Hub : Genes

Rftn2

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 PL isoform ratio XM_039084840.1 0.02 0.02 7.1e-03 0.02 0.01 0.01 0.01 5.0e-03 1.0e-02 9.0e-03 1.3e-02
2 PL isoform ratio XM_343571.9 0.02 0.02 9.6e-03 0.01 0.01 0.01 0.01 8.1e-03 1.2e-02 1.4e-02 1.2e-02
3 NAcc gene expression Rftn2 0.07 0.05 1.4e-06 0.04 0.03 0.06 0.03 1.4e-05 7.5e-05 2.0e-07 8.0e-05

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 density8.514.314.3-3.83.83.8
Area under the delay curve0.00.00.00.0-0.00.1
BMI with tail3.712.113.03.6-3.6-3.2
BMI without tail0.10.20.20.4-0.4-0.4
Body weight0.83.23.4-1.71.71.8
Weight adjusted by age1.11.21.2-1.11.11.1
Bone surface8.014.214.2-3.83.83.8
Bone volume8.915.215.3-3.93.93.9
Breakpoint value in progressive ratio session0.00.00.00.1-0.1-0.1
Number of licking bursts0.40.50.60.7-0.7-0.6
Context. condit. distance diff. score1.82.22.31.5-1.5-1.4
Locomotion velocity, session 10.40.40.50.6-0.6-0.7
Locomotion distance, session 10.10.10.10.3-0.3-0.3
Locomotion velocity, session 20.10.10.10.3-0.3-0.4
Locomotion distance, session 20.10.10.10.3-0.3-0.2
Locomotion velocity, session 30.00.00.00.1-0.1-0.1
Locomotion distance, session 30.10.10.10.3-0.3-0.3
Stereotopy head waving bouts, day 31.82.22.31.4-1.4-1.5
Stereotopy head waving duration, day 30.30.30.40.6-0.6-0.6
Locomotion velocity, session 70.10.10.10.2-0.2-0.2
Locomotion distance, session 70.00.00.00.0-0.0-0.1
Stereotopy head waving bouts, day 70.50.60.7-0.70.70.9
Stereotopy head waving duration, day 70.20.20.3-0.40.40.6
Locomotion velocity, session 80.00.00.00.2-0.20.0
Locomotion distance, session 81.31.81.91.4-1.4-1.3
Degree of sensitization distance0.20.20.2-0.50.50.4
Degree of sensitization stereotypy0.90.91.4-0.80.81.2
Conditioned locomotion0.91.11.2-1.01.01.1
Cocaine response after cond. corrected3.03.33.8-1.81.82.0
Cocaine response after cond. not corrected4.75.25.9-2.22.22.4
Cocaine response before conditioning0.00.00.00.2-0.2-0.2
Saline control response0.30.40.50.7-0.7-0.5
Bone: connectivity density4.87.58.1-2.72.72.8
Bone: cortical apparent density8.911.812.33.4-3.4-3.5
Bone: cortical area0.10.20.3-0.50.50.3
Bone: cortical porosity4.24.65.2-2.32.31.9
Bone: cortical porosity6.36.97.5-2.72.72.4
Bone: cortical thickness1.82.93.41.6-1.6-1.8
Bone: cortical thickness0.80.91.01.0-1.0-0.9
Bone: cortical tissue density9.011.912.23.4-3.4-3.5
Condit. Reinf. active minus inactive responses0.10.20.2-0.40.40.4
Condit. Reinf. active-inactive response ratio0.10.10.1-0.30.30.3
Condit. Reinf. active responses0.81.01.1-1.01.01.0
Condit. Reinf. inactive responses0.20.30.3-0.60.60.5
Incentive salience index mean0.40.50.6-0.70.70.7
Condit. Reinf. lever presses0.40.60.6-0.80.80.7
Condit. Reinf. active minus inactive responses4.25.25.4-2.32.32.3
Condit. Reinf. active-inactive response ratio1.01.01.1-1.01.01.0
Condit. Reinf. active responses2.33.23.2-1.81.81.8
Condit. Reinf. inactive responses0.40.40.5-0.70.70.7
Condit. Reinf. lever presses0.00.00.00.1-0.1-0.1
Condit. Reinf. lever reinforcers received2.23.23.3-1.81.81.8
Conditioned reinforcement - actives0.00.00.00.2-0.2-0.1
Conditioned reinforcement - inactives0.10.10.1-0.40.40.0
Conditioned locomotion0.60.70.80.9-0.9-0.7
Patch foraging indifference point 0 sec0.10.20.30.5-0.5-0.3
Patch foraging indifference point AUC0.10.10.1-0.40.40.4
Delay disc. indifference point, 0s delay1.61.72.01.4-1.4-1.1
Delay disc. indifference point, 16s delay0.00.00.0-0.10.10.1
Delay disc. indifference point, 2s delay0.50.60.80.9-0.9-0.4
Delay disc. indifference point, 24s delay0.40.40.50.6-0.6-0.7
Delay disc. indifference point, 4s delay0.50.50.60.8-0.8-0.6
Delay disc. indifference point, 8s delay0.60.60.7-0.70.70.9
Indifference point function ln k0.60.91.11.0-1.0-0.7
Indifference point function log k0.60.91.11.0-1.0-0.7
Patch foraging total patch changes 0 sec0.30.50.60.8-0.8-0.5
Patch foraging total patch changes 12 sec0.10.10.10.4-0.4-0.2
Patch foraging total patch changes 18 sec1.21.61.71.3-1.3-1.2
Patch foraging total patch changes 24 sec0.00.00.1-0.10.10.2
Patch foraging total patch changes 6 sec0.00.00.00.2-0.20.2
Patch foraging time to switch 0 sec0.00.00.0-0.10.1-0.1
Patch foraging water rate 0 sec0.00.10.1-0.20.20.4
Patch foraging water rate 12 sec0.10.10.10.4-0.40.2
Patch foraging water rate 18 sec0.20.30.4-0.40.40.6
Patch foraging water rate 24 sec0.10.10.3-0.20.20.5
Patch foraging water rate 6 sec0.00.00.10.3-0.3-0.0
Seeking ratio, delayed vs. immediate footshock2.12.43.0-1.51.51.7
Distance traveled before self-admin2.93.13.1-1.81.81.7
Distance traveled after self-admin0.40.50.60.8-0.8-0.5
Extensor digitorum longus weight2.39.19.33.0-3.0-3.1
Bone: elastic displacement0.30.40.50.7-0.7-0.4
Bone: elastic work1.11.41.5-1.21.21.2
Bone: endosteal estimation5.512.012.2-3.53.53.4
Bone: endosteal perimeter5.210.810.9-3.33.33.3
Epididymis fat weight1.02.22.3-1.51.51.4
Delta time in closed arm before/after self-admin0.40.40.50.5-0.5-0.7
Delta time in open arm before/after self-admin7.77.47.5-2.72.72.7
Diff in mean of infusions in LGA sessions0.50.50.7-0.70.70.8
Delay discount exponential model param0.00.00.0-0.00.0-0.2
Extinction: sum of active levers before priming0.80.81.1-0.80.81.0
Active lever presses in extinction session 60.30.30.3-0.50.50.5
Bone: final force0.91.41.7-1.31.30.9
Bone: final moment0.50.81.0-1.01.00.7
Food consumed during 24 hour testing period0.00.00.0-0.10.1-0.0
Glucose1.21.71.91.3-1.3-1.4
Heart weight0.00.00.00.1-0.10.1
Delay discount hyperbolic model param0.00.00.1-0.20.20.0
Intermittent access intake day 1-15 change0.90.91.11.1-1.1-0.7
Intermittent access intake escalation0.70.70.90.9-0.9-0.6
Intermittent access intake escalation 20.00.00.10.1-0.10.3
Intermitt. access day 1 inactive lever presses1.92.12.11.4-1.4-1.4
Intermitt. access day 15 inactive lever presses0.10.10.10.3-0.3-0.3
Intermitt. access escalation Index0.00.00.0-0.10.10.0
Intermittent access day 1 total infusions0.20.30.4-0.60.60.3
Intermittent access day 15 total infusions0.00.10.10.2-0.2-0.3
Intermittent access terminal intake (last 3 days)0.10.10.10.3-0.3-0.3
Intermittent access total infusions0.10.10.1-0.30.30.1
Intermittent access day 1 locomotion0.10.10.30.2-0.2-0.6
Intermittent access day 15 total locomotion0.20.30.3-0.60.60.3
Intermittent access total locomotion0.00.00.0-0.10.1-0.2
Intermittent access standard deviation1.11.11.31.1-1.1-1.0
Left kidney weight0.20.50.7-0.70.70.8
Right kidney weight0.30.81.3-0.80.81.1
Cocaine induced anxiety0.20.20.30.6-0.6-0.3
Post-drug Anxiety0.00.00.0-0.00.00.0
Baseline Anxiety0.50.50.7-0.80.80.5
Tail length9.528.830.5-5.55.55.0
Length with tail10.638.840.1-6.36.36.0
Length without tail1.22.62.7-1.61.61.6
Times rat made contact with spout0.00.00.10.0-0.0-0.3
Lifetime Intake0.00.00.00.1-0.1-0.2
Liver weight, left2.13.43.9-1.81.82.0
Liver weight, right1.72.83.4-1.61.61.8
Locomotor activity0.10.10.1-0.40.40.1
Locomotor testing distance0.00.00.0-0.10.10.0
Locomotor testing rearing0.20.30.3-0.50.50.5
Locomotion in novel chamber1.72.12.21.5-1.5-1.4
Locomotion in novel chamber post-restriction1.31.61.81.2-1.2-1.3
Fecal boli incidents, locomotor time 14.24.64.9-2.12.12.2
Change in fecal boli incidents, locomotor task0.40.40.40.6-0.6-0.6
Time >=10cm from walls, locomotor time 11.01.01.2-1.01.01.1
Bouts of movement, locomotor time 10.20.20.2-0.50.50.3
Total resting periods, locomotor time 10.10.10.10.2-0.2-0.4
Rest time, locomotor task time 10.50.61.10.6-0.6-1.0
Distance moved, locomotor task time 10.60.61.1-0.60.61.1
Vertical activity count, locomotor time 10.10.10.20.4-0.4-0.1
Time >=10cm from walls, locomotor time 21.92.02.5-1.31.31.6
Bouts of movement, locomotor time 20.20.30.40.6-0.6-0.2
Total resting periods, locomotor time 20.30.30.40.6-0.6-0.4
Rest time, locomotor task time 20.40.50.90.5-0.5-1.0
Distance moved, locomotor task time 20.60.71.3-0.70.71.1
Vertical activity count, locomotor time 20.10.20.20.5-0.5-0.0
Light reinforcement 13.56.46.92.6-2.6-2.3
Light reinforcement 20.00.00.10.3-0.30.0
Bone: marrow area5.211.311.5-3.43.43.3
Bone: maximum diameter1.01.92.1-1.41.41.2
Bone: maximum force2.23.94.2-2.02.01.8
Bone: maximum moment1.52.72.9-1.71.71.5
Mean time between licks in bursts0.60.81.00.8-0.8-1.0
Mean num. licks in bursts0.10.10.2-0.40.40.2
Cd content in liver0.00.00.1-0.20.20.1
Co content in liver1.01.21.61.0-1.0-1.2
Cu content in liver0.10.10.1-0.30.30.3
Fe content in liver1.72.02.0-1.41.41.4
K content in liver0.00.00.0-0.00.00.1
Mg content in liver0.30.30.5-0.40.40.7
Mn content in liver2.22.52.71.5-1.5-1.6
Na content in liver1.31.31.5-1.11.11.2
Rb content in liver1.72.12.9-1.31.31.7
Se content in liver0.00.10.10.2-0.2-0.2
Sr content in liver0.70.60.80.7-0.7-0.9
Zn content in liver0.00.00.00.1-0.1-0.2
Bone: minimum diameter0.71.31.5-1.21.21.0
Time in familiar zone, hab. session 10.00.00.00.1-0.1-0.0
Time in novel zone, hab. session 10.00.00.0-0.10.10.0
Total zone transitions, hab. session 10.10.10.1-0.30.30.3
Total locomotion distance, hab. session 10.30.40.4-0.60.60.7
Locomotion velocity, hab. session 10.40.60.6-0.80.80.7
Time in familiar zone, hab. session 21.21.21.31.1-1.1-1.1
Time in novel zone, hab. session 20.40.40.4-0.60.60.7
Total zone transitions, hab. session 20.00.00.0-0.20.20.1
Total locomotion distance, hab. session 20.20.30.3-0.60.60.5
Locomotion velocity, hab. session 20.40.50.6-0.80.80.7
Novel to familiar place preference ratio1.71.71.8-1.31.31.3
Novelty place preference1.81.81.8-1.31.31.4
Time in novel zone, NPP test1.41.41.5-1.21.21.2
Total zone transitions, NPP test0.10.20.20.4-0.4-0.5
Total locomotion distance, NPP test0.20.30.30.5-0.5-0.5
Locomotion velocity, NPP test0.20.30.30.6-0.6-0.6
Intraocular pressure3.65.05.12.3-2.3-2.2
Delta distance traveled before/after self-admin2.83.03.31.8-1.8-1.6
Delta ambulatory time before/after self-admin2.42.62.71.7-1.7-1.6
Parametrial fat weight0.00.00.00.1-0.1-0.0
Pavlov. Cond. lever latency0.50.60.60.7-0.7-0.8
Pavlov. Cond. magazine entry latency0.30.40.4-0.60.60.6
Pavlov. Cond. change in total contacts0.10.10.1-0.30.30.4
Pavlov. Cond. index score0.30.30.3-0.60.60.5
Pavlov. Cond. latency score0.60.70.8-0.90.90.8
Pavlov. Cond. lever contacts0.20.30.3-0.60.60.5
Pavlov. Cond. magazine entry number0.50.60.60.8-0.8-0.7
Pavlov. Cond. intertrial magazine entries0.70.91.0-0.90.91.0
Pavlov. Cond. lever-magazine prob. diff.0.10.20.2-0.40.40.3
Pavlov. Cond. response bias0.20.20.3-0.50.50.4
Pavlov. Cond. lever latency0.10.10.1-0.20.20.3
Pavlov. Cond. magazine entry latency0.00.00.10.1-0.1-0.2
Pavlov. Cond. change in total contacts0.00.00.0-0.20.20.2
Pavlov. Cond. index score0.00.00.00.0-0.0-0.2
Pavlov. Cond. latency score0.00.00.00.0-0.0-0.2
Pavlov. Cond. lever contacts0.00.00.0-0.10.10.0
Pavlov. Cond. magazine entry number0.20.30.30.6-0.6-0.4
Pavlov. Cond. intertrial magazine entries0.10.10.10.4-0.4-0.1
Pavlov. Cond. lever-magazine prob. diff.0.00.00.00.1-0.1-0.2
Pavlov. Cond. response bias0.20.30.4-0.60.60.5
Time in closed arm before self-admin6.06.87.4-2.72.72.4
Time in closed arm after self-admin1.51.51.6-1.31.31.1
Time in open arm before self-admin9.09.710.03.2-3.2-3.0
Time in open arm after self-admin0.40.40.4-0.70.70.6
Bone: periosteal estimation3.26.56.9-2.62.62.4
Bone: periosteal perimeter2.33.94.0-2.02.01.9
Bone: post-yield work0.91.21.3-1.11.11.0
Progressive ratio test 1 active lever presses0.10.10.20.1-0.1-0.5
Progressive ratio test 1 breakpoint0.00.00.10.0-0.0-0.3
Progressive ratio test 1 inactive lever presses3.94.34.32.1-2.1-2.1
Progressive ratio test 2 active lever presses0.00.00.0-0.10.1-0.1
Progressive ratio test 2 breakpoint0.20.20.30.4-0.4-0.5
Progressive ratio test 2 inactive lever presses0.50.60.80.7-0.7-0.9
Incentive Sensitization - Responses0.30.30.3-0.60.60.5
Incentive Sensitization - Breakpoint0.20.20.2-0.50.50.5
Sum of active levers in priming session hrs 5-61.21.21.2-1.11.11.1
Progressive ratio0.70.81.00.9-0.9-1.0
Food seeking constrained by brief footshock0.00.00.1-0.10.10.3
Seeking ratio, punishment vs. effort1.21.41.9-1.11.11.4
Retroperitoneal fat weight0.00.10.10.3-0.3-0.1
Reaction time number correct0.30.50.60.8-0.8-0.5
Reaction time mean minus median0.10.10.2-0.40.40.1
Reaction time mean minus median AUC0.10.10.1-0.40.40.1
Reaction time num false alarms4.05.55.82.4-2.4-2.2
Reaction time num false alarms AUC4.66.36.82.6-2.6-2.3
Reaction time trials correct on left0.30.50.60.8-0.8-0.5
Reaction time trials on left0.30.40.50.7-0.7-0.5
Reaction time mean1.01.41.7-1.31.30.8
Reaction time mean AUC0.50.70.9-1.01.00.4
Median of all reaction times1.01.41.8-1.31.30.8
Reaction time omissions0.20.20.3-0.50.50.2
Reaction time false alarm rate2.23.13.31.8-1.8-1.7
Reaction time premature initiation rate1.11.41.51.2-1.2-1.2
Reaction time premature initiations1.72.32.51.6-1.6-1.4
Std. dev. reaction times1.01.41.6-1.31.30.9
Reaction time trials completed0.30.40.50.7-0.7-0.5
Reaction time trials AUC0.30.50.60.8-0.8-0.5
Run reversals in cocaine runway, females0.00.00.00.1-0.10.2
Run reversals in cocaine runway, males0.00.00.10.2-0.2-0.2
Latency to leave start box in cocaine runway7.17.68.12.8-2.8-2.6
Latency to leave start box in cocaine runway, F5.96.57.02.6-2.6-2.4
Latency to leave start box in cocaine runway, M0.80.80.80.9-0.9-0.9
Std. dev. time between licks in bursts4.55.45.42.3-2.3-2.3
Total sessions with >9 infusions1.71.92.01.3-1.3-1.4
Short access day 1 total inactive lever presses0.20.20.30.4-0.4-0.5
Short access day 10 total inactive lever presses0.10.10.10.3-0.3-0.4
Short access day 1 total infusions0.50.50.60.7-0.7-0.8
Short access day 10 total infusions0.10.10.1-0.30.30.2
Short access total infusions0.40.40.50.6-0.6-0.7
Short access day 1 locomotion0.50.50.70.6-0.6-0.8
Short access day 10 total locomotion0.00.00.10.1-0.1-0.2
Short access total locomotion0.00.00.0-0.10.10.1
One hour access (0.3 mA shock)0.00.00.0-0.00.0-0.2
Compulsive drug intake0.10.10.10.2-0.2-0.3
One hour access (shock baseline)0.20.20.2-0.50.50.4
Social response proportion4.34.74.9-2.12.12.2
Social responses0.50.70.7-0.80.80.8
Social time0.00.10.1-0.30.30.2
Soleus weight0.10.40.5-0.60.60.7
Bone: stiffness2.74.24.4-2.12.11.9
Tibialis anterior weight0.62.12.31.4-1.4-1.5
Time to tail flick, vehicle, before self-admin0.00.00.10.2-0.2-0.3
Time to tail flick, vehicle, after self-admin0.20.20.3-0.50.50.4
Time to tail flick, test, before self-admin0.50.50.60.7-0.7-0.8
Time to tail flick, test, after self-admin1.21.31.31.1-1.1-1.1
Delta time to tail flick, vehicle, before/after SA0.00.00.00.0-0.00.0
Delta time to tail flick, test, before/after SA0.50.40.50.6-0.6-0.7
Tibia length5.615.917.0-4.14.13.7
Ambulatory time before self-admin1.51.61.9-1.21.21.4
Ambulatory time after self-admin1.61.82.11.4-1.4-1.1
Bone: tissue strength0.20.20.2-0.50.50.4
Total heroin consumption0.00.00.0-0.20.20.2
Bone: trabecular number5.68.89.1-2.92.93.0
Bone: trabecular spacing0.40.50.60.7-0.7-0.8
Bone: trabecular thickness2.73.33.4-1.81.81.9
Bone: trabecular tissue density0.71.01.90.7-0.7-1.4
Water consumed over 24 hours0.60.70.80.8-0.8-0.9
Number of responses in last shaping day1.41.41.61.2-1.2-1.1