Kdm2a

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 RMTg alternative TSS NM_001108515.1 0.11 0.08 3.1e-03 0.13 0.11 0.12 0.13 2.2e-04 9.7e-04 3.8e-04 2.3e-04
2 RMTg alternative TSS NM_001108515.1 0.1 0.07 6.7e-03 0.12 0.09 0.1 0.12 4.6e-04 2.0e-03 1.2e-03 5.1e-04
3 RMTg isoform ratio NM_001108515.1 0.11 0.08 3.5e-03 0.12 0.09 0.05 0.11 3.8e-04 2.4e-03 1.8e-02 9.8e-04
4 NAcc intron excision ratio chr1_211108449_211109882 0.02 0.02 3.7e-03 0.01 0.02 0.02 0.02 1.1e-02 1.3e-03 6.0e-04 1.0e-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 4
Bone: apparent density1.42.54.8-1.3-1.3-1.32.2
Area under the delay curve0.91.41.5-1.2-1.2-1.21.0
BMI with tail1.03.49.9-1.1-1.1-1.13.1
BMI without tail0.10.72.3-0.4-0.4-0.41.5
Body weight0.31.51.81.31.31.30.7
Weight adjusted by age0.61.82.41.51.51.5-0.2
Bone surface0.61.34.6-0.4-0.4-0.42.2
Bone volume0.91.84.7-0.9-0.9-0.92.2
Breakpoint value in progressive ratio session0.50.91.21.11.11.10.1
Number of licking bursts0.00.00.1-0.0-0.0-0.00.4
Context. condit. distance diff. score0.20.30.3-0.6-0.6-0.6-0.1
Locomotion velocity, session 10.10.20.20.50.50.50.1
Locomotion distance, session 10.70.91.7-0.8-0.8-0.81.3
Locomotion velocity, session 20.50.70.80.90.90.90.3
Locomotion distance, session 20.20.20.6-0.3-0.3-0.30.8
Locomotion velocity, session 30.70.81.6-0.7-0.7-0.71.3
Locomotion distance, session 30.10.10.40.10.10.10.7
Stereotopy head waving bouts, day 30.91.11.2-1.0-1.0-1.01.1
Stereotopy head waving duration, day 31.31.61.9-1.4-1.4-1.40.9
Locomotion velocity, session 70.80.91.3-0.8-0.8-0.81.2
Locomotion distance, session 70.00.00.10.10.10.10.3
Stereotopy head waving bouts, day 70.91.12.8-0.7-0.7-0.71.7
Stereotopy head waving duration, day 70.60.72.6-0.3-0.3-0.31.6
Locomotion velocity, session 80.70.91.11.01.01.0-0.4
Locomotion distance, session 80.20.30.4-0.6-0.6-0.60.4
Degree of sensitization distance0.20.20.2-0.4-0.4-0.40.4
Degree of sensitization stereotypy0.30.41.30.20.20.21.1
Conditioned locomotion2.22.62.91.71.71.7-1.3
Cocaine response after cond. corrected0.00.00.0-0.2-0.2-0.2-0.2
Cocaine response after cond. not corrected0.20.20.3-0.5-0.5-0.50.2
Cocaine response before conditioning0.20.20.4-0.4-0.4-0.40.6
Saline control response0.60.81.11.01.01.00.0
Bone: connectivity density0.71.13.4-0.6-0.6-0.61.8
Bone: cortical apparent density0.50.80.90.90.90.9-0.8
Bone: cortical area0.50.80.80.90.90.9-0.8
Bone: cortical porosity0.10.10.3-0.2-0.2-0.20.5
Bone: cortical porosity0.00.00.00.10.10.10.2
Bone: cortical thickness5.18.69.73.13.13.1-2.2
Bone: cortical thickness2.12.53.01.71.71.7-1.1
Bone: cortical tissue density0.71.11.21.11.11.1-0.9
Condit. Reinf. active minus inactive responses0.20.30.8-0.2-0.2-0.20.9
Condit. Reinf. active-inactive response ratio0.30.30.6-0.5-0.5-0.50.8
Condit. Reinf. active responses0.10.10.3-0.2-0.2-0.20.5
Condit. Reinf. inactive responses0.00.00.0-0.1-0.1-0.10.1
Incentive salience index mean0.10.10.4-0.0-0.0-0.00.7
Condit. Reinf. lever presses0.20.30.40.60.60.6-0.2
Condit. Reinf. active minus inactive responses1.62.42.4-1.6-1.6-1.61.6
Condit. Reinf. active-inactive response ratio1.62.52.9-1.7-1.7-1.71.2
Condit. Reinf. active responses1.82.63.7-1.5-1.5-1.51.9
Condit. Reinf. inactive responses0.30.51.2-0.4-0.4-0.41.1
Condit. Reinf. lever presses0.30.41.7-0.0-0.0-0.01.3
Condit. Reinf. lever reinforcers received1.42.03.4-1.2-1.2-1.21.8
Conditioned reinforcement - actives0.00.00.1-0.0-0.0-0.0-0.3
Conditioned reinforcement - inactives0.71.92.3-1.5-1.5-1.50.7
Conditioned locomotion2.03.04.0-2.0-2.0-2.0-0.3
Patch foraging indifference point 0 sec0.51.31.6-1.3-1.3-1.30.7
Patch foraging indifference point AUC1.02.33.01.71.71.7-0.5
Delay disc. indifference point, 0s delay0.70.70.8-0.9-0.9-0.90.8
Delay disc. indifference point, 16s delay1.52.22.5-1.6-1.6-1.61.1
Delay disc. indifference point, 2s delay0.60.60.7-0.8-0.8-0.80.7
Delay disc. indifference point, 24s delay0.10.10.40.20.20.2-0.6
Delay disc. indifference point, 4s delay0.60.60.8-0.9-0.9-0.90.3
Delay disc. indifference point, 8s delay0.40.70.9-0.9-0.9-0.90.5
Indifference point function ln k1.13.34.4-2.1-2.1-2.1-0.3
Indifference point function log k1.13.34.4-2.1-2.1-2.1-0.3
Patch foraging total patch changes 0 sec0.10.30.4-0.6-0.6-0.60.0
Patch foraging total patch changes 12 sec1.21.62.21.51.51.50.1
Patch foraging total patch changes 18 sec0.00.10.40.00.00.00.6
Patch foraging total patch changes 24 sec0.31.21.51.21.21.2-0.4
Patch foraging total patch changes 6 sec0.20.41.00.40.40.41.0
Patch foraging time to switch 0 sec0.20.92.6-0.5-0.5-0.51.6
Patch foraging water rate 0 sec0.31.14.1-0.2-0.2-0.2-2.0
Patch foraging water rate 12 sec0.41.55.1-0.6-0.6-0.6-2.3
Patch foraging water rate 18 sec0.20.41.0-0.4-0.4-0.4-1.0
Patch foraging water rate 24 sec0.71.03.80.00.00.0-2.0
Patch foraging water rate 6 sec0.91.35.2-0.1-0.1-0.1-2.3
Seeking ratio, delayed vs. immediate footshock1.11.51.8-1.4-1.4-1.40.8
Distance traveled before self-admin0.20.30.7-0.5-0.5-0.50.8
Distance traveled after self-admin0.10.10.50.10.10.10.7
Extensor digitorum longus weight3.513.918.34.34.34.3-1.0
Bone: elastic displacement1.51.93.81.11.11.1-2.0
Bone: elastic work2.73.63.92.02.02.0-1.6
Bone: endosteal estimation2.25.46.2-2.5-2.5-2.51.7
Bone: endosteal perimeter4.611.312.4-3.5-3.5-3.52.8
Epididymis fat weight0.84.35.7-2.4-2.4-2.40.2
Delta time in closed arm before/after self-admin1.21.21.31.21.21.2-0.8
Delta time in open arm before/after self-admin0.30.30.70.40.40.40.8
Diff in mean of infusions in LGA sessions0.20.40.50.60.60.6-0.7
Delay discount exponential model param0.81.11.21.11.11.1-0.8
Extinction: sum of active levers before priming0.10.20.30.40.40.40.6
Active lever presses in extinction session 62.12.12.71.71.71.70.0
Bone: final force0.50.81.01.01.01.00.2
Bone: final moment0.40.60.90.90.90.90.1
Food consumed during 24 hour testing period0.10.20.20.50.50.5-0.5
Glucose4.26.77.7-2.8-2.8-2.82.0
Heart weight2.03.23.6-1.9-1.9-1.91.4
Delay discount hyperbolic model param0.91.21.41.21.21.2-0.9
Intermittent access intake day 1-15 change0.00.10.2-0.4-0.4-0.4-0.1
Intermittent access intake escalation0.00.10.1-0.3-0.3-0.3-0.1
Intermittent access intake escalation 20.00.10.1-0.3-0.3-0.3-0.1
Intermitt. access day 1 inactive lever presses0.00.10.1-0.3-0.3-0.30.3
Intermitt. access day 15 inactive lever presses0.42.32.4-1.5-1.5-1.51.5
Intermitt. access escalation Index0.72.12.8-1.7-1.7-1.7-0.2
Intermittent access day 1 total infusions2.67.98.7-2.9-2.9-2.92.4
Intermittent access day 15 total infusions1.84.55.3-2.3-2.3-2.31.4
Intermittent access terminal intake (last 3 days)3.05.25.7-2.4-2.4-2.41.9
Intermittent access total infusions4.65.56.1-2.5-2.5-2.51.9
Intermittent access day 1 locomotion2.74.95.4-2.3-2.3-2.31.8
Intermittent access day 15 total locomotion1.24.85.6-2.4-2.4-2.41.5
Intermittent access total locomotion8.29.911.6-3.4-3.4-3.42.2
Intermittent access standard deviation0.00.10.1-0.3-0.3-0.30.2
Left kidney weight0.10.91.1-1.1-1.1-1.1-0.4
Right kidney weight0.10.51.6-0.4-0.4-0.4-1.3
Cocaine induced anxiety0.00.10.30.10.10.10.5
Post-drug Anxiety0.20.20.20.50.50.50.2
Baseline Anxiety0.20.30.60.50.50.5-0.8
Tail length0.84.14.32.12.12.1-1.9
Length with tail1.88.09.33.13.13.1-2.0
Length without tail1.16.07.52.72.72.7-1.3
Times rat made contact with spout0.10.10.30.10.10.10.5
Lifetime Intake2.83.53.8-2.0-2.0-2.01.6
Liver weight, left0.20.41.30.30.30.3-1.2
Liver weight, right0.20.30.4-0.6-0.6-0.6-0.7
Locomotor activity0.10.20.9-0.0-0.0-0.0-0.9
Locomotor testing distance0.10.31.1-0.1-0.1-0.1-1.0
Locomotor testing rearing0.20.60.8-0.9-0.9-0.90.1
Locomotion in novel chamber2.63.44.5-2.1-2.1-2.10.6
Locomotion in novel chamber post-restriction0.51.41.7-1.3-1.3-1.30.5
Fecal boli incidents, locomotor time 10.10.30.50.50.50.50.7
Change in fecal boli incidents, locomotor task0.40.40.6-0.8-0.8-0.8-0.1
Time >=10cm from walls, locomotor time 14.45.55.5-2.4-2.4-2.42.3
Bouts of movement, locomotor time 10.30.40.50.70.70.7-0.4
Total resting periods, locomotor time 10.00.10.10.30.30.3-0.1
Rest time, locomotor task time 10.81.31.7-1.3-1.3-1.3-0.2
Distance moved, locomotor task time 10.10.41.3-0.3-0.3-0.31.1
Vertical activity count, locomotor time 10.00.10.1-0.3-0.3-0.30.2
Time >=10cm from walls, locomotor time 20.20.50.6-0.8-0.8-0.80.3
Bouts of movement, locomotor time 20.10.30.30.60.60.60.4
Total resting periods, locomotor time 20.00.10.30.30.30.30.6
Rest time, locomotor task time 20.71.21.4-1.2-1.2-1.20.6
Distance moved, locomotor task time 20.30.40.60.60.60.6-0.8
Vertical activity count, locomotor time 20.92.23.91.31.31.3-2.0
Light reinforcement 10.00.10.1-0.3-0.3-0.3-0.3
Light reinforcement 20.30.60.8-0.9-0.9-0.90.2
Bone: marrow area2.35.76.6-2.6-2.6-2.61.7
Bone: maximum diameter0.10.20.2-0.4-0.4-0.40.0
Bone: maximum force0.30.62.6-0.0-0.0-0.01.6
Bone: maximum moment0.30.52.1-0.0-0.0-0.01.5
Mean time between licks in bursts0.10.40.40.60.60.6-0.5
Mean num. licks in bursts0.00.00.0-0.2-0.2-0.20.1
Cd content in liver0.80.91.1-1.0-1.0-1.00.4
Co content in liver0.80.92.10.70.70.7-1.5
Cu content in liver0.10.10.2-0.3-0.3-0.30.5
Fe content in liver0.60.81.01.01.01.0-0.2
K content in liver0.10.10.50.00.00.00.7
Mg content in liver0.80.91.4-0.9-0.9-0.91.2
Mn content in liver1.21.31.71.31.31.30.5
Na content in liver0.50.60.70.70.70.7-0.8
Rb content in liver1.92.22.3-1.5-1.5-1.51.4
Se content in liver0.20.30.4-0.5-0.5-0.50.7
Sr content in liver2.62.32.61.61.61.6-1.2
Zn content in liver0.20.20.30.50.50.5-0.5
Bone: minimum diameter3.87.48.2-2.9-2.9-2.92.2
Time in familiar zone, hab. session 11.21.31.3-1.1-1.1-1.11.1
Time in novel zone, hab. session 10.50.61.10.60.60.6-1.0
Total zone transitions, hab. session 10.10.10.10.30.30.30.2
Total locomotion distance, hab. session 10.60.91.1-1.0-1.0-1.00.4
Locomotion velocity, hab. session 10.20.30.3-0.6-0.6-0.60.3
Time in familiar zone, hab. session 20.50.50.60.80.80.8-0.5
Time in novel zone, hab. session 20.60.70.8-0.9-0.9-0.90.7
Total zone transitions, hab. session 22.43.16.4-1.4-1.4-1.42.5
Total locomotion distance, hab. session 22.33.03.5-1.7-1.7-1.71.9
Locomotion velocity, hab. session 22.83.73.7-1.9-1.9-1.91.9
Novel to familiar place preference ratio0.10.10.4-0.2-0.2-0.20.6
Novelty place preference0.30.40.4-0.6-0.6-0.60.7
Time in novel zone, NPP test0.30.30.4-0.6-0.6-0.60.6
Total zone transitions, NPP test0.20.31.10.10.10.11.1
Total locomotion distance, NPP test0.30.40.5-0.6-0.6-0.60.7
Locomotion velocity, NPP test0.20.30.4-0.6-0.6-0.60.6
Intraocular pressure0.10.20.8-0.0-0.0-0.0-0.9
Delta distance traveled before/after self-admin0.20.30.30.50.50.5-0.5
Delta ambulatory time before/after self-admin0.10.20.20.50.50.5-0.4
Parametrial fat weight1.53.64.6-2.2-2.2-2.20.6
Pavlov. Cond. lever latency0.10.10.1-0.4-0.4-0.4-0.2
Pavlov. Cond. magazine entry latency0.50.71.6-0.6-0.6-0.61.3
Pavlov. Cond. change in total contacts0.30.30.6-0.5-0.5-0.50.8
Pavlov. Cond. index score0.00.00.00.10.10.10.2
Pavlov. Cond. latency score0.00.00.1-0.0-0.0-0.00.4
Pavlov. Cond. lever contacts0.00.10.10.20.20.20.2
Pavlov. Cond. magazine entry number0.10.10.1-0.3-0.3-0.3-0.2
Pavlov. Cond. intertrial magazine entries0.10.20.60.10.10.1-0.8
Pavlov. Cond. lever-magazine prob. diff.0.00.00.00.20.20.20.2
Pavlov. Cond. response bias0.10.10.20.40.40.4-0.1
Pavlov. Cond. lever latency0.20.30.3-0.6-0.6-0.60.0
Pavlov. Cond. magazine entry latency0.50.61.80.50.50.51.3
Pavlov. Cond. change in total contacts0.20.51.9-0.2-0.2-0.21.4
Pavlov. Cond. index score0.20.41.00.40.40.41.0
Pavlov. Cond. latency score0.20.30.80.40.40.40.9
Pavlov. Cond. lever contacts0.10.20.20.50.50.50.1
Pavlov. Cond. magazine entry number0.81.12.1-0.9-0.9-0.9-1.4
Pavlov. Cond. intertrial magazine entries0.20.40.6-0.8-0.8-0.8-0.1
Pavlov. Cond. lever-magazine prob. diff.0.30.41.10.40.40.41.1
Pavlov. Cond. response bias0.30.30.80.40.40.40.9
Time in closed arm before self-admin1.22.12.3-1.5-1.5-1.51.3
Time in closed arm after self-admin0.10.10.1-0.3-0.3-0.30.2
Time in open arm before self-admin1.01.23.20.70.70.7-1.8
Time in open arm after self-admin0.70.80.91.01.01.0-0.5
Bone: periosteal estimation0.30.60.8-0.9-0.9-0.90.4
Bone: periosteal perimeter0.81.61.8-1.2-1.2-1.21.3
Bone: post-yield work7.112.215.2-3.3-3.3-3.33.9
Progressive ratio test 1 active lever presses0.20.40.4-0.7-0.7-0.70.4
Progressive ratio test 1 breakpoint0.20.30.4-0.6-0.6-0.60.4
Progressive ratio test 1 inactive lever presses0.10.20.2-0.5-0.5-0.50.4
Progressive ratio test 2 active lever presses1.72.42.9-1.7-1.7-1.71.0
Progressive ratio test 2 breakpoint1.72.22.6-1.6-1.6-1.60.9
Progressive ratio test 2 inactive lever presses2.37.49.3-3.0-3.0-3.01.3
Incentive Sensitization - Responses0.30.71.6-0.7-0.7-0.71.3
Incentive Sensitization - Breakpoint0.40.81.6-0.8-0.8-0.81.2
Sum of active levers in priming session hrs 5-63.02.83.11.81.81.8-1.4
Progressive ratio0.61.74.4-0.9-0.9-0.92.1
Food seeking constrained by brief footshock0.10.20.20.50.50.5-0.1
Seeking ratio, punishment vs. effort0.41.03.40.40.40.4-1.8
Retroperitoneal fat weight3.013.618.1-4.2-4.2-4.20.4
Reaction time number correct0.31.21.21.11.11.1-1.0
Reaction time mean minus median0.10.91.11.01.01.00.5
Reaction time mean minus median AUC0.21.52.01.41.41.4-0.3
Reaction time num false alarms0.40.61.40.60.60.6-1.2
Reaction time num false alarms AUC0.30.81.00.80.80.8-1.0
Reaction time trials correct on left0.31.21.21.11.11.1-1.0
Reaction time trials on left0.41.41.61.21.21.2-1.1
Reaction time mean0.00.00.1-0.0-0.0-0.00.3
Reaction time mean AUC0.00.10.2-0.2-0.2-0.20.5
Median of all reaction times0.20.20.3-0.5-0.5-0.50.5
Reaction time omissions0.81.21.71.31.31.3-0.1
Reaction time false alarm rate0.10.10.30.20.20.2-0.6
Reaction time premature initiation rate1.72.73.51.91.91.9-0.4
Reaction time premature initiations1.85.56.82.62.62.6-1.1
Std. dev. reaction times0.10.30.40.60.60.60.3
Reaction time trials completed0.41.41.61.21.21.2-1.1
Reaction time trials AUC0.31.11.11.11.11.1-0.9
Run reversals in cocaine runway, females0.30.30.60.50.50.50.8
Run reversals in cocaine runway, males1.61.82.21.31.31.3-1.5
Latency to leave start box in cocaine runway1.52.02.3-1.4-1.4-1.41.5
Latency to leave start box in cocaine runway, F0.81.01.0-1.0-1.0-1.00.9
Latency to leave start box in cocaine runway, M0.40.40.7-0.5-0.5-0.50.8
Std. dev. time between licks in bursts0.71.43.00.90.90.9-1.7
Total sessions with >9 infusions0.50.61.0-0.7-0.7-0.71.0
Short access day 1 total inactive lever presses0.30.70.9-1.0-1.0-1.00.2
Short access day 10 total inactive lever presses0.00.00.0-0.1-0.1-0.10.1
Short access day 1 total infusions0.81.51.7-1.3-1.3-1.31.0
Short access day 10 total infusions2.74.45.3-2.0-2.0-2.02.3
Short access total infusions0.91.31.6-1.1-1.1-1.11.3
Short access day 1 locomotion1.42.32.4-1.5-1.5-1.51.4
Short access day 10 total locomotion0.52.22.3-1.5-1.5-1.51.4
Short access total locomotion1.82.83.0-1.7-1.7-1.71.5
One hour access (0.3 mA shock)3.13.64.6-2.1-2.1-2.10.9
Compulsive drug intake2.73.94.62.12.12.1-1.4
One hour access (shock baseline)2.36.07.5-2.7-2.7-2.71.2
Social response proportion0.40.51.0-0.5-0.5-0.51.0
Social responses0.00.10.10.30.30.3-0.2
Social time0.40.60.60.80.80.8-0.7
Soleus weight0.51.61.7-1.3-1.3-1.3-1.0
Bone: stiffness0.50.93.2-0.4-0.4-0.41.8
Tibialis anterior weight7.224.931.35.65.65.6-2.4
Time to tail flick, vehicle, before self-admin0.40.41.6-0.2-0.2-0.21.3
Time to tail flick, vehicle, after self-admin0.10.20.8-0.2-0.2-0.20.9
Time to tail flick, test, before self-admin2.63.03.4-1.8-1.8-1.81.3
Time to tail flick, test, after self-admin0.00.00.00.00.00.00.2
Delta time to tail flick, vehicle, before/after SA0.00.00.1-0.1-0.1-0.10.3
Delta time to tail flick, test, before/after SA4.04.95.42.32.32.3-1.8
Tibia length0.51.51.51.21.21.2-1.2
Ambulatory time before self-admin0.20.71.6-0.6-0.6-0.61.2
Ambulatory time after self-admin1.21.82.4-1.3-1.3-1.31.6
Bone: tissue strength0.10.10.2-0.4-0.4-0.40.5
Total heroin consumption1.11.31.61.31.31.3-0.4
Bone: trabecular number0.91.64.1-0.9-0.9-0.92.0
Bone: trabecular spacing0.30.41.00.40.40.4-1.0
Bone: trabecular thickness1.72.32.7-1.5-1.5-1.51.6
Bone: trabecular tissue density0.40.70.7-0.8-0.8-0.8-0.9
Water consumed over 24 hours0.10.20.20.40.40.40.2
Number of responses in last shaping day0.20.20.20.50.50.5-0.3