Hub : Genes

Col1a1

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 Adipose mRNA stability Col1a1 0.07 0.04 3.3e-06 0.04 0.05 0.04 0.03 2.7e-05 6.5e-06 2.9e-05 1.6e-04
2 Adipose intron excision ratio chr10_80380644_80382109 0.07 0.04 1.6e-09 0.07 0.07 0.07 0.07 1.1e-08 2.9e-08 2.7e-08 2.7e-08
3 Adipose intron excision ratio chr10_80382303_80382425 0.08 0.05 4.9e-11 0.09 0.08 0.08 0.08 8.0e-10 1.9e-09 2.5e-09 2.6e-09

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
Bone: apparent density0.10.20.2-0.20.5-0.5
Area under the delay curve0.20.20.2-0.40.4-0.4
BMI with tail6.723.034.8-5.94.1-4.1
BMI without tail3.711.212.6-3.63.2-3.2
Body weight0.83.35.3-2.31.5-1.5
Weight adjusted by age0.40.61.1-1.00.5-0.5
Bone surface0.30.60.6-0.80.8-0.8
Bone volume0.00.00.1-0.20.1-0.1
Breakpoint value in progressive ratio session4.04.85.2-1.92.3-2.3
Number of licking bursts0.50.81.41.2-0.70.7
Context. condit. distance diff. score0.30.40.60.2-0.80.8
Locomotion velocity, session 10.60.70.8-0.60.9-0.9
Locomotion distance, session 10.30.40.6-0.10.7-0.7
Locomotion velocity, session 20.00.00.0-0.00.2-0.2
Locomotion distance, session 20.81.11.6-0.21.3-1.3
Locomotion velocity, session 30.20.20.4-0.70.2-0.2
Locomotion distance, session 30.20.20.2-0.40.5-0.5
Stereotopy head waving bouts, day 31.72.02.51.0-1.61.6
Stereotopy head waving duration, day 32.32.73.21.3-1.81.8
Locomotion velocity, session 70.00.10.10.3-0.20.2
Locomotion distance, session 71.62.03.61.9-1.11.1
Stereotopy head waving bouts, day 70.40.50.8-0.90.6-0.6
Stereotopy head waving duration, day 70.10.20.4-0.60.2-0.2
Locomotion velocity, session 81.11.32.3-1.50.9-0.9
Locomotion distance, session 80.50.70.8-0.80.9-0.9
Degree of sensitization distance1.81.82.41.6-1.21.2
Degree of sensitization stereotypy1.11.21.3-1.11.1-1.1
Conditioned locomotion0.20.20.40.6-0.30.3
Cocaine response after cond. corrected0.10.20.3-0.50.4-0.4
Cocaine response after cond. not corrected0.00.00.0-0.00.0-0.0
Cocaine response before conditioning0.70.81.41.2-0.80.8
Saline control response0.00.10.1-0.10.3-0.3
Bone: connectivity density1.32.12.4-1.21.6-1.6
Bone: cortical apparent density3.75.07.12.7-2.02.0
Bone: cortical area0.00.00.0-0.0-0.00.0
Bone: cortical porosity0.00.00.0-0.2-0.10.1
Bone: cortical porosity0.00.00.0-0.0-0.20.2
Bone: cortical thickness1.22.12.21.5-1.41.4
Bone: cortical thickness0.91.01.81.4-0.80.8
Bone: cortical tissue density3.64.97.22.7-2.02.0
Condit. Reinf. active minus inactive responses0.91.01.2-0.91.1-1.1
Condit. Reinf. active-inactive response ratio0.00.00.0-0.10.0-0.0
Condit. Reinf. active responses1.41.71.9-1.21.4-1.4
Condit. Reinf. inactive responses1.41.72.1-1.01.4-1.4
Incentive salience index mean1.31.61.9-1.11.4-1.4
Condit. Reinf. lever presses1.01.41.8-0.91.3-1.3
Condit. Reinf. active minus inactive responses0.20.30.4-0.20.6-0.6
Condit. Reinf. active-inactive response ratio1.21.41.8-0.61.4-1.4
Condit. Reinf. active responses0.00.00.1-0.00.2-0.2
Condit. Reinf. inactive responses0.50.60.70.7-0.80.8
Condit. Reinf. lever presses0.71.01.4-1.20.9-0.9
Condit. Reinf. lever reinforcers received0.20.30.3-0.30.6-0.6
Conditioned reinforcement - actives0.81.41.6-1.01.3-1.3
Conditioned reinforcement - inactives0.10.10.10.30.3-0.3
Conditioned locomotion0.20.20.3-0.60.4-0.4
Patch foraging indifference point 0 sec0.40.71.0-1.00.7-0.7
Patch foraging indifference point AUC0.30.41.1-1.10.3-0.3
Delay disc. indifference point, 0s delay0.00.00.00.0-0.10.1
Delay disc. indifference point, 16s delay0.50.51.1-1.00.5-0.5
Delay disc. indifference point, 2s delay0.91.01.31.2-0.90.9
Delay disc. indifference point, 24s delay1.41.61.7-1.11.3-1.3
Delay disc. indifference point, 4s delay0.10.10.10.2-0.30.3
Delay disc. indifference point, 8s delay0.00.00.00.20.1-0.1
Indifference point function ln k0.10.20.50.7-0.10.1
Indifference point function log k0.10.20.50.7-0.10.1
Patch foraging total patch changes 0 sec0.30.60.9-1.00.7-0.7
Patch foraging total patch changes 12 sec0.20.20.3-0.50.5-0.5
Patch foraging total patch changes 18 sec0.50.81.7-1.30.5-0.5
Patch foraging total patch changes 24 sec0.30.50.8-0.90.6-0.6
Patch foraging total patch changes 6 sec1.31.93.3-1.81.1-1.1
Patch foraging time to switch 0 sec0.10.20.40.6-0.40.4
Patch foraging water rate 0 sec0.10.20.5-0.70.2-0.2
Patch foraging water rate 12 sec0.71.42.0-1.41.1-1.1
Patch foraging water rate 18 sec0.00.00.10.30.0-0.0
Patch foraging water rate 24 sec0.10.10.3-0.50.3-0.3
Patch foraging water rate 6 sec2.33.33.5-1.71.9-1.9
Seeking ratio, delayed vs. immediate footshock0.00.00.0-0.1-0.20.2
Distance traveled before self-admin2.02.63.1-1.21.8-1.8
Distance traveled after self-admin1.51.92.2-1.11.5-1.5
Extensor digitorum longus weight1.35.08.8-3.01.8-1.8
Bone: elastic displacement0.30.40.6-0.80.5-0.5
Bone: elastic work0.10.20.2-0.50.4-0.4
Bone: endosteal estimation0.91.92.3-1.51.3-1.3
Bone: endosteal perimeter1.43.03.5-1.91.7-1.7
Epididymis fat weight0.10.20.3-0.20.6-0.6
Delta time in closed arm before/after self-admin0.10.10.2-0.40.1-0.1
Delta time in open arm before/after self-admin0.30.30.40.5-0.60.6
Diff in mean of infusions in LGA sessions1.61.91.9-1.41.4-1.4
Delay discount exponential model param0.10.20.20.3-0.40.4
Extinction: sum of active levers before priming0.80.90.9-1.00.9-0.9
Active lever presses in extinction session 61.11.01.6-1.30.9-0.9
Bone: final force0.30.51.21.1-0.50.5
Bone: final moment0.30.51.01.0-0.50.5
Food consumed during 24 hour testing period1.62.12.6-1.11.6-1.6
Glucose7.011.111.13.3-3.33.3
Heart weight0.20.30.3-0.50.5-0.5
Delay discount hyperbolic model param0.00.00.10.1-0.20.2
Intermittent access intake day 1-15 change2.45.05.2-2.12.3-2.3
Intermittent access intake escalation2.65.35.8-2.12.4-2.4
Intermittent access intake escalation 25.05.76.0-2.22.4-2.4
Intermitt. access day 1 inactive lever presses0.00.10.30.6-0.10.1
Intermitt. access day 15 inactive lever presses0.10.10.3-0.6-0.00.0
Intermitt. access escalation Index0.00.00.10.10.3-0.3
Intermittent access day 1 total infusions1.21.92.71.7-1.21.2
Intermittent access day 15 total infusions0.71.11.4-0.71.2-1.2
Intermittent access terminal intake (last 3 days)0.91.21.4-0.91.2-1.2
Intermittent access total infusions0.00.10.10.4-0.10.1
Intermittent access day 1 locomotion1.21.51.91.4-1.11.1
Intermittent access day 15 total locomotion0.20.40.5-0.50.7-0.7
Intermittent access total locomotion0.00.00.10.3-0.20.2
Intermittent access standard deviation0.81.82.8-1.71.1-1.1
Left kidney weight0.00.10.20.4-0.10.1
Right kidney weight0.00.00.0-0.10.2-0.2
Cocaine induced anxiety1.01.52.3-1.51.0-1.0
Post-drug Anxiety0.70.71.3-1.10.7-0.7
Baseline Anxiety1.72.02.01.4-1.41.4
Tail length1.03.78.32.9-1.21.2
Length with tail1.87.710.83.3-2.52.5
Length without tail1.13.53.71.7-1.91.9
Times rat made contact with spout0.10.10.10.40.2-0.2
Lifetime Intake0.20.30.40.7-0.40.4
Liver weight, left0.60.91.2-0.61.1-1.1
Liver weight, right0.10.10.20.00.5-0.5
Locomotor activity0.10.20.3-0.10.6-0.6
Locomotor testing distance0.10.10.20.10.4-0.4
Locomotor testing rearing0.30.60.8-0.30.9-0.9
Locomotion in novel chamber1.41.72.2-0.91.5-1.5
Locomotion in novel chamber post-restriction0.00.00.0-0.00.1-0.1
Fecal boli incidents, locomotor time 10.10.20.4-0.6-0.40.4
Change in fecal boli incidents, locomotor task0.30.31.01.0-0.00.0
Time >=10cm from walls, locomotor time 10.60.60.9-0.40.9-0.9
Bouts of movement, locomotor time 11.72.02.60.8-1.61.6
Total resting periods, locomotor time 11.82.02.60.9-1.61.6
Rest time, locomotor task time 10.30.40.60.8-0.60.6
Distance moved, locomotor task time 10.10.10.20.10.4-0.4
Vertical activity count, locomotor time 10.92.12.2-1.51.4-1.4
Time >=10cm from walls, locomotor time 20.40.61.51.2-0.30.3
Bouts of movement, locomotor time 20.40.70.8-0.60.9-0.9
Total resting periods, locomotor time 20.50.91.1-0.71.0-1.0
Rest time, locomotor task time 20.10.20.40.6-0.30.3
Distance moved, locomotor task time 21.21.41.51.2-1.21.2
Vertical activity count, locomotor time 20.10.20.3-0.50.3-0.3
Light reinforcement 11.02.42.5-1.51.6-1.6
Light reinforcement 20.50.71.0-0.51.0-1.0
Bone: marrow area0.81.82.2-1.51.3-1.3
Bone: maximum diameter1.12.12.1-1.51.5-1.5
Bone: maximum force0.10.20.30.6-0.40.4
Bone: maximum moment0.10.30.30.6-0.50.5
Mean time between licks in bursts0.00.10.1-0.1-0.30.3
Mean num. licks in bursts0.30.40.5-0.70.6-0.6
Cd content in liver0.30.30.5-0.30.7-0.7
Co content in liver0.10.10.10.3-0.30.3
Cu content in liver0.91.01.5-0.41.2-1.2
Fe content in liver0.30.40.80.9-0.40.4
K content in liver4.34.14.31.9-2.12.1
Mg content in liver2.72.84.22.1-1.41.4
Mn content in liver1.41.51.8-1.01.3-1.3
Na content in liver1.11.21.31.0-1.11.1
Rb content in liver0.30.30.4-0.00.7-0.7
Se content in liver0.40.50.70.9-0.60.6
Sr content in liver0.00.00.1-0.3-0.10.1
Zn content in liver0.50.51.31.1-0.40.4
Bone: minimum diameter0.10.20.20.5-0.40.4
Time in familiar zone, hab. session 10.80.71.61.3-0.60.6
Time in novel zone, hab. session 10.40.41.1-1.00.2-0.2
Total zone transitions, hab. session 12.53.44.4-1.22.1-2.1
Total locomotion distance, hab. session 12.02.93.6-1.21.9-1.9
Locomotion velocity, hab. session 11.21.82.3-0.81.5-1.5
Time in familiar zone, hab. session 21.41.51.6-1.11.3-1.3
Time in novel zone, hab. session 21.91.92.01.4-1.41.4
Total zone transitions, hab. session 21.01.31.8-0.51.3-1.3
Total locomotion distance, hab. session 20.30.40.5-0.50.7-0.7
Locomotion velocity, hab. session 20.20.20.3-0.40.5-0.5
Novel to familiar place preference ratio0.80.91.1-0.61.1-1.1
Novelty place preference0.50.50.7-0.30.8-0.8
Time in novel zone, NPP test0.20.20.30.10.5-0.5
Total zone transitions, NPP test0.30.50.70.20.8-0.8
Total locomotion distance, NPP test0.00.10.10.30.2-0.2
Locomotion velocity, NPP test0.10.10.2-0.10.4-0.4
Intraocular pressure0.81.11.2-0.91.1-1.1
Delta distance traveled before/after self-admin0.20.20.30.2-0.50.5
Delta ambulatory time before/after self-admin0.50.60.80.6-0.90.9
Parametrial fat weight1.02.43.21.8-1.41.4
Pavlov. Cond. lever latency0.10.20.30.0-0.50.5
Pavlov. Cond. magazine entry latency0.60.70.9-0.61.0-1.0
Pavlov. Cond. change in total contacts0.90.91.3-0.41.2-1.2
Pavlov. Cond. index score0.40.50.8-0.30.9-0.9
Pavlov. Cond. latency score0.10.20.3-0.00.5-0.5
Pavlov. Cond. lever contacts0.10.10.10.20.3-0.3
Pavlov. Cond. magazine entry number0.50.70.90.5-1.01.0
Pavlov. Cond. intertrial magazine entries0.10.10.20.00.4-0.4
Pavlov. Cond. lever-magazine prob. diff.0.60.71.0-0.41.0-1.0
Pavlov. Cond. response bias1.11.41.7-0.81.3-1.3
Pavlov. Cond. lever latency0.10.10.20.50.3-0.3
Pavlov. Cond. magazine entry latency0.10.10.1-0.40.4-0.4
Pavlov. Cond. change in total contacts0.20.30.8-0.90.1-0.1
Pavlov. Cond. index score0.20.20.6-0.80.2-0.2
Pavlov. Cond. latency score0.10.20.4-0.60.2-0.2
Pavlov. Cond. lever contacts0.10.10.3-0.6-0.10.1
Pavlov. Cond. magazine entry number0.20.20.3-0.10.6-0.6
Pavlov. Cond. intertrial magazine entries0.10.10.20.50.2-0.2
Pavlov. Cond. lever-magazine prob. diff.0.20.30.7-0.90.2-0.2
Pavlov. Cond. response bias0.10.10.2-0.2-0.40.4
Time in closed arm before self-admin0.00.00.1-0.1-0.30.3
Time in closed arm after self-admin0.10.10.3-0.50.1-0.1
Time in open arm before self-admin0.10.10.20.4-0.10.1
Time in open arm after self-admin0.10.10.20.4-0.40.4
Bone: periosteal estimation0.30.60.6-0.80.8-0.8
Bone: periosteal perimeter0.91.51.9-1.41.2-1.2
Bone: post-yield work0.00.00.0-0.20.1-0.1
Progressive ratio test 1 active lever presses0.20.30.80.9-0.00.0
Progressive ratio test 1 breakpoint0.20.20.60.80.0-0.0
Progressive ratio test 1 inactive lever presses0.30.40.60.8-0.50.5
Progressive ratio test 2 active lever presses1.01.11.5-0.61.2-1.2
Progressive ratio test 2 breakpoint1.11.31.7-0.71.3-1.3
Progressive ratio test 2 inactive lever presses0.71.11.4-0.71.2-1.2
Incentive Sensitization - Responses2.33.23.5-1.61.9-1.9
Incentive Sensitization - Breakpoint2.53.23.5-1.61.9-1.9
Sum of active levers in priming session hrs 5-60.10.10.20.4-0.20.2
Progressive ratio1.82.73.5-1.11.9-1.9
Food seeking constrained by brief footshock0.00.00.10.40.0-0.0
Seeking ratio, punishment vs. effort3.24.65.01.9-2.22.2
Retroperitoneal fat weight0.00.00.10.2-0.20.2
Reaction time number correct0.30.60.70.7-0.80.8
Reaction time mean minus median0.00.10.1-0.30.3-0.3
Reaction time mean minus median AUC0.00.10.1-0.20.3-0.3
Reaction time num false alarms0.50.70.7-0.70.9-0.9
Reaction time num false alarms AUC0.40.60.6-0.60.8-0.8
Reaction time trials correct on left0.30.60.70.7-0.80.8
Reaction time trials on left0.30.50.60.6-0.70.7
Reaction time mean0.10.10.3-0.60.2-0.2
Reaction time mean AUC0.10.10.3-0.50.1-0.1
Median of all reaction times0.10.10.2-0.50.1-0.1
Reaction time omissions1.52.22.7-1.61.4-1.4
Reaction time false alarm rate0.91.21.3-1.01.2-1.2
Reaction time premature initiation rate0.10.10.2-0.20.4-0.4
Reaction time premature initiations0.00.00.00.00.1-0.1
Std. dev. reaction times0.00.10.10.1-0.40.4
Reaction time trials completed0.30.50.60.6-0.70.7
Reaction time trials AUC0.30.60.70.7-0.80.8
Run reversals in cocaine runway, females0.00.00.0-0.20.0-0.0
Run reversals in cocaine runway, males0.30.30.3-0.60.5-0.5
Latency to leave start box in cocaine runway0.50.51.3-1.10.4-0.4
Latency to leave start box in cocaine runway, F0.40.50.70.1-0.80.8
Latency to leave start box in cocaine runway, M4.54.25.4-2.31.9-1.9
Std. dev. time between licks in bursts0.20.20.40.1-0.60.6
Total sessions with >9 infusions1.41.71.91.4-1.21.2
Short access day 1 total inactive lever presses1.11.51.6-1.21.3-1.3
Short access day 10 total inactive lever presses2.05.06.6-2.62.0-2.0
Short access day 1 total infusions1.52.02.21.3-1.51.5
Short access day 10 total infusions1.31.71.91.4-1.31.3
Short access total infusions1.31.61.71.2-1.31.3
Short access day 1 locomotion0.20.20.5-0.70.2-0.2
Short access day 10 total locomotion1.01.92.01.3-1.41.4
Short access total locomotion0.91.11.30.9-1.11.1
One hour access (0.3 mA shock)2.32.73.2-1.31.8-1.8
Compulsive drug intake0.10.10.10.30.2-0.2
One hour access (shock baseline)1.21.91.9-1.41.4-1.4
Social response proportion0.20.20.70.8-0.20.2
Social responses1.01.31.5-1.01.2-1.2
Social time1.01.31.7-0.81.3-1.3
Soleus weight0.30.81.00.5-1.01.0
Bone: stiffness0.60.91.61.3-0.80.8
Tibialis anterior weight1.96.36.8-2.62.5-2.5
Time to tail flick, vehicle, before self-admin0.50.50.80.9-0.70.7
Time to tail flick, vehicle, after self-admin0.10.10.1-0.1-0.30.3
Time to tail flick, test, before self-admin1.31.41.80.7-1.31.3
Time to tail flick, test, after self-admin3.84.04.41.8-2.12.1
Delta time to tail flick, vehicle, before/after SA0.10.10.20.0-0.40.4
Delta time to tail flick, test, before/after SA0.80.81.41.2-0.70.7
Tibia length1.43.74.31.6-2.12.1
Ambulatory time before self-admin2.63.94.4-1.72.1-2.1
Ambulatory time after self-admin0.50.60.8-0.50.9-0.9
Bone: tissue strength2.42.52.71.4-1.71.7
Total heroin consumption0.50.60.7-0.50.8-0.8
Bone: trabecular number0.71.11.5-0.61.2-1.2
Bone: trabecular spacing0.60.81.1-1.10.8-0.8
Bone: trabecular thickness0.81.11.50.3-1.21.2
Bone: trabecular tissue density1.21.71.81.2-1.41.4
Water consumed over 24 hours0.10.20.2-0.20.5-0.5
Number of responses in last shaping day0.40.40.7-0.80.5-0.5