Nefh

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 Nefh 0.06 0.04 4.9e-04 0.01 0.03 0.02 0.02 1.1e-02 4.2e-04 3.1e-03 6.7e-03
2 Liver gene expression Nefh 0.8 0.11 0.0e+00 0.47 0.49 0.48 0.48 6.5e-59 1.5e-61 1.9e-60 3.4e-59
3 Adipose gene expression Nefh 0.79 0.09 0.0e+00 0.59 0.6 0.59 0.59 8.9e-81 3.3e-82 1.5e-81 2.1e-80
4 OFC gene expression Nefh 0.2 0.14 9.5e-03 0.1 0.05 0.09 0.06 2.0e-03 2.0e-02 4.7e-03 1.3e-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 density0.71.11.40.81.11.1-1.2
Area under the delay curve0.20.20.70.8-0.1-0.40.1
BMI with tail0.00.00.1-0.1-0.0-0.00.3
BMI without tail0.71.41.61.21.31.2-1.1
Body weight0.20.72.41.60.40.30.0
Weight adjusted by age1.11.32.11.51.00.9-1.0
Bone surface0.10.20.30.50.60.4-0.5
Bone volume0.30.60.70.80.80.7-0.7
Breakpoint value in progressive ratio session0.10.10.30.50.0-0.20.1
Number of licking bursts0.40.41.61.30.30.2-0.1
Context. condit. distance diff. score0.20.30.8-0.90.20.4-0.3
Locomotion velocity, session 14.44.75.5-2.0-2.3-2.22.1
Locomotion distance, session 10.70.91.20.51.01.1-1.1
Locomotion velocity, session 23.13.64.0-2.0-1.9-1.91.8
Locomotion distance, session 20.50.62.1-1.4-0.5-0.40.3
Locomotion velocity, session 30.60.71.1-0.20.91.0-0.9
Locomotion distance, session 30.10.10.20.10.50.4-0.4
Stereotopy head waving bouts, day 30.30.30.5-0.10.60.7-0.7
Stereotopy head waving duration, day 30.10.10.5-0.7-0.10.1-0.1
Locomotion velocity, session 70.00.00.1-0.1-0.1-0.20.3
Locomotion distance, session 70.30.40.8-0.9-0.5-0.40.7
Stereotopy head waving bouts, day 70.00.00.0-0.10.00.1-0.1
Stereotopy head waving duration, day 70.50.60.70.70.80.8-0.8
Locomotion velocity, session 81.31.53.5-1.9-1.0-0.90.9
Locomotion distance, session 80.50.83.0-1.7-0.00.3-0.2
Degree of sensitization distance1.21.21.8-1.3-1.1-0.91.0
Degree of sensitization stereotypy0.00.10.20.40.00.0-0.1
Conditioned locomotion1.11.31.90.71.31.4-1.2
Cocaine response after cond. corrected0.20.20.70.90.1-0.10.1
Cocaine response after cond. not corrected0.60.72.01.40.60.5-0.4
Cocaine response before conditioning0.40.40.70.30.70.7-0.8
Saline control response0.40.61.3-1.1-0.5-0.40.7
Bone: connectivity density0.40.70.90.50.90.9-0.9
Bone: cortical apparent density0.10.10.50.70.10.1-0.1
Bone: cortical area0.30.51.61.30.40.2-0.3
Bone: cortical porosity0.50.50.70.80.70.6-0.7
Bone: cortical porosity0.20.20.30.30.40.4-0.5
Bone: cortical thickness1.22.03.61.91.31.1-1.2
Bone: cortical thickness1.92.22.71.21.61.6-1.5
Bone: cortical tissue density0.10.10.40.60.0-0.1-0.0
Condit. Reinf. active minus inactive responses2.22.42.9-1.3-1.7-1.71.5
Condit. Reinf. active-inactive response ratio6.97.58.4-2.7-2.9-2.82.6
Condit. Reinf. active responses0.70.91.0-0.8-1.0-1.01.0
Condit. Reinf. inactive responses1.31.51.81.21.41.3-1.1
Incentive salience index mean0.80.91.2-0.7-1.0-1.11.0
Condit. Reinf. lever presses0.10.10.20.30.40.3-0.3
Condit. Reinf. active minus inactive responses0.10.20.3-0.5-0.4-0.30.3
Condit. Reinf. active-inactive response ratio0.20.20.3-0.4-0.5-0.50.5
Condit. Reinf. active responses0.30.50.8-0.9-0.7-0.50.5
Condit. Reinf. inactive responses0.40.50.9-1.0-0.7-0.50.5
Condit. Reinf. lever presses0.00.10.1-0.20.10.2-0.3
Condit. Reinf. lever reinforcers received0.20.30.6-0.8-0.6-0.40.4
Conditioned reinforcement - actives0.10.10.2-0.4-0.1-0.30.4
Conditioned reinforcement - inactives0.20.20.4-0.2-0.4-0.50.7
Conditioned locomotion0.20.20.40.50.60.4-0.4
Patch foraging indifference point 0 sec0.20.31.11.10.30.10.2
Patch foraging indifference point AUC0.30.30.5-0.4-0.5-0.50.7
Delay disc. indifference point, 0s delay0.20.20.70.80.30.2-0.4
Delay disc. indifference point, 16s delay1.21.22.0-0.4-1.2-1.41.1
Delay disc. indifference point, 2s delay2.02.23.51.91.41.2-1.4
Delay disc. indifference point, 24s delay0.50.50.8-0.3-0.8-0.90.7
Delay disc. indifference point, 4s delay0.90.92.51.60.70.5-0.7
Delay disc. indifference point, 8s delay0.20.20.30.1-0.5-0.60.4
Indifference point function ln k0.81.21.50.91.11.1-1.2
Indifference point function log k0.81.21.50.91.11.1-1.2
Patch foraging total patch changes 0 sec0.10.20.70.80.1-0.10.4
Patch foraging total patch changes 12 sec0.10.20.30.5-0.1-0.20.6
Patch foraging total patch changes 18 sec2.12.63.8-0.9-1.7-1.82.0
Patch foraging total patch changes 24 sec1.21.52.1-1.4-1.1-1.01.3
Patch foraging total patch changes 6 sec0.10.20.40.3-0.3-0.40.6
Patch foraging time to switch 0 sec0.00.00.0-0.00.10.1-0.2
Patch foraging water rate 0 sec0.20.40.90.0-0.5-0.70.9
Patch foraging water rate 12 sec0.00.00.10.00.30.2-0.2
Patch foraging water rate 18 sec2.53.33.51.91.91.9-1.7
Patch foraging water rate 24 sec0.70.91.1-0.9-1.0-1.00.9
Patch foraging water rate 6 sec0.20.30.60.80.60.5-0.4
Seeking ratio, delayed vs. immediate footshock0.00.00.1-0.3-0.2-0.20.1
Distance traveled before self-admin1.41.42.21.51.11.1-1.1
Distance traveled after self-admin1.21.41.71.31.21.1-1.1
Extensor digitorum longus weight0.31.24.52.10.60.2-0.3
Bone: elastic displacement1.01.21.50.81.21.2-1.0
Bone: elastic work1.92.42.71.61.61.5-1.4
Bone: endosteal estimation0.00.00.10.30.0-0.0-0.0
Bone: endosteal perimeter0.10.10.20.4-0.4-0.50.3
Epididymis fat weight0.82.02.91.01.51.7-1.3
Delta time in closed arm before/after self-admin0.50.50.9-0.40.50.8-0.9
Delta time in open arm before/after self-admin0.80.81.40.6-0.7-1.01.2
Diff in mean of infusions in LGA sessions0.10.10.20.40.30.4-0.2
Delay discount exponential model param0.20.20.8-0.90.00.3-0.0
Extinction: sum of active levers before priming0.70.70.8-0.7-0.8-0.80.9
Active lever presses in extinction session 60.60.50.80.90.70.6-0.6
Bone: final force0.10.10.20.50.30.2-0.3
Bone: final moment0.20.30.50.70.40.3-0.4
Food consumed during 24 hour testing period1.21.52.1-0.8-1.3-1.51.2
Glucose19.128.837.2-3.2-5.7-6.15.9
Heart weight0.91.32.4-1.5-1.1-0.90.9
Delay discount hyperbolic model param0.20.21.0-1.0-0.10.20.1
Intermittent access intake day 1-15 change1.31.31.6-1.1-1.1-1.11.3
Intermittent access intake escalation0.90.91.1-1.0-0.9-0.91.0
Intermittent access intake escalation 20.40.40.5-0.6-0.7-0.70.7
Intermitt. access day 1 inactive lever presses0.60.61.0-1.0-0.8-0.50.7
Intermitt. access day 15 inactive lever presses3.03.34.2-1.5-1.8-1.82.1
Intermitt. access escalation Index0.80.71.1-0.7-0.8-0.81.1
Intermittent access day 1 total infusions0.20.30.30.50.60.4-0.5
Intermittent access day 15 total infusions0.10.10.2-0.1-0.2-0.40.4
Intermittent access terminal intake (last 3 days)0.10.10.1-0.1-0.1-0.30.3
Intermittent access total infusions0.10.10.10.40.40.2-0.3
Intermittent access day 1 locomotion0.10.10.20.00.40.4-0.5
Intermittent access day 15 total locomotion0.40.40.6-0.4-0.6-0.80.8
Intermittent access total locomotion0.00.00.10.0-0.1-0.30.2
Intermittent access standard deviation0.10.10.2-0.40.20.3-0.3
Left kidney weight0.41.01.21.00.91.1-1.0
Right kidney weight1.13.14.01.41.72.0-1.8
Cocaine induced anxiety0.10.10.20.2-0.2-0.50.4
Post-drug Anxiety0.40.50.7-0.4-0.6-0.80.8
Baseline Anxiety0.91.01.1-1.1-0.9-0.91.0
Tail length1.64.89.33.01.91.7-1.8
Length with tail0.41.44.82.20.70.5-0.5
Length without tail0.40.91.3-0.1-1.0-1.11.1
Times rat made contact with spout3.43.94.2-2.0-2.0-2.01.9
Lifetime Intake0.40.40.50.70.70.5-0.6
Liver weight, left2.03.24.01.51.82.0-1.9
Liver weight, right1.62.73.70.91.61.9-1.9
Locomotor activity1.01.62.2-0.5-1.4-1.41.5
Locomotor testing distance0.81.32.41.51.11.0-0.8
Locomotor testing rearing0.10.20.30.6-0.2-0.40.6
Locomotion in novel chamber0.70.91.4-0.11.01.2-1.2
Locomotion in novel chamber post-restriction1.92.35.0-2.2-1.4-1.11.0
Fecal boli incidents, locomotor time 10.10.10.3-0.5-0.2-0.20.3
Change in fecal boli incidents, locomotor task1.31.21.4-1.0-1.2-1.11.0
Time >=10cm from walls, locomotor time 10.10.10.1-0.2-0.2-0.20.3
Bouts of movement, locomotor time 12.12.32.9-1.2-1.6-1.71.5
Total resting periods, locomotor time 12.83.03.5-1.6-1.8-1.91.7
Rest time, locomotor task time 10.80.91.0-1.0-1.0-1.00.8
Distance moved, locomotor task time 11.01.12.01.41.01.0-0.7
Vertical activity count, locomotor time 10.40.40.80.90.60.6-0.4
Time >=10cm from walls, locomotor time 20.20.20.2-0.4-0.4-0.40.5
Bouts of movement, locomotor time 20.00.00.10.10.20.2-0.2
Total resting periods, locomotor time 20.00.00.0-0.10.10.0-0.1
Rest time, locomotor task time 20.10.10.2-0.5-0.2-0.20.2
Distance moved, locomotor task time 20.00.00.1-0.2-0.2-0.20.3
Vertical activity count, locomotor time 20.00.00.00.20.10.00.0
Light reinforcement 10.71.21.41.11.21.1-1.0
Light reinforcement 20.91.21.81.31.11.0-1.0
Bone: marrow area0.00.00.00.2-0.0-0.10.0
Bone: maximum diameter0.81.42.40.1-1.3-1.51.3
Bone: maximum force0.20.40.70.80.60.5-0.6
Bone: maximum moment0.40.81.21.10.80.7-0.8
Mean time between licks in bursts2.94.15.2-1.6-2.3-2.31.9
Mean num. licks in bursts2.73.26.1-2.5-1.6-1.51.3
Cd content in liver0.30.30.40.30.60.6-0.5
Co content in liver0.10.20.30.20.50.5-0.4
Cu content in liver0.20.20.5-0.0-0.4-0.40.7
Fe content in liver4.25.05.7-2.4-2.3-2.22.1
K content in liver3.53.44.02.02.01.8-1.6
Mg content in liver0.50.50.80.70.90.8-0.5
Mn content in liver3.74.25.21.92.32.1-1.9
Na content in liver1.21.31.9-0.3-1.1-1.41.3
Rb content in liver0.81.02.41.60.90.7-0.4
Se content in liver0.50.71.21.10.80.6-0.6
Sr content in liver1.61.52.1-0.6-1.4-1.41.3
Zn content in liver0.30.30.40.60.60.5-0.3
Bone: minimum diameter0.20.40.40.50.60.6-0.6
Time in familiar zone, hab. session 10.10.10.10.00.30.3-0.3
Time in novel zone, hab. session 10.30.30.70.80.40.3-0.4
Total zone transitions, hab. session 10.00.00.0-0.2-0.2-0.10.2
Total locomotion distance, hab. session 10.10.20.20.50.50.4-0.4
Locomotion velocity, hab. session 10.00.00.1-0.3-0.2-0.20.2
Time in familiar zone, hab. session 20.20.20.5-0.7-0.4-0.20.2
Time in novel zone, hab. session 20.30.30.80.90.50.3-0.2
Total zone transitions, hab. session 20.00.00.00.2-0.1-0.10.1
Total locomotion distance, hab. session 20.20.20.3-0.3-0.5-0.60.5
Locomotion velocity, hab. session 20.10.20.3-0.0-0.4-0.50.4
Novel to familiar place preference ratio1.31.41.8-0.7-1.3-1.31.3
Novelty place preference1.41.41.9-0.7-1.3-1.41.3
Time in novel zone, NPP test1.21.21.6-0.6-1.2-1.31.2
Total zone transitions, NPP test0.81.11.40.51.21.2-1.2
Total locomotion distance, NPP test0.20.20.30.30.50.6-0.5
Locomotion velocity, NPP test0.10.10.20.30.30.4-0.4
Intraocular pressure0.91.31.6-0.9-1.3-1.31.1
Delta distance traveled before/after self-admin0.10.10.3-0.6-0.3-0.20.3
Delta ambulatory time before/after self-admin0.10.10.4-0.6-0.3-0.10.1
Parametrial fat weight2.95.67.2-1.4-2.5-2.62.7
Pavlov. Cond. lever latency0.81.01.3-0.5-1.1-1.11.1
Pavlov. Cond. magazine entry latency0.40.50.8-0.40.80.9-0.8
Pavlov. Cond. change in total contacts0.00.00.00.10.1-0.10.1
Pavlov. Cond. index score0.60.81.1-0.31.01.1-1.0
Pavlov. Cond. latency score0.50.71.0-0.10.91.0-0.9
Pavlov. Cond. lever contacts0.50.60.8-0.10.80.9-0.9
Pavlov. Cond. magazine entry number0.30.40.70.8-0.5-0.60.5
Pavlov. Cond. intertrial magazine entries1.11.32.41.61.01.0-0.9
Pavlov. Cond. lever-magazine prob. diff.0.70.91.3-0.31.01.1-1.1
Pavlov. Cond. response bias0.70.81.1-0.21.11.1-1.0
Pavlov. Cond. lever latency1.72.25.62.41.31.0-0.8
Pavlov. Cond. magazine entry latency0.10.10.10.10.40.3-0.3
Pavlov. Cond. change in total contacts0.30.40.7-0.8-0.6-0.60.5
Pavlov. Cond. index score0.30.41.2-1.1-0.4-0.30.2
Pavlov. Cond. latency score0.20.20.9-0.9-0.2-0.10.0
Pavlov. Cond. lever contacts1.62.24.8-2.2-1.4-1.10.9
Pavlov. Cond. magazine entry number0.20.20.30.60.40.4-0.4
Pavlov. Cond. intertrial magazine entries0.00.10.1-0.2-0.3-0.20.1
Pavlov. Cond. lever-magazine prob. diff.0.20.20.8-0.9-0.2-0.1-0.0
Pavlov. Cond. response bias1.11.63.0-1.7-1.2-1.00.9
Time in closed arm before self-admin0.40.51.01.00.60.5-0.6
Time in closed arm after self-admin0.40.40.60.20.60.8-0.7
Time in open arm before self-admin0.20.20.8-0.90.00.2-0.1
Time in open arm after self-admin1.51.72.1-1.2-1.2-1.41.4
Bone: periosteal estimation0.10.20.90.90.30.1-0.2
Bone: periosteal perimeter0.10.20.70.8-0.1-0.30.1
Bone: post-yield work0.00.00.10.30.10.1-0.1
Progressive ratio test 1 active lever presses0.10.10.1-0.3-0.2-0.40.4
Progressive ratio test 1 breakpoint0.00.00.1-0.2-0.0-0.10.1
Progressive ratio test 1 inactive lever presses0.10.10.20.4-0.3-0.50.4
Progressive ratio test 2 active lever presses0.00.00.00.10.20.0-0.1
Progressive ratio test 2 breakpoint0.00.00.0-0.10.1-0.10.1
Progressive ratio test 2 inactive lever presses0.81.01.4-0.7-0.9-1.11.2
Incentive Sensitization - Responses0.20.20.2-0.3-0.4-0.50.4
Incentive Sensitization - Breakpoint0.20.20.2-0.4-0.4-0.40.4
Sum of active levers in priming session hrs 5-60.00.00.10.2-0.1-0.0-0.3
Progressive ratio0.40.40.60.60.70.5-0.8
Food seeking constrained by brief footshock3.03.76.32.51.71.5-1.8
Seeking ratio, punishment vs. effort0.20.20.70.80.30.3-0.2
Retroperitoneal fat weight0.20.70.9-0.8-0.8-0.71.0
Reaction time number correct0.30.40.6-0.7-0.6-0.60.6
Reaction time mean minus median1.72.23.4-1.8-1.5-1.21.4
Reaction time mean minus median AUC0.30.40.9-0.9-0.5-0.30.5
Reaction time num false alarms1.01.41.81.11.31.2-1.0
Reaction time num false alarms AUC1.92.63.11.51.81.6-1.4
Reaction time trials correct on left0.30.40.6-0.7-0.6-0.60.6
Reaction time trials on left0.30.40.6-0.7-0.6-0.60.6
Reaction time mean0.50.60.9-1.0-0.9-0.60.6
Reaction time mean AUC0.20.30.6-0.8-0.6-0.30.4
Median of all reaction times0.20.30.5-0.6-0.7-0.50.4
Reaction time omissions0.10.10.3-0.50.10.3-0.4
Reaction time false alarm rate2.43.43.81.92.01.9-1.7
Reaction time premature initiation rate1.21.62.50.41.31.6-1.4
Reaction time premature initiations0.50.71.1-0.00.81.0-0.9
Std. dev. reaction times1.41.92.8-1.7-1.4-1.11.3
Reaction time trials completed0.30.40.6-0.7-0.6-0.60.6
Reaction time trials AUC0.20.30.4-0.6-0.5-0.50.5
Run reversals in cocaine runway, females0.10.10.3-0.6-0.2-0.10.2
Run reversals in cocaine runway, males0.10.10.30.50.10.00.1
Latency to leave start box in cocaine runway0.50.50.60.80.80.7-0.6
Latency to leave start box in cocaine runway, F1.01.11.61.30.90.9-1.1
Latency to leave start box in cocaine runway, M0.10.10.3-0.4-0.0-0.00.6
Std. dev. time between licks in bursts0.20.30.3-0.4-0.5-0.50.6
Total sessions with >9 infusions0.91.01.30.81.11.0-1.1
Short access day 1 total inactive lever presses0.91.02.91.70.80.5-0.5
Short access day 10 total inactive lever presses0.00.00.0-0.2-0.20.00.0
Short access day 1 total infusions1.41.51.81.01.31.3-1.3
Short access day 10 total infusions0.80.91.20.91.00.9-1.1
Short access total infusions1.92.22.81.31.51.4-1.7
Short access day 1 locomotion3.63.95.41.42.02.0-2.3
Short access day 10 total locomotion0.80.91.50.60.91.0-1.2
Short access total locomotion2.52.64.00.91.61.7-2.0
One hour access (0.3 mA shock)0.10.10.20.20.50.3-0.3
Compulsive drug intake0.20.20.4-0.40.30.6-0.6
One hour access (shock baseline)0.00.10.10.20.0-0.30.3
Social response proportion3.63.94.8-1.4-2.1-2.22.1
Social responses2.32.93.7-1.1-1.8-1.91.9
Social time1.31.72.1-1.1-1.5-1.41.3
Soleus weight0.72.04.52.11.21.0-1.0
Bone: stiffness0.00.00.0-0.1-0.1-0.1-0.0
Tibialis anterior weight0.10.30.40.6-0.5-0.60.6
Time to tail flick, vehicle, before self-admin0.10.10.10.30.30.3-0.3
Time to tail flick, vehicle, after self-admin0.20.20.30.50.40.4-0.6
Time to tail flick, test, before self-admin0.00.00.1-0.10.20.30.1
Time to tail flick, test, after self-admin0.80.82.41.50.70.5-0.2
Delta time to tail flick, vehicle, before/after SA0.00.00.00.20.00.0-0.2
Delta time to tail flick, test, before/after SA0.10.10.20.4-0.2-0.30.3
Tibia length1.13.03.31.81.61.7-1.8
Ambulatory time before self-admin2.93.14.22.11.71.6-1.6
Ambulatory time after self-admin1.11.21.51.21.01.0-1.1
Bone: tissue strength0.20.20.3-0.2-0.5-0.50.5
Total heroin consumption0.00.00.10.20.1-0.0-0.0
Bone: trabecular number0.81.31.41.01.21.2-1.2
Bone: trabecular spacing0.40.50.8-0.2-0.8-0.90.8
Bone: trabecular thickness1.41.72.30.71.31.5-1.5
Bone: trabecular tissue density1.62.32.6-1.5-1.5-1.41.6
Water consumed over 24 hours1.21.51.9-0.8-1.3-1.41.3
Number of responses in last shaping day0.80.91.30.51.00.9-1.1