Hub : Genes

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 Adipose gene expression ENSRNOG00000026884 0.03 0.03 7.4e-03 0.01 0.01 0.01 0.01 8.4e-03 1.3e-02 8.6e-03 1.5e-02
2 Eye alternative TSS ENSRNOT00000118822 0.26 0.19 9.2e-03 0.06 0.07 0.02 0.06 5.2e-02 3.4e-02 1.8e-01 4.3e-02
3 LHb mRNA stability ENSRNOG00000026884 0.18 0.16 1.3e-03 0.14 0.13 0.1 0.11 3.4e-04 6.9e-04 2.9e-03 1.2e-03
4 PL mRNA stability ENSRNOG00000026884 0.05 0.05 1.9e-04 0.05 0.05 0.04 0.05 1.1e-04 1.5e-04 4.2e-04 2.1e-04

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 strong Z-scores (below -2 or above 2): lower negative Z-scores are darker blue, higher positive Z-scores are darker red.

Trait Avg chi2 ratio Avg chi2 Max chi2 1 2 3 4
BMI with tail0.41.41.6-1.11.2-1.1-1.3
BMI without tail0.20.50.7-0.80.7-0.4-0.8
Body weight1.98.19.5-2.82.8-2.6-3.1
Epididymis fat weight14.333.437.0-5.95.9-5.3-6.1
Glucose0.20.30.5-0.70.6-0.4-0.5
Heart weight9.814.014.9-3.93.8-3.8-3.5
Left kidney weight0.00.00.10.10.1-0.4-0.1
Right kidney weight1.13.04.5-1.21.6-2.1-1.8
Tail length0.10.40.5-0.70.6-0.4-0.7
Length with tail1.55.76.9-2.32.3-2.3-2.6
Length without tail0.71.61.9-1.21.2-1.4-1.3
Liver weight, left1.32.12.8-1.51.5-1.7-1.2
Liver weight, right9.615.916.4-3.93.9-4.1-4.0
Parametrial fat weight6.212.214.8-3.33.4-3.8-3.4
Retroperitoneal fat weight21.370.672.6-8.48.5-8.1-8.5
Intraocular pressure5.07.18.6-2.22.6-2.9-2.8
Extensor digitorum longus weight4.417.618.54.3-4.34.04.2
Soleus weight4.312.515.33.9-3.63.03.5
Tibialis anterior weight3.612.213.33.6-3.53.23.6
Tibia length2.67.28.1-2.82.7-2.6-2.6
Number of licking bursts0.20.20.30.6-0.3-0.50.5
Food consumed during 24 hour testing period0.20.20.40.5-0.40.00.7
Times rat made contact with spout2.12.33.31.8-1.61.11.6
Mean time between licks in bursts2.63.64.3-1.81.9-2.1-1.8
Mean num. licks in bursts0.20.20.50.3-0.40.70.2
Std. dev. time between licks in bursts0.20.20.6-0.40.4-0.8-0.3
Water consumed over 24 hours1.51.82.41.5-1.40.81.6
Indifference point 0 sec0.30.50.6-0.80.7-0.5-0.8
Indifference point AUC1.92.22.51.3-1.61.51.6
Indifference point function ln k0.00.00.0-0.20.1-0.2-0.1
Indifference point function log k0.00.00.0-0.20.1-0.2-0.1
Delay discounting total patch changes 0 sec0.20.40.4-0.60.6-0.5-0.6
Delay discounting total patch changes 12 sec0.81.01.1-1.11.0-0.9-1.1
Delay discounting total patch changes 18 sec0.00.00.1-0.30.1-0.0-0.1
Delay discounting total patch changes 24 sec1.01.21.6-1.31.1-0.9-1.1
Delay discounting total patch changes 6 sec0.00.00.1-0.20.20.1-0.2
Delay discounting time to switch 0 sec0.00.00.10.4-0.10.1-0.2
Delay discounting water rate 0 sec0.00.00.1-0.40.10.00.1
Delay discounting water rate 12 sec1.62.42.6-1.61.6-1.6-1.5
Delay discounting water rate 18 sec0.70.91.0-1.00.9-0.9-1.0
Delay discounting water rate 24 sec1.92.63.1-1.51.6-1.6-1.8
Delay discounting water rate 6 sec1.42.12.3-1.51.4-1.5-1.3
Locomotor activity0.20.20.6-0.10.5-0.7-0.4
Locomotor testing distance0.20.30.50.7-0.50.40.4
Locomotor testing rearing0.91.42.51.0-1.11.60.8
Light reinforcement 14.17.48.42.8-2.82.42.9
Light reinforcement 23.64.86.12.2-2.21.82.5
Reaction time number correct0.50.81.01.0-0.90.70.9
Reaction time mean minus median0.00.00.1-0.20.10.20.1
Reaction time mean minus median AUC0.00.00.1-0.30.3-0.10.0
Reaction time num false alarms0.20.20.40.7-0.3-0.00.6
Reaction time num false alarms AUC0.30.40.70.8-0.4-0.10.8
Reaction time trials correct on left0.50.81.01.0-0.90.70.9
Reaction time trials on left0.60.81.01.0-0.90.70.9
Reaction time mean1.11.51.7-1.31.3-1.3-1.1
Reaction time mean AUC0.91.21.4-1.11.2-1.1-0.9
Median of all reaction times1.21.72.2-1.21.3-1.5-1.1
Reaction time omissions0.10.10.20.3-0.30.30.5
Reaction time false alarm rate0.10.10.20.20.1-0.50.2
Reaction time premature initiation rate0.20.20.3-0.50.5-0.4-0.5
Reaction time premature initiations0.00.00.00.1-0.0-0.00.0
Std. dev. reaction times0.30.50.7-0.90.7-0.6-0.5
Reaction time trials completed0.60.81.01.0-0.90.70.9
Reaction time trials AUC0.71.11.31.1-1.10.91.0
Social response proportion0.40.40.7-0.80.7-0.5-0.5
Social responses0.10.10.3-0.50.4-0.40.0
Social time0.70.91.9-1.40.9-0.6-0.7
Conditioned locomotion3.23.84.12.0-2.01.91.8
Cocaine response after cond. corrected0.91.01.71.3-1.10.50.9
Cocaine response after cond. not corrected2.02.23.21.8-1.50.91.5
Cocaine response before conditioning1.31.62.31.0-1.21.31.5
Saline control response0.60.81.10.8-0.90.81.1
Condit. Reinf. active minus inactive responses4.45.46.22.3-2.32.52.3
Condit. Reinf. active-inactive response ratio1.11.21.21.1-1.11.11.1
Condit. Reinf. active responses3.65.15.92.2-2.22.42.2
Condit. Reinf. inactive responses2.02.42.71.5-1.51.61.5
Condit. Reinf. lever presses2.02.73.21.8-1.71.41.6
Condit. Reinf. lever reinforcers received3.24.55.52.0-2.02.32.1
Pavlov. Cond. lever latency1.72.32.5-1.61.6-1.3-1.6
Pavlov. Cond. magazine entry latency0.30.30.70.4-0.50.50.8
Pavlov. Cond. change in total contacts0.60.91.31.0-0.90.61.1
Pavlov. Cond. index score1.01.31.81.1-1.21.01.4
Pavlov. Cond. latency score1.01.31.81.0-1.11.01.3
Pavlov. Cond. lever contacts0.81.11.51.2-1.10.81.1
Pavlov. Cond. magazine entry number0.10.10.3-0.30.3-0.2-0.5
Pavlov. Cond. intertrial magazine entries3.14.04.5-2.02.1-1.8-2.1
Pavlov. Cond. lever-magazine prob. diff.0.70.91.40.9-1.00.81.2
Pavlov. Cond. response bias1.62.22.61.6-1.51.21.6
Conditioned reinforcement - actives0.90.92.10.3-0.81.50.7
Conditioned reinforcement - inactives3.13.55.21.4-1.72.02.3
Conditioned locomotion0.40.41.4-0.6-0.11.20.0
Intermittent access intake day 1-15 change0.00.00.1-0.2-0.20.10.3
Intermittent access intake escalation0.10.10.2-0.40.1-0.20.1
Intermittent access intake escalation 20.50.50.9-1.00.6-0.8-0.3
Intermitt. access day 1 inactive lever presses0.10.10.3-0.0-0.30.40.6
Intermitt. access day 15 inactive lever presses7.27.910.02.1-2.83.13.2
Intermitt. access escalation Index0.30.30.4-0.70.5-0.4-0.4
Intermittent access day 1 total infusions5.66.37.42.2-2.42.62.7
Intermittent access day 15 total infusions2.12.43.41.1-1.51.61.8
Intermittent access terminal intake (last 3 days)1.71.82.31.0-1.41.51.5
Intermittent access total infusions2.22.53.21.2-1.51.71.8
Intermittent access day 1 locomotion2.32.42.41.5-1.61.51.5
Intermittent access day 15 total locomotion0.80.81.60.6-0.80.91.3
Intermittent access total locomotion0.40.40.70.3-0.50.80.8
Intermittent access standard deviation0.10.10.3-0.0-0.30.50.4
Cocaine induced anxiety0.30.30.50.2-0.50.60.7
Post-drug Anxiety0.91.01.6-0.90.9-1.3-0.9
Baseline Anxiety1.41.42.2-0.71.1-1.5-1.3
Lifetime Intake3.13.54.61.4-1.82.12.0
Incentive Sensitization - Responses0.10.10.2-0.50.3-0.1-0.2
Incentive Sensitization - Breakpoint0.30.30.5-0.70.5-0.3-0.4
Progressive ratio test 1 active lever presses1.61.72.80.6-1.11.71.5
Progressive ratio test 1 breakpoint1.41.52.50.6-1.01.61.4
Progressive ratio test 1 inactive lever presses3.63.97.01.1-1.82.62.0
Progressive ratio test 2 active lever presses0.10.10.3-0.2-0.10.60.3
Progressive ratio test 2 breakpoint0.10.20.5-0.2-0.20.70.3
Progressive ratio test 2 inactive lever presses1.92.23.40.8-1.31.81.7
Total sessions with >9 infusions2.32.54.71.0-1.42.21.5
Short access day 1 total inactive lever presses5.15.78.71.9-2.22.33.0
Short access day 10 total inactive lever presses1.01.11.40.9-1.01.11.2
Short access day 1 total infusions4.64.97.41.5-2.12.72.4
Short access day 10 total infusions4.14.55.51.8-2.02.32.3
Short access total infusions2.83.14.91.3-1.72.21.8
Short access day 1 locomotion6.56.99.62.1-2.53.12.7
Short access day 10 total locomotion0.80.81.30.8-0.90.91.1
Short access total locomotion0.60.61.00.4-0.71.00.7
Compulsive drug intake0.40.40.9-0.00.5-1.0-0.5
One hour access (0.3 mA shock)1.72.02.81.2-1.41.41.7
One hour access (shock baseline)1.72.02.81.0-1.31.71.6
Number of responses in last shaping day0.40.40.80.2-0.50.90.6
Context. condit. distance diff. score0.00.00.0-0.10.1-0.2-0.2
Locomotion velocity, session 10.00.00.1-0.30.2-0.30.0
Locomotion distance, session 11.72.23.01.6-1.51.01.7
Locomotion velocity, session 20.20.20.5-0.40.5-0.7-0.4
Locomotion distance, session 20.00.00.0-0.10.0-0.10.2
Locomotion velocity, session 30.70.81.30.7-0.81.10.9
Locomotion distance, session 30.91.01.20.9-1.00.91.1
Stereotopy head waving bouts, day 31.92.22.81.3-1.51.71.4
Stereotopy head waving duration, day 30.10.20.40.3-0.40.60.3
Locomotion velocity, session 70.91.01.40.8-1.01.01.2
Locomotion distance, session 70.00.00.1-0.1-0.10.00.3
Stereotopy head waving bouts, day 70.00.00.0-0.00.1-0.2-0.1
Stereotopy head waving duration, day 70.40.50.60.6-0.70.70.7
Locomotion velocity, session 80.10.20.30.0-0.30.50.5
Locomotion distance, session 80.20.30.50.5-0.60.30.7
Degree of sensitization distance0.90.91.0-1.01.0-1.0-0.9
Degree of sensitization stereotypy0.10.20.3-0.20.4-0.5-0.4
Condit. Reinf. active minus inactive responses0.50.60.7-0.60.8-0.8-0.8
Condit. Reinf. active-inactive response ratio0.50.60.9-0.60.8-0.6-1.0
Condit. Reinf. active responses0.20.20.50.7-0.50.20.5
Condit. Reinf. inactive responses1.61.92.41.5-1.41.01.5
Incentive salience index mean0.00.00.10.3-0.20.00.1
Condit. Reinf. lever presses0.60.81.21.1-0.90.61.0
Time in familiar zone, hab. session 10.90.81.0-1.00.9-0.9-0.8
Time in novel zone, hab. session 10.50.50.8-0.70.7-0.3-0.9
Total zone transitions, hab. session 10.10.10.20.4-0.30.00.4
Total locomotion distance, hab. session 10.10.10.30.3-0.40.20.5
Locomotion velocity, hab. session 10.91.31.71.2-1.20.91.3
Time in familiar zone, hab. session 20.00.00.0-0.0-0.0-0.10.1
Time in novel zone, hab. session 20.40.40.7-0.60.6-0.4-0.8
Total zone transitions, hab. session 20.10.10.20.5-0.4-0.00.4
Total locomotion distance, hab. session 20.20.20.40.5-0.50.10.6
Locomotion velocity, hab. session 20.40.50.70.8-0.80.40.8
Novel to familiar place preference ratio1.01.01.3-0.81.0-1.2-1.1
Novelty place preference1.61.72.0-1.11.3-1.4-1.4
Time in novel zone, NPP test1.81.92.3-1.21.4-1.4-1.5
Total zone transitions, NPP test1.31.92.11.4-1.41.21.5
Total locomotion distance, NPP test1.82.62.81.5-1.71.51.7
Locomotion velocity, NPP test3.14.44.82.1-2.21.92.2
Pavlov. Cond. lever latency1.62.12.7-1.41.5-1.2-1.6
Pavlov. Cond. magazine entry latency0.00.00.10.1-0.10.10.3
Pavlov. Cond. change in total contacts0.00.00.10.2-0.20.00.3
Pavlov. Cond. index score0.70.81.30.9-0.90.71.1
Pavlov. Cond. latency score0.60.81.20.9-0.90.61.1
Pavlov. Cond. lever contacts1.01.21.61.1-1.10.81.3
Pavlov. Cond. magazine entry number0.40.50.7-0.70.7-0.6-0.9
Pavlov. Cond. intertrial magazine entries1.31.51.71.3-1.31.21.1
Pavlov. Cond. lever-magazine prob. diff.1.51.92.41.4-1.41.11.5
Pavlov. Cond. response bias1.41.72.21.3-1.31.11.5
Bone: apparent density5.08.39.13.0-3.02.53.0
Bone surface2.34.15.02.1-2.11.62.2
Bone volume2.54.25.02.1-2.11.72.2
Bone: connectivity density4.97.78.62.9-2.92.52.8
Bone: cortical apparent density0.40.50.70.8-0.70.40.8
Bone: cortical area0.20.30.50.6-0.60.30.7
Bone: cortical porosity1.41.62.31.0-1.21.51.1
Bone: cortical porosity1.21.31.71.0-1.11.31.1
Bone: cortical thickness0.10.10.4-0.10.2-0.6-0.2
Bone: cortical thickness1.41.61.71.3-1.31.11.3
Bone: cortical tissue density0.30.30.50.7-0.60.30.7
Bone: elastic displacement0.91.01.41.0-1.01.20.9
Bone: elastic work1.11.51.71.3-1.21.21.1
Bone: endosteal estimation0.40.80.80.8-0.90.90.9
Bone: endosteal perimeter0.10.30.30.5-0.50.50.5
Bone: final force0.10.10.10.3-0.30.10.4
Bone: final moment0.10.10.20.4-0.40.20.4
Bone: marrow area0.40.80.90.9-0.90.90.9
Bone: maximum diameter0.81.51.81.3-1.21.01.4
Bone: maximum force0.00.00.00.0-0.1-0.00.1
Bone: maximum moment0.00.00.00.1-0.20.10.2
Bone: minimum diameter0.10.20.2-0.50.4-0.4-0.5
Bone: periosteal estimation0.51.01.21.0-1.10.81.1
Bone: periosteal perimeter0.20.30.40.6-0.50.20.5
Bone: post-yield work0.40.50.60.7-0.70.70.7
Bone: stiffness0.00.10.1-0.20.2-0.4-0.2
Bone: tissue strength0.80.81.2-0.70.9-1.1-0.9
Bone: trabecular number4.06.16.72.6-2.52.22.6
Bone: trabecular spacing3.14.04.8-1.92.0-1.9-2.2
Bone: trabecular thickness0.60.70.90.8-0.90.80.9
Bone: trabecular tissue density0.10.20.30.3-0.40.40.6
Breakpoint value in progressive ratio session1.31.51.81.3-1.21.30.9
Distance traveled before self-admin0.00.00.10.2-0.1-0.30.0
Distance traveled after self-admin1.01.11.6-0.70.9-1.3-1.2
Delta time in closed arm before/after self-admin0.10.10.1-0.10.2-0.3-0.4
Delta time in open arm before/after self-admin0.40.40.60.5-0.60.80.6
Diff in mean of infusions in LGA sessions0.20.20.30.3-0.50.50.6
Extinction: sum of active levers before priming0.50.50.90.9-0.70.50.7
Active lever presses in extinction session 60.50.51.60.2-0.51.20.3
Delta distance traveled before/after self-admin1.51.61.9-1.31.3-1.1-1.4
Delta ambulatory time before/after self-admin0.30.30.4-0.60.6-0.5-0.7
Time in closed arm before self-admin0.50.60.7-0.90.7-0.7-0.8
Time in closed arm after self-admin1.51.52.2-1.31.2-0.9-1.5
Time in open arm before self-admin0.20.20.30.5-0.2-0.40.5
Time in open arm after self-admin2.22.43.11.7-1.51.11.8
Sum of active levers in priming session hrs 5-61.11.11.51.2-1.00.61.2
Time to tail flick, vehicle, before self-admin2.32.42.7-1.61.6-1.3-1.6
Time to tail flick, vehicle, after self-admin4.54.85.4-2.32.2-1.9-2.3
Time to tail flick, test, before self-admin0.60.60.70.7-0.70.90.6
Time to tail flick, test, after self-admin0.10.10.1-0.30.3-0.30.0
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.20.2-0.1-0.3
Delta time to tail flick, test, before/after SA0.40.40.80.5-0.50.30.9
Ambulatory time before self-admin0.10.10.20.5-0.4-0.00.3
Ambulatory time after self-admin0.70.81.1-0.60.7-1.0-1.1
Total heroin consumption2.93.44.12.0-1.91.61.9
Area under the delay curve0.20.20.70.8-0.3-0.20.3
Delay disc. indifference point, 0s delay2.83.15.4-1.31.7-2.3-1.6
Delay disc. indifference point, 16s delay0.50.51.31.1-0.70.10.6
Delay disc. indifference point, 2s delay0.30.30.5-0.50.5-0.7-0.4
Delay disc. indifference point, 24s delay2.52.45.12.3-1.50.71.3
Delay disc. indifference point, 4s delay0.00.00.10.0-0.0-0.30.2
Delay disc. indifference point, 8s delay0.30.30.80.9-0.4-0.10.4
Delay discount exponential model param0.50.51.2-1.10.6-0.1-0.6
Delay discount hyperbolic model param0.40.40.9-1.00.6-0.1-0.6
Fecal boli incidents, locomotor time 10.30.30.40.6-0.60.50.4
Change in fecal boli incidents, locomotor task4.24.04.3-1.92.0-2.0-2.1
Time >=10cm from walls, locomotor time 10.10.10.10.10.1-0.3-0.3
Bouts of movement, locomotor time 12.12.43.31.8-1.71.31.3
Total resting periods, locomotor time 12.42.63.31.8-1.71.51.4
Rest time, locomotor task time 10.10.10.30.1-0.20.50.3
Distance moved, locomotor task time 11.21.31.6-1.01.1-1.3-1.3
Vertical activity count, locomotor time 10.60.61.0-0.50.7-1.0-0.9
Time >=10cm from walls, locomotor time 20.10.10.2-0.0-0.20.40.5
Bouts of movement, locomotor time 20.20.20.4-0.20.3-0.7-0.5
Total resting periods, locomotor time 20.00.00.1-0.00.0-0.3-0.2
Rest time, locomotor task time 21.61.82.31.3-1.31.21.5
Distance moved, locomotor task time 21.11.21.5-1.21.1-1.0-1.1
Vertical activity count, locomotor time 20.60.71.0-1.00.8-0.6-0.9
Weight adjusted by age0.00.00.1-0.30.00.20.1
Seeking ratio, delayed vs. immediate footshock0.10.20.4-0.60.30.3-0.3
Locomotion in novel chamber1.01.22.3-1.01.1-0.6-1.5
Locomotion in novel chamber post-restriction1.82.13.0-1.31.5-1.2-1.7
Progressive ratio0.10.10.4-0.4-0.00.60.1
Food seeking constrained by brief footshock4.15.08.31.5-2.12.92.3
Seeking ratio, punishment vs. effort0.60.81.11.0-0.90.61.0
Run reversals in cocaine runway, females0.10.10.10.00.2-0.4-0.2
Run reversals in cocaine runway, males0.30.30.60.8-0.50.40.2
Latency to leave start box in cocaine runway0.50.50.50.7-0.70.70.6
Latency to leave start box in cocaine runway, F0.70.71.10.9-0.80.61.0
Latency to leave start box in cocaine runway, M0.50.51.10.4-0.71.10.4
Cd content in liver0.00.00.00.0-0.0-0.0-0.0
Co content in liver5.36.26.92.6-2.52.22.6
Cu content in liver0.00.00.10.2-0.20.30.1
Fe content in liver0.10.10.2-0.30.10.4-0.2
K content in liver0.10.10.4-0.20.3-0.7-0.2
Mg content in liver0.20.30.5-0.40.4-0.7-0.3
Mn content in liver0.50.60.80.7-0.80.90.7
Na content in liver0.30.40.50.5-0.60.60.7
Rb content in liver0.00.00.0-0.10.1-0.1-0.1
Se content in liver0.40.40.7-0.90.7-0.4-0.6
Sr content in liver0.20.20.5-0.10.3-0.7-0.3
Zn content in liver1.41.61.8-1.21.2-1.3-1.2