Hub : Genes

Prph

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 pVTA gene expression Prph 0.12 0.1 1.3e-04 0.08 0.08 0.09 0.08 2.9e-04 1.8e-04 1.2e-04 1.7e-04
2 LHb gene expression Prph 0.39 0.18 1.5e-08 0.32 0.27 0.25 0.31 1.7e-08 4.6e-07 1.3e-06 3.6e-08
3 RMTg isoform ratio NM_012633.3 0.13 0.13 4.7e-03 0.05 0.07 0.04 0.05 1.5e-02 4.9e-03 2.6e-02 1.7e-02
4 Adipose gene expression Prph 0.09 0.08 3.8e-08 0.06 0.06 0.06 0.06 1.6e-07 3.2e-07 3.6e-07 2.9e-07

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 4
Bone: apparent density9.916.617.93.8-4.24.24.1
Area under the delay curve1.21.21.51.2-1.11.01.1
BMI with tail4.715.217.53.9-3.73.84.2
BMI without tail0.00.10.20.40.0-0.10.5
Body weight6.326.430.24.9-5.15.15.5
Weight adjusted by age1.82.02.71.0-1.41.51.6
Bone surface11.720.622.14.4-4.64.74.5
Bone volume9.115.516.44.0-4.04.03.7
Breakpoint value in progressive ratio session0.20.20.40.5-0.30.50.6
Number of licking bursts0.70.91.7-1.31.1-0.8-0.2
Context. condit. distance diff. score0.20.20.30.3-0.50.50.6
Locomotion velocity, session 11.92.13.9-2.01.2-1.1-1.4
Locomotion distance, session 13.14.05.1-2.01.8-1.9-2.3
Locomotion velocity, session 20.30.40.7-0.50.5-0.5-0.9
Locomotion distance, session 22.73.84.6-2.11.8-1.8-2.1
Locomotion velocity, session 34.55.25.8-2.42.3-2.2-2.2
Locomotion distance, session 35.05.47.0-1.92.4-2.4-2.6
Stereotopy head waving bouts, day 30.70.91.40.5-0.91.21.1
Stereotopy head waving duration, day 30.30.40.70.1-0.60.80.7
Locomotion velocity, session 70.80.92.2-1.50.8-0.6-0.5
Locomotion distance, session 72.43.14.7-2.21.7-1.6-1.5
Stereotopy head waving bouts, day 70.91.01.50.9-0.81.01.2
Stereotopy head waving duration, day 71.31.51.91.2-1.11.21.4
Locomotion velocity, session 80.10.10.3-0.50.10.00.0
Locomotion distance, session 81.31.92.3-1.51.2-1.3-1.4
Degree of sensitization distance0.40.40.90.1-0.60.70.9
Degree of sensitization stereotypy0.30.30.60.8-0.40.40.6
Conditioned locomotion0.00.00.0-0.0-0.00.20.1
Cocaine response after cond. corrected0.00.00.00.0-0.0-0.0-0.1
Cocaine response after cond. not corrected0.50.50.8-0.50.7-0.8-0.9
Cocaine response before conditioning3.23.94.2-1.82.0-2.0-2.0
Saline control response0.10.10.2-0.0-0.30.40.4
Bone: connectivity density6.810.712.22.8-3.33.53.4
Bone: cortical apparent density0.20.30.4-0.40.6-0.6-0.6
Bone: cortical area8.913.415.23.2-3.63.83.9
Bone: cortical porosity0.70.82.0-0.10.6-0.8-1.4
Bone: cortical porosity1.11.22.8-0.40.9-1.1-1.7
Bone: cortical thickness3.04.96.71.8-2.12.32.6
Bone: cortical thickness0.10.20.4-0.4-0.00.30.7
Bone: cortical tissue density0.30.40.5-0.60.7-0.7-0.7
Condit. Reinf. active minus inactive responses0.10.10.1-0.30.2-0.2-0.4
Condit. Reinf. active-inactive response ratio0.20.20.30.4-0.50.50.3
Condit. Reinf. active responses0.70.81.1-1.00.9-0.8-0.9
Condit. Reinf. inactive responses2.83.43.6-1.91.9-1.8-1.7
Incentive salience index mean0.00.00.0-0.0-0.10.10.1
Condit. Reinf. lever presses0.20.20.40.7-0.50.40.4
Condit. Reinf. active minus inactive responses0.10.10.60.80.0-0.1-0.0
Condit. Reinf. active-inactive response ratio0.30.30.30.60.4-0.6-0.5
Condit. Reinf. active responses0.10.10.20.20.4-0.5-0.4
Condit. Reinf. inactive responses0.60.70.9-1.00.8-0.9-0.8
Condit. Reinf. lever presses0.00.00.00.10.00.00.1
Condit. Reinf. lever reinforcers received0.40.50.7-0.30.8-0.8-0.8
Conditioned reinforcement - actives1.31.31.7-1.01.2-1.3-1.1
Conditioned reinforcement - inactives2.22.53.0-1.51.7-1.6-1.4
Conditioned locomotion0.40.51.2-0.41.1-0.7-0.6
Patch foraging indifference point 0 sec3.55.610.0-3.22.3-2.0-1.8
Patch foraging indifference point AUC0.30.30.7-0.60.8-0.5-0.2
Delay disc. indifference point, 0s delay1.51.62.21.5-1.11.21.2
Delay disc. indifference point, 16s delay1.01.01.61.3-0.71.01.1
Delay disc. indifference point, 2s delay1.92.13.11.5-1.81.31.1
Delay disc. indifference point, 24s delay1.21.21.70.9-0.91.21.3
Delay disc. indifference point, 4s delay0.60.61.21.1-0.80.50.7
Delay disc. indifference point, 8s delay2.52.63.11.5-1.61.61.8
Indifference point function ln k4.56.37.92.8-2.72.42.1
Indifference point function log k4.56.37.92.8-2.72.42.1
Patch foraging total patch changes 0 sec3.35.39.4-3.12.3-1.9-1.7
Patch foraging total patch changes 12 sec3.44.58.4-2.92.2-1.7-1.3
Patch foraging total patch changes 18 sec5.47.010.2-3.22.8-2.4-2.0
Patch foraging total patch changes 24 sec3.13.76.1-2.52.0-1.7-1.4
Patch foraging total patch changes 6 sec4.06.011.0-3.32.4-2.0-1.7
Patch foraging time to switch 0 sec2.43.73.9-2.01.9-1.9-1.9
Patch foraging water rate 0 sec3.04.85.22.3-2.02.22.3
Patch foraging water rate 12 sec3.45.35.92.2-2.42.42.2
Patch foraging water rate 18 sec0.30.40.50.7-0.70.60.6
Patch foraging water rate 24 sec3.85.27.02.6-2.32.22.0
Patch foraging water rate 6 sec4.36.38.93.0-2.52.42.1
Seeking ratio, delayed vs. immediate footshock0.30.30.60.8-0.30.60.6
Distance traveled before self-admin1.71.82.9-1.71.3-1.1-1.0
Distance traveled after self-admin0.50.51.0-1.00.8-0.5-0.4
Extensor digitorum longus weight4.417.419.44.4-4.03.94.3
Bone: elastic displacement5.15.87.6-2.82.2-2.2-2.4
Bone: elastic work0.00.10.10.0-0.30.1-0.3
Bone: endosteal estimation7.817.118.14.2-4.34.23.9
Bone: endosteal perimeter6.914.214.83.8-3.73.83.7
Epididymis fat weight0.10.20.40.2-0.50.60.5
Delta time in closed arm before/after self-admin0.20.20.30.5-0.30.50.4
Delta time in open arm before/after self-admin4.44.35.0-2.21.9-2.1-2.1
Diff in mean of infusions in LGA sessions2.02.22.81.5-1.71.41.3
Delay discount exponential model param1.11.21.4-1.21.1-0.9-1.1
Extinction: sum of active levers before priming0.50.50.80.7-0.90.70.5
Active lever presses in extinction session 60.40.40.40.5-0.60.70.6
Bone: final force10.817.519.04.4-4.34.23.9
Bone: final moment11.618.821.44.6-4.54.33.9
Food consumed during 24 hour testing period1.72.12.31.5-1.41.51.4
Glucose0.10.20.5-0.70.10.20.5
Heart weight0.00.00.10.1-0.30.30.0
Delay discount hyperbolic model param1.21.21.5-1.21.2-0.9-1.1
Intermittent access intake day 1-15 change1.11.11.7-0.61.1-1.3-1.1
Intermittent access intake escalation0.70.71.2-0.20.9-1.1-0.9
Intermittent access intake escalation 21.21.21.8-0.61.1-1.4-1.1
Intermitt. access day 1 inactive lever presses2.02.13.6-0.81.3-1.6-1.9
Intermitt. access day 15 inactive lever presses1.01.11.6-0.31.3-1.2-1.2
Intermitt. access escalation Index0.50.40.9-1.00.4-0.5-0.6
Intermittent access day 1 total infusions1.31.41.7-1.21.2-1.2-1.3
Intermittent access day 15 total infusions2.52.83.4-1.41.7-1.8-1.7
Intermittent access terminal intake (last 3 days)2.83.13.6-1.41.8-1.9-1.9
Intermittent access total infusions2.52.83.3-1.41.7-1.8-1.8
Intermittent access day 1 locomotion1.11.21.5-1.01.2-1.0-1.1
Intermittent access day 15 total locomotion1.71.92.6-1.21.6-1.4-1.2
Intermittent access total locomotion3.94.45.3-2.12.3-2.0-1.9
Intermittent access standard deviation0.40.40.70.00.8-0.8-0.7
Left kidney weight0.51.52.31.5-1.31.00.9
Right kidney weight2.87.89.22.6-2.82.83.0
Cocaine induced anxiety1.31.52.51.2-1.61.11.0
Post-drug Anxiety5.56.17.72.4-2.82.42.2
Baseline Anxiety0.80.81.00.8-0.91.00.9
Tail length0.10.20.3-0.30.4-0.6-0.2
Length with tail2.07.37.62.6-2.82.72.7
Length without tail7.115.617.03.7-4.04.13.9
Times rat made contact with spout0.10.10.2-0.10.4-0.3-0.2
Lifetime Intake2.52.93.3-1.61.8-1.8-1.6
Liver weight, left1.93.03.61.6-1.71.71.9
Liver weight, right1.52.52.71.6-1.61.61.5
Locomotor activity1.21.82.0-1.41.3-1.4-1.3
Locomotor testing distance3.15.25.9-2.42.2-2.3-2.2
Locomotor testing rearing2.33.54.0-2.01.8-2.0-1.7
Locomotion in novel chamber1.01.32.71.6-0.90.81.0
Locomotion in novel chamber post-restriction0.10.10.30.6-0.00.10.1
Fecal boli incidents, locomotor time 12.02.22.4-1.41.4-1.6-1.5
Change in fecal boli incidents, locomotor task1.21.11.50.8-1.21.20.9
Time >=10cm from walls, locomotor time 10.10.10.1-0.2-0.20.40.3
Bouts of movement, locomotor time 10.00.00.00.1-0.10.1-0.1
Total resting periods, locomotor time 10.20.30.4-0.60.5-0.4-0.6
Rest time, locomotor task time 10.50.50.7-0.80.8-0.6-0.6
Distance moved, locomotor task time 10.00.00.00.0-0.20.20.1
Vertical activity count, locomotor time 11.41.41.91.1-1.41.21.1
Time >=10cm from walls, locomotor time 20.50.50.8-0.60.6-0.8-0.9
Bouts of movement, locomotor time 23.03.23.51.9-1.81.71.8
Total resting periods, locomotor time 23.33.63.92.0-1.81.81.9
Rest time, locomotor task time 20.00.00.1-0.30.00.10.2
Distance moved, locomotor task time 20.10.10.3-0.10.2-0.2-0.6
Vertical activity count, locomotor time 20.00.00.10.4-0.00.10.2
Light reinforcement 12.44.45.5-1.72.2-2.3-2.1
Light reinforcement 20.50.71.3-0.40.7-1.1-0.9
Bone: marrow area7.616.417.64.0-4.24.13.8
Bone: maximum diameter3.36.08.81.9-2.32.63.0
Bone: maximum force15.126.028.55.2-5.35.14.7
Bone: maximum moment15.927.530.45.5-5.55.34.6
Mean time between licks in bursts0.20.20.8-0.10.1-0.2-0.9
Mean num. licks in bursts0.20.30.70.8-0.50.2-0.4
Cd content in liver0.70.81.0-0.81.0-0.9-0.8
Co content in liver0.60.71.1-0.81.0-0.9-0.3
Cu content in liver0.40.50.70.5-0.80.80.5
Fe content in liver0.40.51.1-1.00.7-0.7-0.2
K content in liver0.20.20.5-0.1-0.20.40.7
Mg content in liver0.10.10.2-0.40.4-0.10.3
Mn content in liver0.10.10.20.4-0.40.30.1
Na content in liver0.10.10.2-0.40.3-0.3-0.0
Rb content in liver0.81.02.2-1.51.1-0.8-0.3
Se content in liver1.11.32.2-1.51.3-0.9-0.8
Sr content in liver0.10.10.20.2-0.20.50.5
Zn content in liver2.32.63.3-1.81.8-1.5-1.3
Bone: minimum diameter9.116.917.34.1-4.24.24.0
Time in familiar zone, hab. session 10.30.30.7-0.00.4-0.5-0.8
Time in novel zone, hab. session 10.30.30.60.2-0.40.50.8
Total zone transitions, hab. session 10.30.40.6-0.50.6-0.7-0.8
Total locomotion distance, hab. session 10.00.10.2-0.50.00.1-0.2
Locomotion velocity, hab. session 10.00.00.1-0.3-0.10.2-0.0
Time in familiar zone, hab. session 20.70.71.51.2-0.80.60.5
Time in novel zone, hab. session 20.70.71.6-1.30.7-0.5-0.5
Total zone transitions, hab. session 20.40.50.7-0.70.6-0.6-0.8
Total locomotion distance, hab. session 20.20.30.4-0.60.4-0.3-0.7
Locomotion velocity, hab. session 20.10.10.3-0.40.2-0.1-0.5
Novel to familiar place preference ratio1.71.82.21.2-1.31.41.5
Novelty place preference1.21.21.70.9-1.11.21.3
Time in novel zone, NPP test1.01.01.40.7-1.01.01.2
Total zone transitions, NPP test1.92.64.0-2.01.5-1.4-1.6
Total locomotion distance, NPP test2.43.24.4-2.11.7-1.5-1.9
Locomotion velocity, NPP test1.41.92.8-1.71.3-1.1-1.4
Intraocular pressure7.210.110.9-3.13.2-3.3-3.1
Delta distance traveled before/after self-admin0.00.00.10.3-0.00.30.2
Delta ambulatory time before/after self-admin0.00.00.10.10.30.00.1
Parametrial fat weight2.04.05.1-1.72.2-2.1-1.9
Pavlov. Cond. lever latency0.10.10.2-0.2-0.40.40.2
Pavlov. Cond. magazine entry latency0.20.20.70.8-0.30.1-0.1
Pavlov. Cond. change in total contacts0.20.20.80.9-0.20.10.0
Pavlov. Cond. index score0.10.20.60.8-0.10.00.2
Pavlov. Cond. latency score0.10.10.40.60.1-0.00.2
Pavlov. Cond. lever contacts0.30.40.70.00.7-0.8-0.6
Pavlov. Cond. magazine entry number0.00.00.1-0.4-0.00.20.1
Pavlov. Cond. intertrial magazine entries1.31.54.0-2.00.9-0.6-0.9
Pavlov. Cond. lever-magazine prob. diff.0.30.41.01.0-0.40.40.5
Pavlov. Cond. response bias0.10.10.10.30.2-0.3-0.3
Pavlov. Cond. lever latency0.20.20.60.8-0.40.2-0.2
Pavlov. Cond. magazine entry latency0.70.81.30.0-0.81.11.0
Pavlov. Cond. change in total contacts1.21.62.61.0-1.11.31.6
Pavlov. Cond. index score0.30.40.8-0.3-0.40.80.9
Pavlov. Cond. latency score0.30.40.8-0.3-0.40.80.9
Pavlov. Cond. lever contacts0.30.40.8-0.90.7-0.4-0.2
Pavlov. Cond. magazine entry number1.41.82.7-0.41.2-1.6-1.7
Pavlov. Cond. intertrial magazine entries4.55.97.0-1.92.5-2.6-2.6
Pavlov. Cond. lever-magazine prob. diff.0.60.71.3-0.0-0.71.01.1
Pavlov. Cond. response bias0.10.10.3-0.60.3-0.10.1
Time in closed arm before self-admin1.31.52.11.1-1.01.31.5
Time in closed arm after self-admin0.60.61.01.0-0.40.90.9
Time in open arm before self-admin0.60.71.10.6-1.00.90.7
Time in open arm after self-admin0.20.20.3-0.60.1-0.5-0.6
Bone: periosteal estimation11.623.925.14.6-4.95.05.0
Bone: periosteal perimeter10.116.817.44.0-4.14.24.1
Bone: post-yield work9.012.313.63.5-3.73.53.3
Progressive ratio test 1 active lever presses5.96.18.8-3.02.4-2.3-2.2
Progressive ratio test 1 breakpoint5.25.47.6-2.82.2-2.2-2.0
Progressive ratio test 1 inactive lever presses3.23.54.2-1.71.8-2.0-2.0
Progressive ratio test 2 active lever presses2.52.73.0-1.71.6-1.7-1.4
Progressive ratio test 2 breakpoint3.03.43.9-1.91.8-2.0-1.7
Progressive ratio test 2 inactive lever presses2.42.83.3-1.41.8-1.8-1.7
Incentive Sensitization - Responses0.10.10.10.2-0.30.00.4
Incentive Sensitization - Breakpoint0.00.00.10.1-0.1-0.10.2
Sum of active levers in priming session hrs 5-60.20.20.3-0.60.5-0.1-0.3
Progressive ratio0.20.30.9-0.90.3-0.2-0.2
Food seeking constrained by brief footshock0.60.81.7-1.30.4-0.7-0.8
Seeking ratio, punishment vs. effort0.00.00.10.3-0.2-0.1-0.2
Retroperitoneal fat weight0.72.43.3-1.81.7-1.3-1.3
Reaction time number correct1.42.02.71.4-1.61.61.0
Reaction time mean minus median7.910.412.4-3.03.5-3.4-3.0
Reaction time mean minus median AUC5.67.38.5-2.52.9-2.8-2.6
Reaction time num false alarms1.72.32.7-1.41.6-1.5-1.6
Reaction time num false alarms AUC2.33.13.5-1.51.9-1.8-1.9
Reaction time trials correct on left1.42.02.71.4-1.61.61.0
Reaction time trials on left1.11.62.11.2-1.51.40.8
Reaction time mean0.70.91.2-1.11.1-1.0-0.6
Reaction time mean AUC0.40.50.6-0.80.8-0.7-0.4
Median of all reaction times0.00.00.2-0.10.00.10.4
Reaction time omissions9.813.314.3-3.43.7-3.7-3.8
Reaction time false alarm rate2.53.54.3-1.72.1-2.0-1.8
Reaction time premature initiation rate5.67.59.4-2.42.9-3.1-2.5
Reaction time premature initiations2.43.44.4-1.51.9-2.1-1.9
Std. dev. reaction times6.08.49.5-2.83.1-3.0-2.6
Reaction time trials completed1.11.62.11.2-1.51.40.8
Reaction time trials AUC1.82.63.31.6-1.81.71.1
Run reversals in cocaine runway, females0.10.10.40.6-0.30.00.1
Run reversals in cocaine runway, males1.51.51.9-1.01.4-1.2-1.2
Latency to leave start box in cocaine runway0.00.00.00.10.1-0.10.1
Latency to leave start box in cocaine runway, F1.61.82.0-1.21.3-1.4-1.4
Latency to leave start box in cocaine runway, M2.32.22.71.6-1.31.41.6
Std. dev. time between licks in bursts1.21.51.7-1.31.3-1.2-1.0
Total sessions with >9 infusions1.11.21.5-1.21.2-1.2-0.6
Short access day 1 total inactive lever presses1.51.72.2-1.21.5-1.4-1.1
Short access day 10 total inactive lever presses0.10.20.30.10.4-0.4-0.5
Short access day 1 total infusions0.10.10.4-0.60.2-0.3-0.1
Short access day 10 total infusions1.51.62.6-1.61.4-1.2-0.9
Short access total infusions0.80.91.4-1.20.9-0.9-0.5
Short access day 1 locomotion0.10.20.3-0.40.5-0.4-0.1
Short access day 10 total locomotion0.20.30.5-0.40.7-0.4-0.4
Short access total locomotion0.50.50.9-0.60.9-0.7-0.5
One hour access (0.3 mA shock)0.20.20.40.20.5-0.6-0.5
Compulsive drug intake1.41.52.21.5-1.21.11.0
One hour access (shock baseline)0.20.20.3-0.10.5-0.6-0.4
Social response proportion0.10.10.2-0.30.4-0.4-0.2
Social responses7.69.811.1-3.13.3-3.3-2.8
Social time0.10.10.30.6-0.30.0-0.1
Soleus weight0.72.12.91.7-1.41.41.3
Bone: stiffness18.429.032.05.7-5.45.35.1
Tibialis anterior weight1.55.18.83.0-2.01.62.3
Time to tail flick, vehicle, before self-admin0.70.70.9-0.80.7-0.9-1.0
Time to tail flick, vehicle, after self-admin0.40.41.21.1-0.50.50.4
Time to tail flick, test, before self-admin0.20.20.5-0.20.1-0.5-0.7
Time to tail flick, test, after self-admin0.50.50.90.9-0.80.50.4
Delta time to tail flick, vehicle, before/after SA0.50.51.01.0-0.40.60.6
Delta time to tail flick, test, before/after SA0.30.20.60.7-0.20.40.5
Tibia length6.819.324.53.7-4.24.65.0
Ambulatory time before self-admin4.34.55.5-2.32.0-2.1-2.0
Ambulatory time after self-admin2.42.73.6-1.81.9-1.5-1.2
Bone: tissue strength1.51.52.11.5-1.41.20.7
Total heroin consumption1.82.12.31.5-1.21.51.5
Bone: trabecular number6.29.610.72.9-3.23.33.1
Bone: trabecular spacing2.43.23.5-1.61.9-1.8-1.8
Bone: trabecular thickness0.10.10.40.60.1-0.3-0.3
Bone: trabecular tissue density0.10.20.50.70.1-0.3-0.4
Water consumed over 24 hours0.00.00.0-0.2-0.00.1-0.1
Number of responses in last shaping day0.10.10.20.5-0.40.00.3