Hub : Genes

Pcgf5

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 mRNA stability ENSRNOG00000018532 0.04 0.02 1.9e-03 0.01 0.01 0.01 0.01 3.5e-02 2.0e-02 1.8e-02 3.5e-02
2 Liver gene expression ENSRNOG00000018532 0.04 0.03 1.9e-04 0.02 0.03 0.02 0.02 1.5e-03 7.4e-04 2.3e-03 2.6e-03
3 NAcc isoform ratio ENSRNOT00000092151 0.07 0.05 5.6e-03 0.02 0 -0 0.01 1.9e-02 1.9e-01 4.3e-01 7.2e-02
4 PL gene expression ENSRNOG00000018532 0.08 0.05 7.3e-06 0.09 0.05 0.06 0.05 3.7e-07 8.7e-05 1.5e-05 7.8e-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 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 4
BMI with tail0.10.40.60.60.8-0.6-0.4
BMI without tail0.10.30.60.8-0.0-0.4-0.5
Body weight0.62.55.62.4-1.50.7-1.2
Epididymis fat weight0.30.81.70.8-1.30.9-0.1
Glucose0.10.10.3-0.2-0.30.40.5
Heart weight0.30.51.1-0.7-0.4-0.41.0
Left kidney weight0.72.05.60.2-2.41.50.2
Right kidney weight1.54.411.2-0.6-3.42.01.5
Tail length0.92.85.01.9-2.21.4-0.9
Length with tail1.34.99.52.4-3.11.8-1.1
Length without tail1.12.53.31.6-1.81.8-0.9
Liver weight, left1.32.13.61.9-1.01.1-1.5
Liver weight, right1.11.83.81.3-1.91.40.1
Parametrial fat weight0.51.01.71.0-1.31.10.1
Retroperitoneal fat weight0.10.51.01.0-0.40.4-0.7
Intraocular pressure0.30.40.50.70.1-0.7-0.7
Extensor digitorum longus weight0.41.54.31.1-0.82.1-0.2
Soleus weight0.92.54.01.32.0-1.5-1.5
Tibialis anterior weight0.51.73.71.6-0.41.9-0.7
Tibia length0.10.30.70.7-0.80.3-0.3
Number of licking bursts2.63.14.7-2.0-2.20.91.7
Food consumed during 24 hour testing period0.60.71.5-0.6-1.20.60.8
Times rat made contact with spout0.40.40.80.9-0.50.6-0.6
Mean time between licks in bursts1.21.63.5-1.9-0.1-0.31.7
Mean num. licks in bursts2.42.95.22.31.8-0.4-1.8
Std. dev. time between licks in bursts2.32.85.6-2.4-0.6-0.02.2
Water consumed over 24 hours0.81.01.9-0.3-1.21.40.7
Indifference point 0 sec0.61.02.6-0.6-1.6-0.01.0
Indifference point AUC1.21.43.1-0.1-1.71.31.0
Indifference point function ln k0.81.11.80.81.3-0.7-1.4
Indifference point function log k0.81.11.80.81.3-0.7-1.4
Delay discounting total patch changes 0 sec0.50.92.4-0.5-1.5-0.00.9
Delay discounting total patch changes 12 sec1.11.52.2-1.3-1.50.41.4
Delay discounting total patch changes 18 sec0.50.61.8-0.4-1.40.40.5
Delay discounting total patch changes 24 sec1.41.74.9-0.1-2.21.10.9
Delay discounting total patch changes 6 sec1.62.44.7-1.0-2.20.51.9
Delay discounting time to switch 0 sec0.71.03.3-1.80.0-0.20.8
Delay discounting water rate 0 sec0.20.41.21.10.10.3-0.5
Delay discounting water rate 12 sec0.10.10.30.4-0.5-0.2-0.1
Delay discounting water rate 18 sec0.20.20.80.9-0.20.1-0.2
Delay discounting water rate 24 sec1.01.33.11.7-0.70.8-1.0
Delay discounting water rate 6 sec0.20.20.30.30.5-0.6-0.5
Locomotor activity0.30.41.1-1.0-0.5-0.10.6
Locomotor testing distance0.61.02.5-1.6-0.6-0.21.0
Locomotor testing rearing0.10.10.2-0.1-0.30.3-0.4
Light reinforcement 10.71.32.70.81.0-1.6-0.9
Light reinforcement 21.21.62.6-1.30.8-1.61.2
Reaction time number correct1.01.42.21.41.0-0.7-1.5
Reaction time mean minus median0.30.40.9-0.40.8-0.9-0.1
Reaction time mean minus median AUC0.30.40.9-0.20.8-1.0-0.1
Reaction time num false alarms0.70.91.70.9-0.91.3-0.6
Reaction time num false alarms AUC0.70.92.10.4-1.21.4-0.2
Reaction time trials correct on left1.01.42.21.41.0-0.7-1.5
Reaction time trials on left1.01.42.21.51.0-0.6-1.5
Reaction time mean1.52.04.6-2.1-0.30.01.9
Reaction time mean AUC1.92.65.7-2.4-0.2-0.02.2
Median of all reaction times2.02.76.0-2.4-0.30.02.2
Reaction time omissions0.10.10.20.2-0.20.4-0.4
Reaction time false alarm rate0.70.92.0-0.0-1.31.40.1
Reaction time premature initiation rate0.20.30.50.7-0.40.2-0.6
Reaction time premature initiations0.91.32.71.70.2-0.2-1.5
Std. dev. reaction times0.30.41.0-1.00.1-0.50.6
Reaction time trials completed1.01.42.21.51.0-0.6-1.5
Reaction time trials AUC0.70.91.51.20.8-0.4-1.2
Social response proportion1.71.94.30.12.1-1.7-0.6
Social responses1.31.63.60.31.6-1.9-0.4
Social time0.70.91.7-1.0-0.90.11.3
Conditioned locomotion0.20.20.50.50.4-0.1-0.7
Cocaine response after cond. corrected0.40.51.00.90.1-0.3-1.0
Cocaine response after cond. not corrected0.60.71.41.2-0.60.5-0.9
Cocaine response before conditioning1.21.42.70.1-1.61.50.9
Saline control response0.40.50.90.9-0.20.9-0.6
Condit. Reinf. active minus inactive responses1.21.52.11.5-0.81.4-1.1
Condit. Reinf. active-inactive response ratio0.40.50.70.8-0.40.8-0.7
Condit. Reinf. active responses2.13.06.42.5-0.40.9-2.1
Condit. Reinf. inactive responses1.21.43.31.8-0.20.3-1.5
Condit. Reinf. lever presses0.20.30.70.8-0.10.1-0.8
Condit. Reinf. lever reinforcers received1.52.24.62.1-0.50.9-1.8
Pavlov. Cond. lever latency0.10.10.2-0.40.10.40.3
Pavlov. Cond. magazine entry latency0.80.91.5-0.7-1.21.10.8
Pavlov. Cond. change in total contacts0.40.51.00.5-0.91.0-0.1
Pavlov. Cond. index score0.30.40.90.4-1.00.8-0.2
Pavlov. Cond. latency score0.30.40.60.6-0.80.6-0.4
Pavlov. Cond. lever contacts0.10.10.10.3-0.30.0-0.3
Pavlov. Cond. magazine entry number1.61.93.01.01.7-1.5-1.2
Pavlov. Cond. intertrial magazine entries0.70.81.41.2-0.50.8-1.0
Pavlov. Cond. lever-magazine prob. diff.0.50.61.40.3-1.21.0-0.1
Pavlov. Cond. response bias0.50.71.6-0.3-1.30.90.5
Conditioned reinforcement - actives0.70.71.11.00.1-0.8-1.0
Conditioned reinforcement - inactives1.41.62.01.11.3-1.4-1.3
Conditioned locomotion1.21.43.20.51.4-1.8-0.5
Intermittent access intake day 1-15 change1.51.53.70.41.2-1.9-0.9
Intermittent access intake escalation1.21.23.60.10.9-1.9-0.5
Intermittent access intake escalation 20.80.82.1-0.11.0-1.4-0.3
Intermitt. access day 1 inactive lever presses0.90.91.70.81.3-0.9-0.8
Intermitt. access day 15 inactive lever presses3.43.74.71.62.0-2.2-1.9
Intermitt. access escalation Index0.40.31.1-0.1-0.41.00.3
Intermittent access day 1 total infusions0.50.61.61.20.10.0-0.9
Intermittent access day 15 total infusions1.01.11.71.20.5-1.3-1.0
Intermittent access terminal intake (last 3 days)0.80.91.90.70.8-1.4-0.6
Intermittent access total infusions0.50.50.80.90.5-0.6-0.8
Intermittent access day 1 locomotion0.30.30.70.8-0.20.3-0.5
Intermittent access day 15 total locomotion1.21.32.40.71.3-1.5-0.8
Intermittent access total locomotion0.10.10.20.30.5-0.4-0.3
Intermittent access standard deviation0.50.50.70.40.8-0.9-0.6
Cocaine induced anxiety0.10.10.40.3-0.10.7-0.0
Post-drug Anxiety0.30.30.60.60.8-0.3-0.2
Baseline Anxiety0.20.20.60.00.6-0.8-0.2
Lifetime Intake0.30.40.50.60.4-0.7-0.7
Incentive Sensitization - Responses1.81.83.01.21.1-1.7-1.2
Incentive Sensitization - Breakpoint1.91.93.11.21.2-1.7-1.3
Progressive ratio test 1 active lever presses1.21.32.01.30.9-0.8-1.4
Progressive ratio test 1 breakpoint1.21.31.71.20.9-1.0-1.3
Progressive ratio test 1 inactive lever presses1.71.82.31.50.9-1.5-1.4
Progressive ratio test 2 active lever presses2.02.22.91.41.2-1.5-1.7
Progressive ratio test 2 breakpoint2.83.24.21.81.5-1.7-2.0
Progressive ratio test 2 inactive lever presses2.63.04.11.21.9-2.0-1.7
Total sessions with >9 infusions0.10.20.60.0-0.2-0.8-0.0
Short access day 1 total inactive lever presses3.64.07.60.92.4-2.7-1.4
Short access day 10 total inactive lever presses0.10.10.20.00.2-0.50.3
Short access day 1 total infusions0.10.20.2-0.4-0.5-0.40.3
Short access day 10 total infusions0.40.40.7-0.8-0.4-0.40.8
Short access total infusions0.20.20.50.3-0.1-0.7-0.4
Short access day 1 locomotion0.30.30.5-0.4-0.7-0.20.7
Short access day 10 total locomotion0.10.10.1-0.40.10.40.3
Short access total locomotion0.20.20.4-0.5-0.4-0.20.6
Compulsive drug intake1.21.23.71.9-0.10.5-1.0
One hour access (0.3 mA shock)3.03.55.02.21.3-1.8-2.1
One hour access (shock baseline)0.60.72.1-0.10.7-1.4-0.4
Number of responses in last shaping day1.41.42.20.91.0-1.5-1.3
Context. condit. distance diff. score2.02.55.21.90.90.6-2.3
Locomotion velocity, session 11.61.73.1-1.80.1-1.11.6
Locomotion distance, session 10.00.10.1-0.20.1-0.30.2
Locomotion velocity, session 20.30.41.1-1.1-0.20.00.7
Locomotion distance, session 20.60.91.4-0.6-1.21.10.8
Locomotion velocity, session 30.30.30.60.6-0.30.5-0.8
Locomotion distance, session 30.90.92.00.8-0.61.4-0.8
Stereotopy head waving bouts, day 30.70.81.40.11.2-1.2-0.7
Stereotopy head waving duration, day 30.70.81.60.31.2-1.3-0.6
Locomotion velocity, session 70.91.01.71.3-0.21.0-1.2
Locomotion distance, session 70.50.71.31.1-0.00.8-0.9
Stereotopy head waving bouts, day 70.00.00.10.10.1-0.3-0.2
Stereotopy head waving duration, day 70.10.20.50.10.3-0.7-0.2
Locomotion velocity, session 80.10.10.20.40.4-0.1-0.3
Locomotion distance, session 80.50.81.11.00.31.0-1.1
Degree of sensitization distance0.00.00.1-0.1-0.00.00.3
Degree of sensitization stereotypy0.10.10.10.4-0.0-0.2-0.2
Condit. Reinf. active minus inactive responses0.80.91.8-0.2-1.31.20.5
Condit. Reinf. active-inactive response ratio0.70.71.5-1.1-0.40.11.2
Condit. Reinf. active responses1.01.22.11.0-1.11.5-0.7
Condit. Reinf. inactive responses2.12.44.52.1-0.50.8-2.1
Incentive salience index mean1.92.24.3-0.1-2.12.10.6
Condit. Reinf. lever presses1.62.14.4-0.4-1.92.10.6
Time in familiar zone, hab. session 10.20.20.50.00.5-0.7-0.4
Time in novel zone, hab. session 10.90.91.7-1.1-0.60.41.3
Total zone transitions, hab. session 10.20.30.50.70.3-0.4-0.6
Total locomotion distance, hab. session 10.10.20.3-0.6-0.30.40.2
Locomotion velocity, hab. session 10.20.30.5-0.6-0.50.70.3
Time in familiar zone, hab. session 20.30.30.7-0.80.1-0.40.6
Time in novel zone, hab. session 20.10.10.10.30.3-0.2-0.1
Total zone transitions, hab. session 20.20.20.5-0.3-0.70.10.6
Total locomotion distance, hab. session 20.40.50.8-0.9-0.70.40.7
Locomotion velocity, hab. session 20.50.60.9-0.9-0.80.70.6
Novel to familiar place preference ratio0.70.81.41.20.6-0.8-0.8
Novelty place preference0.80.91.11.10.8-1.0-0.8
Time in novel zone, NPP test0.30.40.80.60.5-0.9-0.3
Total zone transitions, NPP test0.81.22.0-0.7-1.41.10.9
Total locomotion distance, NPP test0.60.81.0-0.8-1.01.00.7
Locomotion velocity, NPP test0.50.81.5-0.4-1.21.20.3
Pavlov. Cond. lever latency1.11.44.0-0.11.3-2.0-0.1
Pavlov. Cond. magazine entry latency2.02.63.9-1.2-1.82.01.3
Pavlov. Cond. change in total contacts1.81.93.0-0.8-1.71.71.0
Pavlov. Cond. index score2.43.16.8-0.4-2.22.60.7
Pavlov. Cond. latency score2.53.37.9-0.1-2.22.80.4
Pavlov. Cond. lever contacts1.92.35.3-0.2-1.92.30.4
Pavlov. Cond. magazine entry number1.21.52.01.11.4-1.4-1.0
Pavlov. Cond. intertrial magazine entries0.70.82.01.4-0.20.3-1.0
Pavlov. Cond. lever-magazine prob. diff.2.73.46.8-0.8-2.32.61.0
Pavlov. Cond. response bias2.02.52.9-1.5-1.71.71.4
Bone: apparent density6.611.015.53.92.5-2.7-3.9
Bone surface3.66.39.43.11.7-2.1-2.9
Bone volume4.16.911.63.41.5-1.6-3.3
Bone: connectivity density4.77.48.22.72.5-2.9-2.8
Bone: cortical apparent density0.40.61.3-1.10.1-0.31.0
Bone: cortical area2.13.16.22.5-0.61.0-2.2
Bone: cortical porosity0.30.40.9-1.0-0.10.20.7
Bone: cortical porosity0.10.10.3-0.5-0.10.10.3
Bone: cortical thickness1.22.03.51.1-1.91.6-0.8
Bone: cortical thickness0.60.71.40.1-1.21.0-0.5
Bone: cortical tissue density0.50.61.5-1.20.2-0.31.0
Bone: elastic displacement2.02.33.8-1.91.4-1.51.0
Bone: elastic work1.82.34.0-1.42.0-1.80.5
Bone: endosteal estimation3.06.69.93.22.1-1.5-3.1
Bone: endosteal perimeter3.26.610.12.92.4-1.7-3.2
Bone: final force0.40.61.51.2-0.50.3-0.9
Bone: final moment0.30.51.21.1-0.2-0.1-0.8
Bone: marrow area3.37.210.73.32.2-1.6-3.2
Bone: maximum diameter6.011.019.84.22.3-1.2-4.4
Bone: maximum force1.11.94.02.00.5-0.5-1.8
Bone: maximum moment1.01.73.11.80.7-0.9-1.6
Bone: minimum diameter2.75.010.13.20.9-0.1-3.0
Bone: periosteal estimation3.36.812.63.51.4-0.8-3.5
Bone: periosteal perimeter2.94.89.23.01.0-0.2-3.0
Bone: post-yield work1.41.94.82.2-0.90.4-1.4
Bone: stiffness1.01.73.81.9-0.61.1-1.1
Bone: tissue strength1.01.01.8-1.00.4-1.01.4
Bone: trabecular number4.46.98.22.82.1-2.7-2.9
Bone: trabecular spacing2.53.34.5-1.3-2.12.11.7
Bone: trabecular thickness2.53.04.51.91.2-1.5-2.1
Bone: trabecular tissue density2.02.95.21.91.5-0.6-2.3
Breakpoint value in progressive ratio session0.91.02.91.7-0.60.3-0.8
Distance traveled before self-admin0.40.41.50.1-0.41.20.1
Distance traveled after self-admin2.42.64.51.12.1-1.6-1.6
Delta time in closed arm before/after self-admin2.82.73.9-1.5-2.01.51.5
Delta time in open arm before/after self-admin1.61.52.61.61.4-0.2-1.3
Diff in mean of infusions in LGA sessions0.30.30.70.5-0.30.8-0.4
Extinction: sum of active levers before priming0.40.40.70.5-0.70.8-0.2
Active lever presses in extinction session 61.31.32.81.70.4-0.1-1.4
Delta distance traveled before/after self-admin3.03.23.71.51.9-1.8-1.8
Delta ambulatory time before/after self-admin4.14.45.22.22.1-1.8-2.3
Time in closed arm before self-admin0.20.30.7-0.20.6-0.8-0.0
Time in closed arm after self-admin1.81.83.2-1.0-1.81.41.1
Time in open arm before self-admin0.20.20.4-0.7-0.3-0.10.6
Time in open arm after self-admin1.61.82.21.31.4-1.2-1.5
Sum of active levers in priming session hrs 5-60.60.61.6-0.20.8-1.3-0.2
Time to tail flick, vehicle, before self-admin0.50.51.0-0.70.7-1.00.4
Time to tail flick, vehicle, after self-admin0.80.91.40.8-1.21.2-0.5
Time to tail flick, test, before self-admin1.71.74.01.40.80.2-2.0
Time to tail flick, test, after self-admin0.00.00.1-0.1-0.20.10.2
Delta time to tail flick, vehicle, before/after SA2.52.43.11.8-1.21.7-1.5
Delta time to tail flick, test, before/after SA0.40.40.8-0.1-0.70.30.9
Ambulatory time before self-admin0.60.71.4-0.6-0.51.20.9
Ambulatory time after self-admin2.73.05.01.32.2-1.4-1.8
Total heroin consumption0.50.61.91.40.0-0.3-0.7
Area under the delay curve0.80.92.40.7-1.60.70.2
Delay disc. indifference point, 0s delay1.11.21.71.3-1.11.3-0.5
Delay disc. indifference point, 16s delay0.60.61.61.3-0.5-0.1-0.7
Delay disc. indifference point, 2s delay0.20.20.50.70.0-0.3-0.3
Delay disc. indifference point, 24s delay2.02.04.40.1-2.11.70.9
Delay disc. indifference point, 4s delay1.11.22.41.0-1.51.10.0
Delay disc. indifference point, 8s delay1.21.22.8-0.4-1.70.51.3
Delay discount exponential model param0.91.02.9-0.61.7-0.8-0.3
Delay discount hyperbolic model param0.70.72.1-0.61.4-0.6-0.3
Fecal boli incidents, locomotor time 10.10.10.20.20.50.20.4
Change in fecal boli incidents, locomotor task0.10.10.3-0.2-0.50.10.3
Time >=10cm from walls, locomotor time 12.52.54.82.2-0.51.6-1.5
Bouts of movement, locomotor time 10.10.10.3-0.3-0.5-0.3-0.2
Total resting periods, locomotor time 10.10.10.30.1-0.6-0.2-0.3
Rest time, locomotor task time 10.70.72.1-0.40.8-1.50.0
Distance moved, locomotor task time 11.71.94.70.7-1.52.20.1
Vertical activity count, locomotor time 10.20.20.60.1-0.60.80.1
Time >=10cm from walls, locomotor time 21.31.42.51.3-1.21.6-0.1
Bouts of movement, locomotor time 21.41.52.6-1.2-1.20.51.6
Total resting periods, locomotor time 21.81.93.0-1.4-1.50.61.7
Rest time, locomotor task time 20.70.81.4-1.2-1.10.10.8
Distance moved, locomotor task time 20.91.12.01.4-0.31.4-0.6
Vertical activity count, locomotor time 20.10.10.50.10.10.00.7
Weight adjusted by age0.70.81.30.70.9-1.1-0.9
Seeking ratio, delayed vs. immediate footshock0.10.10.1-0.4-0.00.40.1
Locomotion in novel chamber2.22.75.10.82.3-1.4-1.7
Locomotion in novel chamber post-restriction1.72.04.01.90.10.6-2.0
Progressive ratio0.30.30.70.1-0.70.8-0.2
Food seeking constrained by brief footshock0.30.30.50.5-0.50.7-0.6
Seeking ratio, punishment vs. effort0.00.00.10.0-0.40.00.2
Run reversals in cocaine runway, females0.50.50.9-0.50.9-1.0-0.3
Run reversals in cocaine runway, males0.80.81.4-0.7-1.20.70.9
Latency to leave start box in cocaine runway2.12.34.51.91.1-0.1-2.1
Latency to leave start box in cocaine runway, F0.91.02.11.10.90.1-1.4
Latency to leave start box in cocaine runway, M1.00.92.01.40.3-0.1-1.3
Cd content in liver0.30.40.6-0.8-0.70.10.6
Co content in liver1.11.33.0-0.61.4-1.70.2
Cu content in liver1.21.42.0-1.4-0.1-1.41.4
Fe content in liver3.03.66.2-2.5-1.40.82.4
K content in liver0.30.30.7-0.7-0.10.30.8
Mg content in liver0.60.61.3-0.9-0.60.41.1
Mn content in liver1.61.83.0-1.6-1.20.71.7
Na content in liver1.11.22.1-0.8-1.11.50.8
Rb content in liver0.20.20.30.4-0.50.5-0.4
Se content in liver13.816.729.2-5.4-2.90.95.3
Sr content in liver2.22.03.60.61.8-1.9-0.7
Zn content in liver6.57.212.1-3.4-1.61.53.5