Hub : Genes

Pnlip

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 gene expression ENSRNOG00000017725 0.04 0.02 3.6e-03 0.03 0.01 0.02 0.02 1.6e-03 3.0e-02 1.1e-02 1.1e-02
2 Eye gene expression ENSRNOG00000017725 0.41 0.18 3.7e-03 0.08 0.1 0.05 0.05 2.7e-02 1.3e-02 6.3e-02 5.9e-02
3 OFC gene expression ENSRNOG00000017725 0.19 0.11 2.2e-03 0.02 0.1 0.09 0.1 1.1e-01 2.0e-03 3.1e-03 2.2e-03

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 tail4.113.417.53.0-3.64.2
BMI without tail3.67.59.22.4-2.73.0
Body weight4.820.325.34.0-4.45.0
Epididymis fat weight9.221.522.54.6-4.64.7
Glucose2.94.45.41.9-2.12.3
Heart weight0.20.30.50.4-0.60.7
Left kidney weight0.92.73.2-1.61.8-1.5
Right kidney weight0.41.21.6-1.31.2-0.7
Tail length0.61.81.91.4-1.31.3
Length with tail0.72.52.81.5-1.51.7
Length without tail0.40.91.00.9-0.91.0
Liver weight, left3.35.36.62.0-2.32.6
Liver weight, right4.27.09.22.2-2.63.0
Parametrial fat weight9.518.520.24.1-4.34.5
Retroperitoneal fat weight8.227.031.04.8-5.25.6
Intraocular pressure2.73.94.32.1-2.01.9
Extensor digitorum longus weight1.45.67.11.9-2.42.7
Soleus weight0.61.94.50.0-1.12.1
Tibialis anterior weight1.13.95.71.4-2.02.4
Tibia length0.00.00.1-0.00.3-0.2
Number of licking bursts0.40.40.90.9-0.60.2
Food consumed during 24 hour testing period0.30.40.8-0.40.6-0.9
Times rat made contact with spout0.00.00.0-0.00.2-0.2
Mean time between licks in bursts0.81.11.61.3-1.10.7
Mean num. licks in bursts0.60.81.3-1.20.9-0.5
Std. dev. time between licks in bursts0.10.20.40.10.2-0.6
Water consumed over 24 hours0.80.90.9-1.01.0-0.9
Indifference point 0 sec1.01.61.91.2-1.31.4
Indifference point AUC1.41.72.01.2-1.21.4
Indifference point function ln k0.60.91.1-0.90.9-1.1
Indifference point function log k0.60.91.1-0.90.9-1.1
Delay discounting total patch changes 0 sec1.42.22.51.4-1.51.6
Delay discounting total patch changes 12 sec2.33.03.01.7-1.71.7
Delay discounting total patch changes 18 sec4.25.66.22.3-2.32.5
Delay discounting total patch changes 24 sec3.84.85.32.0-2.22.3
Delay discounting total patch changes 6 sec2.84.24.52.0-2.02.1
Delay discounting time to switch 0 sec0.10.10.2-0.50.3-0.2
Delay discounting water rate 0 sec0.20.30.30.5-0.50.5
Delay discounting water rate 12 sec1.52.22.51.6-1.51.4
Delay discounting water rate 18 sec0.20.20.3-0.60.5-0.3
Delay discounting water rate 24 sec0.00.00.1-0.30.10.2
Delay discounting water rate 6 sec0.00.00.0-0.10.00.2
Locomotor activity0.00.00.1-0.1-0.00.2
Locomotor testing distance0.50.91.5-1.20.9-0.6
Locomotor testing rearing0.10.20.5-0.70.30.2
Light reinforcement 10.40.71.0-0.60.9-1.0
Light reinforcement 21.31.72.4-1.01.3-1.6
Reaction time number correct0.71.11.80.7-1.01.3
Reaction time mean minus median1.01.32.00.8-1.11.4
Reaction time mean minus median AUC0.40.51.20.1-0.51.1
Reaction time num false alarms0.50.70.8-0.80.8-0.9
Reaction time num false alarms AUC0.81.11.3-1.11.0-1.0
Reaction time trials correct on left0.71.11.80.7-1.01.3
Reaction time trials on left0.91.22.10.7-1.01.4
Reaction time mean0.40.61.40.1-0.71.2
Reaction time mean AUC0.40.61.4-0.0-0.61.2
Median of all reaction times0.20.30.7-0.4-0.30.8
Reaction time omissions1.82.43.41.3-1.51.8
Reaction time false alarm rate1.11.52.1-1.11.2-1.5
Reaction time premature initiation rate0.50.70.9-0.70.9-0.9
Reaction time premature initiations0.10.10.1-0.30.4-0.0
Std. dev. reaction times1.42.03.20.9-1.31.8
Reaction time trials completed0.91.22.10.7-1.01.4
Reaction time trials AUC0.81.22.00.7-1.01.4
Social response proportion0.50.50.9-1.00.7-0.4
Social responses0.71.01.40.8-1.01.2
Social time0.10.20.3-0.50.00.6
Conditioned locomotion0.00.00.10.0-0.10.3
Cocaine response after cond. corrected6.27.07.3-2.72.7-2.6
Cocaine response after cond. not corrected4.85.35.5-2.32.3-2.3
Cocaine response before conditioning1.11.41.71.3-1.20.9
Saline control response0.10.10.3-0.50.3-0.1
Condit. Reinf. active minus inactive responses3.03.73.91.9-2.01.9
Condit. Reinf. active-inactive response ratio1.71.81.81.3-1.31.4
Condit. Reinf. active responses4.05.65.82.3-2.42.3
Condit. Reinf. inactive responses1.41.81.91.3-1.41.3
Condit. Reinf. lever presses1.31.71.81.3-1.31.3
Condit. Reinf. lever reinforcers received2.83.94.22.1-2.01.9
Pavlov. Cond. lever latency1.62.22.6-1.61.5-1.3
Pavlov. Cond. magazine entry latency1.11.31.51.0-1.11.2
Pavlov. Cond. change in total contacts1.31.81.91.3-1.41.4
Pavlov. Cond. index score1.52.02.11.4-1.41.4
Pavlov. Cond. latency score1.41.71.81.3-1.31.3
Pavlov. Cond. lever contacts0.91.31.51.2-1.11.1
Pavlov. Cond. magazine entry number0.70.91.1-0.81.0-1.0
Pavlov. Cond. intertrial magazine entries0.20.20.20.5-0.40.4
Pavlov. Cond. lever-magazine prob. diff.1.21.51.61.2-1.21.3
Pavlov. Cond. response bias1.52.12.31.5-1.41.4
Conditioned reinforcement - actives3.53.53.8-1.72.0-2.0
Conditioned reinforcement - inactives0.20.20.20.4-0.40.4
Conditioned locomotion3.13.74.2-1.82.0-2.0
Intermittent access intake day 1-15 change1.61.62.40.9-1.31.6
Intermittent access intake escalation0.10.10.3-0.1-0.10.5
Intermittent access intake escalation 20.00.00.1-0.0-0.10.4
Intermitt. access day 1 inactive lever presses5.25.66.82.0-2.42.6
Intermitt. access day 15 inactive lever presses0.80.81.10.7-0.91.1
Intermitt. access escalation Index0.20.20.5-0.70.1-0.0
Intermittent access day 1 total infusions0.00.00.0-0.20.2-0.1
Intermittent access day 15 total infusions0.10.10.2-0.1-0.10.5
Intermittent access terminal intake (last 3 days)0.10.10.30.1-0.30.6
Intermittent access total infusions0.00.00.1-0.30.20.1
Intermittent access day 1 locomotion0.90.91.3-1.11.0-0.6
Intermittent access day 15 total locomotion1.71.82.51.1-1.31.6
Intermittent access total locomotion0.40.40.6-0.70.8-0.4
Intermittent access standard deviation1.41.51.71.2-1.21.3
Cocaine induced anxiety3.84.36.3-1.52.1-2.5
Post-drug Anxiety0.91.01.6-0.51.0-1.3
Baseline Anxiety5.25.56.62.1-2.42.6
Lifetime Intake0.10.10.2-0.40.4-0.2
Incentive Sensitization - Responses1.81.83.30.6-1.31.8
Incentive Sensitization - Breakpoint2.12.13.70.8-1.51.9
Progressive ratio test 1 active lever presses0.20.20.4-0.60.3-0.1
Progressive ratio test 1 breakpoint0.10.10.2-0.40.20.0
Progressive ratio test 1 inactive lever presses0.00.00.10.0-0.30.2
Progressive ratio test 2 active lever presses0.40.40.9-0.0-0.51.0
Progressive ratio test 2 breakpoint0.60.61.40.1-0.71.2
Progressive ratio test 2 inactive lever presses0.30.30.40.5-0.60.6
Total sessions with >9 infusions0.91.01.4-1.21.0-0.7
Short access day 1 total inactive lever presses0.00.00.00.2-0.1-0.1
Short access day 10 total inactive lever presses0.80.81.00.8-0.91.0
Short access day 1 total infusions0.40.40.6-0.70.6-0.5
Short access day 10 total infusions1.01.11.5-1.21.1-0.9
Short access total infusions0.60.70.8-0.90.9-0.7
Short access day 1 locomotion0.10.10.1-0.3-0.10.3
Short access day 10 total locomotion0.20.20.3-0.60.5-0.2
Short access total locomotion2.32.43.4-1.81.6-1.1
Compulsive drug intake0.30.30.40.6-0.60.4
One hour access (0.3 mA shock)1.61.92.31.2-1.41.5
One hour access (shock baseline)0.00.00.1-0.1-0.10.4
Number of responses in last shaping day0.10.10.2-0.30.4-0.3
Context. condit. distance diff. score0.80.91.3-0.80.9-1.1
Locomotion velocity, session 10.10.20.2-0.40.4-0.4
Locomotion distance, session 11.92.52.6-1.51.6-1.6
Locomotion velocity, session 23.74.34.9-1.92.2-2.2
Locomotion distance, session 21.42.02.2-1.31.5-1.5
Locomotion velocity, session 31.31.51.7-1.11.3-1.3
Locomotion distance, session 32.73.03.2-1.61.8-1.8
Stereotopy head waving bouts, day 30.10.10.2-0.50.1-0.0
Stereotopy head waving duration, day 30.00.00.0-0.1-0.20.2
Locomotion velocity, session 70.20.20.3-0.30.5-0.5
Locomotion distance, session 70.70.91.0-0.91.0-1.0
Stereotopy head waving bouts, day 70.20.20.30.6-0.40.3
Stereotopy head waving duration, day 71.11.31.71.0-1.11.3
Locomotion velocity, session 81.11.42.5-0.61.1-1.6
Locomotion distance, session 83.65.47.9-1.72.3-2.8
Degree of sensitization distance0.90.91.00.9-1.01.0
Degree of sensitization stereotypy0.70.70.91.0-0.80.8
Condit. Reinf. active minus inactive responses0.50.51.1-0.40.6-1.0
Condit. Reinf. active-inactive response ratio0.10.10.3-0.10.2-0.5
Condit. Reinf. active responses0.10.10.30.20.1-0.6
Condit. Reinf. inactive responses0.20.20.40.7-0.3-0.1
Incentive salience index mean1.11.32.2-0.71.1-1.5
Condit. Reinf. lever presses0.60.81.2-0.60.9-1.1
Time in familiar zone, hab. session 10.10.10.2-0.40.10.2
Time in novel zone, hab. session 10.80.81.31.1-0.90.6
Total zone transitions, hab. session 10.10.10.1-0.30.3-0.1
Total locomotion distance, hab. session 10.10.10.20.4-0.0-0.4
Locomotion velocity, hab. session 10.10.10.30.20.2-0.6
Time in familiar zone, hab. session 22.12.22.31.5-1.51.4
Time in novel zone, hab. session 21.51.51.7-1.21.3-1.2
Total zone transitions, hab. session 20.10.10.2-0.40.20.1
Total locomotion distance, hab. session 20.00.00.0-0.0-0.0-0.1
Locomotion velocity, hab. session 20.00.00.0-0.1-0.0-0.0
Novel to familiar place preference ratio0.40.40.90.9-0.60.2
Novelty place preference0.30.40.70.8-0.50.2
Time in novel zone, NPP test1.01.11.71.3-1.00.7
Total zone transitions, NPP test0.00.10.1-0.20.3-0.2
Total locomotion distance, NPP test0.30.40.7-0.30.6-0.9
Locomotion velocity, NPP test0.91.32.1-0.81.1-1.4
Pavlov. Cond. lever latency0.50.70.80.6-0.90.9
Pavlov. Cond. magazine entry latency0.00.00.1-0.10.2-0.3
Pavlov. Cond. change in total contacts0.00.00.0-0.0-0.00.1
Pavlov. Cond. index score0.00.00.00.10.0-0.0
Pavlov. Cond. latency score0.00.00.00.00.2-0.1
Pavlov. Cond. lever contacts0.00.00.00.10.1-0.1
Pavlov. Cond. magazine entry number0.10.10.1-0.30.3-0.4
Pavlov. Cond. intertrial magazine entries0.40.40.7-0.50.6-0.9
Pavlov. Cond. lever-magazine prob. diff.0.00.00.10.2-0.10.1
Pavlov. Cond. response bias0.10.10.1-0.20.3-0.3
Bone: apparent density2.13.44.12.0-1.91.6
Bone surface0.81.52.01.4-1.21.0
Bone volume1.83.03.21.7-1.81.7
Bone: connectivity density0.71.11.71.3-1.10.7
Bone: cortical apparent density4.65.96.3-2.52.5-2.3
Bone: cortical area1.92.93.01.7-1.71.7
Bone: cortical porosity1.01.11.31.1-1.10.9
Bone: cortical porosity2.12.32.51.5-1.61.4
Bone: cortical thickness0.00.10.10.4-0.20.1
Bone: cortical thickness0.00.00.1-0.30.2-0.0
Bone: cortical tissue density4.76.26.5-2.52.6-2.4
Bone: elastic displacement0.00.00.1-0.2-0.00.3
Bone: elastic work0.30.30.7-0.80.6-0.2
Bone: endosteal estimation0.71.61.91.1-1.31.4
Bone: endosteal perimeter1.53.14.71.3-1.72.2
Bone: final force0.40.60.60.8-0.70.8
Bone: final moment0.50.80.80.9-0.80.9
Bone: marrow area0.81.72.01.1-1.31.4
Bone: maximum diameter3.86.98.12.3-2.72.9
Bone: maximum force0.10.20.20.5-0.40.3
Bone: maximum moment0.10.20.30.6-0.50.4
Bone: minimum diameter1.42.52.81.5-1.61.7
Bone: periosteal estimation1.22.42.81.4-1.61.7
Bone: periosteal perimeter3.05.07.21.7-2.22.7
Bone: post-yield work0.30.40.90.9-0.5-0.1
Bone: stiffness0.10.10.20.4-0.30.1
Bone: tissue strength0.10.10.10.2-0.30.2
Bone: trabecular number2.03.03.81.9-1.81.5
Bone: trabecular spacing0.10.10.1-0.20.3-0.3
Bone: trabecular thickness2.73.24.01.5-1.82.0
Bone: trabecular tissue density0.91.22.0-1.41.1-0.7
Breakpoint value in progressive ratio session3.64.04.31.8-2.12.1
Distance traveled before self-admin2.22.33.3-1.81.5-1.1
Distance traveled after self-admin1.81.92.4-1.51.4-1.2
Delta time in closed arm before/after self-admin1.31.21.4-1.11.1-1.2
Delta time in open arm before/after self-admin4.03.84.42.1-2.01.8
Diff in mean of infusions in LGA sessions1.82.02.31.4-1.51.3
Extinction: sum of active levers before priming1.41.41.51.2-1.21.2
Active lever presses in extinction session 60.90.80.80.9-0.90.9
Delta distance traveled before/after self-admin0.00.00.0-0.10.1-0.1
Delta ambulatory time before/after self-admin0.00.00.00.2-0.10.0
Time in closed arm before self-admin0.10.10.1-0.4-0.00.3
Time in closed arm after self-admin1.21.32.1-1.41.1-0.8
Time in open arm before self-admin0.80.91.7-0.40.8-1.3
Time in open arm after self-admin1.31.42.61.6-1.10.7
Sum of active levers in priming session hrs 5-61.51.51.71.3-1.21.1
Time to tail flick, vehicle, before self-admin0.30.30.60.8-0.50.4
Time to tail flick, vehicle, after self-admin0.00.00.0-0.10.1-0.1
Time to tail flick, test, before self-admin2.92.93.3-1.61.8-1.6
Time to tail flick, test, after self-admin1.81.81.91.3-1.31.4
Delta time to tail flick, vehicle, before/after SA0.20.20.50.1-0.50.7
Delta time to tail flick, test, before/after SA3.73.33.41.8-1.81.8
Ambulatory time before self-admin1.21.21.6-1.31.1-0.9
Ambulatory time after self-admin1.11.21.6-1.21.1-0.9
Total heroin consumption3.03.63.71.9-1.91.9
Area under the delay curve1.11.22.10.6-1.11.4
Delay disc. indifference point, 0s delay0.10.10.3-0.50.3-0.1
Delay disc. indifference point, 16s delay0.60.61.10.4-0.81.0
Delay disc. indifference point, 2s delay0.20.20.6-0.70.30.2
Delay disc. indifference point, 24s delay1.21.21.41.0-1.11.2
Delay disc. indifference point, 4s delay0.30.40.70.3-0.60.8
Delay disc. indifference point, 8s delay1.11.22.30.5-1.01.5
Delay discount exponential model param1.31.32.3-0.61.1-1.5
Delay discount hyperbolic model param0.90.91.8-0.40.9-1.3
Fecal boli incidents, locomotor time 10.10.10.20.4-0.30.4
Change in fecal boli incidents, locomotor task0.10.10.10.4-0.1-0.3
Time >=10cm from walls, locomotor time 10.20.20.5-0.10.4-0.7
Bouts of movement, locomotor time 11.71.92.41.2-1.31.5
Total resting periods, locomotor time 10.80.91.10.8-0.91.1
Rest time, locomotor task time 11.51.61.9-1.11.4-1.3
Distance moved, locomotor task time 10.10.20.30.1-0.40.5
Vertical activity count, locomotor time 10.10.10.1-0.40.2-0.2
Time >=10cm from walls, locomotor time 20.20.20.5-0.00.3-0.7
Bouts of movement, locomotor time 20.00.00.1-0.2-0.00.2
Total resting periods, locomotor time 20.10.10.2-0.2-0.20.5
Rest time, locomotor task time 20.10.10.3-0.50.20.1
Distance moved, locomotor task time 20.10.10.2-0.10.3-0.4
Vertical activity count, locomotor time 20.10.10.3-0.00.3-0.5
Weight adjusted by age0.70.71.50.3-0.81.2
Seeking ratio, delayed vs. immediate footshock1.92.22.9-1.21.5-1.7
Locomotion in novel chamber1.11.41.4-1.21.2-1.2
Locomotion in novel chamber post-restriction3.54.14.4-1.92.1-2.1
Progressive ratio0.70.81.5-0.50.9-1.2
Food seeking constrained by brief footshock0.10.20.3-0.30.4-0.5
Seeking ratio, punishment vs. effort0.10.10.2-0.2-0.10.5
Run reversals in cocaine runway, females0.20.20.30.3-0.50.6
Run reversals in cocaine runway, males1.01.01.2-0.91.1-1.0
Latency to leave start box in cocaine runway0.70.81.40.3-0.91.2
Latency to leave start box in cocaine runway, F0.80.81.30.5-1.01.1
Latency to leave start box in cocaine runway, M0.20.10.3-0.5-0.00.4
Cd content in liver0.91.02.2-0.30.9-1.5
Co content in liver2.02.32.9-1.31.5-1.7
Cu content in liver0.20.20.3-0.50.5-0.4
Fe content in liver0.20.20.50.7-0.40.1
K content in liver0.10.10.10.1-0.20.4
Mg content in liver0.60.61.20.3-0.71.1
Mn content in liver0.00.00.0-0.20.00.1
Na content in liver1.11.11.70.8-1.11.3
Rb content in liver0.40.50.70.5-0.70.9
Se content in liver0.10.10.20.4-0.2-0.0
Sr content in liver2.42.22.5-1.61.5-1.4
Zn content in liver2.32.54.0-2.01.5-1.1