Stmn2

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 LHb gene expression Stmn2 0.29 0.15 2.2e-03 0.01 0.04 -0.01 0 1.8e-01 5.2e-02 6.1e-01 2.7e-01
2 Adipose gene expression Stmn2 0.08 0.06 4.6e-06 0.04 0.04 0.04 0.03 3.9e-05 4.4e-05 7.9e-05 2.0e-04
3 Brain gene expression Stmn2 0.07 0.04 2.7e-04 0.03 0.02 0.02 0.02 1.9e-03 2.5e-03 9.2e-03 2.8e-03

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 density0.20.30.40.1-0.6-0.6
Area under the delay curve0.20.20.4-0.00.60.5
BMI with tail1.54.89.9-3.2-1.6-1.3
BMI without tail1.53.18.9-3.0-0.7-0.2
Body weight0.93.86.4-2.5-1.4-1.7
Weight adjusted by age0.10.10.10.20.40.3
Bone surface0.81.41.9-0.7-1.4-1.4
Bone volume0.61.01.6-0.4-1.2-1.1
Breakpoint value in progressive ratio session0.10.20.3-0.5-0.1-0.5
Number of licking bursts0.00.00.0-0.00.20.2
Context. condit. distance diff. score0.30.30.50.30.60.7
Locomotion velocity, session 10.00.10.1-0.4-0.20.0
Locomotion distance, session 11.51.92.6-1.2-1.3-1.6
Locomotion velocity, session 21.41.62.0-1.4-1.1-1.3
Locomotion distance, session 23.54.95.8-1.9-2.3-2.4
Locomotion velocity, session 30.40.50.70.80.80.5
Locomotion distance, session 30.80.91.8-0.4-0.8-1.3
Stereotopy head waving bouts, day 30.10.10.20.30.10.5
Stereotopy head waving duration, day 30.50.61.40.20.61.2
Locomotion velocity, session 74.65.07.5-0.6-2.7-2.7
Locomotion distance, session 71.01.22.30.4-1.1-1.5
Stereotopy head waving bouts, day 70.30.30.6-0.8-0.4-0.6
Stereotopy head waving duration, day 70.10.10.1-0.40.30.1
Locomotion velocity, session 80.91.11.9-1.4-0.8-0.9
Locomotion distance, session 80.81.11.4-1.2-1.0-1.1
Degree of sensitization distance0.10.10.10.3-0.3-0.0
Degree of sensitization stereotypy0.20.20.6-0.80.1-0.4
Conditioned locomotion0.30.30.5-0.4-0.7-0.5
Cocaine response after cond. corrected0.30.30.80.90.3-0.0
Cocaine response after cond. not corrected0.70.82.01.40.60.1
Cocaine response before conditioning0.10.10.30.50.1-0.2
Saline control response0.50.61.4-0.4-0.7-1.2
Bone: connectivity density0.20.40.70.1-0.7-0.8
Bone: cortical apparent density0.00.00.1-0.3-0.10.2
Bone: cortical area0.40.61.4-1.2-0.6-0.1
Bone: cortical porosity0.10.20.3-0.3-0.30.6
Bone: cortical porosity0.20.20.5-0.2-0.30.7
Bone: cortical thickness0.20.30.7-0.9-0.3-0.0
Bone: cortical thickness0.50.61.2-1.10.10.7
Bone: cortical tissue density0.00.00.0-0.2-0.00.2
Condit. Reinf. active minus inactive responses5.35.97.0-2.6-2.6-2.0
Condit. Reinf. active-inactive response ratio7.98.610.4-3.0-3.2-2.5
Condit. Reinf. active responses4.55.56.6-2.5-2.6-1.9
Condit. Reinf. inactive responses0.10.10.2-0.4-0.10.0
Incentive salience index mean5.56.67.8-2.8-2.8-2.1
Condit. Reinf. lever presses3.03.95.2-2.3-2.1-1.6
Condit. Reinf. active minus inactive responses1.61.92.7-0.8-1.6-1.6
Condit. Reinf. active-inactive response ratio2.62.73.4-1.3-1.8-1.8
Condit. Reinf. active responses1.52.03.1-0.4-1.7-1.8
Condit. Reinf. inactive responses0.20.20.30.2-0.5-0.6
Condit. Reinf. lever presses0.40.61.2-0.1-0.6-1.1
Condit. Reinf. lever reinforcers received1.31.82.8-0.3-1.5-1.7
Conditioned reinforcement - actives0.10.10.30.5-0.3-0.3
Conditioned reinforcement - inactives0.10.20.20.3-0.5-0.4
Conditioned locomotion0.00.00.10.3-0.0-0.1
Patch foraging indifference point 0 sec0.40.61.31.20.70.1
Patch foraging indifference point AUC0.00.00.10.30.2-0.1
Delay disc. indifference point, 0s delay0.30.30.60.40.70.5
Delay disc. indifference point, 16s delay0.10.10.2-0.4-0.0-0.1
Delay disc. indifference point, 2s delay1.01.21.5-1.2-0.9-1.1
Delay disc. indifference point, 24s delay0.10.10.10.30.30.3
Delay disc. indifference point, 4s delay0.40.50.8-0.40.90.7
Delay disc. indifference point, 8s delay1.41.51.91.01.41.2
Indifference point function ln k0.30.41.1-0.10.51.0
Indifference point function log k0.30.41.1-0.10.51.0
Patch foraging total patch changes 0 sec0.50.81.51.21.00.3
Patch foraging total patch changes 12 sec1.01.32.21.51.20.4
Patch foraging total patch changes 18 sec0.10.20.30.40.5-0.2
Patch foraging total patch changes 24 sec0.20.30.50.70.6-0.1
Patch foraging total patch changes 6 sec0.30.50.80.80.9-0.1
Patch foraging time to switch 0 sec2.33.54.2-2.0-1.9-1.7
Patch foraging water rate 0 sec1.01.71.81.21.31.4
Patch foraging water rate 12 sec0.10.20.30.60.40.3
Patch foraging water rate 18 sec0.00.00.0-0.0-0.1-0.1
Patch foraging water rate 24 sec0.60.91.20.71.01.1
Patch foraging water rate 6 sec0.91.31.51.11.11.2
Seeking ratio, delayed vs. immediate footshock0.70.82.51.60.10.3
Distance traveled before self-admin0.10.10.2-0.50.10.3
Distance traveled after self-admin0.30.30.6-0.10.80.6
Extensor digitorum longus weight2.810.925.4-5.0-2.3-1.5
Bone: elastic displacement0.20.30.6-0.5-0.7-0.2
Bone: elastic work0.30.40.6-0.7-0.8-0.5
Bone: endosteal estimation1.73.64.4-2.0-2.1-1.6
Bone: endosteal perimeter0.51.01.3-0.9-1.1-1.0
Epididymis fat weight0.20.50.70.90.70.3
Delta time in closed arm before/after self-admin0.10.10.1-0.40.1-0.2
Delta time in open arm before/after self-admin0.00.00.10.3-0.10.1
Diff in mean of infusions in LGA sessions1.01.11.9-1.4-0.8-0.8
Delay discount exponential model param0.20.20.4-0.1-0.6-0.6
Extinction: sum of active levers before priming0.20.20.40.30.60.6
Active lever presses in extinction session 60.10.10.1-0.0-0.2-0.4
Bone: final force1.11.82.5-1.6-1.1-1.3
Bone: final moment0.91.42.0-1.4-1.0-1.1
Food consumed during 24 hour testing period0.20.30.4-0.30.50.7
Glucose0.10.10.2-0.30.40.4
Heart weight1.82.62.61.61.61.6
Delay discount hyperbolic model param0.20.20.30.1-0.6-0.4
Intermittent access intake day 1-15 change0.50.51.21.10.30.4
Intermittent access intake escalation0.20.20.60.80.10.2
Intermittent access intake escalation 20.50.51.31.10.20.2
Intermitt. access day 1 inactive lever presses1.11.21.50.81.21.2
Intermitt. access day 15 inactive lever presses4.75.16.52.52.22.0
Intermitt. access escalation Index0.90.81.00.61.00.9
Intermittent access day 1 total infusions0.50.50.80.5-0.7-0.9
Intermittent access day 15 total infusions0.50.61.31.2-0.4-0.4
Intermittent access terminal intake (last 3 days)0.70.72.21.50.0-0.1
Intermittent access total infusions0.50.51.11.1-0.4-0.6
Intermittent access day 1 locomotion0.10.10.10.3-0.2-0.3
Intermittent access day 15 total locomotion0.10.20.20.0-0.5-0.5
Intermittent access total locomotion0.20.20.30.4-0.4-0.6
Intermittent access standard deviation0.60.71.71.30.40.4
Left kidney weight1.13.03.91.82.01.4
Right kidney weight1.54.25.62.12.41.6
Cocaine induced anxiety0.60.70.80.80.90.8
Post-drug Anxiety0.20.20.30.10.60.6
Baseline Anxiety0.10.10.1-0.3-0.4-0.2
Tail length0.10.20.6-0.80.0-0.1
Length with tail0.10.51.4-0.2-0.2-1.2
Length without tail0.40.92.10.5-0.6-1.5
Times rat made contact with spout0.10.10.40.20.60.1
Lifetime Intake0.50.61.41.2-0.4-0.5
Liver weight, left0.40.61.4-1.2-0.4-0.5
Liver weight, right0.61.01.20.91.11.0
Locomotor activity0.10.20.7-0.8-0.0-0.0
Locomotor testing distance0.00.10.1-0.40.2-0.0
Locomotor testing rearing1.01.62.11.31.50.9
Locomotion in novel chamber1.82.23.0-1.7-1.3-1.4
Locomotion in novel chamber post-restriction0.40.40.50.60.70.7
Fecal boli incidents, locomotor time 10.20.20.4-0.2-0.6-0.5
Change in fecal boli incidents, locomotor task0.30.30.50.70.50.3
Time >=10cm from walls, locomotor time 10.10.10.10.20.30.1
Bouts of movement, locomotor time 15.15.66.32.12.52.5
Total resting periods, locomotor time 12.52.72.91.61.71.7
Rest time, locomotor task time 11.01.11.21.11.11.0
Distance moved, locomotor task time 10.60.71.0-1.0-0.7-0.8
Vertical activity count, locomotor time 11.41.42.3-1.5-0.9-1.1
Time >=10cm from walls, locomotor time 20.10.10.1-0.4-0.1-0.2
Bouts of movement, locomotor time 24.85.16.31.72.52.4
Total resting periods, locomotor time 26.67.18.62.12.92.9
Rest time, locomotor task time 22.12.43.01.11.71.7
Distance moved, locomotor task time 20.70.81.0-0.8-0.8-1.0
Vertical activity count, locomotor time 23.94.25.4-2.3-1.7-2.1
Light reinforcement 10.10.10.20.20.30.5
Light reinforcement 21.01.32.1-1.5-1.0-1.0
Bone: marrow area1.73.84.5-2.1-2.1-1.6
Bone: maximum diameter0.20.40.9-1.0-0.4-0.1
Bone: maximum force0.30.51.1-1.1-0.5-0.3
Bone: maximum moment0.20.40.9-0.9-0.4-0.2
Mean time between licks in bursts1.41.92.7-1.0-1.6-1.5
Mean num. licks in bursts0.00.00.00.10.2-0.1
Cd content in liver0.50.61.10.31.00.7
Co content in liver2.63.04.71.01.82.2
Cu content in liver0.70.92.11.40.70.0
Fe content in liver1.72.02.8-1.1-1.7-1.4
K content in liver0.20.20.30.5-0.1-0.6
Mg content in liver0.80.81.5-0.2-0.9-1.2
Mn content in liver0.10.10.2-0.0-0.30.5
Na content in liver0.10.10.20.40.5-0.2
Rb content in liver0.30.31.00.20.11.0
Se content in liver0.20.20.40.60.6-0.1
Sr content in liver0.40.40.8-0.4-0.3-0.9
Zn content in liver1.31.42.21.51.01.0
Bone: minimum diameter4.07.49.2-3.0-3.0-2.0
Time in familiar zone, hab. session 12.01.93.31.21.81.0
Time in novel zone, hab. session 10.10.10.20.2-0.4-0.2
Total zone transitions, hab. session 11.21.72.8-0.9-1.2-1.7
Total locomotion distance, hab. session 11.31.92.5-1.2-1.6-1.3
Locomotion velocity, hab. session 11.92.73.5-1.6-1.9-1.5
Time in familiar zone, hab. session 23.33.44.02.01.91.7
Time in novel zone, hab. session 21.71.71.8-1.3-1.3-1.2
Total zone transitions, hab. session 20.10.20.5-0.0-0.1-0.7
Total locomotion distance, hab. session 20.50.70.9-0.8-1.0-0.8
Locomotion velocity, hab. session 20.50.70.9-0.7-0.9-0.9
Novel to familiar place preference ratio0.20.20.3-0.5-0.00.5
Novelty place preference0.30.30.7-0.20.30.8
Time in novel zone, NPP test0.50.51.2-0.10.61.1
Total zone transitions, NPP test0.30.41.0-0.4-0.4-1.0
Total locomotion distance, NPP test0.40.50.6-0.7-0.7-0.7
Locomotion velocity, NPP test0.50.81.0-0.7-0.9-1.0
Intraocular pressure0.71.01.8-1.3-0.5-0.9
Delta distance traveled before/after self-admin0.00.00.10.10.30.1
Delta ambulatory time before/after self-admin0.30.40.50.70.70.4
Parametrial fat weight0.10.10.20.20.40.4
Pavlov. Cond. lever latency2.83.53.81.91.91.8
Pavlov. Cond. magazine entry latency0.60.81.1-1.1-0.9-0.7
Pavlov. Cond. change in total contacts3.43.65.1-2.3-1.9-1.5
Pavlov. Cond. index score1.31.72.3-1.5-1.3-1.1
Pavlov. Cond. latency score1.41.72.2-1.5-1.3-1.1
Pavlov. Cond. lever contacts4.35.15.3-2.2-2.3-2.2
Pavlov. Cond. magazine entry number0.40.51.21.10.50.3
Pavlov. Cond. intertrial magazine entries0.40.51.21.10.50.3
Pavlov. Cond. lever-magazine prob. diff.1.11.32.0-1.4-1.1-0.9
Pavlov. Cond. response bias2.12.53.3-1.8-1.5-1.4
Pavlov. Cond. lever latency0.20.20.3-0.6-0.20.5
Pavlov. Cond. magazine entry latency0.80.92.0-0.6-0.6-1.4
Pavlov. Cond. change in total contacts1.92.64.3-1.2-1.5-2.1
Pavlov. Cond. index score0.91.22.5-0.6-0.8-1.6
Pavlov. Cond. latency score0.60.71.9-0.3-0.5-1.4
Pavlov. Cond. lever contacts0.20.20.50.3-0.2-0.7
Pavlov. Cond. magazine entry number1.11.42.60.90.81.6
Pavlov. Cond. intertrial magazine entries0.20.30.5-0.7-0.70.2
Pavlov. Cond. lever-magazine prob. diff.0.70.92.1-0.4-0.6-1.4
Pavlov. Cond. response bias1.01.32.4-0.6-1.1-1.6
Time in closed arm before self-admin0.40.51.01.00.40.5
Time in closed arm after self-admin0.40.40.70.40.80.6
Time in open arm before self-admin1.41.51.5-1.2-1.2-1.2
Time in open arm after self-admin0.80.91.0-1.0-1.0-0.8
Bone: periosteal estimation2.04.15.8-2.4-2.1-1.5
Bone: periosteal perimeter0.30.50.9-1.0-0.8-0.2
Bone: post-yield work1.42.02.31.51.41.2
Progressive ratio test 1 active lever presses1.51.53.11.80.90.8
Progressive ratio test 1 breakpoint1.11.12.51.60.70.7
Progressive ratio test 1 inactive lever presses0.50.50.80.90.60.6
Progressive ratio test 2 active lever presses0.20.30.40.7-0.4-0.5
Progressive ratio test 2 breakpoint0.30.40.50.4-0.6-0.7
Progressive ratio test 2 inactive lever presses0.60.61.31.10.60.5
Incentive Sensitization - Responses1.41.42.2-0.4-1.4-1.5
Incentive Sensitization - Breakpoint1.01.11.7-0.3-1.2-1.3
Sum of active levers in priming session hrs 5-60.10.10.20.0-0.1-0.4
Progressive ratio0.50.60.70.60.80.8
Food seeking constrained by brief footshock6.17.68.6-2.9-2.7-2.6
Seeking ratio, punishment vs. effort4.35.35.7-2.1-2.4-2.4
Retroperitoneal fat weight0.00.10.10.30.0-0.3
Reaction time number correct0.10.10.20.00.2-0.4
Reaction time mean minus median0.60.81.50.40.91.2
Reaction time mean minus median AUC0.20.30.50.00.60.7
Reaction time num false alarms1.62.23.3-1.0-1.8-1.6
Reaction time num false alarms AUC1.01.42.1-0.6-1.5-1.3
Reaction time trials correct on left0.10.10.20.00.2-0.4
Reaction time trials on left0.10.10.2-0.00.1-0.5
Reaction time mean0.50.71.2-1.1-0.9-0.3
Reaction time mean AUC0.50.71.3-1.1-0.9-0.2
Median of all reaction times1.41.92.6-1.6-1.5-0.9
Reaction time omissions0.10.10.1-0.4-0.20.3
Reaction time false alarm rate0.40.61.1-0.4-1.1-0.7
Reaction time premature initiation rate1.62.22.61.51.31.6
Reaction time premature initiations1.41.92.11.41.41.3
Std. dev. reaction times0.30.41.00.10.51.0
Reaction time trials completed0.10.10.2-0.00.1-0.5
Reaction time trials AUC0.10.10.4-0.2-0.1-0.6
Run reversals in cocaine runway, females1.41.42.4-1.5-1.0-0.9
Run reversals in cocaine runway, males1.91.83.0-1.7-1.1-1.1
Latency to leave start box in cocaine runway0.10.10.20.50.20.1
Latency to leave start box in cocaine runway, F1.21.32.11.51.00.9
Latency to leave start box in cocaine runway, M1.11.01.1-1.0-1.0-1.1
Std. dev. time between licks in bursts0.20.20.4-0.3-0.6-0.3
Total sessions with >9 infusions0.70.71.71.30.60.4
Short access day 1 total inactive lever presses0.80.91.71.30.60.7
Short access day 10 total inactive lever presses1.11.21.50.91.21.1
Short access day 1 total infusions0.50.61.51.20.40.2
Short access day 10 total infusions1.11.23.21.80.50.4
Short access total infusions0.60.71.91.4-0.1-0.4
Short access day 1 locomotion0.90.91.20.91.10.8
Short access day 10 total locomotion0.00.00.1-0.1-0.0-0.3
Short access total locomotion0.30.30.50.70.50.3
One hour access (0.3 mA shock)0.30.30.40.5-0.6-0.6
Compulsive drug intake2.82.93.9-2.0-1.5-1.6
One hour access (shock baseline)1.41.63.71.90.70.8
Social response proportion1.31.51.80.91.31.4
Social responses2.73.54.71.22.22.0
Social time1.21.62.01.41.40.9
Soleus weight0.20.61.6-1.3-0.30.1
Bone: stiffness0.10.10.2-0.10.40.5
Tibialis anterior weight5.217.733.0-5.7-3.5-2.8
Time to tail flick, vehicle, before self-admin0.10.10.30.2-0.5-0.2
Time to tail flick, vehicle, after self-admin0.60.61.0-0.1-0.9-1.0
Time to tail flick, test, before self-admin0.20.20.30.40.30.5
Time to tail flick, test, after self-admin1.01.01.61.30.90.8
Delta time to tail flick, vehicle, before/after SA0.40.40.80.0-0.6-0.9
Delta time to tail flick, test, before/after SA1.00.91.00.91.01.0
Tibia length0.41.12.01.41.10.2
Ambulatory time before self-admin0.10.10.1-0.40.00.2
Ambulatory time after self-admin0.10.10.3-0.00.50.3
Bone: tissue strength0.60.61.31.20.70.1
Total heroin consumption0.10.10.1-0.2-0.2-0.3
Bone: trabecular number0.10.10.20.1-0.4-0.5
Bone: trabecular spacing0.00.10.1-0.4-0.2-0.0
Bone: trabecular thickness0.10.10.10.4-0.2-0.3
Bone: trabecular tissue density1.11.62.21.01.51.2
Water consumed over 24 hours0.10.10.2-0.20.40.1
Number of responses in last shaping day0.60.60.80.50.90.9