Snx17

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 gene expression Snx17 0.04 0.04 1.9e-03 0.02 0.02 0.01 0.02 6.7e-03 3.6e-03 1.5e-02 8.9e-03
2 PL mRNA stability Snx17 0.04 0.04 4.4e-05 0.04 0.04 0.04 0.04 4.3e-05 3.4e-05 1.8e-05 2.0e-05
3 Adipose gene expression Snx17 0.03 0.03 2.8e-03 0.01 0.01 0.01 0.01 1.3e-02 2.7e-02 1.8e-02 2.5e-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
Bone: apparent density4.77.98.73.0-2.5-2.9
Area under the delay curve0.30.30.80.30.2-0.9
BMI with tail0.41.21.5-1.21.20.9
BMI without tail0.20.40.5-0.70.40.7
Body weight1.87.47.8-2.82.72.7
Weight adjusted by age0.00.00.0-0.0-0.2-0.1
Bone surface2.13.74.42.1-1.6-2.0
Bone volume2.23.84.52.1-1.7-2.0
Breakpoint value in progressive ratio session1.51.61.71.2-1.3-1.3
Number of licking bursts0.20.20.30.20.5-0.5
Context. condit. distance diff. score0.00.00.0-0.10.10.1
Locomotion velocity, session 10.10.10.2-0.20.30.4
Locomotion distance, session 11.51.92.31.5-1.0-1.5
Locomotion velocity, session 20.20.30.5-0.50.70.4
Locomotion distance, session 20.00.00.0-0.00.10.1
Locomotion velocity, session 30.70.81.30.8-1.1-0.7
Locomotion distance, session 30.80.91.01.0-0.9-0.9
Stereotopy head waving bouts, day 32.02.32.81.5-1.7-1.4
Stereotopy head waving duration, day 30.20.20.40.4-0.6-0.3
Locomotion velocity, session 70.80.81.01.0-1.0-0.8
Locomotion distance, session 70.00.00.00.1-0.10.0
Stereotopy head waving bouts, day 70.00.00.0-0.10.20.0
Stereotopy head waving duration, day 70.40.40.50.7-0.7-0.6
Locomotion velocity, session 80.10.10.30.3-0.6-0.0
Locomotion distance, session 80.20.30.30.6-0.4-0.6
Degree of sensitization distance0.90.91.0-1.00.91.0
Degree of sensitization stereotypy0.20.20.3-0.40.60.3
Conditioned locomotion3.44.04.32.0-1.9-2.1
Cocaine response after cond. corrected0.80.91.51.0-0.4-1.2
Cocaine response after cond. not corrected1.82.03.01.5-0.9-1.7
Cocaine response before conditioning1.31.52.01.2-1.4-1.1
Saline control response0.50.70.80.9-0.9-0.7
Bone: connectivity density4.87.58.32.8-2.4-2.9
Bone: cortical apparent density0.30.40.50.7-0.5-0.7
Bone: cortical area0.20.30.40.6-0.3-0.6
Bone: cortical porosity1.51.72.41.2-1.6-1.0
Bone: cortical porosity1.21.31.71.1-1.3-0.9
Bone: cortical thickness0.10.20.4-0.30.60.2
Bone: cortical thickness1.41.61.91.3-1.1-1.4
Bone: cortical tissue density0.20.30.40.6-0.4-0.6
Condit. Reinf. active minus inactive responses0.50.60.9-0.81.00.6
Condit. Reinf. active-inactive response ratio0.50.50.6-0.80.70.6
Condit. Reinf. active responses0.20.30.60.5-0.0-0.8
Condit. Reinf. inactive responses1.51.82.41.4-0.9-1.6
Incentive salience index mean0.10.10.20.20.1-0.4
Condit. Reinf. lever presses0.60.81.40.9-0.4-1.2
Condit. Reinf. active minus inactive responses4.45.45.92.3-2.4-2.2
Condit. Reinf. active-inactive response ratio1.11.11.11.1-1.1-1.0
Condit. Reinf. active responses3.65.05.62.2-2.4-2.2
Condit. Reinf. inactive responses2.02.52.51.5-1.6-1.6
Condit. Reinf. lever presses2.12.93.41.7-1.5-1.8
Condit. Reinf. lever reinforcers received3.24.55.22.1-2.3-2.0
Conditioned reinforcement - actives1.01.02.20.9-1.5-0.3
Conditioned reinforcement - inactives2.52.83.81.7-2.0-1.3
Conditioned locomotion0.60.71.50.2-1.20.7
Patch foraging indifference point 0 sec0.30.50.6-0.70.60.8
Patch foraging indifference point AUC1.92.22.41.6-1.4-1.4
Delay disc. indifference point, 0s delay3.03.35.5-1.72.41.2
Delay disc. indifference point, 16s delay0.60.61.30.7-0.2-1.2
Delay disc. indifference point, 2s delay0.30.30.6-0.50.80.4
Delay disc. indifference point, 24s delay2.82.75.41.5-0.7-2.3
Delay disc. indifference point, 4s delay0.00.00.10.00.3-0.1
Delay disc. indifference point, 8s delay0.40.40.90.40.1-1.0
Indifference point function ln k0.00.00.1-0.20.10.3
Indifference point function log k0.00.00.1-0.20.10.3
Patch foraging total patch changes 0 sec0.20.40.4-0.60.60.6
Patch foraging total patch changes 12 sec0.81.01.1-1.01.11.0
Patch foraging total patch changes 18 sec0.00.00.0-0.20.10.2
Patch foraging total patch changes 24 sec1.01.21.5-1.11.01.2
Patch foraging total patch changes 6 sec0.00.00.0-0.20.10.1
Patch foraging time to switch 0 sec0.00.00.10.1-0.1-0.3
Patch foraging water rate 0 sec0.00.00.1-0.1-0.10.3
Patch foraging water rate 12 sec1.52.22.5-1.61.31.6
Patch foraging water rate 18 sec0.60.81.0-0.90.81.0
Patch foraging water rate 24 sec1.72.42.6-1.61.41.6
Patch foraging water rate 6 sec1.42.02.1-1.41.41.5
Seeking ratio, delayed vs. immediate footshock0.20.20.5-0.3-0.30.7
Distance traveled before self-admin0.00.00.10.10.1-0.3
Distance traveled after self-admin0.91.01.8-0.91.30.6
Extensor digitorum longus weight4.517.718.54.3-4.0-4.3
Bone: elastic displacement1.01.11.21.0-1.1-1.1
Bone: elastic work1.21.51.81.2-1.1-1.3
Bone: endosteal estimation0.30.70.80.9-0.9-0.8
Bone: endosteal perimeter0.10.20.30.5-0.4-0.5
Epididymis fat weight14.032.634.9-5.95.35.9
Delta time in closed arm before/after self-admin0.00.00.1-0.20.30.1
Delta time in open arm before/after self-admin0.40.40.60.6-0.8-0.5
Diff in mean of infusions in LGA sessions0.20.20.30.5-0.6-0.3
Delay discount exponential model param0.60.61.4-0.60.11.2
Extinction: sum of active levers before priming0.60.60.80.7-0.6-0.9
Active lever presses in extinction session 60.60.61.40.6-1.2-0.2
Bone: final force0.00.10.10.3-0.1-0.2
Bone: final moment0.10.10.20.4-0.2-0.3
Food consumed during 24 hour testing period0.10.10.30.40.0-0.5
Glucose0.20.30.5-0.60.40.7
Heart weight10.615.016.6-3.83.74.1
Delay discount hyperbolic model param0.50.51.1-0.60.11.0
Intermittent access intake day 1-15 change0.00.00.00.2-0.20.1
Intermittent access intake escalation0.00.00.1-0.00.00.4
Intermittent access intake escalation 20.50.50.8-0.60.60.9
Intermitt. access day 1 inactive lever presses0.10.10.30.2-0.5-0.0
Intermitt. access day 15 inactive lever presses6.77.39.52.8-3.1-2.2
Intermitt. access escalation Index0.30.30.4-0.50.50.6
Intermittent access day 1 total infusions5.05.86.82.4-2.6-2.2
Intermittent access day 15 total infusions1.92.12.81.5-1.7-1.1
Intermittent access terminal intake (last 3 days)1.61.82.51.4-1.6-1.0
Intermittent access total infusions2.02.23.21.5-1.8-1.2
Intermittent access day 1 locomotion2.22.32.51.5-1.6-1.4
Intermittent access day 15 total locomotion0.60.61.00.8-1.0-0.5
Intermittent access total locomotion0.30.40.80.5-0.9-0.2
Intermittent access standard deviation0.20.20.40.3-0.60.0
Left kidney weight0.00.00.1-0.10.30.0
Right kidney weight1.13.14.3-1.72.11.5
Cocaine induced anxiety0.20.30.50.5-0.7-0.2
Post-drug Anxiety0.91.11.6-0.91.30.9
Baseline Anxiety1.41.52.4-1.11.60.8
Tail length0.10.30.4-0.50.30.7
Length with tail1.45.25.4-2.32.22.3
Length without tail0.71.62.0-1.21.41.2
Times rat made contact with spout1.92.23.11.6-1.1-1.8
Lifetime Intake2.93.34.71.8-2.2-1.4
Liver weight, left1.52.32.9-1.51.71.4
Liver weight, right9.315.416.1-3.94.03.8
Locomotor activity0.20.30.7-0.50.80.1
Locomotor testing distance0.20.30.50.5-0.4-0.7
Locomotor testing rearing0.91.42.21.1-1.5-0.9
Locomotion in novel chamber0.80.91.4-1.00.61.2
Locomotion in novel chamber post-restriction1.51.82.3-1.51.21.3
Fecal boli incidents, locomotor time 10.30.30.40.6-0.6-0.4
Change in fecal boli incidents, locomotor task4.24.04.3-2.02.11.9
Time >=10cm from walls, locomotor time 10.00.00.1-0.10.3-0.2
Bouts of movement, locomotor time 12.32.53.01.7-1.3-1.7
Total resting periods, locomotor time 12.52.73.01.7-1.5-1.7
Rest time, locomotor task time 10.10.10.20.2-0.4-0.0
Distance moved, locomotor task time 10.91.01.3-1.11.20.8
Vertical activity count, locomotor time 10.50.50.9-0.70.90.3
Time >=10cm from walls, locomotor time 20.10.10.20.3-0.4-0.0
Bouts of movement, locomotor time 20.20.20.4-0.30.70.3
Total resting periods, locomotor time 20.00.00.1-0.10.30.1
Rest time, locomotor task time 21.41.72.01.3-1.1-1.4
Distance moved, locomotor task time 20.91.01.1-1.10.91.1
Vertical activity count, locomotor time 20.50.60.8-0.80.50.9
Light reinforcement 13.86.98.12.7-2.3-2.8
Light reinforcement 23.14.14.82.2-1.7-2.2
Bone: marrow area0.40.80.90.9-0.9-0.9
Bone: maximum diameter0.71.31.51.2-0.9-1.2
Bone: maximum force0.00.00.00.10.00.1
Bone: maximum moment0.00.00.00.2-0.1-0.1
Mean time between licks in bursts2.63.74.2-1.92.01.8
Mean num. licks in bursts0.20.20.40.4-0.6-0.3
Cd content in liver0.00.00.00.00.1-0.0
Co content in liver5.16.06.72.5-2.2-2.6
Cu content in liver0.00.00.10.2-0.2-0.2
Fe content in liver0.10.10.1-0.1-0.40.3
K content in liver0.20.20.5-0.30.70.2
Mg content in liver0.30.30.6-0.50.80.4
Mn content in liver0.60.60.70.8-0.9-0.7
Na content in liver0.30.30.40.6-0.5-0.5
Rb content in liver0.00.00.0-0.10.10.1
Se content in liver0.40.50.7-0.70.40.9
Sr content in liver0.20.20.5-0.30.70.1
Zn content in liver1.51.61.8-1.21.31.2
Bone: minimum diameter0.10.20.3-0.40.50.5
Time in familiar zone, hab. session 10.90.80.9-0.90.91.0
Time in novel zone, hab. session 10.40.40.6-0.70.20.8
Total zone transitions, hab. session 10.10.10.20.3-0.1-0.4
Total locomotion distance, hab. session 10.10.10.20.4-0.3-0.3
Locomotion velocity, hab. session 10.81.21.41.2-0.8-1.2
Time in familiar zone, hab. session 20.00.00.00.00.10.1
Time in novel zone, hab. session 20.30.30.4-0.60.40.5
Total zone transitions, hab. session 20.10.10.20.30.1-0.5
Total locomotion distance, hab. session 20.10.20.30.5-0.1-0.5
Locomotion velocity, hab. session 20.30.40.60.7-0.3-0.8
Novel to familiar place preference ratio0.90.91.2-1.01.10.7
Novelty place preference1.41.41.7-1.31.31.0
Time in novel zone, NPP test1.61.61.9-1.41.31.1
Total zone transitions, NPP test1.21.82.01.4-1.2-1.3
Total locomotion distance, NPP test1.82.52.71.7-1.6-1.5
Locomotion velocity, NPP test3.04.34.72.2-1.9-2.1
Intraocular pressure5.07.09.4-2.63.12.1
Delta distance traveled before/after self-admin1.51.61.8-1.31.31.3
Delta ambulatory time before/after self-admin0.30.30.4-0.50.60.6
Parametrial fat weight6.312.214.2-3.43.83.2
Pavlov. Cond. lever latency1.51.92.1-1.51.21.5
Pavlov. Cond. magazine entry latency0.00.00.00.1-0.1-0.1
Pavlov. Cond. change in total contacts0.00.00.10.2-0.1-0.2
Pavlov. Cond. index score0.60.70.90.9-0.7-1.0
Pavlov. Cond. latency score0.50.70.80.9-0.6-0.9
Pavlov. Cond. lever contacts0.91.11.41.1-0.8-1.2
Pavlov. Cond. magazine entry number0.30.40.5-0.70.60.7
Pavlov. Cond. intertrial magazine entries1.31.61.81.3-1.2-1.3
Pavlov. Cond. lever-magazine prob. diff.1.41.82.21.4-1.1-1.5
Pavlov. Cond. response bias1.41.71.91.3-1.2-1.4
Pavlov. Cond. lever latency1.62.22.5-1.61.31.6
Pavlov. Cond. magazine entry latency0.20.20.30.5-0.5-0.4
Pavlov. Cond. change in total contacts0.60.81.00.9-0.7-1.0
Pavlov. Cond. index score1.01.21.41.2-1.0-1.1
Pavlov. Cond. latency score0.91.21.31.1-1.0-1.0
Pavlov. Cond. lever contacts0.81.11.51.1-0.8-1.2
Pavlov. Cond. magazine entry number0.10.10.1-0.30.20.3
Pavlov. Cond. intertrial magazine entries3.14.14.3-2.11.92.1
Pavlov. Cond. lever-magazine prob. diff.0.60.80.91.0-0.8-0.9
Pavlov. Cond. response bias1.52.12.61.5-1.2-1.6
Time in closed arm before self-admin0.50.50.7-0.70.60.9
Time in closed arm after self-admin1.21.21.5-1.20.91.2
Time in open arm before self-admin0.10.10.30.20.4-0.5
Time in open arm after self-admin1.92.12.71.5-1.1-1.6
Bone: periosteal estimation0.50.91.11.0-0.8-1.0
Bone: periosteal perimeter0.10.20.40.5-0.2-0.6
Bone: post-yield work0.40.50.60.7-0.8-0.6
Progressive ratio test 1 active lever presses1.41.52.91.1-1.7-0.6
Progressive ratio test 1 breakpoint1.31.32.61.0-1.6-0.6
Progressive ratio test 1 inactive lever presses3.64.07.41.8-2.7-1.1
Progressive ratio test 2 active lever presses0.10.10.30.1-0.60.3
Progressive ratio test 2 breakpoint0.20.20.50.2-0.70.2
Progressive ratio test 2 inactive lever presses1.72.03.51.3-1.9-0.8
Incentive Sensitization - Responses0.10.10.2-0.30.20.5
Incentive Sensitization - Breakpoint0.30.30.6-0.50.40.7
Sum of active levers in priming session hrs 5-60.90.91.41.0-0.6-1.2
Progressive ratio0.10.10.30.0-0.60.3
Food seeking constrained by brief footshock4.25.28.32.1-2.9-1.7
Seeking ratio, punishment vs. effort0.70.81.20.9-0.6-1.1
Retroperitoneal fat weight21.470.372.3-8.58.28.5
Reaction time number correct0.50.70.90.9-0.7-1.0
Reaction time mean minus median0.00.00.0-0.1-0.20.1
Reaction time mean minus median AUC0.00.00.1-0.20.10.2
Reaction time num false alarms0.10.20.50.30.1-0.7
Reaction time num false alarms AUC0.20.30.60.40.1-0.8
Reaction time trials correct on left0.50.70.90.9-0.7-1.0
Reaction time trials on left0.50.81.00.9-0.7-1.0
Reaction time mean1.11.61.7-1.31.21.2
Reaction time mean AUC0.91.31.4-1.21.11.1
Median of all reaction times1.31.72.0-1.31.41.2
Reaction time omissions0.00.10.10.3-0.2-0.2
Reaction time false alarm rate0.10.10.3-0.10.5-0.2
Reaction time premature initiation rate0.20.20.3-0.50.50.4
Reaction time premature initiations0.00.00.00.00.1-0.2
Std. dev. reaction times0.30.50.6-0.70.60.7
Reaction time trials completed0.50.81.00.9-0.7-1.0
Reaction time trials AUC0.71.01.31.0-0.9-1.1
Run reversals in cocaine runway, females0.10.10.1-0.20.3-0.3
Run reversals in cocaine runway, males0.50.40.90.5-0.4-1.0
Latency to leave start box in cocaine runway0.40.40.60.8-0.7-0.5
Latency to leave start box in cocaine runway, F0.50.50.70.8-0.6-0.8
Latency to leave start box in cocaine runway, M0.60.51.10.7-1.0-0.2
Std. dev. time between licks in bursts0.30.30.6-0.40.80.4
Total sessions with >9 infusions2.42.64.71.4-2.2-1.0
Short access day 1 total inactive lever presses4.44.95.42.2-2.3-2.1
Short access day 10 total inactive lever presses1.01.11.21.0-1.1-1.0
Short access day 1 total infusions4.54.87.32.1-2.7-1.6
Short access day 10 total infusions3.84.25.52.0-2.4-1.8
Short access total infusions2.83.15.01.7-2.2-1.3
Short access day 1 locomotion6.56.910.02.6-3.2-2.1
Short access day 10 total locomotion0.60.71.00.9-1.0-0.5
Short access total locomotion0.50.61.20.7-1.1-0.3
One hour access (0.3 mA shock)1.61.82.11.4-1.4-1.2
Compulsive drug intake0.40.41.1-0.51.0-0.0
One hour access (shock baseline)1.61.93.01.3-1.7-0.9
Social response proportion0.50.50.6-0.60.60.8
Social responses0.20.20.3-0.40.50.6
Social time0.81.01.9-0.90.61.4
Soleus weight4.312.615.23.6-3.1-3.9
Bone: stiffness0.00.10.1-0.20.30.3
Tibialis anterior weight3.612.112.93.5-3.3-3.6
Time to tail flick, vehicle, before self-admin2.32.32.7-1.61.31.7
Time to tail flick, vehicle, after self-admin4.34.65.3-2.21.92.3
Time to tail flick, test, before self-admin0.60.60.70.7-0.9-0.6
Time to tail flick, test, after self-admin0.10.10.1-0.30.20.4
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.20.20.3
Delta time to tail flick, test, before/after SA0.20.20.30.5-0.4-0.5
Tibia length2.67.37.9-2.72.62.8
Ambulatory time before self-admin0.10.10.30.4-0.1-0.5
Ambulatory time after self-admin0.50.61.0-0.71.00.5
Bone: tissue strength0.80.81.1-0.91.00.8
Total heroin consumption2.93.43.71.9-1.7-1.9
Bone: trabecular number3.75.86.52.5-2.1-2.6
Bone: trabecular spacing2.83.64.1-2.01.81.8
Bone: trabecular thickness0.60.70.80.9-0.8-0.8
Bone: trabecular tissue density0.20.20.30.4-0.6-0.3
Water consumed over 24 hours1.21.42.21.3-0.6-1.5
Number of responses in last shaping day0.40.40.70.5-0.9-0.5