.6
Bone: elastic displacement0.00.00.10.00.10.4
Bone: elastic work1.62.12.71.61.51.2
Bone: endosteal estimation1.22.74.02.01.80.9
Bone: endosteal perimeter1.12.33.81.91.70.3
Epididymis fat weight0.10.20.50.10.7-0.0
Delta time in closed arm before/after self-admin2.62.53.11.61.81.4
Delta time in open arm before/after self-admin1.21.22.3-1.5-0.8-0.7
Diff in mean of infusions in LGA sessions0.70.81.50.3-0.9-1.2
Delay discount exponential model param0.30.30.8-0.9-0.20.4
Extinction: sum of active levers before priming3.63.64.12.01.91.8
Active lever presses in extinction session 64.03.95.32.11.42.3
Bone: final force1.11.92.91.71.50.6
Bone: final moment1.62.53.61.91.80.9
Food consumed during 24 hour testing period0.50.71.11.10.8-0.4
Glucose0.20.30.7-0.5-0.10.9
Heart weight0.20.20.30.30.5-0.6
Delay discount hyperbolic model param0.30.30.6-0.8-0.20.5
Intermittent access intake day 1-15 change2.12.13.41.01.81.4
Intermittent access intake escalation2.02.03.31.01.81.2
Intermittent access intake escalation 21.71.61.81.21.41.2
Intermitt. access day 1 inactive lever presses2.32.54.82.21.31.0
Intermitt. access day 15 inactive lever presses0.40.40.60.80.2-0.8
Intermitt. access escalation Index0.30.30.7-0.3-0.1-0.8
Intermittent access day 1 total infusions3.94.69.6-1.5-1.4-3.1
Intermittent access day 15 total infusions1.21.44.1-0.10.2-2.0
Intermittent access terminal intake (last 3 days)1.51.74.8-0.3-0.3-2.2
Intermittent access total infusions2.32.67.2-0.5-0.5-2.7
Intermittent access day 1 locomotion3.33.48.6-0.7-1.1-2.9
Intermittent access day 15 total locomotion1.31.44.2-0.20.2-2.0
Intermittent access total locomotion2.63.06.7-1.0-1.1-2.6
Intermittent access standard deviation3.73.96.12.52.4-0.0
Left kidney weight3.08.511.42.13.23.4
Right kidney weight5.114.316.43.24.04.0
Cocaine induced anxiety0.50.50.91.00.50.6
Post-drug Anxiety0.20.20.50.2-0.70.0
Baseline Anxiety1.51.61.8-1.2-1.4-1.2
Tail length3.911.914.13.53.83.1
Length with tail6.624.031.85.15.63.8
Length without tail4.19.114.43.03.82.0
Times rat made contact with spout0.60.71.2-1.1-0.20.9
Lifetime Intake1.71.94.9-0.7-0.5-2.2
Liver weight, left0.40.61.0-1.0-0.70.6
Liver weight, right0.20.40.6-0.6-0.80.5
Locomotor activity0.50.81.4-0.6-0.81.2
Locomotor testing distance0.30.40.6-0.6-0.60.8
Locomotor testing rearing1.21.94.1-2.0-1.2-0.2
Locomotion in novel chamber0.30.30.90.3-1.00.1
Locomotion in novel chamber post-restriction0.50.61.41.2-0.50.2
Fecal boli incidents, locomotor time 11.82.04.0-0.8-2.0-1.2
Change in fecal boli incidents, locomotor task0.80.72.20.20.01.5
Time >=10cm from walls, locomotor time 10.00.00.1-0.1-0.30.1
Bouts of movement, locomotor time 11.01.11.41.10.7-1.2
Total resting periods, locomotor time 11.01.11.71.30.5-1.1
Rest time, locomotor task time 10.80.92.3-0.3-1.5-0.6
Distance moved, locomotor task time 10.40.40.6-0.40.70.8
Vertical activity count, locomotor time 11.11.22.60.71.60.7
Time >=10cm from walls, locomotor time 21.81.92.8-0.9-1.7-1.4
Bouts of movement, locomotor time 20.10.10.30.10.2-0.6
Total resting periods, locomotor time 20.10.10.4-0.0-0.1-0.6
Rest time, locomotor task time 20.60.71.4-0.5-1.2-0.8
Distance moved, locomotor task time 20.20.20.5-0.70.3-0.0
Vertical activity count, locomotor time 20.50.51.40.41.20.1
Light reinforcement 10.20.30.5-0.6-0.2-0.7
Light reinforcement 21.92.64.1-1.8-2.0-0.6
Bone: marrow area1.32.84.22.11.80.9
Bone: maximum diameter1.12.02.51.61.61.1
Bone: maximum force1.93.34.62.22.10.9
Bone: maximum moment2.34.05.52.32.31.1
Mean time between licks in bursts0.10.10.30.1-0.4-0.5
Mean num. licks in bursts2.83.46.71.31.32.6
Cd content in liver0.10.10.40.00.60.2
Co content in liver0.30.40.5-0.7-0.7-0.1
Cu content in liver0.30.40.70.50.80.3
Fe content in liver0.10.10.1-0.0-0.2-0.4
K content in liver0.10.10.20.1-0.4-0.3
Mg content in liver0.70.71.5-0.7-1.2-0.4
Mn content in liver0.91.02.1-1.0-1.4-0.1
Na content in liver0.91.01.51.21.20.0
Rb content in liver0.30.40.8-0.2-0.6-0.9
Se content in liver6.17.410.8-3.1-3.3-1.3
Sr content in liver0.70.61.1-0.8-1.0-0.4
Zn content in liver0.20.20.3-0.4-0.5-0.4
Bone: minimum diameter2.13.96.72.62.20.2
Time in familiar zone, hab. session 12.01.94.60.50.92.2
Time in novel zone, hab. session 12.72.64.2-1.1-1.6-2.0
Total zone transitions, hab. session 10.10.10.40.20.0-0.6
Total locomotion distance, hab. session 10.81.12.51.60.7-0.6
Locomotion velocity, hab. session 10.50.71.81.30.5-0.4
Time in familiar zone, hab. session 22.12.23.01.70.91.7
Time in novel zone, hab. session 21.11.11.8-1.4-0.8-1.0
Total zone transitions, hab. session 22.93.74.5-1.9-2.1-1.7
Total locomotion distance, hab. session 20.70.91.9-0.2-0.8-1.4
Locomotion velocity, hab. session 20.60.71.4-0.3-0.9-1.2
Novel to familiar place preference ratio0.10.10.10.20.4-0.3
Novelty place preference0.10.10.10.10.3-0.4
Time in novel zone, NPP test0.10.10.3-0.10.2-0.6
Total zone transitions, NPP test0.00.00.0-0.2-0.1-0.0
Total locomotion distance, NPP test1.92.64.12.01.61.0
Locomotion velocity, NPP test2.02.84.62.11.61.1
Intraocular pressure0.00.00.10.1-0.0-0.4
Delta distance traveled before/after self-admin2.73.05.01.82.20.7
Delta ambulatory time before/after self-admin2.93.25.91.82.40.6
Parametrial fat weight1.32.67.1-0.7-0.42.7
Pavlov. Cond. lever latency0.50.71.20.40.81.1
Pavlov. Cond. magazine entry latency0.50.60.8-0.7-0.9-0.7
Pavlov. Cond. change in total contacts1.41.53.7-0.5-0.8-1.9
Pavlov. Cond. index score0.81.01.3-0.8-1.1-1.1
Pavlov. Cond. latency score0.60.81.1-0.5-0.9-1.1
Pavlov. Cond. lever contacts0.30.30.70.3-0.4-0.8
Pavlov. Cond. magazine entry number0.70.81.00.91.00.9
Pavlov. Cond. intertrial magazine entries0.60.71.0-1.0-0.7-0.7
Pavlov. Cond. lever-magazine prob. diff.1.11.41.7-0.9-1.3-1.3
Pavlov. Cond. response bias0.20.30.5-0.4-0.7-0.4
Pavlov. Cond. lever latency3.74.97.1-2.7-2.5-1.2
Pavlov. Cond. magazine entry latency1.92.24.32.11.40.5
Pavlov. Cond. change in total contacts5.88.011.53.43.41.1
Pavlov. Cond. index score3.74.77.12.72.41.0
Pavlov. Cond. latency score3.44.26.72.62.30.9
Pavlov. Cond. lever contacts3.24.36.32.42.50.9
Pavlov. Cond. magazine entry number3.03.75.2-2.2-2.3-1.1
Pavlov. Cond. intertrial magazine entries0.71.01.6-1.3-1.0-0.6
Pavlov. Cond. lever-magazine prob. diff.3.64.66.82.62.41.1
Pavlov. Cond. response bias3.64.87.42.62.70.8
Time in closed arm before self-admin3.13.55.3-1.6-1.7-2.3
Time in closed arm after self-admin0.30.30.80.9-0.1-0.4
Time in open arm before self-admin5.45.97.02.52.12.6
Time in open arm after self-admin0.70.81.40.21.21.0
Bone: periosteal estimation1.73.54.62.12.11.3
Bone: periosteal perimeter1.22.03.21.81.41.0
Bone: post-yield work1.11.62.51.61.5-0.2
Progressive ratio test 1 active lever presses1.21.32.60.80.8-1.6
Progressive ratio test 1 breakpoint1.21.21.41.11.0-1.2
Progressive ratio test 1 inactive lever presses1.61.74.40.80.4-2.1
Progressive ratio test 2 active lever presses0.70.82.10.30.3-1.5
Progressive ratio test 2 breakpoint0.60.72.00.30.2-1.4
Progressive ratio test 2 inactive lever presses2.02.34.01.60.4-2.0
Incentive Sensitization - Responses0.00.00.10.00.0-0.3
Incentive Sensitization - Breakpoint0.00.00.0-0.00.1-0.2
Sum of active levers in priming session hrs 5-60.30.30.40.60.30.6
Progressive ratio0.10.10.20.5-0.2-0.4
Food seeking constrained by brief footshock2.43.05.92.41.70.5
Seeking ratio, punishment vs. effort0.30.40.60.70.8-0.2
Retroperitoneal fat weight0.93.16.1-2.5-1.70.4
Reaction time number correct0.10.20.3-0.60.10.5
Reaction time mean minus median0.30.40.70.50.80.6
Reaction time mean minus median AUC0.81.11.60.41.31.2
Reaction time num false alarms0.81.02.0-1.4-0.9-0.6
Reaction time num false alarms AUC0.91.32.0-1.4-1.1-0.8
Reaction time trials correct on left0.10.20.3-0.60.10.5
Reaction time trials on left0.20.20.4-0.60.10.5
Reaction time mean0.20.30.70.00.80.3
Reaction time mean AUC0.10.20.4-0.10.60.3
Median of all reaction times0.10.10.3-0.20.60.0
Reaction time omissions0.30.41.0-0.5-0.01.0
Reaction time false alarm rate0.60.80.9-0.9-0.9-1.0
Reaction time premature initiation rate0.30.41.10.4-0.2-1.1
Reaction time premature initiations0.10.20.50.1-0.1-0.7
Std. dev. reaction times0.50.71.70.41.30.4
Reaction time trials completed0.20.20.4-0.60.10.5
Reaction time trials AUC0.30.40.6-0.70.10.8
Run reversals in cocaine runway, females0.50.51.50.21.20.1
Run reversals in cocaine runway, males0.80.81.6-0.7-0.51.3
Latency to leave start box in cocaine runway0.20.20.5-0.20.7-0.2
Latency to leave start box in cocaine runway, F0.20.20.3-0.60.2-0.4
Latency to leave start box in cocaine runway, M0.10.10.3-0.10.50.3
Std. dev. time between licks in bursts1.51.84.40.9-0.3-2.1
Total sessions with >9 infusions1.11.31.7-1.3-0.9-1.1
Short access day 1 total inactive lever presses1.21.43.80.60.0-1.9
Short access day 10 total inactive lever presses1.21.33.11.80.80.3
Short access day 1 total infusions0.20.20.5-0.4-0.1-0.7
Short access day 10 total infusions0.60.71.5-0.6-0.4-1.2
Short access total infusions0.80.91.3-1.0-0.7-1.1
Short access day 1 locomotion0.60.61.4-1.2-0.4-0.6
Short access day 10 total locomotion1.01.22.31.00.5-1.5
Short access total locomotion1.51.62.7-0.9-1.1-1.7
One hour access (0.3 mA shock)1.61.92.81.31.1-1.7
Compulsive drug intake0.00.00.00.20.1-0.2
One hour access (shock baseline)0.80.92.40.40.2-1.6
Social response proportion1.82.04.52.10.90.8
Social responses0.50.71.91.40.10.4
Social time2.12.84.22.01.90.8
Soleus weight0.10.30.5-0.7-0.40.6
Bone: stiffness1.01.52.41.51.30.7
Tibialis anterior weight0.41.54.0-0.50.32.0
Time to tail flick, vehicle, before self-admin0.80.91.1-0.8-1.0-0.9
Time to tail flick, vehicle, after self-admin0.20.30.30.6-0.5-0.4
Time to tail flick, test, before self-admin1.61.53.3-1.1-0.0-1.8
Time to tail flick, test, after self-admin0.10.10.2-0.50.0-0.3
Delta time to tail flick, vehicle, before/after SA0.30.30.60.80.6-0.1
Delta time to tail flick, test, before/after SA0.70.61.4-0.2-0.61.2
Tibia length2.57.110.52.63.22.0
Ambulatory time before self-admin0.20.20.40.7-0.20.2
Ambulatory time after self-admin5.56.09.73.12.71.0
Bone: tissue strength2.01.92.91.71.7-0.2
Total heroin consumption0.60.71.71.30.4-0.4
Bone: trabecular number1.11.62.71.41.60.6
Bone: trabecular spacing0.10.10.20.40.10.4
Bone: trabecular thickness0.10.20.3-0.60.30.2
Bone: trabecular tissue density1.42.03.0-1.7-1.41.1
Water consumed over 24 hours0.40.50.70.60.80.6
Number of responses in last shaping day1.01.03.10.1-0.2-1.7