Spns2

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 ENSRNOG00000057040 0.15 0.09 1.2e-09 0.07 0.06 0.06 0.06 1.5e-08 7.9e-07 4.8e-07 2.6e-07
2 Brain mRNA stability ENSRNOG00000057040 0.03 0.02 4.7e-03 0.02 0.02 0.01 0.02 2.7e-03 5.2e-03 2.3e-02 8.8e-03
3 Liver gene expression ENSRNOG00000057040 0.02 0.02 5.4e-03 0.01 0.01 0.01 0.01 1.1e-02 1.7e-02 2.2e-02 2.3e-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 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
BMI with tail0.20.81.2-0.50.9-1.1
BMI without tail0.40.91.5-0.61.0-1.2
Body weight0.41.72.50.61.5-1.6
Epididymis fat weight3.37.810.3-1.83.1-3.2
Glucose0.50.80.9-0.9-0.90.9
Heart weight0.81.21.4-0.91.2-1.2
Left kidney weight0.10.30.8-0.90.2-0.2
Right kidney weight0.10.10.4-0.60.1-0.1
Tail length0.82.33.40.51.8-1.8
Length with tail0.31.21.21.11.1-1.1
Length without tail0.40.81.10.61.1-1.0
Liver weight, left0.20.30.70.80.2-0.2
Liver weight, right0.71.21.8-0.31.3-1.3
Parametrial fat weight10.721.028.7-2.75.2-5.4
Retroperitoneal fat weight0.20.61.1-1.10.6-0.6
Intraocular pressure1.21.63.4-1.80.9-0.8
Extensor digitorum longus weight3.815.317.3-3.44.2-4.1
Soleus weight2.06.09.2-0.43.0-2.9
Tibialis anterior weight3.612.616.4-2.34.0-4.0
Tibia length0.51.53.92.0-0.50.5
Number of licking bursts0.20.30.40.3-0.60.6
Food consumed during 24 hour testing period0.60.71.31.1-0.60.6
Times rat made contact with spout1.51.71.81.3-1.31.3
Mean time between licks in bursts1.62.33.1-0.71.8-1.8
Mean num. licks in bursts0.10.10.20.4-0.10.1
Std. dev. time between licks in bursts0.60.70.9-0.51.0-1.0
Water consumed over 24 hours4.14.96.62.6-2.02.0
Indifference point 0 sec2.03.23.61.9-1.71.8
Indifference point AUC1.61.94.6-2.10.7-0.8
Indifference point function ln k5.88.212.53.5-2.42.5
Indifference point function log k5.88.212.53.5-2.42.5
Delay discounting total patch changes 0 sec1.42.22.41.5-1.41.5
Delay discounting total patch changes 12 sec0.81.12.0-1.40.9-0.8
Delay discounting total patch changes 18 sec0.30.41.0-1.00.4-0.4
Delay discounting total patch changes 24 sec0.30.41.2-1.10.0-0.0
Delay discounting total patch changes 6 sec0.91.43.7-1.90.6-0.6
Delay discounting time to switch 0 sec1.62.52.8-1.41.7-1.7
Delay discounting water rate 0 sec0.61.01.20.8-1.11.1
Delay discounting water rate 12 sec0.40.50.9-0.10.9-0.9
Delay discounting water rate 18 sec0.50.72.11.4-0.10.2
Delay discounting water rate 24 sec0.10.20.3-0.10.6-0.5
Delay discounting water rate 6 sec0.10.10.20.5-0.30.4
Locomotor activity0.71.21.5-0.91.2-1.1
Locomotor testing distance3.66.06.2-2.52.5-2.4
Locomotor testing rearing3.85.97.8-2.82.2-2.2
Light reinforcement 11.52.72.8-1.61.6-1.7
Light reinforcement 20.10.20.4-0.60.3-0.3
Reaction time number correct0.10.20.30.30.5-0.5
Reaction time mean minus median0.60.81.20.3-1.11.0
Reaction time mean minus median AUC0.10.20.30.1-0.50.5
Reaction time num false alarms1.21.72.20.9-1.41.5
Reaction time num false alarms AUC0.91.21.70.7-1.21.3
Reaction time trials correct on left0.10.20.30.30.5-0.5
Reaction time trials on left0.10.20.30.30.5-0.5
Reaction time mean0.30.40.60.3-0.80.6
Reaction time mean AUC0.60.81.20.3-1.11.0
Median of all reaction times0.10.10.20.1-0.50.3
Reaction time omissions0.40.50.6-0.80.6-0.7
Reaction time false alarm rate0.81.21.70.5-1.21.3
Reaction time premature initiation rate1.62.13.51.9-1.11.3
Reaction time premature initiations1.21.63.51.9-0.80.9
Std. dev. reaction times1.31.82.50.8-1.61.5
Reaction time trials completed0.10.20.30.30.5-0.5
Reaction time trials AUC0.10.20.20.30.5-0.4
Social response proportion1.41.54.42.1-0.10.1
Social responses1.52.03.1-0.41.8-1.6
Social time1.01.32.1-0.01.5-1.3
Conditioned locomotion0.60.71.10.3-1.11.0
Cocaine response after cond. corrected0.60.71.41.2-0.60.6
Cocaine response after cond. not corrected0.30.30.70.9-0.30.3
Cocaine response before conditioning0.81.01.1-0.91.0-1.0
Saline control response0.50.60.7-0.70.8-0.8
Condit. Reinf. active minus inactive responses0.60.71.31.2-0.60.6
Condit. Reinf. active-inactive response ratio1.01.01.31.2-0.91.0
Condit. Reinf. active responses0.20.30.60.8-0.30.4
Condit. Reinf. inactive responses0.10.20.2-0.50.4-0.3
Condit. Reinf. lever presses0.20.30.5-0.0-0.70.7
Condit. Reinf. lever reinforcers received0.20.20.40.6-0.30.4
Pavlov. Cond. lever latency1.52.02.9-0.61.7-1.7
Pavlov. Cond. magazine entry latency1.01.11.40.8-1.21.2
Pavlov. Cond. change in total contacts0.81.11.40.7-1.21.2
Pavlov. Cond. index score0.81.11.60.1-1.31.3
Pavlov. Cond. latency score0.91.21.80.0-1.31.3
Pavlov. Cond. lever contacts0.40.60.90.2-0.90.9
Pavlov. Cond. magazine entry number0.60.71.1-0.41.0-1.0
Pavlov. Cond. intertrial magazine entries1.01.21.6-0.71.3-1.3
Pavlov. Cond. lever-magazine prob. diff.0.91.21.70.2-1.31.3
Pavlov. Cond. response bias0.81.11.50.5-1.21.2
Conditioned reinforcement - actives1.21.11.4-0.91.2-1.2
Conditioned reinforcement - inactives2.02.32.8-1.71.4-1.5
Conditioned locomotion0.60.81.8-1.30.5-0.5
Intermittent access intake day 1-15 change1.21.23.1-1.80.5-0.5
Intermittent access intake escalation1.01.02.8-1.70.3-0.4
Intermittent access intake escalation 20.30.30.8-0.9-0.30.3
Intermitt. access day 1 inactive lever presses0.10.20.2-0.5-0.40.3
Intermitt. access day 15 inactive lever presses0.10.10.30.5-0.30.3
Intermitt. access escalation Index0.40.40.60.30.8-0.7
Intermittent access day 1 total infusions2.32.62.9-1.51.7-1.7
Intermittent access day 15 total infusions5.56.29.6-3.12.1-2.1
Intermittent access terminal intake (last 3 days)4.65.05.5-2.32.2-2.2
Intermittent access total infusions3.33.64.4-2.11.8-1.8
Intermittent access day 1 locomotion3.13.13.2-1.81.8-1.8
Intermittent access day 15 total locomotion1.81.93.3-1.81.1-1.2
Intermittent access total locomotion1.61.71.9-1.41.3-1.3
Intermittent access standard deviation4.34.69.3-3.01.5-1.5
Cocaine induced anxiety1.82.12.41.2-1.51.5
Post-drug Anxiety0.91.01.21.1-0.90.9
Baseline Anxiety0.60.60.8-0.60.9-0.8
Lifetime Intake4.85.46.4-2.52.2-2.2
Incentive Sensitization - Responses0.20.20.3-0.20.5-0.6
Incentive Sensitization - Breakpoint0.20.20.3-0.20.5-0.5
Progressive ratio test 1 active lever presses1.51.61.9-1.01.4-1.4
Progressive ratio test 1 breakpoint1.92.02.6-0.91.6-1.6
Progressive ratio test 1 inactive lever presses2.12.22.7-1.61.4-1.5
Progressive ratio test 2 active lever presses1.01.11.3-0.81.1-1.1
Progressive ratio test 2 breakpoint0.60.70.9-0.60.9-0.9
Progressive ratio test 2 inactive lever presses2.73.23.2-1.81.7-1.8
Total sessions with >9 infusions3.23.53.8-2.01.9-1.8
Short access day 1 total inactive lever presses0.30.30.5-0.70.4-0.5
Short access day 10 total inactive lever presses0.10.10.20.5-0.20.2
Short access day 1 total infusions4.14.38.1-2.81.6-1.5
Short access day 10 total infusions2.02.22.2-1.41.5-1.5
Short access total infusions4.95.47.7-2.82.1-2.0
Short access day 1 locomotion1.31.32.8-1.70.8-0.8
Short access day 10 total locomotion1.11.21.9-1.40.9-0.9
Short access total locomotion1.11.22.0-1.40.9-0.8
Compulsive drug intake1.21.22.01.4-0.90.9
One hour access (0.3 mA shock)1.92.22.3-1.51.4-1.5
One hour access (shock baseline)3.03.54.0-2.01.8-1.8
Number of responses in last shaping day0.70.72.0-1.40.3-0.4
Context. condit. distance diff. score1.11.31.9-0.51.4-1.4
Locomotion velocity, session 11.51.62.5-0.21.6-1.5
Locomotion distance, session 10.91.11.2-0.91.1-1.1
Locomotion velocity, session 20.30.41.01.0-0.30.3
Locomotion distance, session 20.10.20.30.20.5-0.6
Locomotion velocity, session 32.02.33.11.0-1.71.8
Locomotion distance, session 30.10.10.10.4-0.40.4
Stereotopy head waving bouts, day 30.00.00.00.2-0.00.0
Stereotopy head waving duration, day 30.30.41.2-1.1-0.00.1
Locomotion velocity, session 70.10.10.1-0.30.2-0.3
Locomotion distance, session 70.00.00.00.2-0.0-0.0
Stereotopy head waving bouts, day 71.11.21.6-0.71.3-1.2
Stereotopy head waving duration, day 71.21.52.0-0.81.4-1.3
Locomotion velocity, session 81.21.41.8-0.81.3-1.4
Locomotion distance, session 81.32.03.1-0.21.7-1.7
Degree of sensitization distance0.70.70.9-0.60.9-0.9
Degree of sensitization stereotypy1.01.11.7-0.31.3-1.3
Condit. Reinf. active minus inactive responses1.21.32.11.4-0.91.0
Condit. Reinf. active-inactive response ratio0.80.81.21.1-0.80.8
Condit. Reinf. active responses0.81.01.71.3-0.80.8
Condit. Reinf. inactive responses0.00.00.10.2-0.20.1
Incentive salience index mean1.51.83.41.8-1.01.0
Condit. Reinf. lever presses1.62.25.22.3-0.80.8
Time in familiar zone, hab. session 10.10.10.3-0.60.1-0.1
Time in novel zone, hab. session 10.30.30.70.8-0.30.3
Total zone transitions, hab. session 15.07.17.9-2.82.6-2.6
Total locomotion distance, hab. session 10.30.50.6-0.60.7-0.8
Locomotion velocity, hab. session 10.40.60.6-0.80.8-0.8
Time in familiar zone, hab. session 20.20.20.40.6-0.20.3
Time in novel zone, hab. session 20.20.20.30.1-0.60.5
Total zone transitions, hab. session 22.53.23.6-1.61.9-1.9
Total locomotion distance, hab. session 20.40.50.6-0.70.8-0.8
Locomotion velocity, hab. session 20.50.60.7-0.80.8-0.8
Novel to familiar place preference ratio0.10.10.2-0.40.0-0.1
Novelty place preference0.00.00.0-0.10.0-0.1
Time in novel zone, NPP test0.00.00.00.10.1-0.1
Total zone transitions, NPP test3.24.64.7-2.22.1-2.1
Total locomotion distance, NPP test0.30.40.9-0.90.3-0.3
Locomotion velocity, NPP test0.20.30.9-1.0-0.00.0
Pavlov. Cond. lever latency2.53.24.0-2.01.6-1.7
Pavlov. Cond. magazine entry latency3.64.67.22.7-1.81.8
Pavlov. Cond. change in total contacts2.82.93.31.5-1.81.8
Pavlov. Cond. index score2.43.15.12.3-1.41.5
Pavlov. Cond. latency score2.63.35.92.4-1.41.4
Pavlov. Cond. lever contacts1.82.13.01.7-1.31.3
Pavlov. Cond. magazine entry number2.02.53.3-1.81.4-1.5
Pavlov. Cond. intertrial magazine entries3.44.05.2-2.31.8-1.9
Pavlov. Cond. lever-magazine prob. diff.2.32.94.52.1-1.41.5
Pavlov. Cond. response bias2.42.94.02.0-1.51.5
Bone: apparent density0.30.50.50.70.7-0.7
Bone surface1.01.72.4-0.61.5-1.5
Bone volume1.42.43.2-0.91.8-1.8
Bone: connectivity density0.61.01.40.21.2-1.2
Bone: cortical apparent density1.21.52.10.7-1.41.4
Bone: cortical area0.10.20.2-0.5-0.40.4
Bone: cortical porosity1.71.83.41.8-1.01.0
Bone: cortical porosity1.61.82.91.7-1.11.1
Bone: cortical thickness2.23.64.61.3-2.12.1
Bone: cortical thickness4.45.16.02.4-2.22.2
Bone: cortical tissue density1.01.31.70.7-1.31.3
Bone: elastic displacement0.30.30.4-0.2-0.60.7
Bone: elastic work1.21.62.40.5-1.51.5
Bone: endosteal estimation3.26.89.5-3.12.3-2.3
Bone: endosteal perimeter3.47.09.0-3.02.4-2.5
Bone: final force0.61.01.0-1.01.0-1.0
Bone: final moment0.61.01.3-1.11.0-0.9
Bone: marrow area3.16.79.3-3.12.3-2.3
Bone: maximum diameter0.71.22.7-1.60.7-0.7
Bone: maximum force0.71.11.4-1.21.0-1.0
Bone: maximum moment0.81.31.9-1.41.0-1.0
Bone: minimum diameter2.13.94.8-2.21.9-1.9
Bone: periosteal estimation1.42.94.9-2.21.4-1.4
Bone: periosteal perimeter0.91.52.6-1.61.0-1.0
Bone: post-yield work0.40.60.9-0.00.9-0.9
Bone: stiffness1.93.04.3-0.72.0-2.1
Bone: tissue strength0.10.10.3-0.5-0.10.1
Bone: trabecular number0.30.41.11.10.1-0.1
Bone: trabecular spacing0.20.20.7-0.80.1-0.1
Bone: trabecular thickness0.10.10.20.10.5-0.4
Bone: trabecular tissue density1.72.43.50.6-1.91.8
Breakpoint value in progressive ratio session0.20.20.40.10.5-0.6
Distance traveled before self-admin0.40.51.3-1.20.2-0.2
Distance traveled after self-admin7.07.79.2-3.02.6-2.6
Delta time in closed arm before/after self-admin0.80.81.5-1.20.7-0.6
Delta time in open arm before/after self-admin0.90.91.2-0.61.0-1.1
Diff in mean of infusions in LGA sessions0.40.41.21.1-0.20.1
Extinction: sum of active levers before priming0.90.91.5-0.01.2-1.2
Active lever presses in extinction session 61.01.01.3-0.71.1-1.1
Delta distance traveled before/after self-admin4.24.55.8-1.62.3-2.4
Delta ambulatory time before/after self-admin2.83.13.9-1.22.0-2.0
Time in closed arm before self-admin0.50.61.61.3-0.30.3
Time in closed arm after self-admin0.00.00.1-0.0-0.20.3
Time in open arm before self-admin0.91.01.5-0.1-1.21.2
Time in open arm after self-admin0.60.61.6-1.30.3-0.5
Sum of active levers in priming session hrs 5-60.40.40.80.90.3-0.4
Time to tail flick, vehicle, before self-admin0.20.20.60.80.1-0.3
Time to tail flick, vehicle, after self-admin0.10.10.2-0.40.4-0.3
Time to tail flick, test, before self-admin3.93.85.62.4-1.71.7
Time to tail flick, test, after self-admin0.80.81.41.2-0.60.8
Delta time to tail flick, vehicle, before/after SA0.90.92.1-1.50.6-0.4
Delta time to tail flick, test, before/after SA1.71.52.2-1.51.1-1.1
Ambulatory time before self-admin0.20.20.5-0.7-0.20.1
Ambulatory time after self-admin3.53.84.4-1.72.1-2.1
Total heroin consumption0.60.71.41.20.6-0.6
Area under the delay curve0.00.10.1-0.4-0.10.1
Delay disc. indifference point, 0s delay2.22.42.4-1.51.5-1.5
Delay disc. indifference point, 16s delay0.40.51.0-1.00.4-0.4
Delay disc. indifference point, 2s delay0.10.20.20.2-0.50.5
Delay disc. indifference point, 24s delay1.01.01.10.8-1.01.0
Delay disc. indifference point, 4s delay0.50.50.6-0.80.7-0.7
Delay disc. indifference point, 8s delay0.00.00.0-0.10.0-0.0
Delay discount exponential model param0.10.10.10.00.3-0.3
Delay discount hyperbolic model param0.00.00.00.10.2-0.2
Fecal boli incidents, locomotor time 10.40.40.50.6-0.60.7
Change in fecal boli incidents, locomotor task0.60.60.60.7-0.80.8
Time >=10cm from walls, locomotor time 10.40.40.50.7-0.70.6
Bouts of movement, locomotor time 10.70.81.21.1-0.70.8
Total resting periods, locomotor time 12.02.22.71.6-1.41.4
Rest time, locomotor task time 10.60.70.90.5-1.00.9
Distance moved, locomotor task time 11.21.31.4-1.11.2-1.2
Vertical activity count, locomotor time 11.21.31.5-0.91.2-1.2
Time >=10cm from walls, locomotor time 20.90.91.10.9-1.00.9
Bouts of movement, locomotor time 21.31.41.51.2-1.21.2
Total resting periods, locomotor time 20.90.91.21.1-0.90.9
Rest time, locomotor task time 21.01.21.31.0-1.11.1
Distance moved, locomotor task time 22.02.43.0-1.71.4-1.4
Vertical activity count, locomotor time 20.70.80.9-0.90.9-0.9
Weight adjusted by age3.03.33.7-1.71.9-1.8
Seeking ratio, delayed vs. immediate footshock0.60.70.90.4-1.00.9
Locomotion in novel chamber0.60.71.9-1.40.2-0.3
Locomotion in novel chamber post-restriction0.30.40.60.4-0.70.7
Progressive ratio0.50.61.2-1.10.6-0.5
Food seeking constrained by brief footshock0.20.20.30.4-0.50.5
Seeking ratio, punishment vs. effort1.01.21.91.4-1.01.0
Run reversals in cocaine runway, females0.10.10.10.1-0.30.3
Run reversals in cocaine runway, males1.91.83.1-1.81.0-1.1
Latency to leave start box in cocaine runway0.10.10.20.3-0.40.5
Latency to leave start box in cocaine runway, F0.20.20.30.6-0.30.4
Latency to leave start box in cocaine runway, M0.20.20.3-0.50.5-0.4
Cd content in liver1.21.31.8-0.91.2-1.3
Co content in liver0.20.30.4-0.30.6-0.6
Cu content in liver3.03.64.22.0-1.91.8
Fe content in liver0.20.20.60.80.2-0.2
K content in liver0.10.10.40.60.2-0.2
Mg content in liver0.00.00.0-0.2-0.10.1
Mn content in liver1.51.82.61.6-1.21.2
Na content in liver0.10.10.3-0.5-0.10.1
Rb content in liver0.81.01.1-1.01.0-1.0
Se content in liver1.11.41.80.8-1.31.3
Sr content in liver2.01.92.2-1.11.5-1.5
Zn content in liver0.20.20.30.3-0.50.5