Sf1

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 BLA gene expression ENSRNOG00000021085 0.09 0.06 3.0e-03 0.01 0.04 0.03 0.02 1.3e-01 2.7e-03 8.3e-03 4.1e-02
2 Eye alternative polyA ENSRNOT00000110004 0.32 0.17 5.3e-03 0.16 0.12 0.13 0.12 1.8e-03 6.4e-03 5.5e-03 6.1e-03
3 LHb gene expression ENSRNOG00000021085 0.18 0.11 3.5e-03 0.02 0.02 0.07 0.02 1.3e-01 1.2e-01 9.5e-03 1.1e-01
4 OFC gene expression ENSRNOG00000021085 0.27 0.15 2.1e-03 0.07 0.03 0.07 -0 7.6e-03 5.4e-02 9.7e-03 3.7e-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 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 tail2.27.010.2-3.22.8-2.71.6
BMI without tail1.94.16.6-2.62.4-2.00.3
Body weight2.39.915.6-3.23.9-3.7-0.5
Epididymis fat weight2.55.97.81.6-2.62.62.8
Glucose2.03.16.10.7-1.81.62.5
Heart weight1.72.44.00.5-2.01.61.7
Left kidney weight0.72.12.71.4-1.51.61.2
Right kidney weight0.71.93.11.8-1.21.50.9
Tail length1.23.75.2-1.22.3-1.7-2.2
Length with tail1.45.17.7-1.62.8-2.6-2.0
Length without tail0.71.63.1-0.91.5-1.8-0.6
Liver weight, left0.20.31.1-0.2-0.10.21.1
Liver weight, right0.30.61.1-1.00.3-0.21.0
Parametrial fat weight2.04.07.80.9-1.72.12.8
Retroperitoneal fat weight4.515.019.52.5-4.44.24.1
Intraocular pressure2.43.36.32.5-1.72.0-0.4
Extensor digitorum longus weight4.518.227.9-3.75.3-5.1-2.3
Soleus weight2.47.111.21.7-3.33.12.2
Tibialis anterior weight5.920.533.5-3.15.8-5.2-3.5
Tibia length0.20.61.71.30.70.1-0.3
Number of licking bursts0.00.00.10.10.3-0.2-0.2
Food consumed during 24 hour testing period0.30.40.91.0-0.10.4-0.6
Times rat made contact with spout1.01.11.5-0.91.1-1.1-1.2
Mean time between licks in bursts1.92.73.4-1.81.7-1.7-1.3
Mean num. licks in bursts0.10.10.1-0.30.0-0.1-0.4
Std. dev. time between licks in bursts0.60.71.5-1.20.6-0.8-0.6
Water consumed over 24 hours1.21.43.0-0.41.1-1.1-1.7
Indifference point 0 sec0.00.10.10.3-0.30.2-0.1
Indifference point AUC1.82.14.5-0.32.1-1.3-1.6
Indifference point function ln k2.94.27.90.3-2.82.02.1
Indifference point function log k2.94.27.90.3-2.82.02.1
Delay discounting total patch changes 0 sec0.00.10.30.0-0.1-0.1-0.5
Delay discounting total patch changes 12 sec2.83.86.7-1.02.6-2.0-1.8
Delay discounting total patch changes 18 sec0.30.41.00.01.0-0.4-0.7
Delay discounting total patch changes 24 sec1.72.23.3-0.61.8-1.4-1.7
Delay discounting total patch changes 6 sec0.81.21.7-1.11.3-1.3-0.5
Delay discounting time to switch 0 sec0.50.81.0-0.71.0-1.00.9
Delay discounting water rate 0 sec2.03.25.01.7-2.22.2-0.0
Delay discounting water rate 12 sec2.53.88.51.1-2.92.30.4
Delay discounting water rate 18 sec0.91.22.70.1-1.61.10.9
Delay discounting water rate 24 sec1.41.93.50.8-1.91.70.7
Delay discounting water rate 6 sec0.81.22.90.3-1.71.30.2
Locomotor activity0.40.61.50.0-1.20.90.2
Locomotor testing distance0.30.61.4-0.4-1.20.80.2
Locomotor testing rearing0.30.51.3-0.2-1.10.80.5
Light reinforcement 10.10.20.30.4-0.30.3-0.5
Light reinforcement 22.83.74.92.2-2.01.91.5
Reaction time number correct0.30.40.6-0.30.7-0.6-0.8
Reaction time mean minus median0.60.81.9-0.01.4-1.1-0.3
Reaction time mean minus median AUC0.50.61.10.01.0-0.8-0.8
Reaction time num false alarms0.40.51.3-1.10.2-0.6-0.5
Reaction time num false alarms AUC0.91.32.1-1.50.8-1.1-1.0
Reaction time trials correct on left0.30.40.6-0.30.7-0.6-0.8
Reaction time trials on left0.30.50.7-0.30.8-0.7-0.8
Reaction time mean0.30.40.90.9-0.50.40.4
Reaction time mean AUC0.30.51.01.0-0.60.50.5
Median of all reaction times0.50.71.01.0-0.90.70.7
Reaction time omissions0.40.51.1-0.20.7-1.0-0.8
Reaction time false alarm rate0.30.41.1-1.10.2-0.5-0.2
Reaction time premature initiation rate4.35.87.2-2.52.6-2.7-1.8
Reaction time premature initiations5.47.79.3-2.43.0-3.1-2.6
Std. dev. reaction times0.10.10.30.50.4-0.3-0.2
Reaction time trials completed0.30.50.7-0.30.8-0.7-0.8
Reaction time trials AUC0.20.30.4-0.40.6-0.6-0.7
Social response proportion0.30.30.7-0.20.8-0.6-0.3
Social responses0.40.50.9-0.30.8-0.5-0.9
Social time0.40.60.8-0.60.7-0.8-0.9
Conditioned locomotion1.11.31.9-1.01.4-1.4-0.7
Cocaine response after cond. corrected0.40.50.9-0.4-0.80.50.9
Cocaine response after cond. not corrected0.40.41.0-0.5-0.60.41.0
Cocaine response before conditioning0.20.20.40.20.7-0.4-0.5
Saline control response3.54.76.9-1.92.6-2.4-1.5
Condit. Reinf. active minus inactive responses0.70.91.01.0-0.90.91.0
Condit. Reinf. active-inactive response ratio2.93.04.01.6-1.61.72.0
Condit. Reinf. active responses0.10.10.10.4-0.20.20.3
Condit. Reinf. inactive responses0.91.11.2-1.01.0-1.1-1.0
Condit. Reinf. lever presses0.30.40.90.11.0-0.70.1
Condit. Reinf. lever reinforcers received0.00.00.20.40.1-0.00.0
Pavlov. Cond. lever latency0.10.10.3-0.3-0.30.1-0.6
Pavlov. Cond. magazine entry latency1.92.23.6-0.91.9-1.7-1.1
Pavlov. Cond. change in total contacts0.20.30.70.80.5-0.30.1
Pavlov. Cond. index score0.40.51.3-0.01.1-0.9-0.2
Pavlov. Cond. latency score0.30.40.9-0.00.9-0.70.0
Pavlov. Cond. lever contacts0.10.10.30.50.4-0.1-0.0
Pavlov. Cond. magazine entry number2.32.95.10.8-2.22.01.3
Pavlov. Cond. intertrial magazine entries0.70.91.30.7-1.11.10.7
Pavlov. Cond. lever-magazine prob. diff.0.60.81.8-0.21.4-1.1-0.5
Pavlov. Cond. response bias0.30.51.10.11.0-0.8-0.5
Conditioned reinforcement - actives1.51.42.61.6-1.01.30.8
Conditioned reinforcement - inactives7.28.211.13.1-3.13.31.6
Conditioned locomotion8.29.813.73.1-3.73.51.9
Intermittent access intake day 1-15 change1.61.63.21.8-1.01.5-0.0
Intermittent access intake escalation1.31.32.41.5-0.91.40.1
Intermittent access intake escalation 21.01.02.41.5-0.61.1-0.4
Intermitt. access day 1 inactive lever presses2.42.63.31.4-1.81.81.3
Intermitt. access day 15 inactive lever presses4.44.85.92.3-2.32.41.7
Intermitt. access escalation Index1.00.91.6-0.2-1.30.81.0
Intermittent access day 1 total infusions7.38.215.91.4-2.92.64.0
Intermittent access day 15 total infusions10.611.813.82.9-3.63.73.5
Intermittent access terminal intake (last 3 days)9.210.112.92.6-3.13.33.6
Intermittent access total infusions7.68.412.62.1-2.92.93.5
Intermittent access day 1 locomotion4.34.411.00.3-2.01.63.3
Intermittent access day 15 total locomotion6.56.98.42.3-2.72.92.6
Intermittent access total locomotion9.110.316.62.2-3.13.24.1
Intermittent access standard deviation1.92.02.71.6-1.51.60.7
Cocaine induced anxiety0.10.10.40.6-0.00.40.2
Post-drug Anxiety0.20.30.70.30.8-0.4-0.4
Baseline Anxiety1.81.92.5-1.11.5-1.6-1.2
Lifetime Intake6.06.711.71.5-2.62.53.4
Incentive Sensitization - Responses1.31.31.61.2-1.11.31.0
Incentive Sensitization - Breakpoint1.71.82.21.4-1.31.51.1
Progressive ratio test 1 active lever presses3.53.64.91.7-2.22.01.6
Progressive ratio test 1 breakpoint3.13.24.41.6-2.12.01.4
Progressive ratio test 1 inactive lever presses0.80.81.50.6-1.20.90.7
Progressive ratio test 2 active lever presses6.77.18.52.5-2.82.92.4
Progressive ratio test 2 breakpoint6.97.79.62.7-3.13.12.2
Progressive ratio test 2 inactive lever presses10.612.215.03.2-3.93.93.0
Total sessions with >9 infusions2.32.56.40.1-1.61.12.5
Short access day 1 total inactive lever presses3.43.85.91.2-2.42.02.0
Short access day 10 total inactive lever presses1.21.32.90.4-1.71.30.8
Short access day 1 total infusions3.13.36.60.6-2.01.52.6
Short access day 10 total infusions3.53.811.00.3-1.61.33.3
Short access total infusions2.42.67.30.1-1.41.02.7
Short access day 1 locomotion2.32.45.90.2-1.51.22.4
Short access day 10 total locomotion1.51.73.60.3-1.31.11.9
Short access total locomotion1.71.74.7-0.0-1.20.92.2
Compulsive drug intake6.16.08.6-2.12.3-2.4-2.9
One hour access (0.3 mA shock)10.512.215.53.0-3.93.93.0
One hour access (shock baseline)13.916.119.23.9-4.24.43.6
Number of responses in last shaping day0.50.51.10.4-1.10.80.3
Context. condit. distance diff. score0.60.71.00.2-0.91.01.0
Locomotion velocity, session 10.30.40.9-0.90.3-0.60.3
Locomotion distance, session 10.91.22.2-1.50.7-1.10.9
Locomotion velocity, session 21.92.23.4-1.51.7-1.8-0.4
Locomotion distance, session 20.91.22.4-1.50.9-1.40.2
Locomotion velocity, session 31.21.44.5-0.8-0.60.12.1
Locomotion distance, session 30.10.10.2-0.3-0.10.00.5
Stereotopy head waving bouts, day 31.21.54.7-0.8-0.70.22.2
Stereotopy head waving duration, day 30.81.02.30.0-1.00.61.5
Locomotion velocity, session 70.80.92.9-0.2-0.70.51.7
Locomotion distance, session 70.30.41.1-1.00.1-0.40.7
Stereotopy head waving bouts, day 70.70.81.20.9-0.70.81.1
Stereotopy head waving duration, day 70.20.20.60.00.7-0.50.1
Locomotion velocity, session 81.41.62.3-1.51.4-1.4-0.5
Locomotion distance, session 80.50.82.8-0.5-0.30.21.7
Degree of sensitization distance0.40.40.9-0.70.0-0.20.9
Degree of sensitization stereotypy0.10.10.40.60.20.10.4
Condit. Reinf. active minus inactive responses0.20.20.3-0.50.5-0.5-0.5
Condit. Reinf. active-inactive response ratio0.20.20.80.00.2-0.2-0.9
Condit. Reinf. active responses0.00.00.1-0.10.0-0.10.2
Condit. Reinf. inactive responses0.50.61.80.2-0.50.51.3
Incentive salience index mean0.30.40.6-0.80.6-0.7-0.1
Condit. Reinf. lever presses0.10.20.3-0.40.4-0.30.5
Time in familiar zone, hab. session 10.10.10.20.1-0.30.40.4
Time in novel zone, hab. session 10.10.10.2-0.5-0.1-0.2-0.0
Total zone transitions, hab. session 10.30.40.7-0.50.7-0.8-0.3
Total locomotion distance, hab. session 10.50.71.90.1-0.80.51.4
Locomotion velocity, hab. session 10.10.20.6-0.1-0.40.10.8
Time in familiar zone, hab. session 20.80.81.3-1.20.8-0.6-0.9
Time in novel zone, hab. session 20.10.10.20.4-0.30.10.5
Total zone transitions, hab. session 21.11.42.2-1.51.0-1.50.5
Total locomotion distance, hab. session 20.50.61.4-1.0-0.1-0.41.2
Locomotion velocity, hab. session 20.50.72.2-0.6-0.50.01.5
Novel to familiar place preference ratio0.20.20.40.70.6-0.1-0.0
Novelty place preference0.20.20.60.80.30.10.0
Time in novel zone, NPP test0.10.10.30.60.40.10.1
Total zone transitions, NPP test1.21.72.8-1.31.5-1.7-0.1
Total locomotion distance, NPP test0.30.41.0-0.8-0.0-0.41.0
Locomotion velocity, NPP test0.20.20.5-0.5-0.1-0.40.7
Pavlov. Cond. lever latency0.20.20.40.4-0.60.4-0.2
Pavlov. Cond. magazine entry latency0.10.10.2-0.20.4-0.30.4
Pavlov. Cond. change in total contacts0.30.30.70.9-0.40.50.4
Pavlov. Cond. index score0.00.00.10.20.3-0.1-0.2
Pavlov. Cond. latency score0.00.00.1-0.10.3-0.20.0
Pavlov. Cond. lever contacts0.10.10.1-0.40.3-0.20.2
Pavlov. Cond. magazine entry number0.10.20.4-0.6-0.2-0.00.5
Pavlov. Cond. intertrial magazine entries0.91.11.81.4-1.01.2-0.5
Pavlov. Cond. lever-magazine prob. diff.0.10.10.30.00.5-0.3-0.3
Pavlov. Cond. response bias0.00.10.10.40.20.0-0.2
Bone: apparent density0.30.51.1-0.70.6-0.51.1
Bone surface1.01.73.7-0.71.9-1.50.5
Bone volume0.30.51.20.10.8-0.41.1
Bone: connectivity density1.01.62.7-1.21.7-1.50.3
Bone: cortical apparent density0.50.71.8-0.20.7-0.7-1.3
Bone: cortical area0.10.10.30.10.5-0.3-0.1
Bone: cortical porosity0.00.00.1-0.10.1-0.3-0.2
Bone: cortical porosity0.40.50.7-0.50.7-0.8-0.6
Bone: cortical thickness2.64.35.7-1.32.3-2.1-2.4
Bone: cortical thickness1.31.61.7-1.31.2-1.3-1.1
Bone: cortical tissue density0.70.92.2-0.30.8-0.8-1.5
Bone: elastic displacement0.20.20.5-0.1-0.50.3-0.7
Bone: elastic work1.72.22.4-1.61.4-1.5-1.3
Bone: endosteal estimation1.83.910.40.5-1.61.53.2
Bone: endosteal perimeter3.06.213.31.4-2.22.23.6
Bone: final force1.11.83.3-1.11.8-1.7-0.2
Bone: final moment1.01.63.0-1.01.7-1.6-0.2
Bone: marrow area1.83.910.40.4-1.71.43.2
Bone: maximum diameter0.30.51.00.9-0.30.51.0
Bone: maximum force1.01.72.7-1.01.7-1.50.8
Bone: maximum moment0.91.52.5-1.01.6-1.40.7
Bone: minimum diameter1.52.87.30.4-1.51.22.7
Bone: periosteal estimation0.71.44.30.5-0.70.82.1
Bone: periosteal perimeter0.30.61.80.5-0.40.41.3
Bone: post-yield work2.02.810.10.5-0.70.63.2
Bone: stiffness0.50.81.6-0.51.3-1.10.5
Bone: tissue strength0.10.10.30.6-0.30.30.1
Bone: trabecular number0.20.30.90.10.3-0.10.9
Bone: trabecular spacing0.20.30.8-0.50.0-0.2-0.9
Bone: trabecular thickness0.80.91.70.6-1.00.91.3
Bone: trabecular tissue density2.53.65.11.7-2.32.31.0
Breakpoint value in progressive ratio session1.21.42.7-0.41.6-1.3-1.0
Distance traveled before self-admin0.10.10.20.40.3-0.20.1
Distance traveled after self-admin0.10.10.30.6-0.10.0-0.4
Delta time in closed arm before/after self-admin1.31.33.2-1.80.7-1.2-0.2
Delta time in open arm before/after self-admin0.70.61.81.3-0.10.6-0.6
Diff in mean of infusions in LGA sessions0.30.40.70.00.7-0.4-0.8
Extinction: sum of active levers before priming2.52.54.4-1.12.1-1.8-1.1
Active lever presses in extinction session 61.11.12.00.31.4-0.8-1.3
Delta distance traveled before/after self-admin0.10.10.1-0.4-0.1-0.1-0.4
Delta ambulatory time before/after self-admin0.20.20.5-0.70.1-0.4-0.4
Time in closed arm before self-admin0.20.20.50.7-0.20.40.4
Time in closed arm after self-admin0.20.20.4-0.7-0.2-0.30.4
Time in open arm before self-admin0.70.72.3-1.50.1-0.7-0.3
Time in open arm after self-admin0.30.31.20.3-0.00.2-1.1
Sum of active levers in priming session hrs 5-61.11.12.61.60.40.3-1.2
Time to tail flick, vehicle, before self-admin0.50.50.8-0.60.8-0.50.9
Time to tail flick, vehicle, after self-admin2.83.05.0-2.22.0-1.8-0.1
Time to tail flick, test, before self-admin0.80.82.3-0.7-0.60.21.5
Time to tail flick, test, after self-admin0.00.00.0-0.10.2-0.1-0.2
Delta time to tail flick, vehicle, before/after SA1.11.01.8-1.31.1-1.0-0.4
Delta time to tail flick, test, before/after SA1.61.44.10.60.9-0.6-2.0
Ambulatory time before self-admin0.30.31.01.0-0.00.30.2
Ambulatory time after self-admin0.70.81.21.1-0.90.80.6
Total heroin consumption3.54.36.2-1.32.5-2.3-2.0
Area under the delay curve0.30.30.7-0.80.3-0.30.6
Delay disc. indifference point, 0s delay0.80.91.8-1.20.3-0.31.3
Delay disc. indifference point, 16s delay0.80.81.10.7-1.11.00.8
Delay disc. indifference point, 2s delay0.20.31.0-0.3-0.10.21.0
Delay disc. indifference point, 24s delay0.30.30.5-0.70.3-0.5-0.7
Delay disc. indifference point, 4s delay0.60.61.7-1.30.5-0.60.3
Delay disc. indifference point, 8s delay0.50.51.3-1.10.4-0.60.3
Delay discount exponential model param0.30.30.60.8-0.30.4-0.4
Delay discount hyperbolic model param0.30.30.70.9-0.40.4-0.5
Fecal boli incidents, locomotor time 10.60.61.51.2-0.20.80.6
Change in fecal boli incidents, locomotor task1.00.92.7-1.60.4-0.90.2
Time >=10cm from walls, locomotor time 12.93.06.71.1-1.41.42.6
Bouts of movement, locomotor time 11.92.16.90.50.8-0.8-2.6
Total resting periods, locomotor time 11.31.55.00.70.5-0.5-2.2
Rest time, locomotor task time 11.11.21.81.2-1.41.3-0.1
Distance moved, locomotor task time 10.30.30.5-0.70.3-0.40.7
Vertical activity count, locomotor time 11.11.22.00.4-1.21.01.4
Time >=10cm from walls, locomotor time 20.30.31.01.0-0.40.40.0
Bouts of movement, locomotor time 20.50.61.5-0.10.6-0.6-1.2
Total resting periods, locomotor time 20.20.20.60.00.3-0.3-0.8
Rest time, locomotor task time 22.12.43.40.9-1.91.61.7
Distance moved, locomotor task time 20.91.01.8-0.41.1-1.0-1.4
Vertical activity count, locomotor time 20.30.41.1-0.40.3-0.4-1.1
Weight adjusted by age1.01.12.1-0.41.5-1.1-1.0
Seeking ratio, delayed vs. immediate footshock0.00.00.1-0.1-0.30.0-0.1
Locomotion in novel chamber6.37.89.52.7-3.03.12.4
Locomotion in novel chamber post-restriction2.73.24.31.5-2.02.11.5
Progressive ratio1.11.21.8-1.11.3-1.30.4
Food seeking constrained by brief footshock0.60.81.3-1.20.8-0.9-0.5
Seeking ratio, punishment vs. effort0.30.40.60.1-0.80.7-0.6
Run reversals in cocaine runway, females2.32.35.2-2.31.1-1.60.5
Run reversals in cocaine runway, males0.10.10.30.3-0.40.50.0
Latency to leave start box in cocaine runway0.30.41.3-0.1-0.20.21.1
Latency to leave start box in cocaine runway, F0.00.00.10.10.10.10.2
Latency to leave start box in cocaine runway, M0.40.41.5-0.2-0.20.11.2
Cd content in liver1.92.13.11.8-1.41.70.7
Co content in liver0.50.62.00.1-0.50.3-1.4
Cu content in liver0.30.40.8-0.20.7-0.5-0.9
Fe content in liver0.00.10.10.10.3-0.10.3
K content in liver1.51.52.1-1.41.4-1.20.4
Mg content in liver0.40.40.8-0.70.3-0.40.9
Mn content in liver0.60.61.20.01.1-1.0-0.7
Na content in liver0.20.30.6-0.10.8-0.6-0.2
Rb content in liver0.91.12.20.2-1.21.01.5
Se content in liver0.91.12.51.6-0.81.00.6
Sr content in liver2.11.93.2-0.21.7-1.3-1.8
Zn content in liver0.60.71.0-0.41.0-1.0-0.8