Hub : Genes

Scgb2a1

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 NAcc gene expression Scgb2a1 0.04 0.03 8.2e-07 0.05 0.04 0.03 0.05 5.8e-08 2.8e-07 1.1e-05 6.7e-08
2 Brain gene expression Scgb2a1 0.05 0.03 1.2e-05 0.05 0.05 0.04 0.05 2.1e-05 3.7e-05 1.3e-04 4.2e-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 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 density0.30.50.5-0.7-0.7
Area under the delay curve0.00.00.0-0.1-0.2
BMI with tail2.27.58.0-2.7-2.8
BMI without tail0.41.21.5-1.0-1.2
Body weight3.213.914.2-3.7-3.8
Weight adjusted by age0.61.01.0-1.0-1.0
Bone surface2.34.14.3-2.1-2.0
Bone volume0.91.61.6-1.3-1.2
Breakpoint value in progressive ratio session2.42.93.0-1.7-1.7
Number of licking bursts0.00.00.00.10.1
Context. condit. distance diff. score0.20.20.20.50.5
Locomotion velocity, session 10.00.00.0-0.1-0.1
Locomotion distance, session 10.70.91.0-1.0-0.9
Locomotion velocity, session 23.54.14.1-2.0-2.0
Locomotion distance, session 20.30.40.4-0.6-0.6
Locomotion velocity, session 30.30.30.3-0.6-0.5
Locomotion distance, session 30.00.00.0-0.2-0.2
Stereotopy head waving bouts, day 30.00.00.00.20.2
Stereotopy head waving duration, day 30.00.00.00.10.1
Locomotion velocity, session 70.00.00.0-0.1-0.2
Locomotion distance, session 70.00.00.00.20.2
Stereotopy head waving bouts, day 70.20.30.3-0.5-0.5
Stereotopy head waving duration, day 71.61.91.9-1.4-1.4
Locomotion velocity, session 80.00.00.0-0.0-0.0
Locomotion distance, session 80.20.20.20.50.5
Degree of sensitization distance0.00.00.00.10.1
Degree of sensitization stereotypy1.21.31.4-1.1-1.2
Conditioned locomotion0.60.60.6-0.8-0.8
Cocaine response after cond. corrected0.40.50.50.70.7
Cocaine response after cond. not corrected0.20.30.30.50.5
Cocaine response before conditioning0.40.50.5-0.7-0.7
Saline control response3.24.34.3-2.1-2.1
Bone: connectivity density1.93.03.0-1.7-1.7
Bone: cortical apparent density0.40.50.5-0.7-0.7
Bone: cortical area0.91.41.5-1.2-1.2
Bone: cortical porosity0.00.00.00.00.0
Bone: cortical porosity0.00.00.0-0.2-0.2
Bone: cortical thickness3.45.75.8-2.4-2.4
Bone: cortical thickness0.30.40.4-0.6-0.6
Bone: cortical tissue density0.60.80.8-0.9-0.9
Condit. Reinf. active minus inactive responses1.21.41.4-1.2-1.2
Condit. Reinf. active-inactive response ratio0.50.50.5-0.7-0.7
Condit. Reinf. active responses1.11.41.4-1.2-1.2
Condit. Reinf. inactive responses0.00.00.0-0.00.0
Incentive salience index mean1.41.71.8-1.3-1.3
Condit. Reinf. lever presses0.91.31.4-1.2-1.1
Condit. Reinf. active minus inactive responses0.00.10.10.30.3
Condit. Reinf. active-inactive response ratio0.30.30.30.60.6
Condit. Reinf. active responses0.10.10.1-0.3-0.3
Condit. Reinf. inactive responses0.10.20.2-0.4-0.4
Condit. Reinf. lever presses0.91.21.2-1.1-1.1
Condit. Reinf. lever reinforcers received0.20.30.3-0.6-0.6
Conditioned reinforcement - actives0.10.20.20.40.4
Conditioned reinforcement - inactives0.00.00.00.10.1
Conditioned locomotion1.92.52.51.61.6
Patch foraging indifference point 0 sec0.50.90.9-0.9-1.0
Patch foraging indifference point AUC1.52.22.2-1.5-1.5
Delay disc. indifference point, 0s delay0.40.40.50.70.6
Delay disc. indifference point, 16s delay0.10.10.1-0.3-0.3
Delay disc. indifference point, 2s delay0.20.20.30.50.4
Delay disc. indifference point, 24s delay0.10.10.1-0.3-0.3
Delay disc. indifference point, 4s delay0.20.20.3-0.4-0.5
Delay disc. indifference point, 8s delay0.40.50.50.70.7
Indifference point function ln k3.15.45.42.32.3
Indifference point function log k3.15.45.42.32.3
Patch foraging total patch changes 0 sec0.50.90.9-0.9-1.0
Patch foraging total patch changes 12 sec7.39.59.5-3.1-3.1
Patch foraging total patch changes 18 sec0.71.11.1-1.0-1.0
Patch foraging total patch changes 24 sec4.98.48.8-3.0-2.8
Patch foraging total patch changes 6 sec1.31.92.0-1.4-1.4
Patch foraging time to switch 0 sec0.30.60.7-0.8-0.8
Patch foraging water rate 0 sec0.40.90.90.91.0
Patch foraging water rate 12 sec1.94.04.12.02.0
Patch foraging water rate 18 sec0.71.11.11.01.1
Patch foraging water rate 24 sec1.31.81.91.31.4
Patch foraging water rate 6 sec1.92.82.91.71.7
Seeking ratio, delayed vs. immediate footshock0.00.00.0-0.2-0.1
Distance traveled before self-admin2.43.23.3-1.8-1.7
Distance traveled after self-admin0.30.40.4-0.6-0.6
Extensor digitorum longus weight6.425.225.3-5.0-5.0
Bone: elastic displacement0.40.40.50.70.6
Bone: elastic work0.81.11.1-1.0-1.1
Bone: endosteal estimation1.02.32.41.51.5
Bone: endosteal perimeter1.63.53.61.81.9
Epididymis fat weight0.72.32.51.61.5
Delta time in closed arm before/after self-admin0.90.90.9-0.9-0.9
Delta time in open arm before/after self-admin2.92.93.0-1.7-1.7
Diff in mean of infusions in LGA sessions2.83.43.6-1.9-1.8
Delay discount exponential model param0.00.00.00.10.2
Extinction: sum of active levers before priming3.94.34.6-2.1-2.0
Active lever presses in extinction session 64.04.04.0-2.0-2.0
Bone: final force1.82.93.0-1.7-1.7
Bone: final moment1.82.93.0-1.7-1.7
Food consumed during 24 hour testing period0.20.20.20.50.5
Glucose3.14.84.92.22.2
Heart weight0.40.70.70.80.8
Delay discount hyperbolic model param0.00.00.00.00.1
Intermittent access intake day 1-15 change1.01.92.01.41.4
Intermittent access intake escalation1.22.42.51.51.6
Intermittent access intake escalation 20.40.40.50.70.7
Intermitt. access day 1 inactive lever presses0.31.01.11.01.0
Intermitt. access day 15 inactive lever presses0.40.80.8-0.9-0.9
Intermitt. access escalation Index0.81.11.11.01.0
Intermittent access day 1 total infusions0.20.40.40.50.7
Intermittent access day 15 total infusions2.94.34.72.02.2
Intermittent access terminal intake (last 3 days)0.71.01.10.91.1
Intermittent access total infusions0.91.11.21.01.1
Intermittent access day 1 locomotion0.00.00.00.10.1
Intermittent access day 15 total locomotion0.00.00.10.20.3
Intermittent access total locomotion0.00.10.10.20.3
Intermittent access standard deviation0.61.21.31.01.1
Left kidney weight0.10.50.50.70.7
Right kidney weight0.10.30.40.60.5
Cocaine induced anxiety0.10.10.2-0.2-0.4
Post-drug Anxiety0.40.50.6-0.5-0.8
Baseline Anxiety0.20.20.2-0.5-0.5
Tail length0.20.90.9-0.9-0.9
Length with tail1.25.35.4-2.3-2.3
Length without tail2.78.89.1-3.0-2.9
Times rat made contact with spout0.00.00.0-0.1-0.1
Lifetime Intake0.70.91.10.91.0
Liver weight, left1.42.32.31.51.5
Liver weight, right1.73.03.01.71.7
Locomotor activity1.01.61.81.31.2
Locomotor testing distance0.91.61.71.31.2
Locomotor testing rearing0.91.92.01.41.3
Locomotion in novel chamber1.82.32.41.51.5
Locomotion in novel chamber post-restriction1.82.93.01.71.7
Fecal boli incidents, locomotor time 10.10.20.20.40.4
Change in fecal boli incidents, locomotor task1.31.31.31.21.1
Time >=10cm from walls, locomotor time 11.71.81.91.31.4
Bouts of movement, locomotor time 10.30.30.4-0.5-0.6
Total resting periods, locomotor time 10.30.30.4-0.5-0.6
Rest time, locomotor task time 11.82.32.41.51.5
Distance moved, locomotor task time 10.30.40.4-0.6-0.6
Vertical activity count, locomotor time 10.20.50.50.70.7
Time >=10cm from walls, locomotor time 20.00.00.00.10.1
Bouts of movement, locomotor time 20.91.51.5-1.2-1.2
Total resting periods, locomotor time 20.40.70.7-0.8-0.8
Rest time, locomotor task time 23.44.34.42.12.1
Distance moved, locomotor task time 20.60.70.8-0.8-0.9
Vertical activity count, locomotor time 20.00.00.00.00.0
Light reinforcement 10.00.10.10.30.2
Light reinforcement 20.10.10.20.40.3
Bone: marrow area1.32.82.91.61.7
Bone: maximum diameter0.10.20.2-0.5-0.4
Bone: maximum force2.54.44.5-2.1-2.1
Bone: maximum moment2.54.44.5-2.1-2.1
Mean time between licks in bursts0.10.10.1-0.4-0.4
Mean num. licks in bursts0.00.00.00.10.1
Cd content in liver0.60.70.70.80.8
Co content in liver0.70.90.90.90.9
Cu content in liver0.00.00.00.10.1
Fe content in liver0.00.00.00.10.1
K content in liver0.30.30.3-0.6-0.6
Mg content in liver0.00.00.0-0.0-0.0
Mn content in liver3.33.73.7-1.9-1.9
Na content in liver0.50.50.5-0.7-0.7
Rb content in liver3.13.63.61.91.9
Se content in liver0.10.10.1-0.3-0.3
Sr content in liver4.84.24.2-2.0-2.0
Zn content in liver3.33.63.6-1.9-1.9
Bone: minimum diameter0.61.11.21.01.1
Time in familiar zone, hab. session 10.00.00.0-0.1-0.2
Time in novel zone, hab. session 11.61.61.61.21.3
Total zone transitions, hab. session 10.20.30.4-0.6-0.5
Total locomotion distance, hab. session 10.00.00.00.10.1
Locomotion velocity, hab. session 10.20.30.3-0.5-0.5
Time in familiar zone, hab. session 20.60.60.70.80.7
Time in novel zone, hab. session 20.70.70.8-0.9-0.8
Total zone transitions, hab. session 21.41.81.9-1.4-1.3
Total locomotion distance, hab. session 20.20.20.3-0.5-0.4
Locomotion velocity, hab. session 20.10.10.1-0.4-0.3
Novel to familiar place preference ratio2.02.22.3-1.5-1.5
Novelty place preference1.11.21.2-1.1-1.1
Time in novel zone, NPP test1.21.31.4-1.2-1.1
Total zone transitions, NPP test1.52.12.2-1.5-1.4
Total locomotion distance, NPP test0.20.20.3-0.5-0.4
Locomotion velocity, NPP test0.10.20.2-0.4-0.3
Intraocular pressure0.10.10.20.40.3
Delta distance traveled before/after self-admin0.80.80.90.90.9
Delta ambulatory time before/after self-admin1.11.31.41.21.1
Parametrial fat weight1.63.73.81.91.9
Pavlov. Cond. lever latency1.01.21.31.11.1
Pavlov. Cond. magazine entry latency1.11.41.4-1.2-1.1
Pavlov. Cond. change in total contacts0.50.50.6-0.7-0.7
Pavlov. Cond. index score0.80.91.0-1.0-0.9
Pavlov. Cond. latency score0.60.80.8-0.9-0.9
Pavlov. Cond. lever contacts0.40.50.6-0.7-0.7
Pavlov. Cond. magazine entry number1.01.31.31.11.1
Pavlov. Cond. intertrial magazine entries0.10.10.1-0.4-0.4
Pavlov. Cond. lever-magazine prob. diff.0.81.01.1-1.0-1.0
Pavlov. Cond. response bias1.11.31.4-1.2-1.1
Pavlov. Cond. lever latency0.50.60.60.80.8
Pavlov. Cond. magazine entry latency6.47.77.7-2.8-2.8
Pavlov. Cond. change in total contacts1.42.22.2-1.5-1.5
Pavlov. Cond. index score3.14.24.2-2.0-2.0
Pavlov. Cond. latency score2.93.83.8-2.0-2.0
Pavlov. Cond. lever contacts0.40.50.5-0.7-0.7
Pavlov. Cond. magazine entry number9.311.511.53.43.4
Pavlov. Cond. intertrial magazine entries1.52.32.31.51.5
Pavlov. Cond. lever-magazine prob. diff.3.64.84.8-2.2-2.2
Pavlov. Cond. response bias2.12.92.9-1.7-1.7
Time in closed arm before self-admin0.10.10.10.30.3
Time in closed arm after self-admin1.41.41.61.31.1
Time in open arm before self-admin1.11.21.31.11.1
Time in open arm after self-admin0.70.80.9-1.0-0.9
Bone: periosteal estimation0.00.00.00.10.2
Bone: periosteal perimeter0.00.00.00.00.1
Bone: post-yield work0.00.10.10.20.2
Progressive ratio test 1 active lever presses0.20.30.30.40.6
Progressive ratio test 1 breakpoint0.20.20.30.40.6
Progressive ratio test 1 inactive lever presses0.60.90.9-1.0-0.9
Progressive ratio test 2 active lever presses0.60.70.80.80.9
Progressive ratio test 2 breakpoint0.50.60.70.70.8
Progressive ratio test 2 inactive lever presses0.20.40.40.50.7
Incentive Sensitization - Responses0.50.70.7-0.9-0.8
Incentive Sensitization - Breakpoint0.40.50.5-0.7-0.7
Sum of active levers in priming session hrs 5-61.41.31.3-1.2-1.1
Progressive ratio0.00.00.00.10.1
Food seeking constrained by brief footshock0.10.10.10.30.3
Seeking ratio, punishment vs. effort0.00.00.00.10.1
Retroperitoneal fat weight4.117.417.64.24.1
Reaction time number correct0.20.30.3-0.6-0.5
Reaction time mean minus median0.20.60.6-0.7-0.8
Reaction time mean minus median AUC0.00.10.1-0.3-0.4
Reaction time num false alarms0.10.20.20.40.4
Reaction time num false alarms AUC0.00.00.0-0.1-0.1
Reaction time trials correct on left0.20.30.3-0.6-0.5
Reaction time trials on left0.20.40.4-0.6-0.6
Reaction time mean0.00.00.00.0-0.0
Reaction time mean AUC0.00.00.00.20.2
Median of all reaction times0.00.00.0-0.1-0.1
Reaction time omissions0.40.50.6-0.7-0.8
Reaction time false alarm rate0.10.10.10.30.3
Reaction time premature initiation rate3.85.25.3-2.3-2.3
Reaction time premature initiations3.56.36.3-2.5-2.5
Std. dev. reaction times0.00.00.00.10.1
Reaction time trials completed0.20.40.4-0.6-0.6
Reaction time trials AUC0.10.20.3-0.5-0.5
Run reversals in cocaine runway, females0.30.30.3-0.6-0.6
Run reversals in cocaine runway, males0.50.50.60.70.7
Latency to leave start box in cocaine runway0.40.50.50.70.7
Latency to leave start box in cocaine runway, F0.00.00.0-0.2-0.1
Latency to leave start box in cocaine runway, M2.62.42.51.51.6
Std. dev. time between licks in bursts0.20.20.20.50.5
Total sessions with >9 infusions0.70.91.00.91.0
Short access day 1 total inactive lever presses0.00.00.00.10.1
Short access day 10 total inactive lever presses0.20.50.60.80.7
Short access day 1 total infusions1.21.61.81.21.3
Short access day 10 total infusions0.20.20.30.40.5
Short access total infusions0.60.70.80.80.9
Short access day 1 locomotion0.20.20.30.50.5
Short access day 10 total locomotion0.00.10.1-0.3-0.2
Short access total locomotion0.00.00.00.10.2
One hour access (0.3 mA shock)0.80.90.91.00.9
Compulsive drug intake0.40.50.5-0.7-0.7
One hour access (shock baseline)2.13.23.21.81.8
Social response proportion0.00.00.0-0.1-0.2
Social responses0.00.00.0-0.1-0.2
Social time0.00.00.00.20.1
Soleus weight3.08.99.13.03.0
Bone: stiffness0.71.11.1-1.1-1.0
Tibialis anterior weight10.033.934.1-5.8-5.8
Time to tail flick, vehicle, before self-admin0.20.20.2-0.4-0.4
Time to tail flick, vehicle, after self-admin0.20.30.3-0.5-0.5
Time to tail flick, test, before self-admin0.10.10.1-0.3-0.3
Time to tail flick, test, after self-admin0.00.00.0-0.1-0.2
Delta time to tail flick, vehicle, before/after SA0.20.20.3-0.5-0.4
Delta time to tail flick, test, before/after SA0.00.00.0-0.1-0.2
Tibia length1.85.05.0-2.2-2.2
Ambulatory time before self-admin1.82.72.8-1.7-1.6
Ambulatory time after self-admin0.10.10.1-0.3-0.3
Bone: tissue strength0.60.60.60.80.8
Total heroin consumption6.87.98.1-2.9-2.8
Bone: trabecular number0.91.51.6-1.3-1.2
Bone: trabecular spacing0.50.70.70.80.8
Bone: trabecular thickness0.20.20.20.40.5
Bone: trabecular tissue density4.66.76.82.62.6
Water consumed over 24 hours0.30.40.4-0.6-0.6
Number of responses in last shaping day0.20.20.2-0.4-0.4