Hub : Genes

Lrrc25

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 Brain alternative polyA XM_039094882.2 0.03 0.02 3.6e-03 0.01 0.02 0.02 0.01 3.3e-02 5.7e-03 8.4e-03 3.6e-02
2 Brain alternative polyA NM_001399265.1 0.03 0.02 2.0e-03 0.01 0.02 0.02 0.01 5.7e-02 6.4e-03 9.6e-03 2.8e-02
3 PL gene expression Lrrc25 0.02 0.02 4.3e-03 0.01 0.01 0.01 0.01 3.2e-02 2.0e-02 1.4e-02 3.9e-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 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 density1.42.55.71.0-0.82.4
Area under the delay curve0.10.20.4-0.20.2-0.6
BMI with tail1.96.58.32.9-2.72.0
BMI without tail3.911.913.63.7-3.63.1
Body weight5.725.128.95.4-5.04.6
Weight adjusted by age2.43.73.82.0-1.91.9
Bone surface0.61.22.50.8-0.61.6
Bone volume1.73.05.41.5-1.22.3
Breakpoint value in progressive ratio session0.10.10.30.2-0.1-0.5
Number of licking bursts0.30.51.0-0.50.5-1.0
Context. condit. distance diff. score0.10.20.2-0.50.4-0.3
Locomotion velocity, session 10.40.41.1-0.20.3-1.1
Locomotion distance, session 11.62.02.4-1.41.5-1.3
Locomotion velocity, session 21.21.42.11.5-1.40.4
Locomotion distance, session 22.02.83.2-1.61.8-1.6
Locomotion velocity, session 30.91.01.7-0.90.8-1.3
Locomotion distance, session 30.50.50.9-0.80.90.1
Stereotopy head waving bouts, day 32.63.05.1-1.41.4-2.3
Stereotopy head waving duration, day 31.11.42.9-0.80.7-1.7
Locomotion velocity, session 71.31.41.4-1.21.1-1.2
Locomotion distance, session 71.41.71.8-1.41.3-1.3
Stereotopy head waving bouts, day 70.00.00.1-0.00.1-0.3
Stereotopy head waving duration, day 70.10.20.30.5-0.5-0.1
Locomotion velocity, session 82.63.15.2-1.41.4-2.3
Locomotion distance, session 80.81.11.4-1.01.2-1.0
Degree of sensitization distance0.50.51.3-0.50.3-1.1
Degree of sensitization stereotypy0.20.30.40.5-0.30.7
Conditioned locomotion0.10.10.1-0.30.3-0.3
Cocaine response after cond. corrected0.00.00.1-0.30.10.2
Cocaine response after cond. not corrected0.30.40.5-0.70.5-0.6
Cocaine response before conditioning1.01.12.5-0.70.7-1.6
Saline control response0.10.10.2-0.20.30.4
Bone: connectivity density1.52.35.51.0-0.72.4
Bone: cortical apparent density0.00.00.10.1-0.10.3
Bone: cortical area6.910.611.33.3-3.13.4
Bone: cortical porosity0.10.10.3-0.10.2-0.6
Bone: cortical porosity0.10.10.3-0.10.2-0.6
Bone: cortical thickness3.86.37.52.5-2.32.7
Bone: cortical thickness0.70.81.40.8-0.71.2
Bone: cortical tissue density0.00.00.0-0.00.00.1
Condit. Reinf. active minus inactive responses0.10.10.10.3-0.10.4
Condit. Reinf. active-inactive response ratio0.30.30.90.2-0.10.9
Condit. Reinf. active responses0.10.20.30.5-0.40.3
Condit. Reinf. inactive responses0.40.50.60.8-0.70.4
Incentive salience index mean0.20.30.50.7-0.50.0
Condit. Reinf. lever presses0.40.61.01.0-0.7-0.4
Condit. Reinf. active minus inactive responses0.10.10.2-0.40.5-0.1
Condit. Reinf. active-inactive response ratio0.20.30.30.6-0.50.5
Condit. Reinf. active responses0.71.01.2-1.11.1-0.9
Condit. Reinf. inactive responses1.82.42.5-1.61.5-1.6
Condit. Reinf. lever presses0.10.20.20.4-0.5-0.4
Condit. Reinf. lever reinforcers received0.10.20.2-0.40.4-0.5
Conditioned reinforcement - actives1.83.14.11.6-1.62.0
Conditioned reinforcement - inactives7.811.513.83.2-3.23.7
Conditioned locomotion1.82.32.61.4-1.51.6
Patch foraging indifference point 0 sec1.73.14.62.1-2.10.5
Patch foraging indifference point AUC0.30.51.30.1-0.2-1.1
Delay disc. indifference point, 0s delay3.43.75.3-1.81.7-2.3
Delay disc. indifference point, 16s delay0.80.81.5-0.80.6-1.2
Delay disc. indifference point, 2s delay1.11.21.7-0.91.0-1.3
Delay disc. indifference point, 24s delay0.10.20.30.4-0.5-0.1
Delay disc. indifference point, 4s delay0.00.00.1-0.00.1-0.4
Delay disc. indifference point, 8s delay0.10.10.20.3-0.5-0.3
Indifference point function ln k0.81.32.60.8-0.81.6
Indifference point function log k0.81.32.60.8-0.81.6
Patch foraging total patch changes 0 sec2.75.17.22.7-2.70.9
Patch foraging total patch changes 12 sec0.60.81.21.0-1.1-0.4
Patch foraging total patch changes 18 sec0.40.61.7-0.10.0-1.3
Patch foraging total patch changes 24 sec0.10.20.20.5-0.5-0.5
Patch foraging total patch changes 6 sec1.11.72.61.5-1.6-0.3
Patch foraging time to switch 0 sec0.81.51.7-1.31.3-1.1
Patch foraging water rate 0 sec0.71.52.31.5-1.50.5
Patch foraging water rate 12 sec0.40.91.10.9-0.81.1
Patch foraging water rate 18 sec0.00.00.1-0.00.2-0.2
Patch foraging water rate 24 sec0.50.71.10.8-0.51.0
Patch foraging water rate 6 sec1.31.92.01.4-1.41.3
Seeking ratio, delayed vs. immediate footshock0.40.50.5-0.70.7-0.6
Distance traveled before self-admin0.71.01.31.1-1.10.6
Distance traveled after self-admin1.21.51.91.4-1.30.9
Extensor digitorum longus weight0.20.81.21.1-1.10.0
Bone: elastic displacement0.20.20.4-0.50.6-0.1
Bone: elastic work1.82.42.51.6-1.51.5
Bone: endosteal estimation0.20.40.60.7-0.70.3
Bone: endosteal perimeter1.02.12.21.5-1.51.4
Epididymis fat weight1.75.96.62.4-2.22.6
Delta time in closed arm before/after self-admin0.10.10.10.2-0.3-0.3
Delta time in open arm before/after self-admin0.40.40.5-0.60.7-0.5
Diff in mean of infusions in LGA sessions1.21.52.31.5-1.50.2
Delay discount exponential model param0.00.00.10.00.10.3
Extinction: sum of active levers before priming0.20.30.3-0.40.6-0.5
Active lever presses in extinction session 60.10.10.1-0.30.3-0.4
Bone: final force6.911.113.83.7-3.62.5
Bone: final moment6.510.512.83.6-3.52.5
Food consumed during 24 hour testing period0.40.50.6-0.60.8-0.7
Glucose1.32.13.01.7-1.70.6
Heart weight0.91.32.50.9-0.81.6
Delay discount hyperbolic model param0.10.10.20.1-0.00.5
Intermittent access intake day 1-15 change0.40.82.10.4-0.31.4
Intermittent access intake escalation0.30.61.70.1-0.01.3
Intermittent access intake escalation 21.31.52.81.0-0.91.7
Intermitt. access day 1 inactive lever presses0.20.61.30.5-0.51.2
Intermitt. access day 15 inactive lever presses0.10.10.2-0.30.30.4
Intermitt. access escalation Index0.60.80.9-0.90.9-0.9
Intermittent access day 1 total infusions0.40.71.20.9-1.10.3
Intermittent access day 15 total infusions0.50.71.50.5-0.51.2
Intermittent access terminal intake (last 3 days)0.40.50.90.6-0.60.9
Intermittent access total infusions1.41.61.81.3-1.31.2
Intermittent access day 1 locomotion1.82.33.01.6-1.71.1
Intermittent access day 15 total locomotion0.20.40.50.5-0.50.7
Intermittent access total locomotion2.22.63.01.7-1.71.5
Intermittent access standard deviation0.40.71.20.7-0.71.1
Left kidney weight0.52.33.31.8-1.70.7
Right kidney weight1.88.210.33.2-3.02.2
Cocaine induced anxiety0.81.21.91.3-1.40.3
Post-drug Anxiety0.00.00.10.2-0.2-0.2
Baseline Anxiety2.22.63.3-1.81.8-1.1
Tail length1.24.95.22.3-2.22.2
Length with tail2.410.411.53.4-3.23.1
Length without tail1.54.85.52.2-2.02.3
Times rat made contact with spout0.30.30.5-0.40.5-0.7
Lifetime Intake2.22.72.91.6-1.71.6
Liver weight, left0.10.20.4-0.50.6-0.2
Liver weight, right2.64.64.92.2-2.12.1
Locomotor activity0.00.10.10.3-0.00.3
Locomotor testing distance0.10.20.4-0.50.60.3
Locomotor testing rearing0.10.20.3-0.40.6-0.2
Locomotion in novel chamber0.10.20.20.5-0.40.4
Locomotion in novel chamber post-restriction0.10.20.40.10.20.7
Fecal boli incidents, locomotor time 10.00.00.1-0.20.2-0.2
Change in fecal boli incidents, locomotor task0.90.91.9-0.70.5-1.4
Time >=10cm from walls, locomotor time 10.10.10.10.2-0.2-0.3
Bouts of movement, locomotor time 10.10.10.2-0.20.3-0.4
Total resting periods, locomotor time 10.40.40.4-0.60.7-0.6
Rest time, locomotor task time 10.10.10.2-0.30.2-0.5
Distance moved, locomotor task time 10.00.00.0-0.10.1-0.1
Vertical activity count, locomotor time 10.00.10.20.2-0.10.4
Time >=10cm from walls, locomotor time 20.81.21.7-1.31.2-0.6
Bouts of movement, locomotor time 20.20.30.6-0.40.5-0.8
Total resting periods, locomotor time 20.20.30.6-0.30.3-0.8
Rest time, locomotor task time 20.30.30.50.7-0.7-0.1
Distance moved, locomotor task time 20.20.20.3-0.50.50.4
Vertical activity count, locomotor time 20.20.20.4-0.40.40.7
Light reinforcement 10.10.10.20.3-0.4-0.4
Light reinforcement 20.20.40.60.5-0.7-0.5
Bone: marrow area0.10.30.40.6-0.60.2
Bone: maximum diameter2.34.34.62.2-2.12.0
Bone: maximum force6.311.213.93.7-3.52.7
Bone: maximum moment5.69.811.83.4-3.32.6
Mean time between licks in bursts1.74.35.02.2-2.21.8
Mean num. licks in bursts0.10.20.60.2-0.10.8
Cd content in liver1.61.83.51.0-1.01.9
Co content in liver0.00.00.1-0.10.1-0.3
Cu content in liver2.02.42.9-1.61.7-1.4
Fe content in liver0.60.80.9-0.90.9-0.8
K content in liver3.23.13.5-1.81.6-1.9
Mg content in liver0.30.30.3-0.60.5-0.4
Mn content in liver0.10.10.2-0.00.10.4
Na content in liver2.52.72.9-1.61.7-1.5
Rb content in liver0.91.01.70.8-0.91.3
Se content in liver0.40.40.6-0.70.8-0.3
Sr content in liver0.10.10.3-0.00.10.5
Zn content in liver0.00.00.0-0.10.1-0.1
Bone: minimum diameter3.15.76.22.5-2.42.3
Time in familiar zone, hab. session 10.60.60.80.7-0.70.9
Time in novel zone, hab. session 10.10.10.2-0.40.4-0.2
Total zone transitions, hab. session 10.30.40.5-0.50.6-0.7
Total locomotion distance, hab. session 10.81.11.5-1.11.2-0.8
Locomotion velocity, hab. session 10.81.11.3-1.01.2-1.0
Time in familiar zone, hab. session 20.40.40.80.5-0.50.9
Time in novel zone, hab. session 20.00.00.0-0.20.1-0.1
Total zone transitions, hab. session 20.10.20.3-0.50.5-0.3
Total locomotion distance, hab. session 20.30.40.7-0.70.8-0.0
Locomotion velocity, hab. session 20.30.50.8-0.70.9-0.2
Novel to familiar place preference ratio0.30.40.50.5-0.60.7
Novelty place preference0.10.20.20.3-0.40.5
Time in novel zone, NPP test0.00.00.10.1-0.10.3
Total zone transitions, NPP test1.11.62.1-1.11.2-1.4
Total locomotion distance, NPP test1.82.43.0-1.51.7-1.4
Locomotion velocity, NPP test1.72.42.7-1.51.6-1.5
Intraocular pressure1.11.61.91.1-1.21.4
Delta distance traveled before/after self-admin0.80.91.11.0-1.00.8
Delta ambulatory time before/after self-admin0.10.10.20.4-0.40.3
Parametrial fat weight3.99.311.13.2-3.32.5
Pavlov. Cond. lever latency0.20.30.8-0.30.10.9
Pavlov. Cond. magazine entry latency0.30.30.50.7-0.70.2
Pavlov. Cond. change in total contacts0.80.81.21.1-1.0-0.5
Pavlov. Cond. index score0.20.20.60.3-0.2-0.8
Pavlov. Cond. latency score0.40.51.40.10.0-1.2
Pavlov. Cond. lever contacts0.30.30.40.6-0.4-0.7
Pavlov. Cond. magazine entry number0.40.50.7-0.80.8-0.3
Pavlov. Cond. intertrial magazine entries0.40.50.8-0.70.90.4
Pavlov. Cond. lever-magazine prob. diff.0.20.20.50.3-0.2-0.7
Pavlov. Cond. response bias0.20.30.50.7-0.6-0.1
Pavlov. Cond. lever latency0.81.01.6-1.21.30.0
Pavlov. Cond. magazine entry latency0.60.71.11.0-1.0-0.0
Pavlov. Cond. change in total contacts0.50.81.21.0-1.1-0.4
Pavlov. Cond. index score1.01.32.01.4-1.4-0.1
Pavlov. Cond. latency score0.60.81.11.0-1.1-0.3
Pavlov. Cond. lever contacts0.50.71.11.0-1.1-0.2
Pavlov. Cond. magazine entry number1.72.03.1-1.71.8-0.3
Pavlov. Cond. intertrial magazine entries0.50.81.2-1.11.1-0.2
Pavlov. Cond. lever-magazine prob. diff.1.11.52.31.5-1.5-0.1
Pavlov. Cond. response bias1.01.32.11.4-1.40.1
Time in closed arm before self-admin4.55.87.12.6-2.71.8
Time in closed arm after self-admin4.04.35.32.1-2.31.7
Time in open arm before self-admin0.70.81.1-0.91.0-0.6
Time in open arm after self-admin1.61.72.7-1.41.6-0.7
Bone: periosteal estimation2.34.85.12.3-2.22.1
Bone: periosteal perimeter4.88.38.82.9-2.83.0
Bone: post-yield work0.00.10.1-0.20.3-0.2
Progressive ratio test 1 active lever presses1.92.33.31.8-1.80.7
Progressive ratio test 1 breakpoint1.62.02.91.7-1.70.6
Progressive ratio test 1 inactive lever presses1.72.53.21.4-1.41.8
Progressive ratio test 2 active lever presses0.91.11.21.0-1.11.0
Progressive ratio test 2 breakpoint0.70.80.80.9-0.90.9
Progressive ratio test 2 inactive lever presses0.71.11.21.1-1.11.0
Incentive Sensitization - Responses0.00.00.00.0-0.10.2
Incentive Sensitization - Breakpoint0.00.00.0-0.20.00.1
Sum of active levers in priming session hrs 5-63.63.44.8-2.12.2-1.0
Progressive ratio0.00.00.1-0.30.20.1
Food seeking constrained by brief footshock0.50.60.9-0.91.00.3
Seeking ratio, punishment vs. effort0.20.30.5-0.60.70.0
Retroperitoneal fat weight3.414.615.33.9-3.83.7
Reaction time number correct0.00.10.20.10.20.5
Reaction time mean minus median0.10.30.9-0.0-0.0-0.9
Reaction time mean minus median AUC0.10.20.50.0-0.1-0.7
Reaction time num false alarms0.30.50.70.8-0.90.3
Reaction time num false alarms AUC0.10.20.40.5-0.6-0.0
Reaction time trials correct on left0.00.10.20.10.20.5
Reaction time trials on left0.10.10.30.20.10.5
Reaction time mean0.71.11.61.1-1.30.6
Reaction time mean AUC0.20.30.60.6-0.8-0.0
Median of all reaction times0.91.21.61.1-1.30.9
Reaction time omissions1.21.72.61.6-1.60.3
Reaction time false alarm rate0.20.30.60.6-0.8-0.1
Reaction time premature initiation rate0.60.91.6-0.60.8-1.3
Reaction time premature initiations0.20.30.6-0.30.5-0.8
Std. dev. reaction times0.30.60.90.9-1.00.1
Reaction time trials completed0.10.10.30.20.10.5
Reaction time trials AUC0.10.20.50.4-0.10.7
Run reversals in cocaine runway, females3.53.53.71.9-1.91.8
Run reversals in cocaine runway, males1.51.61.8-1.21.2-1.3
Latency to leave start box in cocaine runway0.10.10.10.3-0.20.4
Latency to leave start box in cocaine runway, F0.40.40.50.7-0.60.7
Latency to leave start box in cocaine runway, M0.30.20.3-0.60.4-0.5
Std. dev. time between licks in bursts2.12.93.41.8-1.81.5
Total sessions with >9 infusions4.04.85.22.3-2.32.0
Short access day 1 total inactive lever presses1.82.33.91.2-1.32.0
Short access day 10 total inactive lever presses0.30.81.4-0.70.6-1.2
Short access day 1 total infusions4.25.56.62.3-2.22.6
Short access day 10 total infusions0.81.01.31.0-0.91.1
Short access total infusions2.02.62.91.7-1.71.4
Short access day 1 locomotion6.68.28.82.8-2.83.0
Short access day 10 total locomotion1.63.14.61.6-1.42.2
Short access total locomotion2.93.53.71.9-1.81.9
One hour access (0.3 mA shock)0.30.30.60.4-0.50.8
Compulsive drug intake1.51.71.9-1.41.3-1.3
One hour access (shock baseline)2.23.43.81.8-1.81.9
Social response proportion1.82.03.11.3-1.21.8
Social responses0.20.30.70.2-0.00.8
Social time0.10.10.1-0.30.3-0.3
Soleus weight1.02.84.22.0-2.10.7
Bone: stiffness4.57.49.23.0-2.92.1
Tibialis anterior weight0.10.40.60.8-0.60.5
Time to tail flick, vehicle, before self-admin0.00.10.10.0-0.10.4
Time to tail flick, vehicle, after self-admin0.30.40.50.6-0.60.7
Time to tail flick, test, before self-admin1.21.21.41.1-1.21.0
Time to tail flick, test, after self-admin0.70.71.0-1.00.9-0.7
Delta time to tail flick, vehicle, before/after SA0.00.00.0-0.10.2-0.0
Delta time to tail flick, test, before/after SA0.80.81.1-1.01.0-0.5
Tibia length0.41.21.61.3-1.20.7
Ambulatory time before self-admin1.21.82.41.6-1.50.8
Ambulatory time after self-admin2.32.73.61.9-1.81.2
Bone: tissue strength0.30.30.40.6-0.60.1
Total heroin consumption0.20.20.30.5-0.5-0.4
Bone: trabecular number2.03.36.31.4-1.22.5
Bone: trabecular spacing0.30.40.9-0.40.3-0.9
Bone: trabecular thickness0.70.91.60.9-0.71.3
Bone: trabecular tissue density0.40.51.1-0.40.5-1.1
Water consumed over 24 hours0.10.10.20.10.0-0.4
Number of responses in last shaping day0.10.10.20.3-0.20.4