Efna2

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 Brain alternative TSS NM_001168670.1 0.06 0.04 4.9e-05 0.04 0.03 0.03 0.03 2.1e-04 6.6e-04 1.1e-03 8.1e-04
2 Brain alternative TSS XM_039079982.1 0.06 0.04 8.2e-05 0.03 0.03 0.02 0.03 5.0e-04 1.3e-03 2.3e-03 1.5e-03
3 Brain mRNA stability Efna2 0.23 0.22 3.0e-10 0.08 0.08 0.08 0.08 1.0e-07 3.3e-08 6.0e-08 6.2e-08
4 Adipose gene expression Efna2 0.03 0.03 5.5e-04 0.01 0.01 0.01 0.01 1.4e-02 1.6e-02 1.1e-02 2.0e-02

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 density0.71.22.9-0.90.91.70.8
Area under the delay curve2.12.22.91.7-1.7-1.1-1.4
BMI with tail6.621.323.94.7-4.7-4.1-4.9
BMI without tail3.67.48.12.7-2.7-2.9-2.7
Body weight1.25.25.52.3-2.3-2.1-2.4
Weight adjusted by age1.41.62.31.3-1.3-1.5-1.0
Bone surface2.54.58.4-1.81.82.91.7
Bone volume2.44.07.6-1.71.72.81.7
Breakpoint value in progressive ratio session3.74.15.0-2.22.21.42.2
Number of licking bursts0.70.81.40.9-0.9-1.2-0.5
Context. condit. distance diff. score0.20.30.50.3-0.3-0.6-0.7
Locomotion velocity, session 11.51.62.4-1.21.21.51.1
Locomotion distance, session 12.43.14.1-1.91.92.00.9
Locomotion velocity, session 28.510.011.5-3.43.43.22.5
Locomotion distance, session 24.66.58.7-2.52.52.92.1
Locomotion velocity, session 35.46.37.5-2.72.71.92.6
Locomotion distance, session 30.00.00.1-0.00.0-0.3-0.2
Stereotopy head waving bouts, day 36.57.78.8-3.03.02.52.6
Stereotopy head waving duration, day 36.47.78.6-2.92.92.52.7
Locomotion velocity, session 70.60.71.0-1.01.00.30.9
Locomotion distance, session 70.60.71.50.7-0.7-1.2-0.6
Stereotopy head waving bouts, day 70.70.71.2-0.90.91.10.4
Stereotopy head waving duration, day 71.21.52.2-1.21.21.50.9
Locomotion velocity, session 82.93.54.1-2.02.02.01.3
Locomotion distance, session 80.81.21.6-1.31.31.10.5
Degree of sensitization distance0.30.30.40.5-0.5-0.5-0.6
Degree of sensitization stereotypy0.60.71.20.9-0.9-0.3-1.1
Conditioned locomotion2.83.34.21.7-1.7-2.0-1.7
Cocaine response after cond. corrected9.510.711.63.4-3.4-3.3-2.9
Cocaine response after cond. not corrected10.011.011.73.4-3.4-3.4-3.0
Cocaine response before conditioning0.81.01.2-1.11.10.80.9
Saline control response0.10.10.10.3-0.3-0.4-0.3
Bone: connectivity density0.20.31.0-0.30.31.00.1
Bone: cortical apparent density1.21.52.21.5-1.5-0.9-1.0
Bone: cortical area0.10.10.20.4-0.40.0-0.4
Bone: cortical porosity1.11.21.3-1.11.11.11.0
Bone: cortical porosity0.70.81.2-0.90.91.10.6
Bone: cortical thickness0.60.91.11.0-1.0-0.6-1.1
Bone: cortical thickness0.50.60.90.8-0.8-1.0-0.3
Bone: cortical tissue density0.91.21.81.3-1.3-0.8-0.8
Condit. Reinf. active minus inactive responses4.45.05.9-2.42.41.92.2
Condit. Reinf. active-inactive response ratio0.91.01.6-1.01.00.71.3
Condit. Reinf. active responses6.07.38.6-2.92.92.62.4
Condit. Reinf. inactive responses3.13.74.3-2.12.12.01.4
Incentive salience index mean4.04.95.9-2.42.42.11.8
Condit. Reinf. lever presses1.41.93.1-1.41.41.80.7
Condit. Reinf. active minus inactive responses0.70.81.9-0.80.80.41.4
Condit. Reinf. active-inactive response ratio0.50.50.80.8-0.8-0.9-0.2
Condit. Reinf. active responses1.01.42.7-1.01.00.71.6
Condit. Reinf. inactive responses0.91.11.6-1.01.00.81.3
Condit. Reinf. lever presses1.01.42.2-1.21.20.61.5
Condit. Reinf. lever reinforcers received0.50.71.7-0.70.70.31.3
Conditioned reinforcement - actives2.32.32.7-1.61.61.21.5
Conditioned reinforcement - inactives0.70.81.00.8-0.8-1.0-1.0
Conditioned locomotion6.57.88.8-3.03.02.22.9
Patch foraging indifference point 0 sec0.00.10.10.3-0.3-0.1-0.3
Patch foraging indifference point AUC0.50.50.7-0.80.80.50.9
Delay disc. indifference point, 0s delay2.52.74.71.7-1.7-0.5-2.2
Delay disc. indifference point, 16s delay0.20.20.30.6-0.6-0.2-0.3
Delay disc. indifference point, 2s delay3.53.95.32.1-2.1-1.3-2.3
Delay disc. indifference point, 24s delay1.31.31.71.3-1.3-1.0-0.9
Delay disc. indifference point, 4s delay0.50.50.70.8-0.8-0.3-0.8
Delay disc. indifference point, 8s delay2.12.22.51.6-1.6-1.5-1.2
Indifference point function ln k0.30.50.60.8-0.8-0.7-0.6
Indifference point function log k0.30.50.60.8-0.8-0.7-0.6
Patch foraging total patch changes 0 sec0.00.10.10.3-0.3-0.2-0.3
Patch foraging total patch changes 12 sec0.70.91.30.8-0.8-1.1-1.0
Patch foraging total patch changes 18 sec0.91.21.4-1.21.20.91.2
Patch foraging total patch changes 24 sec0.10.10.1-0.20.20.30.3
Patch foraging total patch changes 6 sec0.20.30.5-0.50.50.60.7
Patch foraging time to switch 0 sec0.20.20.7-0.10.10.5-0.8
Patch foraging water rate 0 sec0.81.32.71.1-1.1-1.6-0.5
Patch foraging water rate 12 sec3.45.26.22.4-2.4-2.5-1.8
Patch foraging water rate 18 sec1.72.35.01.4-1.4-2.2-0.7
Patch foraging water rate 24 sec3.24.57.42.0-2.0-2.7-1.5
Patch foraging water rate 6 sec0.40.61.50.7-0.7-1.2-0.0
Seeking ratio, delayed vs. immediate footshock4.35.06.1-2.22.22.12.5
Distance traveled before self-admin0.20.20.30.6-0.6-0.2-0.5
Distance traveled after self-admin0.70.80.8-0.90.90.90.9
Extensor digitorum longus weight5.321.023.14.5-4.5-4.5-4.8
Bone: elastic displacement0.20.20.4-0.20.20.50.6
Bone: elastic work0.20.30.50.7-0.7-0.2-0.2
Bone: endosteal estimation0.10.10.20.4-0.4-0.2-0.4
Bone: endosteal perimeter0.61.21.3-1.11.11.11.0
Epididymis fat weight0.10.30.5-0.70.70.30.4
Delta time in closed arm before/after self-admin3.73.65.41.8-1.8-2.3-1.5
Delta time in open arm before/after self-admin0.60.60.80.8-0.8-0.4-0.9
Diff in mean of infusions in LGA sessions1.92.12.4-1.61.61.21.4
Delay discount exponential model param2.12.22.8-1.71.71.11.4
Extinction: sum of active levers before priming0.40.40.6-0.80.80.10.7
Active lever presses in extinction session 62.62.52.9-1.61.61.41.7
Bone: final force0.60.91.11.1-1.1-0.7-1.0
Bone: final moment0.50.70.91.0-1.0-0.6-0.9
Food consumed during 24 hour testing period1.11.41.91.4-1.4-1.0-0.8
Glucose1.82.73.41.8-1.8-1.3-1.6
Heart weight0.00.00.10.0-0.0-0.20.3
Delay discount hyperbolic model param2.72.83.5-1.91.91.31.6
Intermittent access intake day 1-15 change5.05.06.1-2.32.31.62.5
Intermittent access intake escalation3.13.04.4-1.91.90.92.1
Intermittent access intake escalation 23.93.95.4-2.12.11.12.3
Intermitt. access day 1 inactive lever presses0.10.10.30.1-0.1-0.50.0
Intermitt. access day 15 inactive lever presses0.20.30.3-0.60.60.30.6
Intermitt. access escalation Index0.10.10.20.0-0.00.50.1
Intermittent access day 1 total infusions0.00.00.00.1-0.1-0.0-0.2
Intermittent access day 15 total infusions1.01.11.5-1.11.10.61.2
Intermittent access terminal intake (last 3 days)0.70.81.0-1.01.00.61.0
Intermittent access total infusions0.10.10.1-0.30.30.10.3
Intermittent access day 1 locomotion0.20.20.3-0.50.50.40.5
Intermittent access day 15 total locomotion2.83.03.5-1.91.91.41.8
Intermittent access total locomotion0.91.01.1-1.11.10.91.0
Intermittent access standard deviation1.31.41.9-1.31.30.71.4
Left kidney weight0.10.20.4-0.30.30.60.5
Right kidney weight1.23.24.3-1.81.81.62.1
Cocaine induced anxiety1.41.72.3-1.21.21.51.1
Post-drug Anxiety1.41.62.3-1.31.31.51.0
Baseline Anxiety0.00.00.1-0.00.0-0.4-0.0
Tail length2.26.78.0-2.82.81.82.8
Length with tail2.07.18.1-2.72.72.32.8
Length without tail0.51.01.6-1.01.01.30.8
Times rat made contact with spout0.91.11.31.1-1.1-1.1-0.7
Lifetime Intake0.00.00.1-0.20.20.20.2
Liver weight, left2.43.85.01.9-1.9-1.8-2.2
Liver weight, right1.01.72.91.2-1.2-1.0-1.7
Locomotor activity4.67.37.8-2.72.72.62.8
Locomotor testing distance2.44.04.6-2.02.01.92.1
Locomotor testing rearing0.10.10.30.3-0.3-0.5-0.0
Locomotion in novel chamber0.00.00.10.2-0.2-0.30.3
Locomotion in novel chamber post-restriction0.50.60.9-0.80.80.40.9
Fecal boli incidents, locomotor time 12.02.22.51.4-1.4-1.5-1.6
Change in fecal boli incidents, locomotor task0.30.30.4-0.40.40.60.7
Time >=10cm from walls, locomotor time 10.10.10.20.5-0.50.1-0.2
Bouts of movement, locomotor time 10.10.10.1-0.30.30.10.3
Total resting periods, locomotor time 10.20.20.2-0.50.50.30.5
Rest time, locomotor task time 10.60.71.0-1.01.00.70.6
Distance moved, locomotor task time 10.20.20.30.6-0.60.2-0.3
Vertical activity count, locomotor time 11.01.01.51.2-1.2-0.9-0.4
Time >=10cm from walls, locomotor time 22.32.42.71.6-1.6-1.6-1.3
Bouts of movement, locomotor time 21.41.52.3-1.11.11.51.0
Total resting periods, locomotor time 21.41.42.3-1.11.11.51.0
Rest time, locomotor task time 20.91.11.3-1.01.01.21.0
Distance moved, locomotor task time 20.91.11.30.9-0.9-1.1-1.1
Vertical activity count, locomotor time 21.61.82.71.2-1.2-1.6-1.3
Light reinforcement 17.012.713.9-3.73.73.33.5
Light reinforcement 22.83.84.1-2.02.01.81.9
Bone: marrow area0.10.10.20.4-0.4-0.2-0.4
Bone: maximum diameter1.52.73.1-1.61.61.81.6
Bone: maximum force0.81.31.61.2-1.2-0.9-1.2
Bone: maximum moment0.61.11.31.2-1.2-0.8-1.0
Mean time between licks in bursts3.04.25.2-2.22.21.52.3
Mean num. licks in bursts0.00.00.00.1-0.10.2-0.1
Cd content in liver0.10.20.20.5-0.5-0.2-0.3
Co content in liver0.50.60.8-0.90.90.40.7
Cu content in liver0.10.10.4-0.30.30.60.1
Fe content in liver0.10.20.3-0.60.6-0.2-0.0
K content in liver0.90.81.2-1.11.10.90.3
Mg content in liver0.60.60.9-0.90.90.90.3
Mn content in liver4.34.95.8-2.32.32.41.7
Na content in liver0.20.20.4-0.40.40.2-0.6
Rb content in liver0.10.10.3-0.10.10.6-0.2
Se content in liver0.60.71.1-1.11.10.60.5
Sr content in liver0.30.20.60.4-0.4-0.8-0.3
Zn content in liver0.20.20.6-0.30.3-0.40.7
Bone: minimum diameter0.10.10.2-0.40.40.40.2
Time in familiar zone, hab. session 11.11.01.6-1.01.00.61.3
Time in novel zone, hab. session 10.30.30.40.6-0.60.0-0.6
Total zone transitions, hab. session 12.73.84.7-2.02.02.21.6
Total locomotion distance, hab. session 14.25.97.2-2.62.62.71.8
Locomotion velocity, hab. session 14.76.77.6-2.82.82.72.0
Time in familiar zone, hab. session 22.82.94.8-1.61.61.22.2
Time in novel zone, hab. session 22.72.73.31.8-1.8-0.9-1.8
Total zone transitions, hab. session 20.81.02.8-0.80.81.70.3
Total locomotion distance, hab. session 22.73.65.3-1.91.92.31.5
Locomotion velocity, hab. session 23.24.36.8-2.02.02.61.6
Novel to familiar place preference ratio1.71.72.71.4-1.4-0.5-1.6
Novelty place preference0.90.91.41.0-1.0-0.2-1.2
Time in novel zone, NPP test1.21.21.81.2-1.2-0.4-1.4
Total zone transitions, NPP test0.60.91.8-0.90.91.30.4
Total locomotion distance, NPP test0.81.01.8-1.11.11.30.3
Locomotion velocity, NPP test1.01.52.4-1.21.21.60.6
Intraocular pressure0.81.21.91.1-1.1-1.4-0.5
Delta distance traveled before/after self-admin1.81.92.2-1.51.51.11.4
Delta ambulatory time before/after self-admin2.22.42.7-1.61.61.31.5
Parametrial fat weight0.10.30.5-0.50.50.20.7
Pavlov. Cond. lever latency0.81.01.41.2-1.2-1.0-0.3
Pavlov. Cond. magazine entry latency3.44.45.9-2.42.41.51.8
Pavlov. Cond. change in total contacts0.50.50.9-1.01.00.40.3
Pavlov. Cond. index score1.72.23.2-1.81.81.30.9
Pavlov. Cond. latency score2.22.83.9-2.02.01.51.0
Pavlov. Cond. lever contacts1.31.52.0-1.41.41.30.6
Pavlov. Cond. magazine entry number1.31.62.41.6-1.6-0.9-0.9
Pavlov. Cond. intertrial magazine entries0.10.10.30.3-0.3-0.50.0
Pavlov. Cond. lever-magazine prob. diff.2.22.73.8-1.91.91.41.1
Pavlov. Cond. response bias1.92.33.3-1.81.81.11.2
Pavlov. Cond. lever latency0.40.51.10.7-0.7-0.5-1.0
Pavlov. Cond. magazine entry latency0.40.50.5-0.70.70.50.7
Pavlov. Cond. change in total contacts0.30.40.9-0.40.40.31.0
Pavlov. Cond. index score0.40.51.0-0.70.70.41.0
Pavlov. Cond. latency score0.50.61.1-0.70.70.61.0
Pavlov. Cond. lever contacts0.20.30.7-0.50.50.20.9
Pavlov. Cond. magazine entry number0.70.81.01.0-1.0-0.7-1.0
Pavlov. Cond. intertrial magazine entries0.81.01.21.0-1.0-1.1-0.9
Pavlov. Cond. lever-magazine prob. diff.0.60.71.2-0.80.80.61.1
Pavlov. Cond. response bias0.71.02.0-0.90.90.51.4
Time in closed arm before self-admin0.10.10.3-0.00.00.5-0.4
Time in closed arm after self-admin0.00.00.0-0.00.0-0.10.0
Time in open arm before self-admin0.30.30.6-0.50.50.30.8
Time in open arm after self-admin0.90.91.11.1-1.1-0.8-0.9
Bone: periosteal estimation0.00.10.10.2-0.20.2-0.3
Bone: periosteal perimeter0.40.71.0-0.80.81.00.7
Bone: post-yield work0.50.70.90.7-0.7-1.0-0.9
Progressive ratio test 1 active lever presses0.30.30.30.5-0.5-0.6-0.4
Progressive ratio test 1 breakpoint0.30.30.40.6-0.6-0.6-0.5
Progressive ratio test 1 inactive lever presses0.00.00.1-0.10.10.20.1
Progressive ratio test 2 active lever presses0.00.00.10.0-0.0-0.30.1
Progressive ratio test 2 breakpoint0.10.10.1-0.30.30.10.3
Progressive ratio test 2 inactive lever presses0.10.10.2-0.40.40.40.2
Incentive Sensitization - Responses0.00.00.10.1-0.1-0.40.0
Incentive Sensitization - Breakpoint0.00.00.1-0.00.0-0.20.1
Sum of active levers in priming session hrs 5-60.00.00.0-0.10.10.1-0.0
Progressive ratio0.20.20.50.2-0.2-0.6-0.7
Food seeking constrained by brief footshock0.70.81.2-1.11.10.90.4
Seeking ratio, punishment vs. effort0.50.60.9-0.80.80.90.7
Retroperitoneal fat weight0.31.01.30.9-0.9-0.9-1.1
Reaction time number correct2.02.93.71.7-1.7-1.9-1.3
Reaction time mean minus median0.30.40.7-0.60.60.30.8
Reaction time mean minus median AUC0.20.20.4-0.40.40.60.3
Reaction time num false alarms0.50.71.40.7-0.7-1.2-0.6
Reaction time num false alarms AUC0.81.12.10.9-0.9-1.5-0.8
Reaction time trials correct on left2.02.93.71.7-1.7-1.9-1.3
Reaction time trials on left1.92.83.51.7-1.7-1.9-1.3
Reaction time mean0.00.00.00.2-0.20.20.2
Reaction time mean AUC0.00.00.10.2-0.20.20.1
Median of all reaction times0.10.20.30.5-0.5-0.0-0.3
Reaction time omissions0.20.30.6-0.30.30.80.7
Reaction time false alarm rate0.00.00.1-0.10.1-0.3-0.1
Reaction time premature initiation rate0.30.40.9-0.50.50.31.0
Reaction time premature initiations0.20.20.50.4-0.4-0.70.3
Std. dev. reaction times0.10.10.3-0.30.30.30.5
Reaction time trials completed1.92.83.51.7-1.7-1.9-1.3
Reaction time trials AUC2.23.14.21.8-1.8-2.0-1.3
Run reversals in cocaine runway, females0.50.50.5-0.70.70.70.7
Run reversals in cocaine runway, males1.91.91.9-1.41.41.41.3
Latency to leave start box in cocaine runway1.61.82.6-1.21.21.61.3
Latency to leave start box in cocaine runway, F0.50.61.6-0.40.41.30.5
Latency to leave start box in cocaine runway, M1.11.01.6-1.11.10.31.2
Std. dev. time between licks in bursts1.01.21.5-1.01.01.11.2
Total sessions with >9 infusions0.00.00.10.0-0.00.30.1
Short access day 1 total inactive lever presses0.10.10.1-0.40.40.40.2
Short access day 10 total inactive lever presses0.00.00.10.2-0.2-0.3-0.1
Short access day 1 total infusions0.70.71.1-0.90.91.00.6
Short access day 10 total infusions0.00.00.00.1-0.1-0.2-0.1
Short access total infusions0.00.00.0-0.10.10.20.0
Short access day 1 locomotion1.41.51.7-1.21.21.31.3
Short access day 10 total locomotion2.52.83.8-1.81.81.22.0
Short access total locomotion0.91.01.1-1.01.00.91.0
One hour access (0.3 mA shock)0.10.20.30.3-0.3-0.3-0.5
Compulsive drug intake0.60.60.80.8-0.8-0.4-0.9
One hour access (shock baseline)0.00.00.10.0-0.0-0.30.0
Social response proportion1.31.41.7-1.21.21.31.1
Social responses7.810.111.0-3.33.32.93.3
Social time0.30.40.70.7-0.7-0.4-0.8
Soleus weight8.524.927.25.2-5.2-4.3-5.2
Bone: stiffness1.72.73.81.6-1.6-1.4-1.9
Tibialis anterior weight1.03.44.41.8-1.8-1.7-2.1
Time to tail flick, vehicle, before self-admin1.31.31.8-1.11.11.40.9
Time to tail flick, vehicle, after self-admin0.10.10.40.1-0.1-0.6-0.0
Time to tail flick, test, before self-admin0.80.81.3-0.80.81.10.8
Time to tail flick, test, after self-admin0.60.60.7-0.80.80.80.7
Delta time to tail flick, vehicle, before/after SA1.61.62.71.1-1.1-1.6-1.0
Delta time to tail flick, test, before/after SA0.00.00.1-0.20.2-0.30.0
Tibia length0.61.82.4-1.31.31.01.6
Ambulatory time before self-admin0.20.30.30.6-0.6-0.2-0.5
Ambulatory time after self-admin0.40.40.5-0.70.70.70.7
Bone: tissue strength1.11.11.31.1-1.1-0.7-1.1
Total heroin consumption1.92.22.4-1.51.51.31.6
Bone: trabecular number1.82.93.7-1.71.71.91.5
Bone: trabecular spacing3.03.96.11.9-1.9-2.5-1.5
Bone: trabecular thickness2.02.35.3-1.21.22.31.1
Bone: trabecular tissue density1.92.63.01.6-1.6-1.7-1.7
Water consumed over 24 hours0.30.30.50.7-0.7-0.1-0.5
Number of responses in last shaping day0.10.10.2-0.40.40.30.3