Mark2

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 pVTA intron excision ratio chr1_204468888_204469124 0.09 0.05 4.9e-03 0.01 0.04 0.01 0.02 1.3e-01 1.1e-02 1.1e-01 6.6e-02
2 pVTA intron excision ratio chr1_204468507_204468716 0.09 0.05 3.7e-03 0.01 0.04 0.01 0.01 1.3e-01 9.1e-03 8.1e-02 1.0e-01
3 LHb isoform ratio NM_001398633.1 0.18 0.11 8.3e-03 0 0.04 0.05 0.01 3.1e-01 3.8e-02 2.8e-02 1.4e-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 density0.81.32.0-1.31.40.4
Area under the delay curve0.20.20.2-0.40.5-0.3
BMI with tail4.815.423.9-4.74.9-0.7
BMI without tail2.55.16.8-2.52.6-1.4
Body weight4.318.025.0-5.05.0-2.0
Weight adjusted by age2.02.23.3-1.81.8-0.6
Bone surface3.96.910.4-3.23.20.5
Bone volume2.13.54.7-2.12.21.2
Breakpoint value in progressive ratio session1.41.52.4-1.51.4-0.4
Number of licking bursts0.10.20.2-0.50.50.0
Context. condit. distance diff. score0.40.50.70.8-0.70.4
Locomotion velocity, session 10.20.20.5-0.20.2-0.7
Locomotion distance, session 10.71.01.4-1.11.2-0.5
Locomotion velocity, session 22.63.04.1-2.02.0-1.0
Locomotion distance, session 20.50.80.8-0.80.9-0.9
Locomotion velocity, session 30.40.50.7-0.60.80.5
Locomotion distance, session 30.00.00.1-0.20.2-0.0
Stereotopy head waving bouts, day 30.10.10.2-0.10.30.5
Stereotopy head waving duration, day 30.20.30.50.4-0.30.7
Locomotion velocity, session 70.30.30.80.2-0.00.9
Locomotion distance, session 70.00.10.2-0.00.1-0.4
Stereotopy head waving bouts, day 70.60.61.8-0.10.21.3
Stereotopy head waving duration, day 71.11.31.9-1.41.40.5
Locomotion velocity, session 80.70.81.8-0.60.6-1.3
Locomotion distance, session 80.10.10.2-0.20.30.5
Degree of sensitization distance0.10.10.2-0.30.40.1
Degree of sensitization stereotypy0.70.80.9-0.90.91.0
Conditioned locomotion1.01.21.4-1.21.2-0.9
Cocaine response after cond. corrected0.50.61.01.0-0.9-0.1
Cocaine response after cond. not corrected0.30.30.60.8-0.7-0.1
Cocaine response before conditioning0.30.40.6-0.80.70.0
Saline control response3.24.24.7-2.22.1-1.9
Bone: connectivity density2.64.16.2-2.42.5-0.3
Bone: cortical apparent density0.20.20.7-0.0-0.1-0.8
Bone: cortical area0.81.21.8-1.31.30.3
Bone: cortical porosity0.00.00.00.2-0.2-0.0
Bone: cortical porosity0.10.10.2-0.20.2-0.5
Bone: cortical thickness1.82.94.3-1.61.4-2.1
Bone: cortical thickness0.91.12.9-0.40.4-1.7
Bone: cortical tissue density0.20.30.9-0.1-0.1-0.9
Condit. Reinf. active minus inactive responses0.20.30.3-0.60.5-0.4
Condit. Reinf. active-inactive response ratio0.10.10.20.1-0.2-0.4
Condit. Reinf. active responses0.20.20.3-0.60.60.2
Condit. Reinf. inactive responses0.30.40.9-0.30.41.0
Incentive salience index mean0.70.81.1-1.11.1-0.4
Condit. Reinf. lever presses0.81.01.5-1.21.20.1
Condit. Reinf. active minus inactive responses0.60.71.70.5-0.41.3
Condit. Reinf. active-inactive response ratio1.81.95.10.5-0.42.3
Condit. Reinf. active responses0.10.10.2-0.10.00.5
Condit. Reinf. inactive responses0.50.61.7-0.40.3-1.3
Condit. Reinf. lever presses1.41.92.8-1.71.60.5
Condit. Reinf. lever reinforcers received0.10.10.2-0.40.30.4
Conditioned reinforcement - actives1.31.32.60.9-0.81.6
Conditioned reinforcement - inactives4.24.77.61.9-1.82.8
Conditioned locomotion6.07.37.92.8-2.72.6
Patch foraging indifference point 0 sec0.00.00.1-0.10.10.3
Patch foraging indifference point AUC2.32.64.1-2.01.9-0.4
Delay disc. indifference point, 0s delay0.10.10.2-0.20.3-0.5
Delay disc. indifference point, 16s delay0.40.41.00.3-0.21.0
Delay disc. indifference point, 2s delay0.10.10.1-0.20.40.2
Delay disc. indifference point, 24s delay0.30.31.0-0.00.0-1.0
Delay disc. indifference point, 4s delay0.50.51.1-0.40.5-1.1
Delay disc. indifference point, 8s delay0.10.10.40.00.0-0.6
Indifference point function ln k4.15.89.03.0-2.80.6
Indifference point function log k4.15.89.03.0-2.80.6
Patch foraging total patch changes 0 sec0.00.00.0-0.0-0.0-0.2
Patch foraging total patch changes 12 sec3.95.07.3-2.72.6-1.1
Patch foraging total patch changes 18 sec0.40.50.8-0.90.80.0
Patch foraging total patch changes 24 sec3.54.26.1-2.52.4-1.0
Patch foraging total patch changes 6 sec1.01.52.0-1.41.4-0.8
Patch foraging time to switch 0 sec1.72.74.2-1.92.00.2
Patch foraging water rate 0 sec2.64.26.22.4-2.50.7
Patch foraging water rate 12 sec4.97.411.23.3-3.30.2
Patch foraging water rate 18 sec1.52.03.01.7-1.7-0.1
Patch foraging water rate 24 sec2.12.94.42.1-2.10.2
Patch foraging water rate 6 sec2.43.55.22.3-2.3-0.3
Seeking ratio, delayed vs. immediate footshock0.10.10.10.2-0.2-0.3
Distance traveled before self-admin0.80.91.2-1.11.00.6
Distance traveled after self-admin0.10.10.1-0.30.20.3
Extensor digitorum longus weight6.726.235.8-6.05.8-3.0
Bone: elastic displacement1.61.82.41.5-1.5-0.9
Bone: elastic work1.21.53.8-0.70.6-1.9
Bone: endosteal estimation0.71.64.7-0.10.42.2
Bone: endosteal perimeter1.53.29.50.20.13.1
Epididymis fat weight0.92.24.61.1-0.92.1
Delta time in closed arm before/after self-admin0.90.92.5-0.30.3-1.6
Delta time in open arm before/after self-admin0.40.40.6-0.60.50.8
Diff in mean of infusions in LGA sessions0.10.10.2-0.40.2-0.4
Delay discount exponential model param0.20.20.20.4-0.50.4
Extinction: sum of active levers before priming3.53.45.0-2.22.1-0.9
Active lever presses in extinction session 61.21.21.9-1.41.30.0
Bone: final force2.94.77.0-2.62.6-0.5
Bone: final moment2.74.36.4-2.52.5-0.4
Food consumed during 24 hour testing period0.00.00.1-0.0-0.00.3
Glucose1.11.62.71.1-0.91.6
Heart weight1.31.82.71.7-1.50.7
Delay discount hyperbolic model param0.20.20.30.5-0.60.4
Intermittent access intake day 1-15 change1.21.21.71.0-1.01.3
Intermittent access intake escalation1.01.01.60.8-0.91.3
Intermittent access intake escalation 20.50.51.10.4-0.41.0
Intermitt. access day 1 inactive lever presses2.12.22.31.5-1.41.5
Intermitt. access day 15 inactive lever presses2.22.45.70.9-0.82.4
Intermitt. access escalation Index0.70.61.01.0-0.90.1
Intermittent access day 1 total infusions2.83.27.61.2-0.82.8
Intermittent access day 15 total infusions6.37.112.72.2-2.03.6
Intermittent access terminal intake (last 3 days)4.44.812.31.1-0.93.5
Intermittent access total infusions3.74.19.81.2-1.03.1
Intermittent access day 1 locomotion1.01.02.70.5-0.21.7
Intermittent access day 15 total locomotion3.03.27.31.1-1.02.7
Intermittent access total locomotion3.84.311.90.8-0.53.4
Intermittent access standard deviation1.71.82.11.3-1.31.4
Left kidney weight0.30.71.80.5-0.41.3
Right kidney weight0.30.92.5-0.20.21.6
Cocaine induced anxiety0.20.30.5-0.40.40.7
Post-drug Anxiety0.60.71.0-1.01.00.4
Baseline Anxiety1.31.31.5-1.21.1-1.2
Tail length0.72.14.6-1.00.8-2.1
Length with tail1.65.97.3-2.72.5-2.0
Length without tail1.53.45.0-2.22.2-0.7
Times rat made contact with spout0.50.51.4-0.30.2-1.2
Lifetime Intake2.83.16.81.2-1.02.6
Liver weight, left0.10.10.10.3-0.20.4
Liver weight, right0.20.30.5-0.60.7-0.4
Locomotor activity1.52.43.51.9-1.9-0.4
Locomotor testing distance1.72.83.92.0-2.0-0.9
Locomotor testing rearing1.32.02.91.7-1.7-0.4
Locomotion in novel chamber3.64.48.21.7-1.52.9
Locomotion in novel chamber post-restriction2.83.44.02.0-1.91.6
Fecal boli incidents, locomotor time 10.50.61.5-0.30.31.2
Change in fecal boli incidents, locomotor task0.60.61.60.2-0.1-1.3
Time >=10cm from walls, locomotor time 11.51.64.60.3-0.12.1
Bouts of movement, locomotor time 10.20.20.40.0-0.3-0.7
Total resting periods, locomotor time 10.00.00.1-0.0-0.2-0.3
Rest time, locomotor task time 11.61.82.51.6-1.60.5
Distance moved, locomotor task time 10.50.50.8-0.90.9-0.0
Vertical activity count, locomotor time 10.70.70.80.9-0.80.8
Time >=10cm from walls, locomotor time 20.30.30.80.2-0.20.9
Bouts of movement, locomotor time 20.20.30.3-0.60.5-0.5
Total resting periods, locomotor time 20.10.10.1-0.40.3-0.2
Rest time, locomotor task time 22.02.33.11.7-1.61.1
Distance moved, locomotor task time 20.50.60.7-0.80.7-0.8
Vertical activity count, locomotor time 20.60.71.30.6-0.7-1.1
Light reinforcement 10.20.30.50.6-0.7-0.0
Light reinforcement 21.92.56.80.7-0.62.6
Bone: marrow area0.71.54.40.00.32.1
Bone: maximum diameter0.81.52.0-1.11.21.4
Bone: maximum force4.37.411.3-3.33.40.3
Bone: maximum moment3.86.510.0-3.13.20.2
Mean time between licks in bursts1.21.74.3-0.60.5-2.1
Mean num. licks in bursts0.30.40.50.6-0.7-0.5
Cd content in liver1.21.31.91.0-1.01.4
Co content in liver3.13.64.92.1-2.2-1.2
Cu content in liver0.10.10.2-0.30.2-0.5
Fe content in liver0.20.20.2-0.40.40.4
K content in liver2.52.43.6-1.81.9-0.6
Mg content in liver0.60.61.1-0.91.00.2
Mn content in liver1.61.82.8-1.71.60.1
Na content in liver0.80.91.3-1.11.1-0.0
Rb content in liver0.91.11.41.2-1.10.8
Se content in liver0.91.12.9-0.40.41.7
Sr content in liver2.12.02.8-1.71.5-0.9
Zn content in liver1.51.72.5-1.61.5-0.4
Bone: minimum diameter0.71.33.6-0.20.41.9
Time in familiar zone, hab. session 10.00.00.10.00.00.3
Time in novel zone, hab. session 10.50.50.50.7-0.7-0.6
Total zone transitions, hab. session 10.20.30.5-0.70.6-0.3
Total locomotion distance, hab. session 10.10.20.50.1-0.00.7
Locomotion velocity, hab. session 10.10.10.1-0.20.30.4
Time in familiar zone, hab. session 20.70.82.00.4-0.4-1.4
Time in novel zone, hab. session 20.40.40.4-0.60.70.7
Total zone transitions, hab. session 21.52.02.8-1.61.7-0.6
Total locomotion distance, hab. session 20.20.30.5-0.60.7-0.1
Locomotion velocity, hab. session 20.10.20.3-0.40.50.4
Novel to familiar place preference ratio1.51.62.1-1.51.40.8
Novelty place preference1.01.01.1-1.11.00.9
Time in novel zone, NPP test0.90.91.1-1.11.00.7
Total zone transitions, NPP test1.62.33.2-1.81.8-0.7
Total locomotion distance, NPP test0.10.10.3-0.40.5-0.0
Locomotion velocity, NPP test0.00.10.1-0.30.30.0
Intraocular pressure1.21.61.71.2-1.31.3
Delta distance traveled before/after self-admin0.30.30.40.6-0.6-0.6
Delta ambulatory time before/after self-admin0.40.50.80.6-0.6-0.9
Parametrial fat weight0.81.63.70.9-0.61.9
Pavlov. Cond. lever latency0.91.11.71.3-1.30.1
Pavlov. Cond. magazine entry latency0.91.11.7-1.31.30.2
Pavlov. Cond. change in total contacts0.50.61.1-0.60.61.0
Pavlov. Cond. index score0.30.40.6-0.80.80.1
Pavlov. Cond. latency score0.30.40.6-0.80.80.0
Pavlov. Cond. lever contacts0.30.30.5-0.70.7-0.2
Pavlov. Cond. magazine entry number0.20.30.40.6-0.6-0.3
Pavlov. Cond. intertrial magazine entries0.81.01.31.1-1.10.7
Pavlov. Cond. lever-magazine prob. diff.0.60.71.1-1.01.00.0
Pavlov. Cond. response bias0.30.30.5-0.70.70.2
Pavlov. Cond. lever latency0.81.11.41.2-1.2-0.7
Pavlov. Cond. magazine entry latency2.83.24.8-2.22.1-0.8
Pavlov. Cond. change in total contacts1.52.12.6-1.61.51.1
Pavlov. Cond. index score2.12.84.2-2.12.00.3
Pavlov. Cond. latency score2.02.53.8-1.91.90.4
Pavlov. Cond. lever contacts0.40.50.6-0.80.80.5
Pavlov. Cond. magazine entry number4.65.68.62.9-2.80.6
Pavlov. Cond. intertrial magazine entries1.01.31.81.3-1.30.6
Pavlov. Cond. lever-magazine prob. diff.2.43.14.8-2.22.10.1
Pavlov. Cond. response bias1.21.72.7-1.61.50.2
Time in closed arm before self-admin0.30.40.8-0.40.40.9
Time in closed arm after self-admin0.10.10.20.4-0.3-0.4
Time in open arm before self-admin1.51.62.61.1-1.1-1.6
Time in open arm after self-admin0.30.30.40.5-0.6-0.5
Bone: periosteal estimation0.81.72.9-1.01.21.7
Bone: periosteal perimeter0.71.21.6-0.91.01.3
Bone: post-yield work2.94.07.0-1.51.72.6
Progressive ratio test 1 active lever presses3.03.13.31.8-1.71.8
Progressive ratio test 1 breakpoint2.72.83.01.7-1.71.6
Progressive ratio test 1 inactive lever presses0.30.30.40.6-0.60.5
Progressive ratio test 2 active lever presses4.14.57.71.8-1.62.8
Progressive ratio test 2 breakpoint5.36.07.62.3-2.22.8
Progressive ratio test 2 inactive lever presses5.56.311.32.0-1.93.4
Incentive Sensitization - Responses0.80.82.30.2-0.11.5
Incentive Sensitization - Breakpoint1.01.02.80.3-0.31.7
Sum of active levers in priming session hrs 5-60.50.50.8-0.70.50.9
Progressive ratio1.92.23.3-1.81.8-0.2
Food seeking constrained by brief footshock0.40.51.5-0.20.2-1.2
Seeking ratio, punishment vs. effort1.62.02.81.6-1.7-0.8
Retroperitoneal fat weight2.99.610.93.1-2.83.3
Reaction time number correct0.20.30.5-0.50.4-0.7
Reaction time mean minus median1.31.72.7-1.61.60.3
Reaction time mean minus median AUC0.40.60.9-1.00.9-0.1
Reaction time num false alarms1.11.41.61.1-1.2-1.3
Reaction time num false alarms AUC0.81.12.80.5-0.6-1.7
Reaction time trials correct on left0.20.30.5-0.50.4-0.7
Reaction time trials on left0.20.30.6-0.50.4-0.8
Reaction time mean0.20.31.00.0-0.01.0
Reaction time mean AUC0.30.41.20.1-0.11.1
Median of all reaction times0.30.41.20.2-0.21.1
Reaction time omissions0.10.10.1-0.40.3-0.4
Reaction time false alarm rate0.60.81.00.8-0.8-1.0
Reaction time premature initiation rate3.74.96.7-2.02.0-2.6
Reaction time premature initiations4.46.18.9-2.32.1-3.0
Std. dev. reaction times0.10.10.3-0.30.20.5
Reaction time trials completed0.20.30.6-0.50.4-0.8
Reaction time trials AUC0.20.30.5-0.40.3-0.7
Run reversals in cocaine runway, females1.61.51.7-1.21.3-1.3
Run reversals in cocaine runway, males0.20.20.20.5-0.5-0.3
Latency to leave start box in cocaine runway0.20.20.50.00.10.7
Latency to leave start box in cocaine runway, F0.00.00.1-0.10.10.4
Latency to leave start box in cocaine runway, M0.20.20.30.5-0.30.5
Std. dev. time between licks in bursts0.60.81.90.4-0.4-1.4
Total sessions with >9 infusions0.90.91.50.9-0.71.2
Short access day 1 total inactive lever presses2.32.63.11.7-1.61.5
Short access day 10 total inactive lever presses2.62.94.52.1-2.00.2
Short access day 1 total infusions1.61.72.41.2-1.01.5
Short access day 10 total infusions1.01.23.20.4-0.21.8
Short access total infusions0.70.81.70.6-0.51.3
Short access day 1 locomotion0.50.61.70.3-0.11.3
Short access day 10 total locomotion0.40.51.30.3-0.11.2
Short access total locomotion0.30.41.10.00.21.0
One hour access (0.3 mA shock)6.88.010.22.7-2.53.2
Compulsive drug intake3.53.59.1-0.90.7-3.0
One hour access (shock baseline)9.010.518.22.7-2.54.3
Social response proportion0.40.50.7-0.90.8-0.1
Social responses0.20.30.8-0.30.2-0.9
Social time0.30.30.9-0.30.2-0.9
Soleus weight2.78.011.03.3-3.21.8
Bone: stiffness2.33.65.5-2.32.30.5
Tibialis anterior weight8.328.338.8-6.26.0-3.2
Time to tail flick, vehicle, before self-admin1.61.72.6-1.51.60.3
Time to tail flick, vehicle, after self-admin3.43.64.3-2.02.1-1.6
Time to tail flick, test, before self-admin0.10.10.2-0.30.50.2
Time to tail flick, test, after self-admin0.00.00.1-0.10.1-0.2
Delta time to tail flick, vehicle, before/after SA0.80.81.5-0.70.7-1.2
Delta time to tail flick, test, before/after SA0.10.10.3-0.0-0.2-0.5
Tibia length1.13.24.1-2.02.01.2
Ambulatory time before self-admin0.90.91.2-0.90.91.1
Ambulatory time after self-admin0.40.51.4-0.00.01.2
Bone: tissue strength0.20.20.30.2-0.30.6
Total heroin consumption2.93.44.4-2.11.9-1.5
Bone: trabecular number1.21.82.5-1.51.60.9
Bone: trabecular spacing1.01.21.41.1-1.2-1.0
Bone: trabecular thickness0.50.61.40.5-0.41.2
Bone: trabecular tissue density4.25.97.82.8-2.81.4
Water consumed over 24 hours0.50.61.4-0.60.5-1.2
Number of responses in last shaping day0.50.50.80.9-0.90.0