Nphs1

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 Adipose gene expression Nphs1 0.26 0.16 8.6e-07 0.03 0.03 0.04 0.03 2.1e-04 5.2e-04 5.6e-05 1.9e-04
2 pVTA gene expression Nphs1 0.04 0.03 2.2e-04 0.03 0.04 0.02 0.03 1.8e-03 3.7e-04 1.6e-02 1.3e-03
3 NAcc gene expression Nphs1 0.07 0.05 3.6e-07 0.01 0.04 0.03 0.03 2.5e-03 1.0e-06 4.4e-05 8.0e-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
Bone: apparent density0.61.01.7-0.41.31.1
Area under the delay curve0.00.00.1-0.30.20.0
BMI with tail0.10.40.70.5-0.6-0.8
BMI without tail0.10.30.4-0.60.60.4
Body weight1.98.314.4-0.13.83.2
Weight adjusted by age0.10.20.40.60.3-0.3
Bone surface1.01.82.6-1.21.61.2
Bone volume1.11.93.1-0.91.71.3
Breakpoint value in progressive ratio session1.01.21.9-1.40.81.0
Number of licking bursts2.64.37.30.0-2.4-2.7
Context. condit. distance diff. score0.50.61.2-1.1-0.3-0.7
Locomotion velocity, session 11.21.33.92.0-0.30.0
Locomotion distance, session 10.30.40.7-0.80.60.3
Locomotion velocity, session 20.30.40.8-0.2-0.9-0.5
Locomotion distance, session 21.42.03.40.1-1.6-1.8
Locomotion velocity, session 30.30.30.5-0.2-0.5-0.7
Locomotion distance, session 32.52.76.7-2.61.10.3
Stereotopy head waving bouts, day 31.11.33.51.9-0.30.4
Stereotopy head waving duration, day 31.51.84.72.2-0.80.0
Locomotion velocity, session 70.10.10.2-0.50.3-0.1
Locomotion distance, session 70.20.30.5-0.70.50.3
Stereotopy head waving bouts, day 71.82.03.10.4-1.7-1.8
Stereotopy head waving duration, day 71.82.23.11.0-1.8-1.6
Locomotion velocity, session 83.33.96.1-0.0-2.4-2.5
Locomotion distance, session 81.72.53.9-1.3-1.4-2.0
Degree of sensitization distance0.60.61.81.4-0.20.2
Degree of sensitization stereotypy2.02.23.8-0.4-1.6-1.9
Conditioned locomotion0.50.61.0-0.4-1.0-0.8
Cocaine response after cond. corrected0.81.02.51.60.20.7
Cocaine response after cond. not corrected1.31.63.31.80.41.1
Cocaine response before conditioning1.11.31.6-0.91.31.2
Saline control response0.30.41.21.1-0.10.3
Bone: connectivity density0.50.71.5-1.20.60.5
Bone: cortical apparent density1.41.92.21.5-1.3-1.3
Bone: cortical area1.32.03.20.31.81.6
Bone: cortical porosity2.73.03.7-1.6-1.6-1.9
Bone: cortical porosity3.53.85.0-1.7-1.9-2.2
Bone: cortical thickness0.61.11.50.41.21.2
Bone: cortical thickness0.50.61.31.1-0.6-0.3
Bone: cortical tissue density1.62.12.21.4-1.5-1.5
Condit. Reinf. active minus inactive responses0.50.51.21.1-0.5-0.4
Condit. Reinf. active-inactive response ratio1.81.95.62.4-0.20.3
Condit. Reinf. active responses1.72.23.20.9-1.8-1.6
Condit. Reinf. inactive responses2.63.24.6-0.9-2.1-2.1
Incentive salience index mean0.30.30.40.6-0.6-0.5
Condit. Reinf. lever presses0.10.10.2-0.2-0.4-0.4
Condit. Reinf. active minus inactive responses0.91.21.7-0.81.11.3
Condit. Reinf. active-inactive response ratio0.20.20.50.7-0.2-0.1
Condit. Reinf. active responses2.33.23.6-1.71.91.7
Condit. Reinf. inactive responses3.14.07.4-2.71.81.3
Condit. Reinf. lever presses5.57.69.6-2.13.13.0
Condit. Reinf. lever reinforcers received2.63.74.7-2.21.91.6
Conditioned reinforcement - actives0.40.71.21.1-0.8-0.6
Conditioned reinforcement - inactives1.21.84.2-2.0-0.5-0.9
Conditioned locomotion1.51.93.30.5-1.8-1.5
Patch foraging indifference point 0 sec0.20.41.1-1.10.10.1
Patch foraging indifference point AUC0.40.60.90.5-0.9-0.9
Delay disc. indifference point, 0s delay1.21.33.9-2.0-0.1-0.4
Delay disc. indifference point, 16s delay0.10.10.1-0.30.30.2
Delay disc. indifference point, 2s delay0.20.30.5-0.40.70.3
Delay disc. indifference point, 24s delay0.70.81.2-0.81.10.8
Delay disc. indifference point, 4s delay0.30.30.5-0.4-0.5-0.7
Delay disc. indifference point, 8s delay0.10.10.2-0.40.30.0
Indifference point function ln k0.20.30.6-0.20.70.8
Indifference point function log k0.20.30.6-0.20.70.8
Patch foraging total patch changes 0 sec0.30.61.6-1.30.20.2
Patch foraging total patch changes 12 sec0.10.10.2-0.4-0.10.2
Patch foraging total patch changes 18 sec0.30.50.7-0.7-0.5-0.9
Patch foraging total patch changes 24 sec0.50.92.3-1.50.60.0
Patch foraging total patch changes 6 sec0.30.51.4-1.2-0.00.0
Patch foraging time to switch 0 sec0.50.92.21.5-0.7-0.3
Patch foraging water rate 0 sec0.40.81.1-0.5-1.0-1.0
Patch foraging water rate 12 sec1.12.46.8-2.60.6-0.1
Patch foraging water rate 18 sec0.20.30.6-0.8-0.4-0.4
Patch foraging water rate 24 sec2.12.96.2-2.5-0.7-1.4
Patch foraging water rate 6 sec1.42.05.5-2.40.7-0.1
Seeking ratio, delayed vs. immediate footshock1.01.23.2-1.80.7-0.1
Distance traveled before self-admin0.50.71.7-1.30.10.6
Distance traveled after self-admin1.41.82.6-0.51.61.6
Extensor digitorum longus weight0.62.36.92.6-0.00.3
Bone: elastic displacement0.10.10.20.40.20.4
Bone: elastic work1.31.72.7-0.01.61.5
Bone: endosteal estimation1.02.23.5-0.31.91.8
Bone: endosteal perimeter0.71.52.2-0.71.51.4
Epididymis fat weight0.00.10.20.50.2-0.1
Delta time in closed arm before/after self-admin0.80.71.2-0.51.10.9
Delta time in open arm before/after self-admin0.30.30.5-0.0-0.6-0.7
Diff in mean of infusions in LGA sessions0.81.01.5-1.2-1.0-0.5
Delay discount exponential model param0.00.00.10.1-0.4-0.1
Extinction: sum of active levers before priming4.24.76.81.12.42.6
Active lever presses in extinction session 64.44.47.81.41.82.8
Bone: final force1.11.83.1-0.31.81.5
Bone: final moment1.62.54.4-0.12.11.8
Food consumed during 24 hour testing period0.30.51.2-1.10.40.0
Glucose0.50.72.11.4-0.10.2
Heart weight0.30.51.4-1.2-0.1-0.2
Delay discount hyperbolic model param0.00.00.1-0.1-0.2-0.0
Intermittent access intake day 1-15 change0.71.52.90.21.71.2
Intermittent access intake escalation0.71.42.60.71.61.2
Intermittent access intake escalation 21.21.42.00.61.41.4
Intermitt. access day 1 inactive lever presses1.24.79.4-3.11.71.3
Intermitt. access day 15 inactive lever presses1.02.16.2-2.50.3-0.3
Intermitt. access escalation Index0.50.81.1-1.1-0.6-0.9
Intermittent access day 1 total infusions2.13.45.7-0.2-2.1-2.4
Intermittent access day 15 total infusions0.20.30.80.3-0.4-0.9
Intermittent access terminal intake (last 3 days)0.81.11.8-0.7-1.0-1.3
Intermittent access total infusions1.11.32.40.2-1.2-1.6
Intermittent access day 1 locomotion2.63.34.4-1.5-1.8-2.1
Intermittent access day 15 total locomotion0.40.71.2-1.1-0.5-0.8
Intermittent access total locomotion1.51.82.8-0.4-1.6-1.7
Intermittent access standard deviation1.42.83.4-1.81.81.4
Left kidney weight1.46.512.10.43.52.7
Right kidney weight2.19.715.80.94.03.5
Cocaine induced anxiety0.00.10.10.30.10.2
Post-drug Anxiety0.10.10.2-0.5-0.3-0.1
Baseline Anxiety0.70.81.8-1.3-0.4-0.7
Tail length3.312.920.5-1.54.54.0
Length with tail4.620.031.4-2.15.64.9
Length without tail2.06.511.3-0.23.42.8
Times rat made contact with spout1.21.44.12.0-0.2-0.2
Lifetime Intake1.11.32.10.7-1.2-1.5
Liver weight, left0.60.91.71.3-0.8-0.7
Liver weight, right0.30.51.11.0-0.5-0.1
Locomotor activity0.30.41.01.0-0.30.5
Locomotor testing distance0.20.40.70.8-0.6-0.1
Locomotor testing rearing0.91.82.21.0-1.5-1.5
Locomotion in novel chamber0.10.20.40.2-0.30.6
Locomotion in novel chamber post-restriction0.20.30.5-0.7-0.10.6
Fecal boli incidents, locomotor time 11.01.53.20.9-1.8-0.8
Change in fecal boli incidents, locomotor task0.50.50.70.80.50.9
Time >=10cm from walls, locomotor time 10.00.00.1-0.3-0.1-0.2
Bouts of movement, locomotor time 12.02.36.9-2.60.30.0
Total resting periods, locomotor time 11.41.64.7-2.20.20.2
Rest time, locomotor task time 10.70.92.1-0.6-1.5-0.5
Distance moved, locomotor task time 10.00.10.10.20.2-0.4
Vertical activity count, locomotor time 10.61.52.5-1.61.30.6
Time >=10cm from walls, locomotor time 20.71.02.00.1-1.4-1.0
Bouts of movement, locomotor time 20.00.00.1-0.3-0.1-0.1
Total resting periods, locomotor time 20.00.00.1-0.1-0.2-0.1
Rest time, locomotor task time 20.30.30.6-0.6-0.7-0.1
Distance moved, locomotor task time 20.30.30.90.0-0.3-0.9
Vertical activity count, locomotor time 20.40.50.9-1.00.70.1
Light reinforcement 10.20.60.9-0.7-0.6-0.9
Light reinforcement 21.21.93.30.4-1.8-1.5
Bone: marrow area1.12.43.7-0.21.91.9
Bone: maximum diameter0.91.72.80.41.71.5
Bone: maximum force1.73.05.3-0.42.31.9
Bone: maximum moment2.13.76.5-0.32.62.1
Mean time between licks in bursts0.30.82.2-1.5-0.2-0.5
Mean num. licks in bursts2.13.24.81.21.92.2
Cd content in liver0.20.20.60.7-0.2-0.3
Co content in liver0.30.30.70.8-0.5-0.2
Cu content in liver0.80.91.3-0.71.20.9
Fe content in liver0.20.20.40.3-0.6-0.3
K content in liver0.10.10.2-0.50.10.2
Mg content in liver0.30.30.70.8-0.50.0
Mn content in liver0.91.02.61.6-0.40.3
Na content in liver0.91.01.9-1.40.80.6
Rb content in liver0.20.20.30.2-0.5-0.6
Se content in liver3.44.05.42.3-2.1-1.4
Sr content in liver0.30.30.70.8-0.30.1
Zn content in liver1.41.51.81.3-1.3-1.0
Bone: minimum diameter2.03.64.3-2.02.11.6
Time in familiar zone, hab. session 12.72.64.32.11.21.4
Time in novel zone, hab. session 12.32.33.8-0.5-1.7-2.0
Total zone transitions, hab. session 10.20.20.40.7-0.3-0.4
Total locomotion distance, hab. session 10.70.91.2-1.10.80.9
Locomotion velocity, hab. session 10.50.71.0-0.80.71.0
Time in familiar zone, hab. session 22.12.24.2-0.41.52.1
Time in novel zone, hab. session 21.51.51.91.2-1.1-1.4
Total zone transitions, hab. session 22.73.45.00.7-2.2-2.2
Total locomotion distance, hab. session 21.31.73.6-1.9-0.8-0.8
Locomotion velocity, hab. session 21.01.32.5-1.6-0.9-0.8
Novel to familiar place preference ratio0.10.10.1-0.30.2-0.1
Novelty place preference0.00.00.1-0.20.1-0.2
Time in novel zone, NPP test0.10.10.2-0.2-0.1-0.5
Total zone transitions, NPP test0.10.10.30.6-0.2-0.1
Total locomotion distance, NPP test2.33.23.4-1.71.81.9
Locomotion velocity, NPP test2.53.54.0-1.71.92.0
Intraocular pressure0.10.10.3-0.5-0.3-0.3
Delta distance traveled before/after self-admin1.11.22.60.41.61.0
Delta ambulatory time before/after self-admin0.91.12.40.11.50.9
Parametrial fat weight1.74.111.13.30.31.0
Pavlov. Cond. lever latency0.81.02.31.50.60.6
Pavlov. Cond. magazine entry latency1.01.32.0-1.4-1.1-0.9
Pavlov. Cond. change in total contacts2.12.33.7-1.9-1.1-1.3
Pavlov. Cond. index score1.21.52.7-1.6-1.0-0.9
Pavlov. Cond. latency score1.11.42.8-1.7-0.8-0.8
Pavlov. Cond. lever contacts0.91.13.3-1.8-0.3-0.3
Pavlov. Cond. magazine entry number1.41.73.21.81.01.0
Pavlov. Cond. intertrial magazine entries0.30.40.70.5-0.8-0.5
Pavlov. Cond. lever-magazine prob. diff.1.51.92.8-1.7-1.2-1.2
Pavlov. Cond. response bias0.40.51.1-1.0-0.6-0.4
Pavlov. Cond. lever latency3.64.95.62.3-2.4-1.9
Pavlov. Cond. magazine entry latency2.83.44.2-2.11.81.7
Pavlov. Cond. change in total contacts4.87.79.3-2.93.02.3
Pavlov. Cond. index score4.15.56.6-2.32.62.1
Pavlov. Cond. latency score3.74.95.5-2.42.31.9
Pavlov. Cond. lever contacts3.85.26.2-2.42.51.9
Pavlov. Cond. magazine entry number3.03.74.91.6-2.2-1.9
Pavlov. Cond. intertrial magazine entries1.01.52.11.4-1.1-1.1
Pavlov. Cond. lever-magazine prob. diff.3.95.16.3-2.12.52.1
Pavlov. Cond. response bias4.46.07.2-2.62.72.0
Time in closed arm before self-admin1.72.23.80.0-1.6-2.0
Time in closed arm after self-admin0.50.51.4-1.2-0.2-0.2
Time in open arm before self-admin4.04.47.00.12.52.6
Time in open arm after self-admin1.01.11.50.71.21.1
Bone: periosteal estimation1.63.45.40.02.32.2
Bone: periosteal perimeter1.11.93.20.01.61.8
Bone: post-yield work1.11.62.2-1.51.40.9
Progressive ratio test 1 active lever presses0.20.20.5-0.1-0.4-0.7
Progressive ratio test 1 breakpoint0.20.20.4-0.2-0.3-0.6
Progressive ratio test 1 inactive lever presses1.52.14.6-2.1-0.6-1.2
Progressive ratio test 2 active lever presses0.30.30.40.7-0.5-0.5
Progressive ratio test 2 breakpoint0.40.40.50.7-0.6-0.7
Progressive ratio test 2 inactive lever presses0.50.82.3-1.5-0.2-0.5
Incentive Sensitization - Responses0.30.40.50.4-0.7-0.7
Incentive Sensitization - Breakpoint0.30.40.50.3-0.7-0.7
Sum of active levers in priming session hrs 5-60.00.00.00.2-0.10.2
Progressive ratio0.30.41.1-1.0-0.4-0.2
Food seeking constrained by brief footshock2.22.72.9-1.71.51.7
Seeking ratio, punishment vs. effort0.20.30.4-0.60.70.4
Retroperitoneal fat weight1.66.819.74.4-0.20.9
Reaction time number correct0.30.51.5-1.20.1-0.0
Reaction time mean minus median0.30.71.11.10.80.5
Reaction time mean minus median AUC0.51.21.61.11.30.8
Reaction time num false alarms0.71.11.80.4-1.1-1.3
Reaction time num false alarms AUC0.81.21.90.5-1.3-1.4
Reaction time trials correct on left0.30.51.5-1.20.1-0.0
Reaction time trials on left0.20.41.3-1.10.10.0
Reaction time mean0.40.61.61.20.5-0.0
Reaction time mean AUC0.30.51.31.20.4-0.0
Median of all reaction times0.30.41.11.00.0-0.4
Reaction time omissions0.50.72.01.40.20.1
Reaction time false alarm rate0.71.01.20.8-1.0-1.1
Reaction time premature initiation rate0.10.20.2-0.4-0.4-0.5
Reaction time premature initiations0.20.40.7-0.8-0.4-0.5
Std. dev. reaction times0.30.60.90.90.90.2
Reaction time trials completed0.20.41.3-1.10.10.0
Reaction time trials AUC0.10.20.6-0.70.10.1
Run reversals in cocaine runway, females0.20.20.5-0.20.70.1
Run reversals in cocaine runway, males1.81.84.32.10.51.0
Latency to leave start box in cocaine runway0.50.61.5-1.20.2-0.4
Latency to leave start box in cocaine runway, F0.50.50.9-0.8-0.2-0.9
Latency to leave start box in cocaine runway, M0.30.30.7-0.90.2-0.0
Std. dev. time between licks in bursts2.93.911.2-3.3-0.4-0.6
Total sessions with >9 infusions1.21.52.61.6-1.0-1.0
Short access day 1 total inactive lever presses3.24.211.7-3.4-0.2-0.9
Short access day 10 total inactive lever presses2.25.414.6-3.81.10.7
Short access day 1 total infusions0.10.20.3-0.3-0.3-0.5
Short access day 10 total infusions0.50.60.70.8-0.7-0.8
Short access total infusions0.81.01.31.2-0.9-0.9
Short access day 1 locomotion0.91.11.60.7-1.1-1.3
Short access day 10 total locomotion0.81.44.3-2.1-0.0-0.1
Short access total locomotion1.11.32.10.2-1.4-1.4
One hour access (0.3 mA shock)0.30.30.8-0.90.1-0.4
Compulsive drug intake1.21.53.7-1.9-0.4-0.7
One hour access (shock baseline)0.10.20.30.5-0.2-0.4
Social response proportion1.31.52.1-0.81.31.5
Social responses0.50.71.0-0.90.61.0
Social time2.43.36.1-2.51.61.1
Soleus weight0.20.61.81.3-0.10.1
Bone: stiffness0.81.32.3-0.41.51.2
Tibialis anterior weight0.82.87.82.80.40.7
Time to tail flick, vehicle, before self-admin0.40.40.8-0.2-0.6-0.9
Time to tail flick, vehicle, after self-admin0.30.41.0-0.10.41.0
Time to tail flick, test, before self-admin1.41.52.2-1.5-0.5-1.4
Time to tail flick, test, after self-admin0.00.00.10.1-0.3-0.1
Delta time to tail flick, vehicle, before/after SA0.60.60.9-0.50.71.0
Delta time to tail flick, test, before/after SA1.41.43.41.8-0.20.9
Tibia length1.54.17.60.12.82.2
Ambulatory time before self-admin0.61.02.5-1.60.10.6
Ambulatory time after self-admin2.52.94.2-1.02.11.9
Bone: tissue strength1.31.31.9-1.21.40.6
Total heroin consumption0.60.72.0-1.40.30.1
Bone: trabecular number1.32.12.9-1.71.51.1
Bone: trabecular spacing0.40.51.0-0.50.61.0
Bone: trabecular thickness0.40.51.31.1-0.1-0.5
Bone: trabecular tissue density4.16.017.54.2-0.70.1
Water consumed over 24 hours0.40.60.80.50.90.8
Number of responses in last shaping day0.40.51.4-1.20.10.0