Hub : Genes

Pdlim2

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 Liver gene expression Pdlim2 0.03 0.03 2.1e-03 0.01 0.01 0.01 0.01 7.2e-03 1.4e-02 8.6e-03 1.2e-02
2 Adipose gene expression Pdlim2 0.04 0.04 1.7e-04 0.03 0.03 0.03 0.03 1.8e-04 3.3e-04 2.3e-04 2.0e-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 density1.11.82.01.4-1.3
Area under the delay curve0.10.10.1-0.20.3
BMI with tail0.41.31.3-1.21.1
BMI without tail0.00.00.10.1-0.3
Body weight0.62.62.6-1.61.6
Weight adjusted by age1.42.22.2-1.51.5
Bone surface0.40.81.01.0-0.7
Bone volume0.61.01.21.1-0.9
Breakpoint value in progressive ratio session0.10.10.1-0.30.3
Number of licking bursts0.00.00.00.1-0.1
Context. condit. distance diff. score1.11.31.51.1-1.2
Locomotion velocity, session 10.20.20.2-0.50.5
Locomotion distance, session 10.00.10.10.2-0.3
Locomotion velocity, session 20.00.00.00.1-0.2
Locomotion distance, session 20.00.00.10.1-0.2
Locomotion velocity, session 30.50.60.6-0.70.8
Locomotion distance, session 30.00.00.00.2-0.1
Stereotopy head waving bouts, day 30.60.70.8-0.90.8
Stereotopy head waving duration, day 32.32.82.9-1.71.6
Locomotion velocity, session 74.04.44.42.1-2.1
Locomotion distance, session 73.14.04.12.0-2.0
Stereotopy head waving bouts, day 71.61.81.8-1.41.4
Stereotopy head waving duration, day 72.32.83.0-1.61.7
Locomotion velocity, session 80.00.00.0-0.0-0.0
Locomotion distance, session 80.81.11.40.9-1.2
Degree of sensitization distance4.34.44.52.1-2.1
Degree of sensitization stereotypy1.21.31.3-1.11.1
Conditioned locomotion0.00.00.00.2-0.2
Cocaine response after cond. corrected0.30.30.3-0.60.5
Cocaine response after cond. not corrected0.20.20.2-0.40.4
Cocaine response before conditioning0.20.20.20.4-0.5
Saline control response0.10.10.10.3-0.2
Bone: connectivity density2.33.63.71.9-1.9
Bone: cortical apparent density0.10.10.10.3-0.3
Bone: cortical area0.00.00.0-0.00.1
Bone: cortical porosity1.21.31.3-1.11.1
Bone: cortical porosity0.70.70.7-0.90.8
Bone: cortical thickness0.00.00.00.00.1
Bone: cortical thickness0.00.00.10.0-0.3
Bone: cortical tissue density0.10.10.10.3-0.4
Condit. Reinf. active minus inactive responses0.40.40.5-0.70.6
Condit. Reinf. active-inactive response ratio2.12.22.4-1.61.4
Condit. Reinf. active responses0.00.00.0-0.0-0.0
Condit. Reinf. inactive responses2.42.93.01.7-1.7
Incentive salience index mean0.60.70.9-1.00.8
Condit. Reinf. lever presses0.20.30.4-0.70.4
Condit. Reinf. active minus inactive responses0.30.40.40.7-0.6
Condit. Reinf. active-inactive response ratio0.10.10.1-0.20.3
Condit. Reinf. active responses0.91.21.21.1-1.1
Condit. Reinf. inactive responses2.02.62.71.6-1.7
Condit. Reinf. lever presses0.20.30.30.5-0.6
Condit. Reinf. lever reinforcers received0.60.90.91.0-0.9
Conditioned reinforcement - actives1.01.71.71.3-1.3
Conditioned reinforcement - inactives3.14.64.72.1-2.2
Conditioned locomotion0.10.20.20.4-0.4
Patch foraging indifference point 0 sec1.22.33.01.7-1.2
Patch foraging indifference point AUC0.20.30.3-0.50.5
Delay disc. indifference point, 0s delay0.30.40.40.6-0.6
Delay disc. indifference point, 16s delay0.20.30.30.5-0.5
Delay disc. indifference point, 2s delay1.41.61.6-1.31.3
Delay disc. indifference point, 24s delay0.10.20.2-0.40.4
Delay disc. indifference point, 4s delay1.71.81.9-1.31.4
Delay disc. indifference point, 8s delay0.00.00.00.2-0.2
Indifference point function ln k0.00.00.0-0.0-0.2
Indifference point function log k0.00.00.0-0.0-0.2
Patch foraging total patch changes 0 sec0.81.62.21.5-1.0
Patch foraging total patch changes 12 sec0.40.50.90.9-0.5
Patch foraging total patch changes 18 sec1.21.82.21.5-1.2
Patch foraging total patch changes 24 sec0.00.10.10.00.3
Patch foraging total patch changes 6 sec0.10.20.30.6-0.3
Patch foraging time to switch 0 sec0.51.11.11.0-1.1
Patch foraging water rate 0 sec0.30.50.6-0.70.7
Patch foraging water rate 12 sec0.51.11.1-1.01.0
Patch foraging water rate 18 sec2.74.14.4-2.12.0
Patch foraging water rate 24 sec0.10.20.3-0.50.3
Patch foraging water rate 6 sec2.03.03.1-1.71.8
Seeking ratio, delayed vs. immediate footshock0.91.11.11.0-1.1
Distance traveled before self-admin0.71.01.0-1.01.0
Distance traveled after self-admin2.53.13.1-1.81.8
Extensor digitorum longus weight12.750.150.8-7.17.0
Bone: elastic displacement0.50.50.60.7-0.8
Bone: elastic work0.20.30.30.5-0.5
Bone: endosteal estimation0.10.20.2-0.40.5
Bone: endosteal perimeter0.10.10.2-0.30.4
Epididymis fat weight0.93.13.51.6-1.9
Delta time in closed arm before/after self-admin4.23.94.02.0-2.0
Delta time in open arm before/after self-admin0.10.10.1-0.30.3
Diff in mean of infusions in LGA sessions0.91.11.1-1.11.0
Delay discount exponential model param0.30.40.40.6-0.6
Extinction: sum of active levers before priming2.12.42.41.5-1.5
Active lever presses in extinction session 60.70.70.70.8-0.8
Bone: final force0.10.20.2-0.40.5
Bone: final moment0.10.10.2-0.40.4
Food consumed during 24 hour testing period0.30.40.50.6-0.7
Glucose0.00.00.00.00.1
Heart weight0.30.40.50.7-0.5
Delay discount hyperbolic model param0.40.50.50.7-0.7
Intermittent access intake day 1-15 change1.73.53.51.9-1.9
Intermittent access intake escalation1.83.73.71.9-1.9
Intermittent access intake escalation 21.41.61.71.3-1.3
Intermitt. access day 1 inactive lever presses0.00.00.00.1-0.1
Intermitt. access day 15 inactive lever presses0.00.00.00.2-0.2
Intermitt. access escalation Index0.00.10.1-0.20.2
Intermittent access day 1 total infusions0.00.00.0-0.00.0
Intermittent access day 15 total infusions1.72.52.51.6-1.6
Intermittent access terminal intake (last 3 days)1.01.41.41.2-1.2
Intermittent access total infusions1.21.41.41.2-1.2
Intermittent access day 1 locomotion0.00.00.00.1-0.1
Intermittent access day 15 total locomotion0.20.40.40.6-0.6
Intermittent access total locomotion0.10.10.10.3-0.3
Intermittent access standard deviation0.10.30.30.5-0.6
Left kidney weight0.00.20.2-0.40.4
Right kidney weight0.10.30.4-0.20.7
Cocaine induced anxiety0.00.00.0-0.00.1
Post-drug Anxiety0.91.01.01.0-1.0
Baseline Anxiety0.40.50.50.7-0.7
Tail length0.51.92.11.4-1.3
Length with tail0.10.30.4-0.40.6
Length without tail2.47.88.2-2.72.9
Times rat made contact with spout0.60.70.80.8-0.9
Lifetime Intake0.70.80.80.9-0.9
Liver weight, left1.52.52.9-1.71.5
Liver weight, right0.40.60.9-0.90.6
Locomotor activity1.62.52.6-1.61.6
Locomotor testing distance0.00.00.10.2-0.2
Locomotor testing rearing0.10.20.20.5-0.4
Locomotion in novel chamber0.40.60.60.7-0.8
Locomotion in novel chamber post-restriction0.71.21.2-1.11.1
Fecal boli incidents, locomotor time 11.01.41.5-1.21.2
Change in fecal boli incidents, locomotor task0.30.30.3-0.50.5
Time >=10cm from walls, locomotor time 11.01.11.11.0-1.0
Bouts of movement, locomotor time 14.65.25.3-2.32.3
Total resting periods, locomotor time 14.55.05.1-2.22.3
Rest time, locomotor task time 11.82.22.3-1.41.5
Distance moved, locomotor task time 12.33.53.51.9-1.8
Vertical activity count, locomotor time 10.51.11.21.1-1.1
Time >=10cm from walls, locomotor time 20.30.50.5-0.70.7
Bouts of movement, locomotor time 23.25.15.1-2.22.3
Total resting periods, locomotor time 23.15.55.6-2.32.4
Rest time, locomotor task time 20.81.11.2-1.01.1
Distance moved, locomotor task time 23.03.63.61.9-1.9
Vertical activity count, locomotor time 20.40.50.50.7-0.7
Light reinforcement 12.45.86.52.3-2.5
Light reinforcement 21.01.61.81.2-1.3
Bone: marrow area0.00.10.1-0.20.4
Bone: maximum diameter0.50.81.0-0.81.0
Bone: maximum force0.30.60.7-0.70.9
Bone: maximum moment0.20.40.5-0.60.7
Mean time between licks in bursts1.43.44.11.7-2.0
Mean num. licks in bursts0.20.30.30.5-0.6
Cd content in liver1.21.41.5-1.11.2
Co content in liver5.26.06.3-2.42.5
Cu content in liver0.40.50.6-0.70.8
Fe content in liver1.31.61.91.4-1.1
K content in liver1.11.01.11.1-1.0
Mg content in liver2.62.72.71.7-1.6
Mn content in liver2.42.72.91.7-1.6
Na content in liver1.11.11.3-1.01.1
Rb content in liver0.00.00.00.1-0.0
Se content in liver0.91.11.11.0-1.0
Sr content in liver0.00.00.00.20.0
Zn content in liver0.10.10.20.4-0.2
Bone: minimum diameter0.20.40.4-0.50.7
Time in familiar zone, hab. session 10.00.00.1-0.20.2
Time in novel zone, hab. session 11.21.21.3-1.11.1
Total zone transitions, hab. session 10.10.20.2-0.50.4
Total locomotion distance, hab. session 10.00.00.00.1-0.1
Locomotion velocity, hab. session 10.10.10.20.4-0.4
Time in familiar zone, hab. session 22.02.12.3-1.51.4
Time in novel zone, hab. session 20.70.70.80.9-0.8
Total zone transitions, hab. session 21.11.41.7-1.31.1
Total locomotion distance, hab. session 20.20.20.3-0.50.4
Locomotion velocity, hab. session 20.40.60.7-0.80.7
Novel to familiar place preference ratio1.51.71.71.3-1.3
Novelty place preference1.21.31.41.2-1.1
Time in novel zone, NPP test0.60.70.70.9-0.8
Total zone transitions, NPP test0.20.30.40.5-0.6
Total locomotion distance, NPP test2.83.83.91.9-2.0
Locomotion velocity, NPP test2.63.73.91.9-2.0
Intraocular pressure0.81.11.50.9-1.2
Delta distance traveled before/after self-admin3.03.23.2-1.81.8
Delta ambulatory time before/after self-admin2.83.43.5-1.81.9
Parametrial fat weight1.73.94.32.1-1.9
Pavlov. Cond. lever latency0.00.00.00.00.1
Pavlov. Cond. magazine entry latency0.00.00.00.2-0.2
Pavlov. Cond. change in total contacts1.01.01.3-1.10.9
Pavlov. Cond. index score0.10.10.1-0.30.2
Pavlov. Cond. latency score0.00.00.0-0.20.1
Pavlov. Cond. lever contacts0.00.00.10.1-0.2
Pavlov. Cond. magazine entry number0.30.40.50.7-0.6
Pavlov. Cond. intertrial magazine entries0.10.10.10.4-0.2
Pavlov. Cond. lever-magazine prob. diff.0.20.20.3-0.50.4
Pavlov. Cond. response bias0.10.10.2-0.50.3
Pavlov. Cond. lever latency0.30.40.50.7-0.6
Pavlov. Cond. magazine entry latency0.10.10.10.3-0.3
Pavlov. Cond. change in total contacts1.01.61.7-1.31.2
Pavlov. Cond. index score0.30.40.4-0.60.6
Pavlov. Cond. latency score0.20.20.3-0.50.4
Pavlov. Cond. lever contacts0.10.10.2-0.40.3
Pavlov. Cond. magazine entry number0.00.10.1-0.20.3
Pavlov. Cond. intertrial magazine entries5.37.98.22.8-2.9
Pavlov. Cond. lever-magazine prob. diff.0.40.50.5-0.70.6
Pavlov. Cond. response bias0.10.20.2-0.50.4
Time in closed arm before self-admin1.62.12.2-1.51.4
Time in closed arm after self-admin0.00.00.0-0.20.2
Time in open arm before self-admin0.00.00.00.1-0.0
Time in open arm after self-admin0.00.00.10.2-0.2
Bone: periosteal estimation0.10.20.2-0.30.5
Bone: periosteal perimeter0.10.10.2-0.20.4
Bone: post-yield work0.10.20.30.4-0.5
Progressive ratio test 1 active lever presses0.10.10.1-0.30.3
Progressive ratio test 1 breakpoint0.10.20.2-0.40.4
Progressive ratio test 1 inactive lever presses0.81.21.21.1-1.1
Progressive ratio test 2 active lever presses0.00.00.00.2-0.2
Progressive ratio test 2 breakpoint0.00.00.00.1-0.1
Progressive ratio test 2 inactive lever presses0.30.40.40.6-0.7
Incentive Sensitization - Responses0.20.30.30.6-0.6
Incentive Sensitization - Breakpoint0.30.50.50.7-0.7
Sum of active levers in priming session hrs 5-60.10.10.10.3-0.3
Progressive ratio0.00.00.0-0.10.1
Food seeking constrained by brief footshock2.22.62.7-1.61.6
Seeking ratio, punishment vs. effort0.71.01.1-1.01.0
Retroperitoneal fat weight0.10.30.40.7-0.3
Reaction time number correct0.40.81.1-1.00.8
Reaction time mean minus median0.10.20.2-0.40.5
Reaction time mean minus median AUC0.00.10.1-0.30.3
Reaction time num false alarms0.10.10.2-0.40.1
Reaction time num false alarms AUC0.00.10.1-0.3-0.0
Reaction time trials correct on left0.40.81.1-1.00.8
Reaction time trials on left0.30.60.8-0.90.6
Reaction time mean0.10.20.2-0.50.3
Reaction time mean AUC0.20.40.4-0.60.5
Median of all reaction times0.10.10.2-0.40.2
Reaction time omissions1.92.83.01.6-1.7
Reaction time false alarm rate0.10.10.20.2-0.4
Reaction time premature initiation rate1.62.32.8-1.71.3
Reaction time premature initiations1.83.24.2-2.01.5
Std. dev. reaction times0.10.10.1-0.40.3
Reaction time trials completed0.30.60.8-0.90.6
Reaction time trials AUC0.30.50.7-0.90.6
Run reversals in cocaine runway, females3.23.23.31.8-1.8
Run reversals in cocaine runway, males2.02.02.0-1.41.4
Latency to leave start box in cocaine runway0.40.50.5-0.70.7
Latency to leave start box in cocaine runway, F1.31.51.5-1.21.2
Latency to leave start box in cocaine runway, M0.10.10.10.3-0.3
Std. dev. time between licks in bursts1.72.32.81.3-1.7
Total sessions with >9 infusions0.00.10.1-0.20.2
Short access day 1 total inactive lever presses0.10.10.20.4-0.4
Short access day 10 total inactive lever presses0.10.20.20.5-0.5
Short access day 1 total infusions0.10.10.1-0.30.3
Short access day 10 total infusions0.30.40.4-0.60.6
Short access total infusions0.00.10.1-0.20.2
Short access day 1 locomotion0.91.11.1-1.01.0
Short access day 10 total locomotion0.00.00.00.1-0.0
Short access total locomotion0.10.10.1-0.40.4
One hour access (0.3 mA shock)0.70.80.80.9-0.9
Compulsive drug intake0.60.70.80.9-0.8
One hour access (shock baseline)0.00.00.0-0.0-0.0
Social response proportion0.20.20.3-0.40.5
Social responses0.91.11.41.2-0.9
Social time0.20.30.30.6-0.5
Soleus weight1.13.13.7-1.91.6
Bone: stiffness0.81.31.5-1.11.2
Tibialis anterior weight8.228.028.2-5.35.3
Time to tail flick, vehicle, before self-admin1.01.01.01.0-1.0
Time to tail flick, vehicle, after self-admin1.41.91.9-1.41.4
Time to tail flick, test, before self-admin3.03.13.11.8-1.8
Time to tail flick, test, after self-admin2.32.42.41.6-1.6
Delta time to tail flick, vehicle, before/after SA0.30.30.3-0.50.5
Delta time to tail flick, test, before/after SA0.00.00.00.1-0.1
Tibia length1.02.83.31.8-1.5
Ambulatory time before self-admin0.20.30.3-0.60.6
Ambulatory time after self-admin5.36.26.2-2.52.5
Bone: tissue strength0.00.00.00.2-0.0
Total heroin consumption0.60.70.7-0.80.8
Bone: trabecular number2.13.43.51.9-1.8
Bone: trabecular spacing2.33.03.1-1.71.8
Bone: trabecular thickness1.21.41.51.2-1.2
Bone: trabecular tissue density1.31.91.9-1.41.4
Water consumed over 24 hours1.21.61.6-1.31.3
Number of responses in last shaping day0.60.70.7-0.80.8