Bone: connectivity density

Tags: Physiology · Bone

Project: r01_doug_adams

2 loci · 2 genes with independent associations · 2 total associated genes

Significant Loci

# Chr Start pos End pos # assoc genes # joint models Best TWAS P Best GWAS P Cond GWAS P Joint genes
1 chr3 44152620 45549784 1 1 7.57e-09 2.75e-03 9.36e-04 Ly75
2 chr12 4284804 5681909 1 1 4.81e-08 1.95e-06 3.75e-28 LOC102549494

Pleiotropic Associations

Trait Chi2 ratio # genes+ # genes++ % genes++ Corr Corr P Genes
BMI with tail 2.41 2 0 0 0 1e+00 LOC102549494 Ly75
BMI without tail 3.94 1 0 0 0 1e+00 Ly75
Body weight 16.94 1 1 50 0 1e+00 LOC102549494
Epididymis fat weight 3.44 1 0 0 0 1e+00 Ly75
Glucose 3.95 1 0 0 0 1e+00 Ly75
Left kidney weight 12.19 1 1 50 0 1e+00 LOC102549494
Right kidney weight 11.9 1 1 50 0 1e+00 LOC102549494
Tail length 1.99 1 0 0 0 1e+00 LOC102549494
Length with tail 8.15 2 1 50 0 1e+00 LOC102549494 Ly75
Length without tail 14.66 2 1 50 0 1e+00 LOC102549494 Ly75
Liver weight, left 4.97 2 0 0 0 1e+00 LOC102549494 Ly75
Liver weight, right 8.1 1 0 0 0 1e+00 LOC102549494
Retroperitoneal fat weight 8.85 1 1 50 0 1e+00 Ly75
Extensor digitorum longus weight 1.63 2 0 0 0 1e+00 LOC102549494 Ly75
Tibialis anterior weight 3.42 2 0 0 0 1e+00 LOC102549494 Ly75
Tibia length 4.75 1 0 0 0 1e+00 LOC102549494
Number of licking bursts 7.94 1 0 0 0 1e+00 Ly75
Food consumed during 24 hour testing period 11.76 1 0 0 0 1e+00 Ly75
Mean num. licks in bursts 4.84 1 0 0 0 1e+00 Ly75
Water consumed over 24 hours 19.18 1 0 0 0 1e+00 Ly75
Patch foraging indifference point 0 sec 3.47 1 0 0 0 1e+00 Ly75
Patch foraging total patch changes 18 sec 13.09 1 0 0 0 1e+00 Ly75
Patch foraging water rate 0 sec 5.33 1 0 0 0 1e+00 LOC102549494
Locomotor activity 6.86 1 0 0 0 1e+00 Ly75
Locomotor testing distance 6.84 1 0 0 0 1e+00 Ly75
Locomotor testing rearing 4.53 1 0 0 0 1e+00 Ly75
Reaction time mean minus median 5.26 1 0 0 0 1e+00 Ly75
Reaction time mean minus median AUC 17.14 1 0 0 0 1e+00 Ly75
Reaction time mean 7.46 2 0 0 0 1e+00 LOC102549494 Ly75
Reaction time mean AUC 7.91 2 0 0 0 1e+00 LOC102549494 Ly75
Median of all reaction times 5.26 2 0 0 0 1e+00 LOC102549494 Ly75
Reaction time false alarm rate 4.06 1 0 0 0 1e+00 Ly75
Reaction time premature initiation rate 9.14 1 0 0 0 1e+00 Ly75
Reaction time premature initiations 4.53 1 0 0 0 1e+00 Ly75
Std. dev. reaction times 14.29 1 0 0 0 1e+00 Ly75
Cocaine response after cond. corrected 4.76 1 0 0 0 1e+00 Ly75
Cocaine response before conditioning 5.9 1 0 0 0 1e+00 Ly75
Condit. Reinf. active minus inactive responses 28.62 1 1 50 0 1e+00 Ly75
Condit. Reinf. active-inactive response ratio 11.56 1 0 0 0 1e+00 Ly75
Condit. Reinf. active responses 24.88 1 1 50 0 1e+00 Ly75
Condit. Reinf. lever presses 8.53 1 0 0 0 1e+00 Ly75
Condit. Reinf. lever reinforcers received 19.5 1 1 50 0 1e+00 Ly75
Pavlov. Cond. change in total contacts 11.21 1 0 0 0 1e+00 Ly75
Post-drug Anxiety 5.89 1 0 0 0 1e+00 LOC102549494
Locomotion velocity, session 1 6.3 1 0 0 0 1e+00 Ly75
Locomotion distance, session 3 14.48 1 0 0 0 1e+00 Ly75
Stereotopy head waving bouts, day 7 23.7 1 0 0 0 1e+00 Ly75
Stereotopy head waving duration, day 7 21.6 1 0 0 0 1e+00 Ly75
Degree of sensitization distance 10.32 1 0 0 0 1e+00 Ly75
Degree of sensitization stereotypy 38.66 1 1 50 0 1e+00 Ly75
Condit. Reinf. active minus inactive responses 16.76 1 0 0 0 1e+00 Ly75
Condit. Reinf. active-inactive response ratio 9.84 1 0 0 0 1e+00 Ly75
Condit. Reinf. active responses 13.63 1 0 0 0 1e+00 Ly75
Incentive salience index mean 15.42 1 0 0 0 1e+00 Ly75
Condit. Reinf. lever presses 3.87 1 0 0 0 1e+00 Ly75
Total zone transitions, hab. session 1 7.48 1 0 0 0 1e+00 Ly75
Total zone transitions, hab. session 2 19.52 1 0 0 0 1e+00 Ly75
Total locomotion distance, hab. session 2 24.97 1 1 50 0 1e+00 Ly75
Locomotion velocity, hab. session 2 19.99 1 1 50 0 1e+00 Ly75
Total zone transitions, NPP test 5.39 1 0 0 0 1e+00 Ly75
Total locomotion distance, NPP test 4.87 1 0 0 0 1e+00 Ly75
Locomotion velocity, NPP test 4.37 1 0 0 0 1e+00 Ly75
Pavlov. Cond. latency score 6.68 1 0 0 0 1e+00 Ly75
Bone: apparent density 20.85 2 1 50 0 1e+00 LOC102549494 Ly75
Bone surface 31.03 2 1 50 0 1e+00 LOC102549494 Ly75
Bone volume 27.16 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: cortical apparent density 18.66 1 0 0 0 1e+00 Ly75
Bone: cortical area 8.75 2 0 0 0 1e+00 LOC102549494 Ly75
Bone: cortical thickness 4.71 2 0 0 0 1e+00 LOC102549494 Ly75
Bone: cortical thickness 7.09 1 0 0 0 1e+00 Ly75
Bone: cortical tissue density 17.88 1 0 0 0 1e+00 Ly75
Bone: elastic work 10.45 2 0 0 0 1e+00 LOC102549494 Ly75
Bone: endosteal estimation 9.05 1 0 0 0 1e+00 Ly75
Bone: final force 20.18 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: final moment 26.06 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: marrow area 9.02 1 0 0 0 1e+00 Ly75
Bone: maximum diameter 4.34 2 0 0 0 1e+00 LOC102549494 Ly75
Bone: maximum force 13.15 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: maximum moment 16.89 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: minimum diameter 8.69 1 0 0 0 1e+00 Ly75
Bone: periosteal estimation 8.95 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: periosteal perimeter 5.86 2 0 0 0 1e+00 LOC102549494 Ly75
Bone: stiffness 8.72 1 0 0 0 1e+00 Ly75
Bone: trabecular number 25.07 2 1 50 0 1e+00 LOC102549494 Ly75
Bone: trabecular spacing 60.24 1 1 50 0 1e+00 Ly75
Bone: trabecular thickness 27.1 2 1 50 0 1e+00 LOC102549494 Ly75
Delta time in open arm before/after self-admin 6.02 1 0 0 0 1e+00 LOC102549494
Diff in mean of infusions in LGA sessions 4.9 1 0 0 0 1e+00 Ly75
Total heroin consumption 4.77 1 0 0 0 1e+00 LOC102549494
Total resting periods, locomotor time 1 5.85 1 0 0 0 1e+00 Ly75
Rest time, locomotor task time 1 12.3 1 0 0 0 1e+00 Ly75
Distance moved, locomotor task time 1 13.8 1 0 0 0 1e+00 Ly75
Bouts of movement, locomotor time 2 4.79 1 0 0 0 1e+00 LOC102549494
Rest time, locomotor task time 2 4.68 1 0 0 0 1e+00 Ly75
Vertical activity count, locomotor time 2 5.15 1 0 0 0 1e+00 LOC102549494
Weight adjusted by age 20.87 1 0 0 0 1e+00 Ly75
Locomotion in novel chamber 34.01 1 1 50 0 1e+00 Ly75
Locomotion in novel chamber post-restriction 4.28 1 0 0 0 1e+00 Ly75
Food seeking constrained by brief footshock 13.79 1 0 0 0 1e+00 Ly75
Seeking ratio, punishment vs. effort 5.27 2 0 0 0 1e+00 LOC102549494 Ly75
Run reversals in cocaine runway, females 21.72 1 0 0 0 1e+00 Ly75
Cd content in liver 5.1 1 0 0 0 1e+00 Ly75
Cu content in liver 8.78 1 0 0 0 1e+00 Ly75
Fe content in liver 8.81 2 0 0 0 1e+00 LOC102549494 Ly75
K content in liver 12.92 1 0 0 0 1e+00 Ly75
Mg content in liver 13.79 1 0 0 0 1e+00 Ly75
Mn content in liver 32.26 1 1 50 0 1e+00 Ly75
Na content in liver 12.24 1 0 0 0 1e+00 Ly75
Rb content in liver 4.86 1 0 0 0 1e+00 Ly75
Sr content in liver 14.16 1 0 0 0 1e+00 Ly75
Zn content in liver 12.81 1 0 0 0 1e+00 Ly75

Associations by panel

Tissue RNA modality # hits % hits/tests Avg chisq
Adipose alternative polyA 0 0 1.56
Adipose alternative TSS 0 0 1.63
Adipose gene expression 0 0 1.57
Adipose isoform ratio 0 0 1.57
Adipose intron excision ratio 0 0 1.51
Adipose mRNA stability 1 0 1.55
BLA alternative polyA 0 0 1.65
BLA alternative TSS 0 0 1.56
BLA gene expression 0 0 1.61
BLA isoform ratio 0 0 1.53
BLA intron excision ratio 0 0 1.57
BLA mRNA stability 0 0 1.56
Brain alternative polyA 0 0 1.59
Brain alternative TSS 0 0 1.63
Brain gene expression 0 0 1.56
Brain isoform ratio 0 0 1.56
Brain intron excision ratio 0 0 1.57
Brain mRNA stability 0 0 1.53
Eye alternative polyA 0 0 1.7
Eye alternative TSS 0 0 1.47
Eye gene expression 0 0 1.59
Eye isoform ratio 0 0 1.52
Eye intron excision ratio 0 0 1.76
Eye mRNA stability 0 0 1.7
IL alternative polyA 0 0 1.58
IL alternative TSS 0 0 1.53
IL gene expression 0 0 1.56
IL isoform ratio 0 0 1.4
IL intron excision ratio 0 0 1.7
IL mRNA stability 0 0 1.54
LHb alternative polyA 0 0 1.61
LHb alternative TSS 0 0 1.53
LHb gene expression 1 0 1.57
LHb isoform ratio 0 0 1.57
LHb intron excision ratio 0 0 1.67
LHb mRNA stability 0 0 1.56
Liver alternative polyA 0 0 1.72
Liver alternative TSS 0 0 1.53
Liver gene expression 0 0 1.56
Liver isoform ratio 0 0 1.59
Liver intron excision ratio 0 0 1.52
Liver mRNA stability 0 0 1.55
NAcc alternative polyA 0 0 1.6
NAcc alternative TSS 0 0 1.54
NAcc gene expression 0 0 1.58
NAcc isoform ratio 0 0 1.53
NAcc intron excision ratio 0 0 1.55
NAcc mRNA stability 0 0 1.55
OFC alternative polyA 0 0 1.55
OFC alternative TSS 0 0 1.56
OFC gene expression 0 0 1.55
OFC isoform ratio 0 0 1.5
OFC intron excision ratio 0 0 1.66
OFC mRNA stability 0 0 1.64
PL alternative polyA 0 0 1.61
PL alternative TSS 0 0 1.65
PL gene expression 0 0 1.57
PL isoform ratio 0 0 1.58
PL intron excision ratio 0 0 1.6
PL mRNA stability 0 0 1.59
pVTA alternative polyA 0 0 1.63
pVTA alternative TSS 0 0 1.63
pVTA gene expression 0 0 1.55
pVTA isoform ratio 0 0 1.52
pVTA intron excision ratio 0 0 1.63
pVTA mRNA stability 0 0 1.56
RMTg alternative polyA 0 0 1.92
RMTg alternative TSS 0 0 1.42
RMTg gene expression 0 0 1.6
RMTg isoform ratio 0 0 1.54
RMTg intron excision ratio 0 0 1.57
RMTg mRNA stability 0 0 1.58