Syce2

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 Liver mRNA stability Syce2 0.11 0.05 6.2e-11 0.06 0.08 0.09 0.08 1.1e-07 1.4e-09 1.1e-09 5.7e-09
2 Adipose mRNA stability Syce2 0.04 0.03 5.0e-05 0.04 0.03 0.03 0.03 5.9e-05 7.2e-04 8.0e-04 6.9e-04
3 Liver gene expression Syce2 0.1 0.05 2.7e-07 0.06 0.05 0.06 0.05 1.0e-06 1.7e-06 5.8e-07 7.1e-06

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 density2.64.37.3-2.1-2.71.2
Area under the delay curve0.10.10.30.5-0.30.2
BMI with tail0.92.83.71.71.9-1.3
BMI without tail0.10.20.30.50.50.3
Body weight0.20.71.7-0.31.3-0.5
Weight adjusted by age0.60.70.80.90.9-0.6
Bone surface2.64.56.7-1.4-2.62.2
Bone volume2.54.36.1-1.7-2.51.9
Breakpoint value in progressive ratio session4.65.17.3-1.12.7-2.6
Number of licking bursts0.50.50.8-0.8-0.90.4
Context. condit. distance diff. score0.60.71.21.10.9-0.5
Locomotion velocity, session 11.11.12.0-1.4-1.10.5
Locomotion distance, session 10.40.51.4-1.2-0.4-0.0
Locomotion velocity, session 20.91.01.7-1.1-1.30.5
Locomotion distance, session 20.20.30.6-0.70.4-0.6
Locomotion velocity, session 30.10.10.10.4-0.20.3
Locomotion distance, session 32.02.23.80.2-1.71.9
Stereotopy head waving bouts, day 31.01.12.61.6-0.30.8
Stereotopy head waving duration, day 30.50.61.71.3-0.10.3
Locomotion velocity, session 70.20.20.30.60.10.5
Locomotion distance, session 70.10.20.5-0.70.0-0.1
Stereotopy head waving bouts, day 72.02.23.50.5-1.71.9
Stereotopy head waving duration, day 71.82.23.30.2-1.81.8
Locomotion velocity, session 80.20.30.7-0.80.4-0.2
Locomotion distance, session 80.10.20.3-0.20.5-0.5
Degree of sensitization distance1.71.72.6-0.81.4-1.6
Degree of sensitization stereotypy0.91.01.60.6-1.01.3
Conditioned locomotion0.10.10.2-0.40.20.1
Cocaine response after cond. corrected0.91.01.5-0.31.2-1.2
Cocaine response after cond. not corrected1.01.11.9-0.51.1-1.4
Cocaine response before conditioning0.60.81.6-0.6-1.30.6
Saline control response1.62.16.1-2.50.1-0.2
Bone: connectivity density4.67.213.0-2.1-3.62.0
Bone: cortical apparent density0.60.82.11.5-0.60.2
Bone: cortical area0.20.20.4-0.60.10.6
Bone: cortical porosity1.11.22.60.41.6-0.9
Bone: cortical porosity0.60.71.80.51.3-0.2
Bone: cortical thickness0.71.12.11.01.4-0.5
Bone: cortical thickness1.51.73.9-0.90.7-2.0
Bone: cortical tissue density0.70.92.01.4-0.70.4
Condit. Reinf. active minus inactive responses1.92.13.21.8-0.61.7
Condit. Reinf. active-inactive response ratio0.50.61.41.20.40.5
Condit. Reinf. active responses1.41.72.81.3-0.91.7
Condit. Reinf. inactive responses1.31.52.1-0.9-1.41.3
Incentive salience index mean2.42.95.60.9-1.52.4
Condit. Reinf. lever presses2.12.95.6-0.0-1.72.4
Condit. Reinf. active minus inactive responses0.20.20.7-0.10.10.8
Condit. Reinf. active-inactive response ratio0.40.41.10.31.1-0.4
Condit. Reinf. active responses0.10.20.4-0.60.00.4
Condit. Reinf. inactive responses0.20.30.6-0.80.0-0.5
Condit. Reinf. lever presses0.20.20.60.30.8-0.3
Condit. Reinf. lever reinforcers received0.10.10.2-0.40.20.2
Conditioned reinforcement - actives0.10.10.20.10.4-0.1
Conditioned reinforcement - inactives0.10.10.20.40.20.0
Conditioned locomotion0.00.00.00.1-0.20.2
Patch foraging indifference point 0 sec0.30.41.20.30.21.1
Patch foraging indifference point AUC1.01.12.9-1.7-0.4-0.4
Delay disc. indifference point, 0s delay0.70.81.2-0.9-1.10.4
Delay disc. indifference point, 16s delay1.01.11.90.51.0-1.4
Delay disc. indifference point, 2s delay0.50.61.61.30.2-0.2
Delay disc. indifference point, 24s delay0.30.30.60.70.30.4
Delay disc. indifference point, 4s delay0.70.71.60.1-1.30.8
Delay disc. indifference point, 8s delay0.20.20.30.5-0.50.4
Indifference point function ln k1.42.04.82.20.41.0
Indifference point function log k1.42.04.82.20.41.0
Patch foraging total patch changes 0 sec0.20.40.50.60.60.7
Patch foraging total patch changes 12 sec0.81.01.7-1.3-0.51.0
Patch foraging total patch changes 18 sec2.32.96.1-2.5-1.30.9
Patch foraging total patch changes 24 sec1.01.21.6-1.3-0.91.0
Patch foraging total patch changes 6 sec0.30.41.1-1.1-0.40.2
Patch foraging time to switch 0 sec0.10.10.2-0.5-0.3-0.1
Patch foraging water rate 0 sec0.20.20.6-0.10.8-0.3
Patch foraging water rate 12 sec0.50.71.61.3-0.50.6
Patch foraging water rate 18 sec1.62.23.51.2-1.21.9
Patch foraging water rate 24 sec1.01.42.11.1-0.91.5
Patch foraging water rate 6 sec1.82.74.7-2.2-1.41.1
Seeking ratio, delayed vs. immediate footshock0.50.61.81.3-0.0-0.3
Distance traveled before self-admin0.70.71.20.51.1-0.8
Distance traveled after self-admin0.60.71.00.81.0-0.7
Extensor digitorum longus weight0.31.12.3-0.41.5-1.0
Bone: elastic displacement0.70.82.01.40.60.3
Bone: elastic work1.41.82.71.51.6-0.6
Bone: endosteal estimation0.40.92.7-1.6-0.2-0.0
Bone: endosteal perimeter0.81.62.3-1.5-0.61.4
Epididymis fat weight0.40.91.2-0.91.1-0.8
Delta time in closed arm before/after self-admin0.40.41.11.10.00.0
Delta time in open arm before/after self-admin2.12.05.7-2.40.3-0.6
Diff in mean of infusions in LGA sessions0.20.20.5-0.70.20.0
Delay discount exponential model param0.20.20.4-0.70.4-0.3
Extinction: sum of active levers before priming0.80.82.31.50.4-0.1
Active lever presses in extinction session 60.60.61.00.6-0.61.0
Bone: final force0.40.71.2-1.10.7-0.5
Bone: final moment0.30.50.8-0.90.7-0.4
Food consumed during 24 hour testing period5.06.114.4-3.8-1.90.4
Glucose0.10.10.4-0.20.6-0.1
Heart weight0.91.23.11.8-0.70.3
Delay discount hyperbolic model param0.30.30.4-0.70.6-0.4
Intermittent access intake day 1-15 change1.61.51.8-1.3-1.41.0
Intermittent access intake escalation1.81.72.4-1.6-1.40.9
Intermittent access intake escalation 22.12.13.1-1.3-1.81.2
Intermitt. access day 1 inactive lever presses0.90.91.80.4-0.81.4
Intermitt. access day 15 inactive lever presses0.20.20.40.20.6-0.4
Intermitt. access escalation Index0.30.20.5-0.7-0.40.0
Intermittent access day 1 total infusions1.01.11.61.11.3-0.8
Intermittent access day 15 total infusions0.00.00.00.00.00.1
Intermittent access terminal intake (last 3 days)0.00.00.10.30.2-0.1
Intermittent access total infusions0.30.30.40.50.6-0.5
Intermittent access day 1 locomotion0.40.41.01.00.5-0.0
Intermittent access day 15 total locomotion1.61.72.80.41.7-1.5
Intermittent access total locomotion1.61.82.90.71.7-1.5
Intermittent access standard deviation1.21.32.30.5-1.21.5
Left kidney weight0.20.61.4-1.2-0.60.4
Right kidney weight0.10.20.7-0.80.10.0
Cocaine induced anxiety0.20.20.5-0.1-0.70.2
Post-drug Anxiety0.50.50.80.90.5-0.7
Baseline Anxiety1.81.93.00.11.7-1.6
Tail length1.23.74.4-2.1-1.62.0
Length with tail0.41.33.7-1.9-0.30.5
Length without tail0.81.82.9-0.21.6-1.7
Times rat made contact with spout0.10.10.20.1-0.40.1
Lifetime Intake0.20.30.40.40.6-0.4
Liver weight, left1.11.74.5-2.1-0.5-0.7
Liver weight, right0.71.13.2-1.80.1-0.1
Locomotor activity1.52.44.0-0.12.0-1.8
Locomotor testing distance1.11.93.1-0.31.6-1.8
Locomotor testing rearing0.71.02.7-1.7-0.5-0.2
Locomotion in novel chamber1.01.32.6-0.21.1-1.6
Locomotion in novel chamber post-restriction0.10.10.1-0.3-0.40.3
Fecal boli incidents, locomotor time 10.91.01.7-1.3-0.41.1
Change in fecal boli incidents, locomotor task1.11.01.80.3-1.31.1
Time >=10cm from walls, locomotor time 10.00.00.00.0-0.2-0.2
Bouts of movement, locomotor time 10.70.81.20.4-1.01.1
Total resting periods, locomotor time 10.91.01.41.0-0.81.2
Rest time, locomotor task time 10.80.91.91.40.30.8
Distance moved, locomotor task time 11.01.12.2-0.50.9-1.5
Vertical activity count, locomotor time 12.82.97.7-2.8-0.4-0.9
Time >=10cm from walls, locomotor time 21.31.42.50.61.2-1.6
Bouts of movement, locomotor time 20.30.40.60.8-0.70.1
Total resting periods, locomotor time 20.20.20.50.4-0.70.1
Rest time, locomotor task time 20.30.30.5-0.4-0.70.6
Distance moved, locomotor task time 22.22.63.41.01.8-1.9
Vertical activity count, locomotor time 21.21.32.8-1.70.2-1.0
Light reinforcement 17.413.530.0-5.5-2.61.9
Light reinforcement 25.47.219.2-4.4-1.40.7
Bone: marrow area0.40.92.6-1.6-0.1-0.1
Bone: maximum diameter0.40.72.0-0.0-0.21.4
Bone: maximum force0.20.40.7-0.60.8-0.3
Bone: maximum moment0.20.30.5-0.50.7-0.1
Mean time between licks in bursts0.30.50.80.4-0.90.7
Mean num. licks in bursts0.30.41.11.10.30.0
Cd content in liver0.91.01.90.5-0.81.4
Co content in liver2.02.46.32.50.30.8
Cu content in liver0.30.30.70.80.50.0
Fe content in liver0.20.20.40.6-0.00.6
K content in liver0.60.51.40.31.2-0.4
Mg content in liver0.90.91.71.01.3-0.0
Mn content in liver0.10.10.3-0.20.60.0
Na content in liver0.50.50.9-0.60.6-0.9
Rb content in liver0.10.10.30.20.00.6
Se content in liver0.60.81.7-0.6-0.41.3
Sr content in liver0.50.41.10.41.0-0.2
Zn content in liver0.40.50.80.60.9-0.5
Bone: minimum diameter0.91.74.1-2.0-0.70.7
Time in familiar zone, hab. session 11.00.91.6-0.3-1.31.0
Time in novel zone, hab. session 12.12.12.51.21.6-1.5
Total zone transitions, hab. session 10.40.51.1-1.10.2-0.6
Total locomotion distance, hab. session 10.20.30.5-0.70.2-0.6
Locomotion velocity, hab. session 10.30.51.3-1.10.1-0.4
Time in familiar zone, hab. session 21.21.21.5-1.1-1.21.0
Time in novel zone, hab. session 23.13.14.01.52.0-1.8
Total zone transitions, hab. session 20.70.91.2-1.1-1.00.7
Total locomotion distance, hab. session 20.30.31.0-1.00.2-0.2
Locomotion velocity, hab. session 20.40.51.4-1.20.1-0.2
Novel to familiar place preference ratio0.40.40.90.40.3-1.0
Novelty place preference0.60.61.60.20.4-1.3
Time in novel zone, NPP test0.80.81.70.60.5-1.3
Total zone transitions, NPP test0.60.92.0-1.4-0.50.7
Total locomotion distance, NPP test0.00.10.1-0.40.10.0
Locomotion velocity, NPP test0.20.20.6-0.80.20.2
Intraocular pressure1.92.76.02.51.1-0.9
Delta distance traveled before/after self-admin0.00.00.10.3-0.00.1
Delta ambulatory time before/after self-admin0.40.40.7-0.1-0.80.8
Parametrial fat weight0.20.41.1-1.00.1-0.4
Pavlov. Cond. lever latency0.20.30.4-0.7-0.0-0.7
Pavlov. Cond. magazine entry latency0.60.82.21.50.6-0.2
Pavlov. Cond. change in total contacts0.60.61.70.2-0.41.3
Pavlov. Cond. index score0.50.71.61.30.20.6
Pavlov. Cond. latency score0.30.40.70.80.10.6
Pavlov. Cond. lever contacts0.20.30.50.70.40.3
Pavlov. Cond. magazine entry number0.91.23.3-1.8-0.3-0.4
Pavlov. Cond. intertrial magazine entries0.50.61.90.2-0.01.4
Pavlov. Cond. lever-magazine prob. diff.0.81.02.41.50.70.3
Pavlov. Cond. response bias0.70.92.51.60.40.2
Pavlov. Cond. lever latency0.10.10.2-0.00.4-0.5
Pavlov. Cond. magazine entry latency0.10.10.20.30.40.1
Pavlov. Cond. change in total contacts0.30.50.70.3-0.80.8
Pavlov. Cond. index score0.10.10.20.3-0.20.5
Pavlov. Cond. latency score0.10.10.30.3-0.20.5
Pavlov. Cond. lever contacts0.10.10.1-0.2-0.40.2
Pavlov. Cond. magazine entry number0.10.10.2-0.5-0.4-0.3
Pavlov. Cond. intertrial magazine entries2.02.63.8-2.0-1.71.0
Pavlov. Cond. lever-magazine prob. diff.0.10.10.20.4-0.10.4
Pavlov. Cond. response bias0.00.00.00.00.10.1
Time in closed arm before self-admin0.50.61.00.3-0.81.0
Time in closed arm after self-admin0.20.20.30.6-0.30.4
Time in open arm before self-admin0.50.51.11.10.4-0.5
Time in open arm after self-admin0.40.50.8-0.40.7-0.9
Bone: periosteal estimation0.51.12.9-1.7-0.40.5
Bone: periosteal perimeter0.71.22.4-0.9-0.51.6
Bone: post-yield work0.60.82.0-1.4-0.5-0.2
Progressive ratio test 1 active lever presses1.41.42.01.11.4-1.0
Progressive ratio test 1 breakpoint1.11.21.61.11.3-0.8
Progressive ratio test 1 inactive lever presses0.10.10.30.40.6-0.0
Progressive ratio test 2 active lever presses0.50.60.90.90.7-0.6
Progressive ratio test 2 breakpoint0.80.91.10.91.0-0.9
Progressive ratio test 2 inactive lever presses1.72.02.71.41.6-1.2
Incentive Sensitization - Responses0.10.20.30.2-0.50.3
Incentive Sensitization - Breakpoint0.20.20.30.2-0.60.4
Sum of active levers in priming session hrs 5-60.60.61.5-1.2-0.60.1
Progressive ratio0.20.20.5-0.7-0.1-0.1
Food seeking constrained by brief footshock1.41.72.3-1.5-1.11.3
Seeking ratio, punishment vs. effort0.40.40.9-0.4-0.50.9
Retroperitoneal fat weight0.72.33.6-1.21.9-1.3
Reaction time number correct0.71.12.41.5-0.50.7
Reaction time mean minus median0.91.21.80.91.4-1.1
Reaction time mean minus median AUC1.41.82.61.31.6-1.1
Reaction time num false alarms0.50.61.31.10.7-0.3
Reaction time num false alarms AUC0.50.72.01.40.2-0.0
Reaction time trials correct on left0.71.12.41.5-0.50.7
Reaction time trials on left0.71.02.51.6-0.40.6
Reaction time mean3.34.65.72.12.4-1.9
Reaction time mean AUC3.44.65.72.22.4-1.9
Median of all reaction times3.44.65.42.22.3-1.9
Reaction time omissions2.33.24.71.12.2-1.9
Reaction time false alarm rate0.10.20.30.50.4-0.2
Reaction time premature initiation rate4.66.27.7-2.8-2.62.1
Reaction time premature initiations3.24.56.0-1.8-2.52.1
Std. dev. reaction times1.62.22.91.21.7-1.5
Reaction time trials completed0.71.02.51.6-0.40.6
Reaction time trials AUC0.60.92.41.5-0.30.5
Run reversals in cocaine runway, females3.93.86.30.22.5-2.2
Run reversals in cocaine runway, males0.60.61.31.10.5-0.4
Latency to leave start box in cocaine runway1.21.32.1-0.71.2-1.5
Latency to leave start box in cocaine runway, F1.21.32.20.01.5-1.4
Latency to leave start box in cocaine runway, M1.51.44.0-2.00.2-0.5
Std. dev. time between licks in bursts1.61.92.9-1.3-1.71.0
Total sessions with >9 infusions1.41.64.52.10.50.1
Short access day 1 total inactive lever presses0.50.60.9-0.70.9-0.7
Short access day 10 total inactive lever presses1.01.11.7-0.8-1.11.3
Short access day 1 total infusions1.51.63.21.81.0-0.6
Short access day 10 total infusions0.40.40.8-0.10.9-0.6
Short access total infusions0.30.40.70.40.8-0.6
Short access day 1 locomotion1.11.12.31.50.9-0.6
Short access day 10 total locomotion0.40.51.41.20.2-0.0
Short access total locomotion1.01.02.61.60.6-0.2
One hour access (0.3 mA shock)0.00.00.00.20.1-0.1
Compulsive drug intake2.22.23.60.2-1.71.9
One hour access (shock baseline)0.91.11.90.31.1-1.4
Social response proportion1.92.03.40.51.8-1.6
Social responses0.10.10.2-0.10.3-0.5
Social time0.50.71.50.1-1.20.8
Soleus weight0.10.20.3-0.40.1-0.6
Bone: stiffness0.91.42.1-1.41.0-1.0
Tibialis anterior weight0.10.30.70.90.20.5
Time to tail flick, vehicle, before self-admin0.40.40.7-0.8-0.60.3
Time to tail flick, vehicle, after self-admin1.01.13.0-1.70.1-0.6
Time to tail flick, test, before self-admin1.71.73.10.81.8-1.1
Time to tail flick, test, after self-admin0.10.10.1-0.30.3-0.1
Delta time to tail flick, vehicle, before/after SA0.30.30.9-0.9-0.1-0.0
Delta time to tail flick, test, before/after SA0.10.10.10.1-0.30.4
Tibia length0.00.10.2-0.20.20.4
Ambulatory time before self-admin1.31.32.20.51.5-1.2
Ambulatory time after self-admin0.30.40.70.10.8-0.6
Bone: tissue strength0.60.60.91.00.80.4
Total heroin consumption0.40.50.8-0.20.9-0.8
Bone: trabecular number3.96.212.0-1.6-3.52.0
Bone: trabecular spacing2.93.86.61.52.6-1.6
Bone: trabecular thickness0.40.51.1-1.0-0.6-0.2
Bone: trabecular tissue density2.73.85.50.82.3-2.3
Water consumed over 24 hours0.60.81.9-1.4-0.60.1
Number of responses in last shaping day1.51.53.51.90.9-0.5