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 0.1 3.8e-04 2.4e-03 1.8e-02 1.1e-03
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 1.2e-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 density1.52.54.81.31.31.3-2.2
Area under the delay curve1.21.41.51.21.21.2-1.0
BMI with tail1.03.49.91.11.11.1-3.1
BMI without tail0.20.72.30.40.40.4-1.5
Body weight0.31.51.8-1.3-1.3-1.3-0.7
Weight adjusted by age1.21.82.4-1.5-1.5-1.50.2
Bone surface0.71.34.60.40.40.4-2.2
Bone volume1.01.84.70.90.90.9-2.2
Breakpoint value in progressive ratio session0.80.91.2-1.1-1.1-1.1-0.1
Number of licking bursts0.00.00.10.00.00.0-0.4
Context. condit. distance diff. score0.20.30.30.60.60.60.1
Locomotion velocity, session 10.20.20.2-0.5-0.5-0.5-0.1
Locomotion distance, session 10.70.91.70.80.80.8-1.3
Locomotion velocity, session 20.60.70.8-0.9-0.9-0.9-0.3
Locomotion distance, session 20.20.20.60.30.30.3-0.8
Locomotion velocity, session 30.70.81.60.70.70.7-1.3
Locomotion distance, session 30.10.10.4-0.1-0.1-0.1-0.7
Stereotopy head waving bouts, day 30.91.11.21.01.01.0-1.1
Stereotopy head waving duration, day 31.31.61.91.41.41.4-0.9
Locomotion velocity, session 70.80.91.30.80.80.8-1.2
Locomotion distance, session 70.00.00.1-0.1-0.1-0.1-0.3
Stereotopy head waving bouts, day 70.91.12.80.70.70.7-1.7
Stereotopy head waving duration, day 70.60.72.60.30.30.3-1.6
Locomotion velocity, session 80.70.91.1-1.0-1.0-1.00.4
Locomotion distance, session 80.20.30.40.60.60.6-0.4
Degree of sensitization distance0.20.20.20.40.40.4-0.4
Degree of sensitization stereotypy0.30.41.3-0.2-0.2-0.2-1.1
Conditioned locomotion2.32.62.9-1.7-1.7-1.71.3
Cocaine response after cond. corrected0.00.00.00.20.20.20.2
Cocaine response after cond. not corrected0.20.20.30.50.50.5-0.2
Cocaine response before conditioning0.20.20.40.40.40.4-0.6
Saline control response0.60.81.1-1.0-1.0-1.0-0.0
Bone: connectivity density0.71.13.40.60.60.6-1.8
Bone: cortical apparent density0.60.80.9-0.9-0.9-0.90.8
Bone: cortical area0.50.80.8-0.9-0.9-0.90.8
Bone: cortical porosity0.10.10.30.20.20.2-0.5
Bone: cortical porosity0.00.00.0-0.1-0.1-0.1-0.2
Bone: cortical thickness5.28.69.7-3.1-3.1-3.12.2
Bone: cortical thickness2.22.53.0-1.7-1.7-1.71.1
Bone: cortical tissue density0.81.11.2-1.1-1.1-1.10.9
Condit. Reinf. active minus inactive responses0.20.30.80.20.20.2-0.9
Condit. Reinf. active-inactive response ratio0.30.30.60.50.50.5-0.8
Condit. Reinf. active responses0.10.10.30.20.20.2-0.5
Condit. Reinf. inactive responses0.00.00.00.10.10.1-0.1
Incentive salience index mean0.10.10.40.00.00.0-0.7
Condit. Reinf. lever presses0.20.30.4-0.6-0.6-0.60.2
Condit. Reinf. active minus inactive responses1.92.42.41.61.61.6-1.6
Condit. Reinf. active-inactive response ratio2.22.52.91.71.71.7-1.2
Condit. Reinf. active responses1.92.63.71.51.51.5-1.9
Condit. Reinf. inactive responses0.40.51.20.40.40.4-1.1
Condit. Reinf. lever presses0.30.41.70.00.00.0-1.3
Condit. Reinf. lever reinforcers received1.42.03.41.21.21.2-1.8
Conditioned reinforcement - actives0.00.00.10.00.00.00.3
Conditioned reinforcement - inactives1.31.92.31.51.51.5-0.7
Conditioned locomotion2.33.04.02.02.02.00.3
Patch foraging indifference point 0 sec0.71.31.61.31.31.3-0.7
Patch foraging indifference point AUC1.62.33.0-1.7-1.7-1.70.5
Delay disc. indifference point, 0s delay0.70.70.80.90.90.9-0.8
Delay disc. indifference point, 16s delay2.02.22.51.61.61.6-1.1
Delay disc. indifference point, 2s delay0.60.60.70.80.80.8-0.7
Delay disc. indifference point, 24s delay0.10.10.4-0.2-0.2-0.20.6
Delay disc. indifference point, 4s delay0.60.60.80.90.90.9-0.3
Delay disc. indifference point, 8s delay0.60.70.90.90.90.9-0.5
Indifference point function ln k1.93.34.42.12.12.10.3
Indifference point function log k1.93.34.42.12.12.10.3
Patch foraging total patch changes 0 sec0.10.30.40.60.60.6-0.0
Patch foraging total patch changes 12 sec1.31.62.2-1.5-1.5-1.5-0.1
Patch foraging total patch changes 18 sec0.10.10.4-0.0-0.0-0.0-0.6
Patch foraging total patch changes 24 sec0.71.21.5-1.2-1.2-1.20.4
Patch foraging total patch changes 6 sec0.20.41.0-0.4-0.4-0.4-1.0
Patch foraging time to switch 0 sec0.40.92.60.50.50.5-1.6
Patch foraging water rate 0 sec0.51.14.10.20.20.22.0
Patch foraging water rate 12 sec0.71.55.10.60.60.62.3
Patch foraging water rate 18 sec0.20.41.00.40.40.41.0
Patch foraging water rate 24 sec0.71.03.8-0.0-0.0-0.02.0
Patch foraging water rate 6 sec0.91.35.20.10.10.12.3
Seeking ratio, delayed vs. immediate footshock1.21.51.81.41.41.4-0.8
Distance traveled before self-admin0.30.30.70.50.50.5-0.8
Distance traveled after self-admin0.10.10.5-0.1-0.1-0.1-0.7
Extensor digitorum longus weight3.513.918.3-4.3-4.3-4.31.0
Bone: elastic displacement1.61.93.8-1.1-1.1-1.12.0
Bone: elastic work2.73.63.9-2.0-2.0-2.01.6
Bone: endosteal estimation2.45.46.22.52.52.5-1.7
Bone: endosteal perimeter5.311.312.43.53.53.5-2.8
Epididymis fat weight1.34.35.72.42.42.4-0.2
Delta time in closed arm before/after self-admin1.31.21.3-1.2-1.2-1.20.8
Delta time in open arm before/after self-admin0.30.30.7-0.4-0.4-0.4-0.8
Diff in mean of infusions in LGA sessions0.30.40.5-0.6-0.6-0.60.7
Delay discount exponential model param1.01.11.2-1.1-1.1-1.10.8
Extinction: sum of active levers before priming0.20.20.3-0.4-0.4-0.4-0.6
Active lever presses in extinction session 62.12.12.7-1.7-1.7-1.7-0.0
Bone: final force0.50.81.0-1.0-1.0-1.0-0.2
Bone: final moment0.40.60.9-0.9-0.9-0.9-0.1
Food consumed during 24 hour testing period0.20.20.2-0.5-0.5-0.50.5
Glucose4.36.77.72.82.82.8-2.0
Heart weight2.13.23.61.91.91.9-1.4
Delay discount hyperbolic model param1.11.21.4-1.2-1.2-1.20.9
Intermittent access intake day 1-15 change0.10.10.20.40.40.40.1
Intermittent access intake escalation0.00.10.10.30.30.30.1
Intermittent access intake escalation 20.10.10.10.30.30.30.1
Intermitt. access day 1 inactive lever presses0.00.10.10.30.30.3-0.3
Intermitt. access day 15 inactive lever presses1.12.32.41.51.51.5-1.5
Intermitt. access escalation Index1.52.12.81.71.71.70.2
Intermittent access day 1 total infusions4.97.98.72.92.92.9-2.4
Intermittent access day 15 total infusions3.04.55.32.32.32.3-1.4
Intermittent access terminal intake (last 3 days)4.05.25.72.42.42.4-1.9
Intermittent access total infusions4.65.56.12.52.52.5-1.9
Intermittent access day 1 locomotion3.84.95.42.32.32.3-1.8
Intermittent access day 15 total locomotion2.64.85.62.42.42.4-1.5
Intermittent access total locomotion8.39.911.63.43.43.4-2.2
Intermittent access standard deviation0.00.10.10.30.30.3-0.2
Left kidney weight0.20.91.11.11.11.10.4
Right kidney weight0.10.51.60.40.40.41.3
Cocaine induced anxiety0.10.10.3-0.1-0.1-0.1-0.5
Post-drug Anxiety0.20.20.2-0.5-0.5-0.5-0.2
Baseline Anxiety0.30.30.6-0.5-0.5-0.50.8
Tail length1.14.14.3-2.1-2.1-2.11.9
Length with tail1.88.09.3-3.1-3.1-3.12.0
Length without tail1.96.07.5-2.7-2.7-2.71.3
Times rat made contact with spout0.10.10.3-0.1-0.1-0.1-0.5
Lifetime Intake2.83.53.82.02.02.0-1.6
Liver weight, left0.20.41.3-0.3-0.3-0.31.2
Liver weight, right0.20.30.40.60.60.60.7
Locomotor activity0.10.20.90.00.00.00.9
Locomotor testing distance0.20.31.10.10.10.11.0
Locomotor testing rearing0.30.60.80.90.90.9-0.1
Locomotion in novel chamber2.73.44.52.12.12.1-0.6
Locomotion in novel chamber post-restriction0.81.41.71.31.31.3-0.5
Fecal boli incidents, locomotor time 10.20.30.5-0.5-0.5-0.5-0.7
Change in fecal boli incidents, locomotor task0.40.40.60.80.80.80.1
Time >=10cm from walls, locomotor time 15.25.55.52.42.42.4-2.3
Bouts of movement, locomotor time 10.40.40.5-0.7-0.7-0.70.4
Total resting periods, locomotor time 10.00.10.1-0.3-0.3-0.30.1
Rest time, locomotor task time 11.01.31.71.31.31.30.2
Distance moved, locomotor task time 10.30.41.30.30.30.3-1.1
Vertical activity count, locomotor time 10.00.10.10.30.30.3-0.2
Time >=10cm from walls, locomotor time 20.30.50.60.80.80.8-0.3
Bouts of movement, locomotor time 20.20.30.3-0.6-0.6-0.6-0.4
Total resting periods, locomotor time 20.10.10.3-0.3-0.3-0.3-0.6
Rest time, locomotor task time 20.91.21.41.21.21.2-0.6
Distance moved, locomotor task time 20.40.40.6-0.6-0.6-0.60.8
Vertical activity count, locomotor time 21.62.23.9-1.3-1.3-1.32.0
Light reinforcement 10.00.10.10.30.30.30.3
Light reinforcement 20.40.60.80.90.90.9-0.2
Bone: marrow area2.65.76.62.62.62.6-1.7
Bone: maximum diameter0.10.20.20.40.40.4-0.0
Bone: maximum force0.40.62.60.00.00.0-1.6
Bone: maximum moment0.30.52.10.00.00.0-1.5
Mean time between licks in bursts0.10.40.4-0.6-0.6-0.60.5
Mean num. licks in bursts0.00.00.00.20.20.2-0.1
Cd content in liver0.80.91.11.01.01.0-0.4
Co content in liver0.80.92.1-0.7-0.7-0.71.5
Cu content in liver0.10.10.20.30.30.3-0.5
Fe content in liver0.60.81.0-1.0-1.0-1.00.2
K content in liver0.10.10.5-0.0-0.0-0.0-0.7
Mg content in liver0.90.91.40.90.90.9-1.2
Mn content in liver1.21.31.7-1.3-1.3-1.3-0.5
Na content in liver0.50.60.7-0.7-0.7-0.70.8
Rb content in liver1.92.22.31.51.51.5-1.4
Se content in liver0.20.30.40.50.50.5-0.7
Sr content in liver2.62.32.6-1.6-1.6-1.61.2
Zn content in liver0.20.20.3-0.5-0.5-0.50.5
Bone: minimum diameter4.07.48.22.92.92.9-2.2
Time in familiar zone, hab. session 11.31.31.31.11.11.1-1.1
Time in novel zone, hab. session 10.60.61.1-0.6-0.6-0.61.0
Total zone transitions, hab. session 10.10.10.1-0.3-0.3-0.3-0.2
Total locomotion distance, hab. session 10.60.91.11.01.01.0-0.4
Locomotion velocity, hab. session 10.20.30.30.60.60.6-0.3
Time in familiar zone, hab. session 20.50.50.6-0.8-0.8-0.80.5
Time in novel zone, hab. session 20.70.70.80.90.90.9-0.7
Total zone transitions, hab. session 22.43.16.41.41.41.4-2.5
Total locomotion distance, hab. session 22.33.03.51.71.71.7-1.9
Locomotion velocity, hab. session 22.83.73.71.91.91.9-1.9
Novel to familiar place preference ratio0.10.10.40.20.20.2-0.6
Novelty place preference0.40.40.40.60.60.6-0.7
Time in novel zone, NPP test0.30.30.40.60.60.6-0.6
Total zone transitions, NPP test0.20.31.1-0.1-0.1-0.1-1.1
Total locomotion distance, NPP test0.30.40.50.60.60.6-0.7
Locomotion velocity, NPP test0.20.30.40.60.60.6-0.6
Intraocular pressure0.10.20.80.00.00.00.9
Delta distance traveled before/after self-admin0.20.30.3-0.5-0.5-0.50.5
Delta ambulatory time before/after self-admin0.20.20.2-0.5-0.5-0.50.4
Parametrial fat weight1.53.64.62.22.22.2-0.6
Pavlov. Cond. lever latency0.10.10.10.40.40.40.2
Pavlov. Cond. magazine entry latency0.50.71.60.60.60.6-1.3
Pavlov. Cond. change in total contacts0.30.30.60.50.50.5-0.8
Pavlov. Cond. index score0.00.00.0-0.1-0.1-0.1-0.2
Pavlov. Cond. latency score0.00.00.10.00.00.0-0.4
Pavlov. Cond. lever contacts0.00.10.1-0.2-0.2-0.2-0.2
Pavlov. Cond. magazine entry number0.10.10.10.30.30.30.2
Pavlov. Cond. intertrial magazine entries0.10.20.6-0.1-0.1-0.10.8
Pavlov. Cond. lever-magazine prob. diff.0.00.00.0-0.2-0.2-0.2-0.2
Pavlov. Cond. response bias0.10.10.2-0.4-0.4-0.40.1
Pavlov. Cond. lever latency0.20.30.30.60.60.6-0.0
Pavlov. Cond. magazine entry latency0.50.61.8-0.5-0.5-0.5-1.3
Pavlov. Cond. change in total contacts0.30.51.90.20.20.2-1.4
Pavlov. Cond. index score0.30.41.0-0.4-0.4-0.4-1.0
Pavlov. Cond. latency score0.20.30.8-0.4-0.4-0.4-0.9
Pavlov. Cond. lever contacts0.10.20.2-0.5-0.5-0.5-0.1
Pavlov. Cond. magazine entry number0.91.12.10.90.90.91.4
Pavlov. Cond. intertrial magazine entries0.30.40.60.80.80.80.1
Pavlov. Cond. lever-magazine prob. diff.0.30.41.1-0.4-0.4-0.4-1.1
Pavlov. Cond. response bias0.30.30.8-0.4-0.4-0.4-0.9
Time in closed arm before self-admin1.62.12.31.51.51.5-1.3
Time in closed arm after self-admin0.10.10.10.30.30.3-0.2
Time in open arm before self-admin1.11.23.2-0.7-0.7-0.71.8
Time in open arm after self-admin0.70.80.9-1.0-1.0-1.00.5
Bone: periosteal estimation0.30.60.80.90.90.9-0.4
Bone: periosteal perimeter0.91.61.81.21.21.2-1.3
Bone: post-yield work8.312.215.23.33.33.3-3.9
Progressive ratio test 1 active lever presses0.30.40.40.70.70.7-0.4
Progressive ratio test 1 breakpoint0.30.30.40.60.60.6-0.4
Progressive ratio test 1 inactive lever presses0.10.20.20.50.50.5-0.4
Progressive ratio test 2 active lever presses2.12.42.91.71.71.7-1.0
Progressive ratio test 2 breakpoint1.92.22.61.61.61.6-0.9
Progressive ratio test 2 inactive lever presses4.57.49.33.03.03.0-1.3
Incentive Sensitization - Responses0.50.71.60.70.70.7-1.3
Incentive Sensitization - Breakpoint0.60.81.60.80.80.8-1.2
Sum of active levers in priming session hrs 5-63.02.83.1-1.8-1.8-1.81.4
Progressive ratio1.11.74.40.90.90.9-2.1
Food seeking constrained by brief footshock0.10.20.2-0.5-0.5-0.50.1
Seeking ratio, punishment vs. effort0.71.03.4-0.4-0.4-0.41.8
Retroperitoneal fat weight3.213.618.14.24.24.2-0.4
Reaction time number correct0.61.21.2-1.1-1.1-1.11.0
Reaction time mean minus median0.30.91.1-1.0-1.0-1.0-0.5
Reaction time mean minus median AUC0.61.52.0-1.4-1.4-1.40.3
Reaction time num false alarms0.40.61.4-0.6-0.6-0.61.2
Reaction time num false alarms AUC0.50.81.0-0.8-0.8-0.81.0
Reaction time trials correct on left0.61.21.2-1.1-1.1-1.11.0
Reaction time trials on left0.81.41.6-1.2-1.2-1.21.1
Reaction time mean0.00.00.10.00.00.0-0.3
Reaction time mean AUC0.10.10.20.20.20.2-0.5
Median of all reaction times0.20.20.30.50.50.5-0.5
Reaction time omissions0.91.21.7-1.3-1.3-1.30.1
Reaction time false alarm rate0.10.10.3-0.2-0.2-0.20.6
Reaction time premature initiation rate1.92.73.5-1.9-1.9-1.90.4
Reaction time premature initiations3.15.56.8-2.6-2.6-2.61.1
Std. dev. reaction times0.20.30.4-0.6-0.6-0.6-0.3
Reaction time trials completed0.81.41.6-1.2-1.2-1.21.1
Reaction time trials AUC0.61.11.1-1.1-1.1-1.10.9
Run reversals in cocaine runway, females0.30.30.6-0.5-0.5-0.5-0.8
Run reversals in cocaine runway, males1.81.82.2-1.3-1.3-1.31.5
Latency to leave start box in cocaine runway1.82.02.31.41.41.4-1.5
Latency to leave start box in cocaine runway, F0.81.01.01.01.01.0-0.9
Latency to leave start box in cocaine runway, M0.40.40.70.50.50.5-0.8
Std. dev. time between licks in bursts1.01.43.0-0.9-0.9-0.91.7
Total sessions with >9 infusions0.50.61.00.70.70.7-1.0
Short access day 1 total inactive lever presses0.50.70.91.01.01.0-0.2
Short access day 10 total inactive lever presses0.00.00.00.10.10.1-0.1
Short access day 1 total infusions1.21.51.71.31.31.3-1.0
Short access day 10 total infusions3.44.45.32.02.02.0-2.3
Short access total infusions1.11.31.61.11.11.1-1.3
Short access day 1 locomotion1.82.32.41.51.51.5-1.4
Short access day 10 total locomotion1.22.22.31.51.51.5-1.4
Short access total locomotion2.32.83.01.71.71.7-1.5
One hour access (0.3 mA shock)3.23.64.62.12.12.1-0.9
Compulsive drug intake3.33.94.6-2.1-2.1-2.11.4
One hour access (shock baseline)3.96.07.52.72.72.7-1.2
Social response proportion0.40.51.00.50.50.5-1.0
Social responses0.00.10.1-0.3-0.3-0.30.2
Social time0.40.60.6-0.8-0.8-0.80.7
Soleus weight0.51.61.71.31.31.31.0
Bone: stiffness0.50.93.20.40.40.4-1.8
Tibialis anterior weight7.324.931.3-5.6-5.6-5.62.4
Time to tail flick, vehicle, before self-admin0.40.41.60.20.20.2-1.3
Time to tail flick, vehicle, after self-admin0.20.20.80.20.20.2-0.9
Time to tail flick, test, before self-admin2.93.03.41.81.81.8-1.3
Time to tail flick, test, after self-admin0.00.00.0-0.0-0.0-0.0-0.2
Delta time to tail flick, vehicle, before/after SA0.00.00.10.10.10.1-0.3
Delta time to tail flick, test, before/after SA4.84.95.4-2.3-2.3-2.31.8
Tibia length0.51.51.5-1.2-1.2-1.21.2
Ambulatory time before self-admin0.40.71.60.60.60.6-1.2
Ambulatory time after self-admin1.61.82.41.31.31.3-1.6
Bone: tissue strength0.10.10.20.40.40.4-0.5
Total heroin consumption1.11.31.6-1.3-1.3-1.30.4
Bone: trabecular number1.01.64.10.90.90.9-2.0
Bone: trabecular spacing0.30.41.0-0.4-0.4-0.41.0
Bone: trabecular thickness1.92.32.71.51.51.5-1.6
Bone: trabecular tissue density0.50.70.70.80.80.80.9
Water consumed over 24 hours0.10.20.2-0.4-0.4-0.4-0.2
Number of responses in last shaping day0.20.20.2-0.5-0.5-0.50.3