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 0.05 4.8e-06 0.04 0.05 0.04 0.03 2.2e-05 6.6e-06 1.2e-05 1.2e-04
2 Adipose intron excision ratio chr10_79885467_79885589 0.08 0.05 1.2e-11 0.08 0.09 0.08 0.08 5.7e-09 5.1e-10 4.4e-09 5.2e-09
3 Adipose intron excision ratio chr10_79883808_79885273 0.07 0.04 2.4e-10 0.07 0.08 0.07 0.07 4.7e-08 5.6e-09 3.9e-08 4.6e-08

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 density0.00.00.0-0.1-0.10.1
Area under the delay curve0.10.10.1-0.4-0.30.3
BMI with tail7.123.229.5-5.4-4.54.5
BMI without tail4.18.58.9-2.8-3.03.0
Body weight1.66.68.2-2.9-2.42.4
Weight adjusted by age0.30.40.6-0.7-0.50.5
Bone surface0.20.30.4-0.6-0.50.5
Bone volume0.00.00.0-0.10.2-0.2
Breakpoint value in progressive ratio session3.13.43.6-1.7-1.91.9
Number of licking bursts0.50.61.21.10.5-0.6
Context. condit. distance diff. score0.10.10.10.10.3-0.3
Locomotion velocity, session 10.50.60.7-0.7-0.80.8
Locomotion distance, session 10.20.20.4-0.1-0.60.6
Locomotion velocity, session 20.00.00.0-0.1-0.00.0
Locomotion distance, session 20.40.50.8-0.1-0.90.9
Locomotion velocity, session 30.20.20.5-0.7-0.30.3
Locomotion distance, session 30.20.20.3-0.4-0.50.5
Stereotopy head waving bouts, day 31.31.61.91.01.4-1.4
Stereotopy head waving duration, day 31.82.22.61.21.6-1.6
Locomotion velocity, session 70.00.00.10.30.1-0.1
Locomotion distance, session 71.82.33.81.91.2-1.2
Stereotopy head waving bouts, day 70.70.81.3-1.1-0.80.8
Stereotopy head waving duration, day 70.20.30.6-0.7-0.40.4
Locomotion velocity, session 81.72.02.6-1.6-1.31.3
Locomotion distance, session 80.60.91.0-0.8-1.01.0
Degree of sensitization distance1.91.92.31.51.3-1.3
Degree of sensitization stereotypy1.11.21.3-1.1-1.11.1
Conditioned locomotion0.60.60.70.70.9-0.9
Cocaine response after cond. corrected0.10.10.2-0.5-0.20.2
Cocaine response after cond. not corrected0.00.00.00.10.2-0.2
Cocaine response before conditioning0.81.01.61.30.8-0.8
Saline control response0.10.10.2-0.1-0.50.5
Bone: connectivity density0.81.31.3-1.1-1.11.1
Bone: cortical apparent density4.96.48.22.92.3-2.3
Bone: cortical area0.00.00.0-0.2-0.10.2
Bone: cortical porosity0.20.20.2-0.5-0.40.4
Bone: cortical porosity0.00.00.00.10.1-0.1
Bone: cortical thickness1.11.81.91.31.4-1.3
Bone: cortical thickness0.91.01.51.20.9-0.9
Bone: cortical tissue density4.96.48.32.92.3-2.3
Condit. Reinf. active minus inactive responses0.91.01.3-0.8-1.11.1
Condit. Reinf. active-inactive response ratio0.00.00.0-0.0-0.10.1
Condit. Reinf. active responses1.41.71.9-1.1-1.41.4
Condit. Reinf. inactive responses0.91.11.4-0.8-1.21.2
Incentive salience index mean1.41.72.1-0.9-1.51.5
Condit. Reinf. lever presses0.91.21.7-0.6-1.31.3
Condit. Reinf. active minus inactive responses0.50.60.8-0.5-0.90.9
Condit. Reinf. active-inactive response ratio1.31.31.8-0.7-1.41.3
Condit. Reinf. active responses0.20.30.4-0.4-0.70.7
Condit. Reinf. inactive responses0.20.20.30.40.5-0.5
Condit. Reinf. lever presses1.21.61.7-1.3-1.21.3
Condit. Reinf. lever reinforcers received0.40.60.7-0.6-0.90.9
Conditioned reinforcement - actives1.01.01.2-0.8-1.11.1
Conditioned reinforcement - inactives1.31.41.91.41.1-1.1
Conditioned locomotion0.10.20.2-0.3-0.50.5
Patch foraging indifference point 0 sec0.40.61.1-1.0-0.60.6
Patch foraging indifference point AUC0.40.50.7-0.8-0.60.6
Delay disc. indifference point, 0s delay0.00.00.0-0.0-0.10.1
Delay disc. indifference point, 16s delay0.50.50.9-0.9-0.60.6
Delay disc. indifference point, 2s delay1.11.21.31.11.1-1.1
Delay disc. indifference point, 24s delay1.71.61.8-1.1-1.31.3
Delay disc. indifference point, 4s delay0.10.10.10.30.3-0.3
Delay disc. indifference point, 8s delay0.10.10.10.30.2-0.2
Indifference point function ln k0.30.50.70.80.6-0.6
Indifference point function log k0.30.50.70.80.6-0.6
Patch foraging total patch changes 0 sec0.30.61.0-1.0-0.60.6
Patch foraging total patch changes 12 sec0.20.20.2-0.5-0.40.4
Patch foraging total patch changes 18 sec0.81.01.8-1.3-0.80.8
Patch foraging total patch changes 24 sec0.50.61.0-1.0-0.70.7
Patch foraging total patch changes 6 sec2.13.14.2-2.1-1.61.6
Patch foraging time to switch 0 sec0.10.20.30.60.4-0.4
Patch foraging water rate 0 sec0.10.20.4-0.6-0.30.3
Patch foraging water rate 12 sec1.11.72.2-1.5-1.21.2
Patch foraging water rate 18 sec0.00.00.10.20.2-0.2
Patch foraging water rate 24 sec0.10.10.3-0.5-0.30.3
Patch foraging water rate 6 sec2.13.03.2-1.6-1.81.8
Seeking ratio, delayed vs. immediate footshock0.00.00.0-0.20.1-0.1
Distance traveled before self-admin2.42.53.1-1.1-1.81.8
Distance traveled after self-admin1.21.31.6-0.9-1.21.2
Extensor digitorum longus weight1.66.39.8-3.1-2.12.2
Bone: elastic displacement0.20.20.2-0.5-0.50.5
Bone: elastic work0.10.20.2-0.4-0.40.4
Bone: endosteal estimation0.81.82.0-1.4-1.31.3
Bone: endosteal perimeter1.32.73.2-1.8-1.61.6
Epididymis fat weight0.51.11.1-1.1-1.01.0
Delta time in closed arm before/after self-admin0.00.00.1-0.20.0-0.0
Delta time in open arm before/after self-admin0.30.20.30.50.5-0.5
Diff in mean of infusions in LGA sessions4.44.85.4-2.0-2.32.3
Delay discount exponential model param0.10.10.20.40.4-0.4
Extinction: sum of active levers before priming0.80.80.9-1.0-0.90.9
Active lever presses in extinction session 60.70.70.8-0.9-0.80.8
Bone: final force0.71.21.61.31.0-1.0
Bone: final moment0.61.01.31.10.9-0.9
Food consumed during 24 hour testing period1.41.71.9-1.1-1.41.4
Glucose6.710.110.73.03.3-3.3
Heart weight0.10.20.3-0.6-0.30.3
Delay discount hyperbolic model param0.00.00.00.10.1-0.1
Intermittent access intake day 1-15 change5.85.76.2-2.5-2.32.3
Intermittent access intake escalation5.45.35.8-2.4-2.22.3
Intermittent access intake escalation 27.57.57.7-2.8-2.72.7
Intermitt. access day 1 inactive lever presses0.20.20.40.60.3-0.3
Intermitt. access day 15 inactive lever presses0.00.10.1-0.20.3-0.2
Intermitt. access escalation Index0.00.00.0-0.1-0.20.2
Intermittent access day 1 total infusions2.83.34.02.01.7-1.7
Intermittent access day 15 total infusions0.60.60.8-0.7-0.90.9
Intermittent access terminal intake (last 3 days)0.70.80.8-0.8-0.90.9
Intermittent access total infusions0.10.10.20.40.3-0.3
Intermittent access day 1 locomotion2.12.23.01.71.3-1.3
Intermittent access day 15 total locomotion0.20.20.2-0.4-0.50.5
Intermittent access total locomotion0.10.10.20.40.2-0.2
Intermittent access standard deviation6.06.37.4-2.7-2.42.4
Left kidney weight0.41.21.31.11.1-1.1
Right kidney weight0.10.30.40.20.6-0.6
Cocaine induced anxiety2.02.32.5-1.4-1.61.6
Post-drug Anxiety1.71.92.3-1.1-1.51.5
Baseline Anxiety0.10.10.10.10.3-0.3
Tail length1.23.66.52.61.5-1.5
Length with tail1.66.07.02.62.3-2.3
Length without tail1.22.73.21.31.8-1.8
Times rat made contact with spout0.20.20.40.60.3-0.3
Lifetime Intake0.60.60.80.90.7-0.7
Liver weight, left0.00.00.00.10.0-0.0
Liver weight, right0.20.30.40.40.6-0.6
Locomotor activity0.10.20.2-0.1-0.50.5
Locomotor testing distance0.10.10.20.1-0.40.4
Locomotor testing rearing0.30.50.7-0.3-0.80.8
Locomotion in novel chamber0.70.91.1-0.7-1.01.0
Locomotion in novel chamber post-restriction0.10.10.10.30.4-0.4
Fecal boli incidents, locomotor time 10.30.30.6-0.8-0.30.4
Change in fecal boli incidents, locomotor task0.30.30.70.80.4-0.4
Time >=10cm from walls, locomotor time 10.40.50.6-0.3-0.80.8
Bouts of movement, locomotor time 10.80.91.10.71.0-1.0
Total resting periods, locomotor time 11.11.21.40.91.2-1.2
Rest time, locomotor task time 10.40.50.50.70.7-0.7
Distance moved, locomotor task time 10.10.10.20.0-0.40.4
Vertical activity count, locomotor time 12.62.72.8-1.6-1.71.7
Time >=10cm from walls, locomotor time 20.91.01.71.30.8-0.8
Bouts of movement, locomotor time 20.50.50.5-0.7-0.70.7
Total resting periods, locomotor time 20.60.60.7-0.7-0.80.8
Rest time, locomotor task time 20.30.30.40.60.5-0.5
Distance moved, locomotor task time 21.11.31.41.11.2-1.2
Vertical activity count, locomotor time 20.30.30.4-0.6-0.60.6
Light reinforcement 11.42.52.7-1.5-1.61.6
Light reinforcement 20.40.50.6-0.5-0.80.8
Bone: marrow area0.81.82.0-1.4-1.31.3
Bone: maximum diameter1.12.12.2-1.5-1.41.4
Bone: maximum force0.20.30.30.60.6-0.6
Bone: maximum moment0.20.30.40.60.6-0.6
Mean time between licks in bursts0.10.20.30.00.5-0.5
Mean num. licks in bursts0.10.10.2-0.4-0.10.1
Cd content in liver1.31.41.8-0.9-1.31.3
Co content in liver0.20.20.2-0.3-0.50.5
Cu content in liver0.91.11.7-0.4-1.31.3
Fe content in liver0.30.40.70.90.4-0.4
K content in liver3.33.23.31.81.8-1.8
Mg content in liver2.72.83.21.81.6-1.6
Mn content in liver1.11.21.5-0.8-1.21.2
Na content in liver0.70.80.80.90.9-0.9
Rb content in liver0.10.10.20.50.3-0.3
Se content in liver0.91.11.31.11.0-1.0
Sr content in liver0.10.10.10.10.3-0.3
Zn content in liver0.10.10.30.60.2-0.2
Bone: minimum diameter0.20.30.40.50.6-0.6
Time in familiar zone, hab. session 11.11.01.51.20.9-0.9
Time in novel zone, hab. session 10.50.51.1-1.0-0.50.5
Total zone transitions, hab. session 12.02.83.5-1.2-1.91.9
Total locomotion distance, hab. session 11.62.22.8-1.1-1.71.7
Locomotion velocity, hab. session 11.01.41.8-0.7-1.31.3
Time in familiar zone, hab. session 21.41.41.7-1.3-1.11.1
Time in novel zone, hab. session 22.12.12.51.61.4-1.4
Total zone transitions, hab. session 20.60.71.0-0.4-1.01.0
Total locomotion distance, hab. session 20.20.30.4-0.4-0.60.6
Locomotion velocity, hab. session 20.10.20.2-0.3-0.50.5
Novel to familiar place preference ratio0.30.30.4-0.4-0.70.7
Novelty place preference0.10.10.2-0.1-0.40.4
Time in novel zone, NPP test0.00.00.10.3-0.00.0
Total zone transitions, NPP test0.20.20.30.3-0.50.5
Total locomotion distance, NPP test0.00.10.10.3-0.20.2
Locomotion velocity, NPP test0.10.10.2-0.0-0.50.5
Intraocular pressure0.50.60.8-0.6-0.90.9
Delta distance traveled before/after self-admin0.10.20.20.10.5-0.5
Delta ambulatory time before/after self-admin0.30.40.50.40.7-0.7
Parametrial fat weight0.51.11.61.30.9-0.9
Pavlov. Cond. lever latency0.20.30.5-0.10.7-0.7
Pavlov. Cond. magazine entry latency0.60.81.0-0.5-1.01.0
Pavlov. Cond. change in total contacts0.90.91.3-0.3-1.21.1
Pavlov. Cond. index score0.50.71.0-0.2-1.01.0
Pavlov. Cond. latency score0.30.30.50.1-0.70.7
Pavlov. Cond. lever contacts0.30.30.40.2-0.70.6
Pavlov. Cond. magazine entry number0.60.70.90.41.0-1.0
Pavlov. Cond. intertrial magazine entries0.00.00.00.20.0-0.0
Pavlov. Cond. lever-magazine prob. diff.0.60.71.0-0.2-1.01.0
Pavlov. Cond. response bias1.51.82.3-0.9-1.51.5
Pavlov. Cond. lever latency0.30.51.01.00.4-0.4
Pavlov. Cond. magazine entry latency0.10.10.2-0.4-0.10.1
Pavlov. Cond. change in total contacts0.50.71.2-1.1-0.70.7
Pavlov. Cond. index score0.40.51.0-1.0-0.40.5
Pavlov. Cond. latency score0.20.30.6-0.8-0.30.3
Pavlov. Cond. lever contacts0.10.10.3-0.5-0.10.1
Pavlov. Cond. magazine entry number0.10.20.3-0.0-0.50.5
Pavlov. Cond. intertrial magazine entries0.10.10.30.5-0.30.3
Pavlov. Cond. lever-magazine prob. diff.0.40.51.1-1.0-0.50.5
Pavlov. Cond. response bias0.00.10.1-0.20.3-0.2
Time in closed arm before self-admin0.10.10.1-0.20.3-0.2
Time in closed arm after self-admin0.10.10.2-0.40.2-0.2
Time in open arm before self-admin0.00.00.00.2-0.10.1
Time in open arm after self-admin0.00.00.00.1-0.10.1
Bone: periosteal estimation0.20.50.6-0.8-0.70.7
Bone: periosteal perimeter0.91.41.7-1.3-1.11.1
Bone: post-yield work0.10.10.3-0.5-0.30.3
Progressive ratio test 1 active lever presses1.11.12.01.40.9-0.9
Progressive ratio test 1 breakpoint1.51.62.61.61.1-1.1
Progressive ratio test 1 inactive lever presses0.80.91.21.10.9-0.9
Progressive ratio test 2 active lever presses0.60.60.9-0.4-0.90.9
Progressive ratio test 2 breakpoint1.01.11.4-0.7-1.21.2
Progressive ratio test 2 inactive lever presses0.10.10.2-0.2-0.40.4
Incentive Sensitization - Responses3.53.63.9-1.7-2.02.0
Incentive Sensitization - Breakpoint3.73.84.2-1.8-2.02.0
Sum of active levers in priming session hrs 5-60.10.10.20.40.1-0.1
Progressive ratio0.91.11.2-0.9-1.11.1
Food seeking constrained by brief footshock0.10.20.20.50.4-0.4
Seeking ratio, punishment vs. effort2.83.43.51.91.8-1.8
Retroperitoneal fat weight0.00.10.2-0.4-0.30.3
Reaction time number correct0.40.60.80.50.9-0.9
Reaction time mean minus median0.10.10.1-0.2-0.40.4
Reaction time mean minus median AUC0.10.10.1-0.1-0.30.3
Reaction time num false alarms0.81.01.2-0.8-1.11.1
Reaction time num false alarms AUC0.60.91.0-0.7-1.01.0
Reaction time trials correct on left0.40.60.80.50.9-0.9
Reaction time trials on left0.40.50.70.40.8-0.8
Reaction time mean0.20.20.3-0.6-0.40.4
Reaction time mean AUC0.20.20.2-0.5-0.50.5
Median of all reaction times0.10.20.3-0.5-0.40.4
Reaction time omissions1.21.61.8-1.2-1.31.3
Reaction time false alarm rate1.11.51.9-0.9-1.41.4
Reaction time premature initiation rate0.10.20.2-0.2-0.50.5
Reaction time premature initiations0.00.00.0-0.1-0.10.1
Std. dev. reaction times0.00.00.00.20.2-0.2
Reaction time trials completed0.40.50.70.40.8-0.8
Reaction time trials AUC0.50.70.80.60.9-0.9
Run reversals in cocaine runway, females0.00.00.0-0.2-0.00.0
Run reversals in cocaine runway, males0.30.30.3-0.5-0.50.5
Latency to leave start box in cocaine runway0.70.71.8-1.3-0.40.4
Latency to leave start box in cocaine runway, F0.50.50.8-0.10.9-0.9
Latency to leave start box in cocaine runway, M7.26.97.6-2.8-2.62.6
Std. dev. time between licks in bursts0.00.00.0-0.1-0.00.0
Total sessions with >9 infusions1.11.21.41.21.0-1.0
Short access day 1 total inactive lever presses0.00.00.10.30.1-0.1
Short access day 10 total inactive lever presses3.13.53.9-2.0-1.81.8
Short access day 1 total infusions3.03.23.31.81.8-1.8
Short access day 10 total infusions1.92.22.41.51.4-1.4
Short access total infusions2.12.32.41.51.6-1.5
Short access day 1 locomotion0.10.10.10.30.3-0.3
Short access day 10 total locomotion0.91.11.41.20.9-1.0
Short access total locomotion1.71.81.81.31.4-1.4
One hour access (0.3 mA shock)1.11.21.4-0.9-1.21.2
Compulsive drug intake0.20.20.50.70.2-0.2
One hour access (shock baseline)2.12.42.5-1.5-1.61.6
Social response proportion0.30.30.70.80.4-0.4
Social responses1.11.41.6-1.0-1.31.2
Social time0.91.21.5-0.7-1.21.2
Soleus weight0.20.60.80.40.9-0.9
Bone: stiffness0.81.31.51.21.1-1.1
Tibialis anterior weight1.96.56.6-2.6-2.52.5
Time to tail flick, vehicle, before self-admin0.30.30.60.80.4-0.4
Time to tail flick, vehicle, after self-admin0.10.10.10.10.3-0.3
Time to tail flick, test, before self-admin0.20.20.40.00.6-0.6
Time to tail flick, test, after self-admin2.52.62.81.51.7-1.7
Delta time to tail flick, vehicle, before/after SA0.10.10.10.00.3-0.3
Delta time to tail flick, test, before/after SA1.51.42.01.41.0-1.0
Tibia length1.23.33.81.51.9-1.9
Ambulatory time before self-admin4.24.35.1-1.7-2.22.2
Ambulatory time after self-admin1.11.31.4-1.0-1.21.2
Bone: tissue strength2.12.12.41.21.6-1.5
Total heroin consumption0.40.40.5-0.6-0.70.7
Bone: trabecular number0.20.30.3-0.4-0.60.6
Bone: trabecular spacing1.01.31.5-1.0-1.21.2
Bone: trabecular thickness0.80.91.30.31.2-1.1
Bone: trabecular tissue density1.01.51.61.11.3-1.3
Water consumed over 24 hours0.00.10.1-0.2-0.30.3
Number of responses in last shaping day0.50.51.0-1.0-0.50.5