Lnc001

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 BLA gene expression Lnc001 0.06 0.04 8.0e-03 0.04 0.01 0.01 0.02 2.2e-03 5.2e-02 6.6e-02 3.3e-02
2 Brain gene expression Lnc001 0.03 0.02 2.1e-03 0.02 0.03 0.03 0.03 8.1e-03 4.6e-04 4.1e-04 7.5e-04

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 density7.312.218.32.54.3
Area under the delay curve1.41.41.8-1.3-1.1
BMI with tail2.68.411.62.33.4
BMI without tail2.24.69.13.00.2
Body weight12.150.652.47.27.0
Weight adjusted by age0.50.60.80.90.6
Bone surface6.811.916.42.74.0
Bone volume6.611.219.01.84.4
Breakpoint value in progressive ratio session0.10.10.20.2-0.5
Number of licking bursts1.51.83.31.8-0.5
Context. condit. distance diff. score2.73.34.51.42.1
Locomotion velocity, session 10.80.81.4-0.5-1.2
Locomotion distance, session 11.01.31.6-1.3-1.0
Locomotion velocity, session 21.21.42.7-0.2-1.7
Locomotion distance, session 21.21.73.2-0.5-1.8
Locomotion velocity, session 30.30.30.6-0.20.8
Locomotion distance, session 30.10.10.2-0.50.1
Stereotopy head waving bouts, day 30.81.01.81.40.3
Stereotopy head waving duration, day 30.00.00.0-0.20.1
Locomotion velocity, session 71.01.12.2-1.5-0.2
Locomotion distance, session 70.30.40.8-0.9-0.1
Stereotopy head waving bouts, day 72.63.03.4-1.6-1.9
Stereotopy head waving duration, day 71.82.22.8-1.3-1.7
Locomotion velocity, session 80.30.30.7-0.1-0.8
Locomotion distance, session 80.50.80.80.90.9
Degree of sensitization distance0.90.91.1-0.8-1.1
Degree of sensitization stereotypy1.92.12.5-1.3-1.6
Conditioned locomotion0.60.71.10.51.1
Cocaine response after cond. corrected0.10.10.2-0.40.3
Cocaine response after cond. not corrected0.40.40.5-0.70.6
Cocaine response before conditioning0.30.40.7-0.40.8
Saline control response1.21.52.91.7-0.4
Bone: connectivity density7.411.614.13.03.8
Bone: cortical apparent density0.10.10.1-0.40.2
Bone: cortical area2.84.36.11.62.5
Bone: cortical porosity1.11.22.1-0.5-1.5
Bone: cortical porosity1.41.52.4-0.8-1.6
Bone: cortical thickness2.33.85.01.62.2
Bone: cortical thickness0.50.61.21.10.2
Bone: cortical tissue density0.10.10.2-0.40.1
Condit. Reinf. active minus inactive responses0.70.71.4-0.21.2
Condit. Reinf. active-inactive response ratio0.60.71.3-0.21.1
Condit. Reinf. active responses0.10.10.20.10.4
Condit. Reinf. inactive responses0.50.61.1-0.3-1.0
Incentive salience index mean0.40.40.8-0.20.9
Condit. Reinf. lever presses0.10.10.1-0.20.3
Condit. Reinf. active minus inactive responses0.40.50.60.7-0.7
Condit. Reinf. active-inactive response ratio0.70.71.4-0.1-1.2
Condit. Reinf. active responses0.30.40.80.9-0.1
Condit. Reinf. inactive responses0.40.50.60.70.8
Condit. Reinf. lever presses0.81.12.10.31.5
Condit. Reinf. lever reinforcers received0.10.20.40.6-0.2
Conditioned reinforcement - actives2.12.14.22.00.1
Conditioned reinforcement - inactives0.10.10.20.4-0.3
Conditioned locomotion1.51.83.41.9-0.4
Patch foraging indifference point 0 sec1.72.85.40.42.3
Patch foraging indifference point AUC0.91.01.71.30.5
Delay disc. indifference point, 0s delay0.80.91.8-1.40.2
Delay disc. indifference point, 16s delay1.21.21.5-1.2-1.0
Delay disc. indifference point, 2s delay2.73.05.4-2.3-0.8
Delay disc. indifference point, 24s delay1.81.81.9-1.4-1.3
Delay disc. indifference point, 4s delay1.41.42.4-1.6-0.7
Delay disc. indifference point, 8s delay0.10.10.2-0.4-0.4
Indifference point function ln k0.10.10.20.5-0.1
Indifference point function log k0.10.10.20.5-0.1
Patch foraging total patch changes 0 sec1.93.05.80.52.4
Patch foraging total patch changes 12 sec2.53.36.40.32.5
Patch foraging total patch changes 18 sec0.70.91.60.31.3
Patch foraging total patch changes 24 sec1.21.52.60.51.6
Patch foraging total patch changes 6 sec1.21.72.61.01.6
Patch foraging time to switch 0 sec2.33.66.7-2.6-0.7
Patch foraging water rate 0 sec3.96.29.53.11.7
Patch foraging water rate 12 sec0.81.32.51.60.1
Patch foraging water rate 18 sec0.60.81.10.7-1.1
Patch foraging water rate 24 sec2.73.87.52.70.0
Patch foraging water rate 6 sec0.81.21.31.11.1
Seeking ratio, delayed vs. immediate footshock0.80.91.2-1.1-0.8
Distance traveled before self-admin0.50.51.0-1.0-0.3
Distance traveled after self-admin0.10.10.10.30.3
Extensor digitorum longus weight3.212.815.84.03.1
Bone: elastic displacement1.01.12.00.4-1.4
Bone: elastic work2.73.56.22.50.9
Bone: endosteal estimation0.71.63.01.70.5
Bone: endosteal perimeter1.42.93.11.81.7
Epididymis fat weight1.53.66.80.52.6
Delta time in closed arm before/after self-admin0.20.20.20.5-0.3
Delta time in open arm before/after self-admin3.73.66.0-2.5-1.1
Diff in mean of infusions in LGA sessions0.10.10.10.0-0.3
Delay discount exponential model param1.51.61.81.31.2
Extinction: sum of active levers before priming0.60.61.0-0.41.0
Active lever presses in extinction session 61.31.22.00.71.4
Bone: final force1.93.03.92.01.5
Bone: final moment1.72.83.81.91.3
Food consumed during 24 hour testing period0.70.91.60.4-1.3
Glucose0.10.10.2-0.5-0.2
Heart weight0.30.50.50.7-0.7
Delay discount hyperbolic model param1.71.82.21.51.2
Intermittent access intake day 1-15 change0.50.51.01.0-0.2
Intermittent access intake escalation0.70.71.31.1-0.1
Intermittent access intake escalation 20.10.10.20.4-0.1
Intermitt. access day 1 inactive lever presses0.40.40.40.7-0.7
Intermitt. access day 15 inactive lever presses0.50.51.0-1.00.1
Intermitt. access escalation Index0.10.10.1-0.1-0.3
Intermittent access day 1 total infusions1.72.02.2-1.3-1.5
Intermittent access day 15 total infusions0.80.91.8-0.1-1.4
Intermittent access terminal intake (last 3 days)1.01.11.6-0.8-1.3
Intermittent access total infusions2.12.43.1-1.3-1.8
Intermittent access day 1 locomotion2.72.82.8-1.7-1.7
Intermittent access day 15 total locomotion1.41.53.00.1-1.7
Intermittent access total locomotion2.63.04.6-1.2-2.1
Intermittent access standard deviation0.00.00.00.20.1
Left kidney weight7.220.226.95.23.7
Right kidney weight7.521.125.55.14.1
Cocaine induced anxiety0.20.20.4-0.00.6
Post-drug Anxiety3.13.54.5-2.1-1.6
Baseline Anxiety4.85.17.5-2.7-1.6
Tail length3.711.222.04.70.5
Length with tail9.735.447.66.94.8
Length without tail12.126.439.43.76.3
Times rat made contact with spout1.72.03.31.8-0.8
Lifetime Intake1.71.92.1-1.5-1.3
Liver weight, left4.06.510.71.53.3
Liver weight, right6.410.611.93.53.0
Locomotor activity1.32.04.02.0-0.0
Locomotor testing distance0.71.22.31.50.2
Locomotor testing rearing0.10.10.2-0.50.2
Locomotion in novel chamber2.22.73.61.3-1.9
Locomotion in novel chamber post-restriction4.25.09.03.0-1.1
Fecal boli incidents, locomotor time 10.10.10.20.50.2
Change in fecal boli incidents, locomotor task0.10.10.1-0.4-0.4
Time >=10cm from walls, locomotor time 11.31.32.1-1.40.8
Bouts of movement, locomotor time 11.61.83.31.80.4
Total resting periods, locomotor time 11.41.62.91.70.4
Rest time, locomotor task time 10.50.50.80.9-0.5
Distance moved, locomotor task time 10.10.10.1-0.30.2
Vertical activity count, locomotor time 10.60.60.90.90.6
Time >=10cm from walls, locomotor time 21.01.12.0-0.41.4
Bouts of movement, locomotor time 22.62.83.21.61.8
Total resting periods, locomotor time 22.83.03.81.52.0
Rest time, locomotor task time 20.00.00.0-0.10.0
Distance moved, locomotor task time 20.20.20.40.7-0.1
Vertical activity count, locomotor time 22.12.34.32.10.5
Light reinforcement 11.52.84.8-2.2-0.9
Light reinforcement 20.30.40.5-0.7-0.4
Bone: marrow area0.81.63.01.70.5
Bone: maximum diameter2.03.74.01.82.0
Bone: maximum force2.34.04.61.92.1
Bone: maximum moment2.13.74.11.82.0
Mean time between licks in bursts1.11.61.7-1.2-1.3
Mean num. licks in bursts0.10.10.2-0.4-0.2
Cd content in liver1.61.73.3-0.3-1.8
Co content in liver1.01.22.10.5-1.4
Cu content in liver0.81.01.30.81.2
Fe content in liver8.39.915.62.14.0
K content in liver0.20.20.3-0.5-0.3
Mg content in liver0.30.30.6-0.2-0.8
Mn content in liver1.01.22.0-1.4-0.5
Na content in liver0.20.30.4-0.30.6
Rb content in liver1.51.93.8-2.00.0
Se content in liver1.92.34.5-0.02.1
Sr content in liver0.60.51.01.00.1
Zn content in liver3.53.85.92.41.3
Bone: minimum diameter0.00.00.0-0.20.0
Time in familiar zone, hab. session 10.40.30.5-0.70.5
Time in novel zone, hab. session 10.50.50.91.00.1
Total zone transitions, hab. session 11.82.53.5-1.2-1.9
Total locomotion distance, hab. session 11.42.03.6-1.9-0.6
Locomotion velocity, hab. session 13.04.26.7-2.6-1.3
Time in familiar zone, hab. session 20.60.61.0-0.51.0
Time in novel zone, hab. session 20.50.51.0-0.1-1.0
Total zone transitions, hab. session 21.31.73.30.2-1.8
Total locomotion distance, hab. session 21.52.02.8-1.1-1.7
Locomotion velocity, hab. session 21.62.13.1-1.1-1.8
Novel to familiar place preference ratio1.01.12.1-0.3-1.4
Novelty place preference1.11.21.9-0.6-1.4
Time in novel zone, NPP test0.70.71.3-0.4-1.1
Total zone transitions, NPP test0.20.30.60.3-0.8
Total locomotion distance, NPP test0.81.11.5-1.2-0.9
Locomotion velocity, NPP test0.91.21.6-0.9-1.3
Intraocular pressure0.60.80.80.90.9
Delta distance traveled before/after self-admin0.30.30.50.70.1
Delta ambulatory time before/after self-admin0.10.10.10.30.3
Parametrial fat weight0.00.10.10.30.1
Pavlov. Cond. lever latency2.02.62.91.51.7
Pavlov. Cond. magazine entry latency1.01.21.31.2-1.1
Pavlov. Cond. change in total contacts0.20.20.3-0.6-0.4
Pavlov. Cond. index score0.30.40.80.1-0.9
Pavlov. Cond. latency score0.50.71.3-0.1-1.2
Pavlov. Cond. lever contacts1.61.82.1-1.2-1.5
Pavlov. Cond. magazine entry number0.81.01.4-1.20.8
Pavlov. Cond. intertrial magazine entries0.20.30.5-0.70.3
Pavlov. Cond. lever-magazine prob. diff.0.30.30.70.1-0.8
Pavlov. Cond. response bias0.40.50.70.5-0.9
Pavlov. Cond. lever latency0.10.10.10.4-0.2
Pavlov. Cond. magazine entry latency1.51.82.9-1.7-0.8
Pavlov. Cond. change in total contacts0.00.00.1-0.20.2
Pavlov. Cond. index score0.30.40.8-0.9-0.1
Pavlov. Cond. latency score0.40.51.1-1.0-0.1
Pavlov. Cond. lever contacts0.30.40.5-0.70.6
Pavlov. Cond. magazine entry number1.11.42.31.50.7
Pavlov. Cond. intertrial magazine entries0.81.12.11.4-0.2
Pavlov. Cond. lever-magazine prob. diff.0.40.50.9-1.0-0.3
Pavlov. Cond. response bias0.50.61.2-1.10.2
Time in closed arm before self-admin0.70.81.61.20.1
Time in closed arm after self-admin1.11.12.31.5-0.1
Time in open arm before self-admin0.60.60.80.90.6
Time in open arm after self-admin0.30.40.5-0.7-0.5
Bone: periosteal estimation1.73.54.42.11.6
Bone: periosteal perimeter2.03.35.01.32.2
Bone: post-yield work0.91.22.20.31.5
Progressive ratio test 1 active lever presses0.40.40.60.8-0.5
Progressive ratio test 1 breakpoint0.50.50.60.7-0.8
Progressive ratio test 1 inactive lever presses0.91.01.71.3-0.6
Progressive ratio test 2 active lever presses1.61.71.71.3-1.3
Progressive ratio test 2 breakpoint1.82.13.11.0-1.8
Progressive ratio test 2 inactive lever presses2.22.54.32.1-0.9
Incentive Sensitization - Responses1.21.22.50.1-1.6
Incentive Sensitization - Breakpoint1.21.22.40.1-1.5
Sum of active levers in priming session hrs 5-61.21.21.2-1.11.0
Progressive ratio0.50.60.9-0.9-0.5
Food seeking constrained by brief footshock0.10.10.20.20.5
Seeking ratio, punishment vs. effort0.91.21.91.40.6
Retroperitoneal fat weight1.75.69.0-1.53.0
Reaction time number correct0.91.42.41.50.6
Reaction time mean minus median1.51.93.5-0.7-1.9
Reaction time mean minus median AUC2.12.84.0-1.3-2.0
Reaction time num false alarms0.30.40.80.1-0.9
Reaction time num false alarms AUC0.10.10.10.4-0.2
Reaction time trials correct on left0.91.42.41.50.6
Reaction time trials on left0.91.22.21.50.5
Reaction time mean6.08.49.9-3.1-2.6
Reaction time mean AUC5.97.99.8-3.1-2.5
Median of all reaction times6.89.312.9-3.6-2.4
Reaction time omissions1.92.62.8-1.7-1.6
Reaction time false alarm rate0.10.10.1-0.4-0.4
Reaction time premature initiation rate1.92.63.9-1.2-2.0
Reaction time premature initiations0.81.12.2-0.3-1.5
Std. dev. reaction times3.04.25.1-1.8-2.3
Reaction time trials completed0.91.22.21.50.5
Reaction time trials AUC0.71.11.81.30.6
Run reversals in cocaine runway, females1.01.01.4-1.2-0.8
Run reversals in cocaine runway, males0.70.60.80.70.9
Latency to leave start box in cocaine runway0.20.20.3-0.10.6
Latency to leave start box in cocaine runway, F0.30.40.7-0.10.9
Latency to leave start box in cocaine runway, M0.10.10.20.5-0.2
Std. dev. time between licks in bursts0.10.10.10.3-0.4
Total sessions with >9 infusions0.10.10.3-0.50.2
Short access day 1 total inactive lever presses0.20.30.50.2-0.7
Short access day 10 total inactive lever presses1.21.32.51.6-0.3
Short access day 1 total infusions1.71.83.6-1.90.3
Short access day 10 total infusions1.31.42.7-1.6-0.4
Short access total infusions1.41.52.9-1.7-0.4
Short access day 1 locomotion2.22.32.8-1.7-1.4
Short access day 10 total locomotion0.91.01.9-1.4-0.3
Short access total locomotion1.81.92.8-1.7-1.0
One hour access (0.3 mA shock)2.73.26.4-0.0-2.5
Compulsive drug intake1.31.31.7-1.0-1.3
One hour access (shock baseline)0.60.70.90.6-0.9
Social response proportion2.22.44.42.1-0.6
Social responses0.81.01.81.3-0.5
Social time1.92.63.1-1.8-1.4
Soleus weight1.64.55.51.92.3
Bone: stiffness0.81.32.00.71.4
Tibialis anterior weight3.813.017.44.22.9
Time to tail flick, vehicle, before self-admin0.50.50.8-0.5-0.9
Time to tail flick, vehicle, after self-admin0.91.01.3-1.10.8
Time to tail flick, test, before self-admin1.71.63.00.51.7
Time to tail flick, test, after self-admin0.70.81.1-0.61.1
Delta time to tail flick, vehicle, before/after SA1.91.82.0-1.31.4
Delta time to tail flick, test, before/after SA0.50.40.6-0.8-0.5
Tibia length3.49.714.83.82.1
Ambulatory time before self-admin0.20.20.4-0.7-0.2
Ambulatory time after self-admin0.10.10.10.10.4
Bone: tissue strength0.30.30.50.20.7
Total heroin consumption2.63.04.1-2.0-1.4
Bone: trabecular number6.39.813.62.53.7
Bone: trabecular spacing2.73.55.6-2.4-1.2
Bone: trabecular thickness6.47.69.62.43.1
Bone: trabecular tissue density0.40.61.2-1.10.1
Water consumed over 24 hours1.72.04.02.0-0.0
Number of responses in last shaping day0.00.00.00.1-0.0