Retn

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 Adipose gene expression ENSRNOG00000001001 0.3 0.11 0.0e+00 0.16 0.17 0.18 0.18 5.0e-17 2.9e-18 1.4e-19 1.1e-19
2 Adipose isoform ratio ENSRNOT00000001325 0.07 0.04 4.2e-03 0 0.01 0.01 0.01 1.8e-01 1.6e-02 2.6e-02 5.0e-02
3 Adipose mRNA stability ENSRNOG00000001001 0.04 0.03 7.3e-03 0.01 0.01 0 0.01 7.8e-03 2.6e-02 2.6e-01 5.1e-02

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 strong Z-scores (below -2 or above 2): lower negative Z-scores are darker blue, higher positive Z-scores are darker red.

Trait Avg chi2 ratio Avg chi2 Max chi2 1 2 3
BMI with tail2.27.214.3-0.8-3.8-2.6
BMI without tail1.83.87.8-1.0-2.8-1.6
Body weight4.920.652.60.2-7.3-3.0
Epididymis fat weight0.30.81.3-0.7-1.1-0.8
Glucose0.50.81.3-0.9-0.3-1.2
Heart weight1.01.52.4-0.71.51.3
Left kidney weight1.23.510.20.6-3.2-0.2
Right kidney weight1.33.610.00.7-3.2-0.5
Tail length1.85.414.0-0.8-3.7-1.3
Length with tail3.513.035.50.1-6.0-1.8
Length without tail3.78.120.40.3-4.5-2.0
Liver weight, left1.72.85.22.30.41.7
Liver weight, right0.61.02.10.9-1.40.5
Parametrial fat weight0.10.20.70.8-0.1-0.1
Retroperitoneal fat weight1.75.59.6-1.6-2.0-3.1
Intraocular pressure0.20.30.50.4-0.70.5
Extensor digitorum longus weight1.45.615.9-0.3-4.0-1.0
Soleus weight0.30.81.70.7-1.30.5
Tibialis anterior weight2.68.922.7-0.8-4.8-1.9
Tibia length1.02.76.00.7-2.5-1.2
Number of licking bursts1.31.51.61.21.21.2
Food consumed during 24 hour testing period1.01.21.71.30.61.2
Times rat made contact with spout0.20.20.5-0.4-0.7-0.4
Mean time between licks in bursts0.60.92.10.31.50.7
Mean num. licks in bursts0.70.81.2-0.8-1.1-0.8
Std. dev. time between licks in bursts0.10.10.2-0.40.00.2
Water consumed over 24 hours0.60.61.01.0-0.10.9
Indifference point 0 sec2.03.24.42.11.21.9
Indifference point AUC0.10.20.30.4-0.20.6
Indifference point function ln k0.50.71.10.40.91.1
Indifference point function log k0.50.71.10.40.91.1
Delay discounting total patch changes 0 sec2.84.65.82.31.62.4
Delay discounting total patch changes 12 sec0.60.81.91.40.10.8
Delay discounting total patch changes 18 sec2.93.85.02.21.32.2
Delay discounting total patch changes 24 sec2.83.56.11.41.52.5
Delay discounting total patch changes 6 sec1.72.64.02.00.81.8
Delay discounting time to switch 0 sec2.23.47.7-0.9-1.3-2.8
Delay discounting water rate 0 sec3.35.310.62.01.23.3
Delay discounting water rate 12 sec1.01.43.10.41.01.8
Delay discounting water rate 18 sec0.40.50.8-0.90.60.7
Delay discounting water rate 24 sec0.60.82.10.50.31.4
Delay discounting water rate 6 sec0.71.12.70.60.51.6
Locomotor activity0.40.71.4-1.2-0.8-0.1
Locomotor testing distance0.30.41.00.50.21.0
Locomotor testing rearing0.71.11.41.10.81.2
Light reinforcement 11.22.23.8-1.9-0.5-1.6
Light reinforcement 20.30.40.90.30.90.5
Reaction time number correct1.31.83.21.20.81.8
Reaction time mean minus median5.67.39.9-3.1-2.4-2.5
Reaction time mean minus median AUC1.41.84.2-2.1-0.6-0.9
Reaction time num false alarms1.01.33.5-1.9-0.3-0.7
Reaction time num false alarms AUC0.60.92.3-1.5-0.4-0.4
Reaction time trials correct on left1.31.83.21.20.81.8
Reaction time trials on left1.11.62.91.20.81.7
Reaction time mean2.63.65.7-2.4-0.5-2.2
Reaction time mean AUC2.43.15.3-2.3-0.4-2.0
Median of all reaction times1.62.23.3-1.80.2-1.8
Reaction time omissions1.01.42.8-1.7-0.4-1.1
Reaction time false alarm rate1.52.24.2-2.0-0.9-1.3
Reaction time premature initiation rate0.60.81.5-1.2-0.5-0.8
Reaction time premature initiations0.10.10.3-0.6-0.20.0
Std. dev. reaction times3.44.76.9-2.6-1.5-2.2
Reaction time trials completed1.11.62.91.20.81.7
Reaction time trials AUC1.21.73.21.10.91.8
Social response proportion3.43.74.9-1.8-2.2-1.8
Social responses0.30.40.7-0.7-0.90.0
Social time0.91.22.1-1.51.0-0.6
Conditioned locomotion0.30.30.70.80.10.6
Cocaine response after cond. corrected0.70.70.90.7-0.9-1.0
Cocaine response after cond. not corrected1.21.32.2-0.0-1.5-1.4
Cocaine response before conditioning0.81.02.0-1.4-1.0-0.5
Saline control response0.50.71.80.50.21.3
Condit. Reinf. active minus inactive responses1.72.12.8-1.7-1.4-1.2
Condit. Reinf. active-inactive response ratio1.71.73.0-1.7-0.9-1.2
Condit. Reinf. active responses2.02.83.3-1.8-1.8-1.3
Condit. Reinf. inactive responses0.20.20.6-0.3-0.8-0.0
Condit. Reinf. lever presses0.40.50.9-0.7-1.0-0.4
Condit. Reinf. lever reinforcers received1.82.53.7-1.9-1.5-1.2
Pavlov. Cond. lever latency1.41.93.51.90.91.1
Pavlov. Cond. magazine entry latency2.42.84.6-2.1-0.8-1.8
Pavlov. Cond. change in total contacts0.50.72.0-1.4-0.1-0.5
Pavlov. Cond. index score1.41.84.0-2.0-0.5-1.1
Pavlov. Cond. latency score1.41.83.7-1.9-0.6-1.2
Pavlov. Cond. lever contacts1.31.83.0-1.7-1.0-1.1
Pavlov. Cond. magazine entry number1.21.53.41.80.11.1
Pavlov. Cond. intertrial magazine entries0.20.20.40.40.10.6
Pavlov. Cond. lever-magazine prob. diff.1.51.94.3-2.1-0.4-1.1
Pavlov. Cond. response bias1.82.45.0-2.2-0.8-1.3
Conditioned reinforcement - actives0.20.20.7-0.1-0.80.2
Conditioned reinforcement - inactives0.91.01.51.00.81.2
Conditioned locomotion0.20.30.6-0.2-0.80.5
Intermittent access intake day 1-15 change1.21.21.91.40.51.2
Intermittent access intake escalation0.70.71.11.00.21.0
Intermittent access intake escalation 20.70.71.10.80.71.0
Intermitt. access day 1 inactive lever presses2.22.33.41.31.41.8
Intermitt. access day 15 inactive lever presses0.60.61.91.40.20.1
Intermitt. access escalation Index0.30.30.3-0.40.50.6
Intermittent access day 1 total infusions0.50.61.6-1.20.3-0.2
Intermittent access day 15 total infusions0.30.30.70.10.50.8
Intermittent access terminal intake (last 3 days)0.10.10.20.00.50.3
Intermittent access total infusions0.30.30.7-0.90.1-0.3
Intermittent access day 1 locomotion0.80.82.2-1.50.2-0.3
Intermittent access day 15 total locomotion0.60.61.0-1.00.40.8
Intermittent access total locomotion0.80.92.6-1.60.40.1
Intermittent access standard deviation1.31.43.31.80.40.8
Cocaine induced anxiety0.30.30.7-0.8-0.4-0.4
Post-drug Anxiety1.82.03.6-1.9-0.2-1.5
Baseline Anxiety1.21.22.5-1.10.1-1.6
Lifetime Intake0.20.30.4-0.6-0.1-0.7
Incentive Sensitization - Responses0.30.30.3-0.50.40.5
Incentive Sensitization - Breakpoint0.30.30.3-0.60.50.6
Progressive ratio test 1 active lever presses0.00.00.0-0.1-0.00.1
Progressive ratio test 1 breakpoint0.00.00.0-0.1-0.2-0.1
Progressive ratio test 1 inactive lever presses0.80.91.80.50.71.3
Progressive ratio test 2 active lever presses0.20.20.4-0.6-0.10.4
Progressive ratio test 2 breakpoint0.30.30.8-0.90.20.3
Progressive ratio test 2 inactive lever presses2.12.55.21.20.92.3
Total sessions with >9 infusions0.20.20.3-0.5-0.4-0.5
Short access day 1 total inactive lever presses0.40.50.50.70.70.7
Short access day 10 total inactive lever presses1.51.63.51.90.11.2
Short access day 1 total infusions0.30.30.70.80.5-0.2
Short access day 10 total infusions0.00.00.1-0.20.3-0.2
Short access total infusions0.50.51.4-0.2-0.3-1.2
Short access day 1 locomotion1.11.22.8-1.70.0-0.9
Short access day 10 total locomotion0.30.30.40.40.60.6
Short access total locomotion0.50.50.8-0.9-0.1-0.9
Compulsive drug intake1.31.33.30.21.80.8
One hour access (0.3 mA shock)1.92.23.70.41.61.9
One hour access (shock baseline)0.20.20.3-0.4-0.30.6
Number of responses in last shaping day0.20.20.30.40.40.5
Context. condit. distance diff. score2.22.65.9-1.0-2.4-1.0
Locomotion velocity, session 10.40.40.9-1.00.0-0.6
Locomotion distance, session 10.30.41.0-0.61.00.1
Locomotion velocity, session 20.20.30.6-0.80.4-0.3
Locomotion distance, session 21.01.43.2-0.41.80.9
Locomotion velocity, session 30.30.40.6-0.5-0.8-0.5
Locomotion distance, session 30.60.71.00.70.71.0
Stereotopy head waving bouts, day 30.50.60.90.9-0.80.5
Stereotopy head waving duration, day 30.10.10.20.4-0.2-0.0
Locomotion velocity, session 72.32.63.7-1.9-0.8-1.8
Locomotion distance, session 70.81.02.3-1.5-0.3-0.8
Stereotopy head waving bouts, day 70.20.20.4-0.30.70.2
Stereotopy head waving duration, day 70.10.20.4-0.30.60.0
Locomotion velocity, session 80.70.81.0-0.9-0.8-1.0
Locomotion distance, session 80.71.11.9-0.9-1.4-0.8
Degree of sensitization distance1.01.02.0-1.40.2-0.9
Degree of sensitization stereotypy0.10.10.3-0.60.2-0.2
Condit. Reinf. active minus inactive responses0.40.50.7-0.8-0.3-0.8
Condit. Reinf. active-inactive response ratio1.01.11.6-1.0-0.9-1.3
Condit. Reinf. active responses0.20.20.6-0.80.1-0.3
Condit. Reinf. inactive responses0.40.50.8-0.60.90.5
Incentive salience index mean0.20.20.5-0.70.0-0.3
Condit. Reinf. lever presses0.10.10.3-0.50.20.2
Time in familiar zone, hab. session 11.01.01.91.40.70.7
Time in novel zone, hab. session 10.70.70.8-0.9-0.9-0.8
Total zone transitions, hab. session 10.50.81.6-1.30.7-0.3
Total locomotion distance, hab. session 10.40.61.2-1.1-0.3-0.7
Locomotion velocity, hab. session 10.60.81.9-1.40.1-0.7
Time in familiar zone, hab. session 20.20.20.30.2-0.6-0.5
Time in novel zone, hab. session 20.20.30.4-0.60.60.2
Total zone transitions, hab. session 20.10.10.2-0.40.30.0
Total locomotion distance, hab. session 20.10.10.3-0.50.40.0
Locomotion velocity, hab. session 20.10.20.3-0.50.50.1
Novel to familiar place preference ratio0.10.10.2-0.40.4-0.1
Novelty place preference0.20.20.3-0.50.6-0.1
Time in novel zone, NPP test0.10.10.2-0.40.4-0.1
Total zone transitions, NPP test0.10.20.5-0.7-0.1-0.3
Total locomotion distance, NPP test1.01.42.3-1.5-0.9-1.1
Locomotion velocity, NPP test0.71.02.2-1.5-0.6-0.7
Pavlov. Cond. lever latency0.40.50.91.0-0.70.4
Pavlov. Cond. magazine entry latency0.20.30.4-0.7-0.5-0.4
Pavlov. Cond. change in total contacts1.92.02.8-1.5-1.0-1.7
Pavlov. Cond. index score0.50.60.9-0.9-0.5-0.8
Pavlov. Cond. latency score0.60.81.3-1.2-0.4-0.9
Pavlov. Cond. lever contacts0.30.40.8-0.90.3-0.6
Pavlov. Cond. magazine entry number0.40.50.70.90.80.4
Pavlov. Cond. intertrial magazine entries0.80.91.90.41.40.8
Pavlov. Cond. lever-magazine prob. diff.0.40.50.5-0.7-0.5-0.7
Pavlov. Cond. response bias0.40.50.6-0.8-0.7-0.6
Bone: apparent density1.62.64.62.1-1.41.1
Bone surface1.52.66.11.3-2.5-0.2
Bone volume1.22.13.21.7-1.80.3
Bone: connectivity density1.32.13.71.5-1.90.6
Bone: cortical apparent density0.70.91.4-1.2-0.4-1.1
Bone: cortical area2.13.26.0-1.0-2.5-1.6
Bone: cortical porosity0.10.10.10.30.10.3
Bone: cortical porosity0.10.10.1-0.20.30.3
Bone: cortical thickness1.62.64.9-0.8-2.2-1.5
Bone: cortical thickness0.20.30.5-0.5-0.7-0.2
Bone: cortical tissue density0.50.71.0-1.0-0.2-1.0
Bone: elastic displacement0.10.10.30.5-0.20.3
Bone: elastic work0.60.81.60.8-1.30.3
Bone: endosteal estimation0.71.42.11.50.21.4
Bone: endosteal perimeter0.10.30.40.3-0.60.6
Bone: final force0.81.32.9-0.4-1.7-0.9
Bone: final moment0.60.92.2-0.2-1.5-0.7
Bone: marrow area0.71.62.41.50.31.5
Bone: maximum diameter0.40.82.20.4-1.5-0.2
Bone: maximum force0.40.71.90.1-1.4-0.2
Bone: maximum moment0.30.51.30.3-1.1-0.0
Bone: minimum diameter0.00.10.10.20.20.3
Bone: periosteal estimation0.30.61.60.3-1.30.0
Bone: periosteal perimeter0.71.12.2-0.9-1.5-0.6
Bone: post-yield work0.10.10.20.4-0.40.3
Bone: stiffness0.40.70.9-1.0-0.9-0.5
Bone: tissue strength2.01.93.01.71.01.3
Bone: trabecular number1.01.63.01.3-1.70.3
Bone: trabecular spacing0.60.82.2-0.21.50.2
Bone: trabecular thickness1.41.64.40.8-2.1-0.1
Bone: trabecular tissue density5.78.011.1-3.3-2.1-2.9
Breakpoint value in progressive ratio session2.22.52.9-1.7-1.6-1.4
Distance traveled before self-admin0.70.81.8-1.3-0.0-0.7
Distance traveled after self-admin0.10.20.5-0.7-0.0-0.1
Delta time in closed arm before/after self-admin0.40.41.1-1.0-0.00.1
Delta time in open arm before/after self-admin0.10.10.20.00.5-0.3
Diff in mean of infusions in LGA sessions0.10.10.1-0.3-0.40.0
Extinction: sum of active levers before priming0.50.50.9-1.0-0.2-0.7
Active lever presses in extinction session 60.10.10.20.0-0.5-0.2
Delta distance traveled before/after self-admin0.30.40.60.60.40.7
Delta ambulatory time before/after self-admin0.30.30.30.50.50.6
Time in closed arm before self-admin0.80.91.61.30.21.0
Time in closed arm after self-admin0.70.71.80.00.71.3
Time in open arm before self-admin0.30.30.7-0.8-0.2-0.3
Time in open arm after self-admin0.30.40.7-0.0-0.6-0.9
Sum of active levers in priming session hrs 5-61.21.22.2-0.5-1.0-1.5
Time to tail flick, vehicle, before self-admin2.32.33.5-1.7-0.6-1.9
Time to tail flick, vehicle, after self-admin0.40.51.1-1.00.0-0.6
Time to tail flick, test, before self-admin0.10.10.20.3-0.50.1
Time to tail flick, test, after self-admin0.80.81.4-0.4-1.0-1.2
Delta time to tail flick, vehicle, before/after SA0.60.60.80.50.80.9
Delta time to tail flick, test, before/after SA0.10.10.10.0-0.2-0.4
Ambulatory time before self-admin1.41.43.1-1.8-0.6-1.0
Ambulatory time after self-admin0.30.40.8-0.9-0.4-0.4
Total heroin consumption1.11.33.3-1.80.1-0.8
Area under the delay curve3.84.05.8-2.4-1.0-2.3
Delay disc. indifference point, 0s delay5.66.19.3-2.0-2.3-3.0
Delay disc. indifference point, 16s delay1.21.21.9-1.4-0.3-1.2
Delay disc. indifference point, 2s delay5.25.88.0-2.7-1.5-2.8
Delay disc. indifference point, 24s delay0.60.61.2-1.10.2-0.8
Delay disc. indifference point, 4s delay2.62.73.5-1.8-1.1-1.9
Delay disc. indifference point, 8s delay1.01.12.2-1.5-0.2-1.0
Delay discount exponential model param3.63.96.22.50.92.1
Delay discount hyperbolic model param3.63.85.82.40.92.2
Fecal boli incidents, locomotor time 10.10.10.3-0.3-0.50.1
Change in fecal boli incidents, locomotor task0.10.10.30.50.2-0.1
Time >=10cm from walls, locomotor time 11.61.62.4-1.3-0.8-1.6
Bouts of movement, locomotor time 10.10.10.30.0-0.50.3
Total resting periods, locomotor time 10.10.10.3-0.1-0.60.1
Rest time, locomotor task time 10.30.30.8-0.1-0.9-0.3
Distance moved, locomotor task time 10.20.20.3-0.50.5-0.1
Vertical activity count, locomotor time 10.10.10.1-0.40.30.2
Time >=10cm from walls, locomotor time 23.03.14.8-1.1-2.2-1.9
Bouts of movement, locomotor time 20.20.20.60.1-0.80.3
Total resting periods, locomotor time 20.20.30.60.3-0.70.3
Rest time, locomotor task time 20.00.00.0-0.1-0.1-0.1
Distance moved, locomotor task time 20.20.20.40.40.60.4
Vertical activity count, locomotor time 20.40.50.90.70.31.0
Weight adjusted by age0.70.71.71.3-0.20.7
Seeking ratio, delayed vs. immediate footshock2.22.54.51.22.11.3
Locomotion in novel chamber0.70.81.60.20.91.2
Locomotion in novel chamber post-restriction0.20.20.3-0.4-0.40.6
Progressive ratio0.50.61.30.41.10.6
Food seeking constrained by brief footshock2.93.53.71.91.81.9
Seeking ratio, punishment vs. effort0.20.30.50.7-0.40.4
Run reversals in cocaine runway, females0.20.20.20.40.50.4
Run reversals in cocaine runway, males1.91.92.70.71.61.7
Latency to leave start box in cocaine runway0.50.61.0-0.8-0.4-1.0
Latency to leave start box in cocaine runway, F0.20.20.40.1-0.5-0.6
Latency to leave start box in cocaine runway, M0.50.51.1-1.00.60.1
Cd content in liver3.53.96.60.72.62.2
Co content in liver2.52.93.61.81.31.9
Cu content in liver0.70.91.40.80.71.2
Fe content in liver0.70.82.1-0.5-1.5-0.0
K content in liver0.10.10.3-0.1-0.5-0.3
Mg content in liver0.10.10.30.0-0.5-0.2
Mn content in liver0.50.61.00.71.00.5
Na content in liver0.70.81.0-0.7-1.0-0.9
Rb content in liver0.20.20.5-0.10.70.3
Se content in liver3.74.57.2-1.6-2.7-2.0
Sr content in liver2.32.13.41.91.01.3
Zn content in liver1.31.43.11.8-0.41.0