Htr1a

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 PL gene expression Htr1a 0.16 0.06 0.0e+00 0.32 0.34 0.34 0.34 3.5e-36 3.3e-38 7.1e-39 2.5e-38
2 IL gene expression Htr1a 0.26 0.13 1.3e-06 0.18 0.16 0.19 0.18 3.3e-05 1.4e-04 2.5e-05 4.5e-05
3 Brain gene expression Htr1a 0.2 0.1 0.0e+00 0.24 0.24 0.25 0.24 7.4e-22 1.5e-22 5.4e-23 1.5e-22
4 OFC gene expression Htr1a 0.26 0.13 2.2e-06 0.19 0.2 0.19 0.23 2.9e-05 1.4e-05 2.7e-05 3.9e-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 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 4
Bone: apparent density1.32.23.61.41.21.4-1.9
Area under the delay curve0.20.20.30.30.60.3-0.4
BMI with tail2.68.311.92.52.33.5-3.1
BMI without tail1.32.73.11.61.71.8-1.6
Body weight0.10.30.6-0.8-0.6-0.30.3
Weight adjusted by age0.10.10.10.30.10.4-0.1
Bone surface0.00.00.10.00.00.3-0.0
Bone volume0.10.20.40.30.20.4-0.7
Breakpoint value in progressive ratio session3.23.64.31.71.82.1-1.9
Number of licking bursts0.91.01.11.01.01.0-1.0
Context. condit. distance diff. score1.21.41.8-1.2-1.3-1.01.1
Locomotion velocity, session 10.20.20.3-0.3-0.3-0.50.5
Locomotion distance, session 10.60.81.1-0.8-1.0-0.90.9
Locomotion velocity, session 21.61.92.1-1.4-1.5-1.41.2
Locomotion distance, session 20.40.50.9-0.8-0.9-0.60.5
Locomotion velocity, session 32.02.32.7-1.5-1.5-1.41.6
Locomotion distance, session 36.36.97.4-2.7-2.5-2.52.7
Stereotopy head waving bouts, day 30.00.00.00.10.10.1-0.0
Stereotopy head waving duration, day 30.70.81.00.91.00.8-0.9
Locomotion velocity, session 70.40.50.7-0.8-0.7-0.50.8
Locomotion distance, session 70.70.91.3-1.1-0.8-0.81.0
Stereotopy head waving bouts, day 70.30.40.80.40.30.9-0.6
Stereotopy head waving duration, day 70.20.20.60.30.30.8-0.4
Locomotion velocity, session 80.81.01.5-1.1-1.2-0.80.7
Locomotion distance, session 82.84.15.1-2.2-2.2-1.81.9
Degree of sensitization distance2.22.22.41.41.51.5-1.5
Degree of sensitization stereotypy0.20.20.80.20.00.9-0.4
Conditioned locomotion0.50.60.9-0.9-1.0-0.70.6
Cocaine response after cond. corrected4.04.54.9-2.0-2.1-2.22.1
Cocaine response after cond. not corrected3.84.24.6-2.0-2.1-2.12.0
Cocaine response before conditioning0.00.00.0-0.0-0.20.1-0.2
Saline control response0.81.01.4-1.2-1.2-0.61.0
Bone: connectivity density1.32.02.31.41.41.5-1.4
Bone: cortical apparent density0.40.60.9-0.7-0.8-1.00.5
Bone: cortical area0.00.00.1-0.0-0.20.1-0.0
Bone: cortical porosity0.10.10.20.30.00.4-0.5
Bone: cortical porosity0.30.30.50.60.30.5-0.7
Bone: cortical thickness0.10.20.50.30.20.4-0.7
Bone: cortical thickness0.40.51.0-0.8-1.0-0.50.3
Bone: cortical tissue density0.40.61.0-0.7-0.8-1.00.5
Condit. Reinf. active minus inactive responses3.33.73.92.01.91.8-2.0
Condit. Reinf. active-inactive response ratio1.92.12.41.41.31.4-1.6
Condit. Reinf. active responses1.11.41.51.21.21.1-1.2
Condit. Reinf. inactive responses0.10.20.2-0.4-0.4-0.50.4
Incentive salience index mean2.02.42.71.61.51.4-1.6
Condit. Reinf. lever presses0.20.30.50.70.50.5-0.6
Condit. Reinf. active minus inactive responses1.92.33.6-1.5-1.4-1.91.2
Condit. Reinf. active-inactive response ratio2.62.74.4-1.6-1.6-2.11.1
Condit. Reinf. active responses0.30.40.7-0.7-0.6-0.80.5
Condit. Reinf. inactive responses0.30.40.80.60.60.9-0.3
Condit. Reinf. lever presses0.50.70.8-0.9-0.8-0.90.6
Condit. Reinf. lever reinforcers received0.50.70.9-0.9-0.7-1.00.7
Conditioned reinforcement - actives2.42.43.2-1.8-1.6-1.41.4
Conditioned reinforcement - inactives0.60.61.2-0.9-1.1-0.50.4
Conditioned locomotion1.21.41.9-1.4-1.4-1.00.8
Patch foraging indifference point 0 sec1.42.33.3-1.7-1.2-1.31.8
Patch foraging indifference point AUC0.80.91.31.20.80.7-1.0
Delay disc. indifference point, 0s delay0.10.10.30.40.6-0.3-0.2
Delay disc. indifference point, 16s delay0.20.20.3-0.6-0.4-0.50.4
Delay disc. indifference point, 2s delay0.40.50.60.60.80.8-0.6
Delay disc. indifference point, 24s delay0.90.91.4-0.9-0.9-1.20.8
Delay disc. indifference point, 4s delay0.30.30.50.50.70.4-0.5
Delay disc. indifference point, 8s delay0.80.81.00.81.00.8-1.0
Indifference point function ln k3.95.46.3-2.5-2.1-2.32.3
Indifference point function log k3.95.46.3-2.5-2.1-2.32.3
Patch foraging total patch changes 0 sec2.03.24.3-2.0-1.5-1.62.1
Patch foraging total patch changes 12 sec0.00.00.00.00.0-0.10.0
Patch foraging total patch changes 18 sec0.00.00.1-0.1-0.20.30.1
Patch foraging total patch changes 24 sec2.63.13.9-1.8-2.0-1.71.6
Patch foraging total patch changes 6 sec0.00.00.1-0.00.20.10.4
Patch foraging time to switch 0 sec2.53.84.12.01.92.0-2.0
Patch foraging water rate 0 sec1.82.93.2-1.8-1.6-1.71.7
Patch foraging water rate 12 sec5.38.19.5-2.8-2.8-3.12.7
Patch foraging water rate 18 sec3.54.75.2-2.3-2.3-2.12.0
Patch foraging water rate 24 sec1.31.92.2-1.5-1.5-1.31.2
Patch foraging water rate 6 sec8.312.112.7-3.5-3.3-3.63.6
Seeking ratio, delayed vs. immediate footshock3.54.04.81.92.21.8-2.0
Distance traveled before self-admin2.12.22.6-1.6-1.4-1.61.3
Distance traveled after self-admin2.02.22.7-1.5-1.4-1.61.3
Extensor digitorum longus weight5.521.527.84.54.15.3-4.6
Bone: elastic displacement0.80.91.51.01.20.5-0.9
Bone: elastic work0.20.20.40.60.60.4-0.3
Bone: endosteal estimation1.43.24.1-1.7-1.8-1.62.0
Bone: endosteal perimeter0.00.10.3-0.0-0.10.20.5
Epididymis fat weight0.61.31.51.11.11.2-1.1
Delta time in closed arm before/after self-admin3.73.63.81.81.92.0-1.8
Delta time in open arm before/after self-admin0.20.20.4-0.2-0.6-0.50.3
Diff in mean of infusions in LGA sessions0.50.50.50.70.70.7-0.7
Delay discount exponential model param0.20.20.3-0.3-0.6-0.30.5
Extinction: sum of active levers before priming0.70.71.00.70.71.0-1.0
Active lever presses in extinction session 62.01.93.01.41.71.3-1.2
Bone: final force1.21.92.5-1.4-1.6-1.21.3
Bone: final moment1.62.63.3-1.6-1.8-1.51.5
Food consumed during 24 hour testing period1.11.41.6-1.2-1.1-1.11.2
Glucose0.30.50.70.80.80.4-0.7
Heart weight0.10.10.3-0.4-0.60.20.0
Delay discount hyperbolic model param0.20.20.4-0.4-0.6-0.40.5
Intermittent access intake day 1-15 change0.30.30.5-0.6-0.7-0.60.3
Intermittent access intake escalation0.40.40.7-0.6-0.8-0.60.3
Intermittent access intake escalation 20.10.10.30.2-0.00.3-0.5
Intermitt. access day 1 inactive lever presses1.41.52.51.11.01.6-1.1
Intermitt. access day 15 inactive lever presses1.71.92.01.31.31.4-1.4
Intermitt. access escalation Index0.30.30.5-0.4-0.4-0.70.5
Intermittent access day 1 total infusions2.12.53.2-1.7-1.8-1.41.3
Intermittent access day 15 total infusions3.33.74.7-2.1-2.2-1.81.5
Intermittent access terminal intake (last 3 days)2.02.23.3-1.7-1.8-1.21.0
Intermittent access total infusions3.33.74.6-2.1-2.1-1.81.6
Intermittent access day 1 locomotion5.55.87.1-2.4-2.7-2.32.2
Intermittent access day 15 total locomotion2.72.93.7-1.7-1.9-1.71.5
Intermittent access total locomotion6.97.99.7-2.9-3.1-2.62.6
Intermittent access standard deviation1.21.32.7-1.2-1.6-0.80.5
Left kidney weight0.41.01.5-1.2-1.2-0.50.9
Right kidney weight0.10.30.7-0.6-0.80.20.2
Cocaine induced anxiety0.20.20.3-0.4-0.5-0.50.5
Post-drug Anxiety0.91.02.1-1.0-1.4-0.50.8
Baseline Anxiety0.10.10.3-0.3-0.50.30.0
Tail length3.09.010.1-3.1-2.6-3.13.2
Length with tail4.315.617.2-4.2-3.6-4.13.9
Length without tail2.65.66.9-2.6-2.4-2.32.1
Times rat made contact with spout0.40.50.7-0.7-0.7-0.40.9
Lifetime Intake2.93.34.0-2.0-2.0-1.71.5
Liver weight, left0.20.30.9-0.5-0.90.10.4
Liver weight, right0.20.40.8-0.6-0.9-0.30.5
Locomotor activity0.40.60.9-0.6-0.9-0.60.9
Locomotor testing distance0.10.20.50.50.40.7-0.3
Locomotor testing rearing0.10.20.4-0.3-0.4-0.10.7
Locomotion in novel chamber0.20.30.4-0.6-0.6-0.30.6
Locomotion in novel chamber post-restriction0.30.30.50.70.60.1-0.6
Fecal boli incidents, locomotor time 10.70.71.00.71.01.0-0.6
Change in fecal boli incidents, locomotor task0.10.10.20.0-0.00.4-0.2
Time >=10cm from walls, locomotor time 10.60.61.10.70.61.0-0.6
Bouts of movement, locomotor time 10.10.10.10.40.2-0.40.3
Total resting periods, locomotor time 10.20.30.5-0.0-0.4-0.70.7
Rest time, locomotor task time 10.10.10.20.40.10.2-0.1
Distance moved, locomotor task time 10.60.61.3-0.8-1.1-0.60.4
Vertical activity count, locomotor time 10.70.81.2-0.9-1.1-0.70.8
Time >=10cm from walls, locomotor time 21.31.41.51.11.21.2-1.1
Bouts of movement, locomotor time 20.10.10.10.40.30.0-0.1
Total resting periods, locomotor time 20.10.10.20.40.30.2-0.1
Rest time, locomotor task time 20.30.40.70.70.20.8-0.5
Distance moved, locomotor task time 20.10.10.1-0.4-0.3-0.30.1
Vertical activity count, locomotor time 20.30.30.5-0.7-0.5-0.40.6
Light reinforcement 11.32.42.8-1.7-1.4-1.61.5
Light reinforcement 20.00.00.00.1-0.20.2-0.2
Bone: marrow area1.53.24.2-1.7-1.8-1.52.0
Bone: maximum diameter0.40.71.30.90.71.1-0.5
Bone: maximum force0.30.50.8-0.7-0.9-0.40.7
Bone: maximum moment0.50.91.3-1.0-1.2-0.80.9
Mean time between licks in bursts0.20.30.80.50.30.5-0.9
Mean num. licks in bursts1.82.22.9-1.5-1.4-1.31.7
Cd content in liver0.20.20.30.20.40.4-0.6
Co content in liver0.50.60.80.70.90.5-0.8
Cu content in liver0.00.00.1-0.3-0.30.00.2
Fe content in liver0.30.40.6-0.5-0.4-0.80.7
K content in liver7.47.38.0-2.8-2.8-2.62.7
Mg content in liver2.62.73.1-1.7-1.8-1.41.6
Mn content in liver0.60.71.1-0.8-0.7-1.10.6
Na content in liver1.21.31.5-1.1-1.2-1.11.1
Rb content in liver0.40.40.6-0.8-0.8-0.60.5
Se content in liver0.50.61.10.60.41.0-0.8
Sr content in liver2.62.42.61.61.61.4-1.6
Zn content in liver0.10.10.20.00.00.4-0.3
Bone: minimum diameter3.05.77.0-2.3-2.5-2.02.6
Time in familiar zone, hab. session 12.72.52.7-1.6-1.5-1.71.5
Time in novel zone, hab. session 15.95.86.02.42.42.4-2.3
Total zone transitions, hab. session 10.30.40.90.50.51.0-0.6
Total locomotion distance, hab. session 10.30.50.6-0.8-0.7-0.50.7
Locomotion velocity, hab. session 10.40.50.7-0.8-0.9-0.60.7
Time in familiar zone, hab. session 21.92.03.0-1.2-1.1-1.71.5
Time in novel zone, hab. session 22.52.53.91.31.12.0-1.8
Total zone transitions, hab. session 20.70.91.6-0.8-1.3-0.90.7
Total locomotion distance, hab. session 20.50.71.2-0.8-1.1-0.90.4
Locomotion velocity, hab. session 21.11.52.3-1.1-1.5-1.30.8
Novel to familiar place preference ratio3.13.24.01.61.72.0-1.9
Novelty place preference3.03.03.81.61.61.9-1.8
Time in novel zone, NPP test3.13.24.31.61.62.1-1.9
Total zone transitions, NPP test1.01.41.9-1.2-1.4-1.11.1
Total locomotion distance, NPP test0.30.50.6-0.7-0.8-0.70.5
Locomotion velocity, NPP test1.31.82.1-1.4-1.5-1.41.2
Intraocular pressure7.210.111.03.22.93.3-3.2
Delta distance traveled before/after self-admin0.50.50.8-0.6-0.6-0.90.8
Delta ambulatory time before/after self-admin0.70.80.9-0.9-0.8-0.90.9
Parametrial fat weight0.61.11.60.91.01.3-1.0
Pavlov. Cond. lever latency0.00.00.10.10.30.1-0.1
Pavlov. Cond. magazine entry latency0.30.40.5-0.7-0.5-0.60.7
Pavlov. Cond. change in total contacts0.50.50.7-0.8-0.7-0.80.6
Pavlov. Cond. index score0.10.10.2-0.4-0.4-0.30.4
Pavlov. Cond. latency score0.00.00.0-0.1-0.1-0.00.1
Pavlov. Cond. lever contacts0.10.20.2-0.5-0.5-0.30.3
Pavlov. Cond. magazine entry number0.50.70.90.90.80.8-0.8
Pavlov. Cond. intertrial magazine entries11.714.214.83.83.73.7-3.8
Pavlov. Cond. lever-magazine prob. diff.0.10.20.2-0.4-0.4-0.40.4
Pavlov. Cond. response bias0.50.70.9-0.9-0.8-0.60.9
Pavlov. Cond. lever latency0.50.60.90.90.70.9-0.6
Pavlov. Cond. magazine entry latency1.11.21.7-1.3-1.1-0.91.0
Pavlov. Cond. change in total contacts3.34.54.9-2.2-2.1-2.22.0
Pavlov. Cond. index score1.52.02.4-1.6-1.4-1.31.3
Pavlov. Cond. latency score1.82.32.8-1.7-1.5-1.51.4
Pavlov. Cond. lever contacts0.60.81.0-0.9-0.8-1.00.8
Pavlov. Cond. magazine entry number2.12.63.01.71.41.6-1.6
Pavlov. Cond. intertrial magazine entries0.20.20.30.50.40.5-0.4
Pavlov. Cond. lever-magazine prob. diff.1.62.02.5-1.6-1.4-1.31.3
Pavlov. Cond. response bias0.60.81.0-1.0-0.8-0.90.8
Time in closed arm before self-admin0.40.40.7-0.4-0.9-0.70.6
Time in closed arm after self-admin0.10.10.20.40.20.2-0.2
Time in open arm before self-admin1.31.42.71.01.61.1-0.9
Time in open arm after self-admin0.50.50.70.70.80.6-0.7
Bone: periosteal estimation0.61.21.6-1.0-1.2-0.81.3
Bone: periosteal perimeter0.00.00.1-0.0-0.20.30.2
Bone: post-yield work1.01.31.61.11.31.2-1.0
Progressive ratio test 1 active lever presses2.12.22.9-1.7-1.6-1.21.3
Progressive ratio test 1 breakpoint2.93.03.9-2.0-1.9-1.41.6
Progressive ratio test 1 inactive lever presses0.30.40.8-0.7-0.9-0.40.3
Progressive ratio test 2 active lever presses0.80.81.2-1.0-1.1-0.70.7
Progressive ratio test 2 breakpoint0.40.50.8-0.8-0.9-0.40.5
Progressive ratio test 2 inactive lever presses0.10.10.2-0.4-0.4-0.30.2
Incentive Sensitization - Responses0.20.20.2-0.5-0.4-0.40.3
Incentive Sensitization - Breakpoint0.10.10.1-0.3-0.2-0.30.2
Sum of active levers in priming session hrs 5-61.61.62.71.21.60.9-1.1
Progressive ratio1.72.02.71.11.61.3-1.5
Food seeking constrained by brief footshock4.55.56.1-2.3-2.5-2.22.4
Seeking ratio, punishment vs. effort5.36.57.9-2.2-2.8-2.42.7
Retroperitoneal fat weight1.44.54.92.12.12.2-2.0
Reaction time number correct6.59.310.6-3.3-2.9-3.22.9
Reaction time mean minus median0.00.00.1-0.1-0.2-0.20.3
Reaction time mean minus median AUC0.30.40.5-0.6-0.7-0.60.7
Reaction time num false alarms0.71.01.11.01.01.0-1.0
Reaction time num false alarms AUC1.21.71.81.31.31.3-1.3
Reaction time trials correct on left6.59.310.6-3.3-2.9-3.22.9
Reaction time trials on left6.69.510.7-3.3-2.9-3.22.9
Reaction time mean1.82.53.31.71.51.2-1.8
Reaction time mean AUC1.52.12.61.61.41.0-1.6
Median of all reaction times3.04.15.62.21.91.6-2.4
Reaction time omissions0.20.20.3-0.4-0.5-0.60.5
Reaction time false alarm rate6.08.48.73.02.92.9-2.8
Reaction time premature initiation rate5.57.47.9-2.7-2.7-2.62.8
Reaction time premature initiations11.716.517.5-4.2-4.0-4.04.1
Std. dev. reaction times0.10.10.20.40.20.3-0.4
Reaction time trials completed6.69.510.7-3.3-2.9-3.22.9
Reaction time trials AUC5.78.29.4-3.1-2.7-3.02.6
Run reversals in cocaine runway, females1.11.11.60.80.81.3-1.2
Run reversals in cocaine runway, males0.30.30.40.70.50.5-0.5
Latency to leave start box in cocaine runway1.11.21.61.31.20.5-1.2
Latency to leave start box in cocaine runway, F0.20.20.40.50.40.0-0.6
Latency to leave start box in cocaine runway, M1.91.92.41.61.51.0-1.3
Std. dev. time between licks in bursts0.00.00.10.1-0.10.0-0.4
Total sessions with >9 infusions1.01.11.5-1.2-1.1-0.90.8
Short access day 1 total inactive lever presses0.00.10.10.0-0.20.3-0.3
Short access day 10 total inactive lever presses0.10.10.30.1-0.20.1-0.5
Short access day 1 total infusions1.92.12.6-1.6-1.6-1.31.1
Short access day 10 total infusions2.52.83.6-1.9-1.8-1.41.4
Short access total infusions2.63.03.5-1.9-1.8-1.61.6
Short access day 1 locomotion0.60.70.9-1.0-0.8-0.80.7
Short access day 10 total locomotion0.50.60.7-0.7-0.8-0.80.7
Short access total locomotion4.24.34.7-2.0-2.2-2.22.0
One hour access (0.3 mA shock)0.00.00.1-0.4-0.2-0.20.0
Compulsive drug intake0.90.91.01.01.00.9-0.8
One hour access (shock baseline)2.52.93.8-1.9-1.7-1.71.4
Social response proportion0.60.60.80.80.70.9-0.8
Social responses0.00.10.2-0.10.10.10.4
Social time0.00.00.00.10.1-0.1-0.1
Soleus weight0.82.43.11.61.31.8-1.5
Bone: stiffness0.30.50.9-0.8-1.0-0.40.5
Tibialis anterior weight2.79.110.83.12.83.3-2.8
Time to tail flick, vehicle, before self-admin5.65.77.2-2.7-2.6-2.22.1
Time to tail flick, vehicle, after self-admin0.90.91.5-1.2-1.1-0.60.7
Time to tail flick, test, before self-admin0.00.00.0-0.00.1-0.0-0.2
Time to tail flick, test, after self-admin0.10.10.10.20.40.3-0.3
Delta time to tail flick, vehicle, before/after SA2.32.22.51.61.51.5-1.4
Delta time to tail flick, test, before/after SA0.00.00.00.10.2-0.10.1
Tibia length5.114.315.2-3.9-3.9-3.83.5
Ambulatory time before self-admin0.40.40.6-0.8-0.6-0.80.5
Ambulatory time after self-admin1.41.51.9-1.3-1.3-1.40.9
Bone: tissue strength0.80.81.00.91.00.8-0.8
Total heroin consumption0.20.20.60.20.40.8-0.4
Bone: trabecular number0.71.21.71.11.00.8-1.3
Bone: trabecular spacing0.20.30.4-0.5-0.5-0.50.6
Bone: trabecular thickness0.91.11.61.00.91.2-1.1
Bone: trabecular tissue density0.10.10.30.3-0.10.4-0.5
Water consumed over 24 hours0.00.00.0-0.1-0.20.10.1
Number of responses in last shaping day0.00.00.0-0.2-0.10.10.1