Ldlrad2

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 gene expression Ldlrad2 0.02 0.01 7.6e-03 0 0.01 0.01 0 1.8e-01 9.0e-03 5.9e-02 1.1e-01
2 Adipose gene expression Ldlrad2 0.05 0.03 5.6e-06 0.04 0.04 0.03 0.04 1.9e-05 1.2e-05 1.1e-04 3.9e-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
Bone: apparent density0.10.20.30.2-0.6
Area under the delay curve0.60.60.6-0.8-0.8
BMI with tail0.00.00.10.10.3
BMI without tail0.30.60.70.90.7
Body weight2.18.810.23.22.7
Weight adjusted by age1.11.21.90.71.4
Bone surface0.10.20.20.4-0.3
Bone volume0.10.20.30.4-0.5
Breakpoint value in progressive ratio session1.51.71.91.21.4
Number of licking bursts0.00.00.1-0.10.3
Context. condit. distance diff. score0.80.91.11.10.9
Locomotion velocity, session 11.71.92.8-1.0-1.7
Locomotion distance, session 12.22.93.9-1.4-2.0
Locomotion velocity, session 24.14.85.1-2.1-2.3
Locomotion distance, session 21.01.42.5-0.6-1.6
Locomotion velocity, session 31.31.51.9-1.4-1.1
Locomotion distance, session 30.60.70.91.00.6
Stereotopy head waving bouts, day 31.51.71.9-1.3-1.4
Stereotopy head waving duration, day 30.81.01.2-1.1-0.9
Locomotion velocity, session 72.42.72.91.71.5
Locomotion distance, session 70.30.40.50.70.6
Stereotopy head waving bouts, day 70.00.00.10.00.2
Stereotopy head waving duration, day 70.10.10.10.30.3
Locomotion velocity, session 81.01.21.4-1.0-1.2
Locomotion distance, session 80.10.10.10.4-0.2
Degree of sensitization distance0.40.40.7-0.8-0.4
Degree of sensitization stereotypy1.31.51.61.11.3
Conditioned locomotion1.82.12.7-1.6-1.2
Cocaine response after cond. corrected0.40.40.8-0.90.1
Cocaine response after cond. not corrected0.20.20.2-0.40.4
Cocaine response before conditioning1.51.82.41.61.1
Saline control response0.10.10.1-0.4-0.1
Bone: connectivity density0.10.20.40.60.1
Bone: cortical apparent density2.43.13.71.61.9
Bone: cortical area1.11.72.91.70.7
Bone: cortical porosity0.70.81.0-0.8-1.0
Bone: cortical porosity1.71.82.0-1.3-1.4
Bone: cortical thickness0.71.21.81.30.8
Bone: cortical thickness0.10.10.2-0.2-0.5
Bone: cortical tissue density2.12.83.51.41.9
Condit. Reinf. active minus inactive responses0.30.40.4-0.6-0.6
Condit. Reinf. active-inactive response ratio0.10.10.2-0.4-0.2
Condit. Reinf. active responses0.20.20.5-0.1-0.7
Condit. Reinf. inactive responses0.30.30.50.3-0.7
Incentive salience index mean0.20.20.4-0.2-0.6
Condit. Reinf. lever presses0.20.20.30.5-0.5
Condit. Reinf. active minus inactive responses0.10.20.2-0.3-0.5
Condit. Reinf. active-inactive response ratio1.11.11.6-1.3-0.8
Condit. Reinf. active responses0.20.30.60.7-0.1
Condit. Reinf. inactive responses1.82.24.12.00.5
Condit. Reinf. lever presses0.60.91.70.0-1.3
Condit. Reinf. lever reinforcers received0.20.30.60.8-0.2
Conditioned reinforcement - actives0.30.30.40.70.4
Conditioned reinforcement - inactives0.20.30.40.70.3
Conditioned locomotion1.21.41.61.31.1
Patch foraging indifference point 0 sec0.10.20.40.60.1
Patch foraging indifference point AUC1.41.61.91.41.1
Delay disc. indifference point, 0s delay1.41.51.9-1.1-1.4
Delay disc. indifference point, 16s delay0.00.00.0-0.0-0.0
Delay disc. indifference point, 2s delay0.30.30.4-0.6-0.4
Delay disc. indifference point, 24s delay0.00.00.0-0.1-0.1
Delay disc. indifference point, 4s delay0.60.60.6-0.8-0.8
Delay disc. indifference point, 8s delay0.40.50.5-0.7-0.7
Indifference point function ln k4.86.77.4-2.4-2.7
Indifference point function log k4.86.77.4-2.4-2.7
Patch foraging total patch changes 0 sec0.10.10.20.4-0.2
Patch foraging total patch changes 12 sec2.02.63.51.91.3
Patch foraging total patch changes 18 sec1.31.72.51.61.0
Patch foraging total patch changes 24 sec1.21.41.61.31.1
Patch foraging total patch changes 6 sec3.14.65.22.32.0
Patch foraging time to switch 0 sec1.11.72.21.11.5
Patch foraging water rate 0 sec1.93.03.1-1.7-1.8
Patch foraging water rate 12 sec1.82.73.1-1.5-1.8
Patch foraging water rate 18 sec1.41.83.3-0.7-1.8
Patch foraging water rate 24 sec2.63.74.1-1.8-2.0
Patch foraging water rate 6 sec3.34.94.9-2.2-2.2
Seeking ratio, delayed vs. immediate footshock0.10.10.1-0.2-0.3
Distance traveled before self-admin7.88.38.72.92.8
Distance traveled after self-admin3.13.44.32.11.6
Extensor digitorum longus weight0.20.71.2-0.5-1.1
Bone: elastic displacement0.10.10.10.1-0.4
Bone: elastic work0.00.10.10.3-0.1
Bone: endosteal estimation0.51.01.81.40.4
Bone: endosteal perimeter0.20.40.80.3-0.9
Epididymis fat weight0.00.00.0-0.2-0.0
Delta time in closed arm before/after self-admin0.10.10.1-0.0-0.4
Delta time in open arm before/after self-admin0.20.20.20.30.5
Diff in mean of infusions in LGA sessions0.00.00.00.0-0.1
Delay discount exponential model param0.40.50.50.70.7
Extinction: sum of active levers before priming0.60.60.80.90.7
Active lever presses in extinction session 60.20.20.30.40.6
Bone: final force1.62.63.61.91.3
Bone: final moment1.22.03.01.71.0
Food consumed during 24 hour testing period1.01.21.60.91.3
Glucose3.35.07.61.62.8
Heart weight1.52.13.01.11.7
Delay discount hyperbolic model param0.50.50.60.80.7
Intermittent access intake day 1-15 change0.40.40.7-0.1-0.9
Intermittent access intake escalation0.30.30.60.0-0.8
Intermittent access intake escalation 20.30.30.6-0.1-0.8
Intermitt. access day 1 inactive lever presses4.44.75.82.41.9
Intermitt. access day 15 inactive lever presses1.92.12.71.61.3
Intermitt. access escalation Index0.10.10.10.40.3
Intermittent access day 1 total infusions5.36.16.62.42.6
Intermittent access day 15 total infusions2.83.13.92.01.5
Intermittent access terminal intake (last 3 days)2.02.23.01.71.2
Intermittent access total infusions3.23.63.92.01.8
Intermittent access day 1 locomotion0.00.00.10.10.3
Intermittent access day 15 total locomotion0.10.10.1-0.2-0.4
Intermittent access total locomotion0.20.20.30.50.3
Intermittent access standard deviation1.51.62.41.50.9
Left kidney weight9.727.127.85.35.1
Right kidney weight5.013.914.23.73.8
Cocaine induced anxiety0.10.10.10.40.1
Post-drug Anxiety1.92.12.5-1.4-1.6
Baseline Anxiety3.74.04.1-2.0-2.0
Tail length1.85.46.92.62.0
Length with tail2.910.611.93.53.1
Length without tail1.53.33.61.91.8
Times rat made contact with spout0.30.40.60.50.7
Lifetime Intake2.63.03.21.81.7
Liver weight, left3.04.96.52.61.8
Liver weight, right2.64.35.22.31.8
Locomotor activity1.22.03.01.71.0
Locomotor testing distance0.61.01.51.20.7
Locomotor testing rearing0.71.21.91.40.7
Locomotion in novel chamber0.20.20.40.20.6
Locomotion in novel chamber post-restriction0.00.10.10.3-0.1
Fecal boli incidents, locomotor time 15.15.66.22.52.2
Change in fecal boli incidents, locomotor task6.15.77.1-2.7-2.1
Time >=10cm from walls, locomotor time 12.92.93.51.51.9
Bouts of movement, locomotor time 10.20.20.3-0.60.0
Total resting periods, locomotor time 10.10.10.2-0.40.2
Rest time, locomotor task time 10.70.81.50.21.2
Distance moved, locomotor task time 10.50.61.0-0.5-1.0
Vertical activity count, locomotor time 11.31.32.3-0.6-1.5
Time >=10cm from walls, locomotor time 22.02.13.01.11.7
Bouts of movement, locomotor time 20.20.20.5-0.70.2
Total resting periods, locomotor time 20.40.40.8-0.90.1
Rest time, locomotor task time 20.81.01.80.31.4
Distance moved, locomotor task time 20.10.10.10.3-0.4
Vertical activity count, locomotor time 20.40.50.90.0-1.0
Light reinforcement 10.40.70.80.90.7
Light reinforcement 20.00.00.0-0.1-0.0
Bone: marrow area0.51.01.81.40.4
Bone: maximum diameter0.61.02.01.40.3
Bone: maximum force1.11.83.11.80.8
Bone: maximum moment0.81.32.41.60.4
Mean time between licks in bursts0.60.81.1-0.8-1.0
Mean num. licks in bursts0.30.30.40.60.5
Cd content in liver0.50.50.60.80.7
Co content in liver0.20.20.40.0-0.6
Cu content in liver0.10.10.2-0.10.4
Fe content in liver0.50.70.9-0.6-0.9
K content in liver0.10.10.2-0.5-0.2
Mg content in liver0.10.10.20.10.5
Mn content in liver0.10.10.20.40.1
Na content in liver0.10.10.10.4-0.4
Rb content in liver1.72.12.71.31.6
Se content in liver0.40.50.9-1.0-0.1
Sr content in liver2.22.03.4-0.8-1.8
Zn content in liver2.83.03.21.71.8
Bone: minimum diameter1.12.13.51.90.8
Time in familiar zone, hab. session 11.61.52.11.01.4
Time in novel zone, hab. session 10.10.10.1-0.3-0.2
Total zone transitions, hab. session 10.10.20.4-0.0-0.6
Total locomotion distance, hab. session 10.30.40.80.0-0.9
Locomotion velocity, hab. session 10.60.91.7-0.3-1.3
Time in familiar zone, hab. session 20.30.30.40.60.4
Time in novel zone, hab. session 20.60.61.0-1.0-0.6
Total zone transitions, hab. session 21.41.83.0-0.8-1.7
Total locomotion distance, hab. session 21.92.53.9-1.0-2.0
Locomotion velocity, hab. session 21.52.03.4-0.8-1.9
Novel to familiar place preference ratio1.01.11.70.61.3
Novelty place preference1.61.62.30.91.5
Time in novel zone, NPP test1.81.92.81.01.7
Total zone transitions, NPP test1.31.82.7-1.0-1.6
Total locomotion distance, NPP test1.21.72.7-0.8-1.7
Locomotion velocity, NPP test1.72.54.1-0.9-2.0
Intraocular pressure0.10.20.30.50.1
Delta distance traveled before/after self-admin0.20.20.4-0.3-0.6
Delta ambulatory time before/after self-admin0.40.50.7-0.5-0.8
Parametrial fat weight0.10.20.3-0.6-0.2
Pavlov. Cond. lever latency1.21.62.60.71.6
Pavlov. Cond. magazine entry latency0.00.00.00.2-0.1
Pavlov. Cond. change in total contacts1.41.52.3-0.9-1.5
Pavlov. Cond. index score0.30.40.7-0.1-0.8
Pavlov. Cond. latency score0.50.61.1-0.3-1.0
Pavlov. Cond. lever contacts2.63.14.7-1.2-2.2
Pavlov. Cond. magazine entry number0.50.61.1-1.1-0.4
Pavlov. Cond. intertrial magazine entries2.93.54.8-2.2-1.5
Pavlov. Cond. lever-magazine prob. diff.0.50.61.0-0.4-1.0
Pavlov. Cond. response bias0.30.40.8-0.0-0.9
Pavlov. Cond. lever latency0.20.30.5-0.20.7
Pavlov. Cond. magazine entry latency1.92.22.8-1.2-1.7
Pavlov. Cond. change in total contacts0.30.40.70.2-0.9
Pavlov. Cond. index score1.01.32.1-0.7-1.5
Pavlov. Cond. latency score1.21.52.3-0.8-1.5
Pavlov. Cond. lever contacts0.20.20.30.5-0.4
Pavlov. Cond. magazine entry number0.20.20.40.30.6
Pavlov. Cond. intertrial magazine entries0.10.20.30.10.6
Pavlov. Cond. lever-magazine prob. diff.1.21.52.5-0.7-1.6
Pavlov. Cond. response bias0.30.40.8-0.0-0.9
Time in closed arm before self-admin5.76.56.62.52.6
Time in closed arm after self-admin1.31.41.61.31.1
Time in open arm before self-admin1.31.41.5-1.1-1.2
Time in open arm after self-admin0.70.71.1-1.1-0.6
Bone: periosteal estimation0.91.93.41.80.6
Bone: periosteal perimeter0.50.91.81.40.0
Bone: post-yield work0.00.00.10.2-0.1
Progressive ratio test 1 active lever presses1.21.31.41.11.2
Progressive ratio test 1 breakpoint1.01.11.21.01.1
Progressive ratio test 1 inactive lever presses1.11.21.41.21.0
Progressive ratio test 2 active lever presses3.33.64.02.01.8
Progressive ratio test 2 breakpoint3.64.04.52.11.9
Progressive ratio test 2 inactive lever presses4.45.15.82.42.1
Incentive Sensitization - Responses4.54.55.62.41.9
Incentive Sensitization - Breakpoint4.34.45.42.31.8
Sum of active levers in priming session hrs 5-60.30.30.40.50.6
Progressive ratio0.20.30.30.50.5
Food seeking constrained by brief footshock1.92.32.71.41.6
Seeking ratio, punishment vs. effort0.00.00.00.20.2
Retroperitoneal fat weight0.41.42.0-1.4-0.9
Reaction time number correct0.91.31.6-1.3-1.0
Reaction time mean minus median1.01.42.10.81.4
Reaction time mean minus median AUC2.43.14.41.42.1
Reaction time num false alarms0.00.00.10.30.2
Reaction time num false alarms AUC0.00.00.1-0.1-0.3
Reaction time trials correct on left0.91.31.6-1.3-1.0
Reaction time trials on left1.01.41.6-1.3-1.1
Reaction time mean0.20.30.30.50.6
Reaction time mean AUC0.00.00.00.00.2
Median of all reaction times0.00.00.00.1-0.1
Reaction time omissions0.00.00.0-0.1-0.1
Reaction time false alarm rate0.10.10.20.40.3
Reaction time premature initiation rate1.01.31.4-1.1-1.2
Reaction time premature initiations1.92.62.7-1.6-1.6
Std. dev. reaction times0.40.50.80.50.9
Reaction time trials completed1.01.41.6-1.3-1.1
Reaction time trials AUC0.60.91.1-1.1-0.9
Run reversals in cocaine runway, females0.60.60.70.70.8
Run reversals in cocaine runway, males2.92.84.01.22.0
Latency to leave start box in cocaine runway0.50.50.6-0.8-0.7
Latency to leave start box in cocaine runway, F0.10.10.1-0.4-0.2
Latency to leave start box in cocaine runway, M1.81.81.8-1.3-1.3
Std. dev. time between licks in bursts0.10.10.30.1-0.5
Total sessions with >9 infusions0.91.01.71.30.7
Short access day 1 total inactive lever presses0.10.10.3-0.0-0.5
Short access day 10 total inactive lever presses1.71.92.41.61.2
Short access day 1 total infusions2.12.22.51.61.4
Short access day 10 total infusions2.52.73.11.51.8
Short access total infusions1.51.71.81.31.3
Short access day 1 locomotion0.00.00.1-0.2-0.2
Short access day 10 total locomotion0.60.70.70.80.8
Short access total locomotion0.10.20.20.30.4
One hour access (0.3 mA shock)2.12.53.61.91.2
Compulsive drug intake1.41.42.11.40.8
One hour access (shock baseline)0.60.70.80.90.7
Social response proportion0.00.00.0-0.20.1
Social responses0.10.20.30.50.2
Social time0.20.30.5-0.4-0.7
Soleus weight0.30.81.70.0-1.3
Bone: stiffness1.11.72.91.70.7
Tibialis anterior weight0.00.20.30.2-0.6
Time to tail flick, vehicle, before self-admin1.81.82.6-1.6-1.0
Time to tail flick, vehicle, after self-admin0.00.00.00.00.2
Time to tail flick, test, before self-admin0.00.00.0-0.1-0.1
Time to tail flick, test, after self-admin0.30.30.40.70.5
Delta time to tail flick, vehicle, before/after SA1.21.21.31.21.0
Delta time to tail flick, test, before/after SA0.00.00.1-0.0-0.2
Tibia length0.51.32.11.50.7
Ambulatory time before self-admin5.45.66.52.62.2
Ambulatory time after self-admin2.72.94.12.01.3
Bone: tissue strength0.00.00.10.1-0.3
Total heroin consumption1.51.82.21.21.5
Bone: trabecular number0.30.50.8-0.4-0.9
Bone: trabecular spacing0.10.10.2-0.40.1
Bone: trabecular thickness1.11.31.71.30.9
Bone: trabecular tissue density0.50.80.80.90.9
Water consumed over 24 hours0.00.00.0-0.2-0.2
Number of responses in last shaping day0.10.20.20.30.5