Bone: stiffness

Tags: Physiology · Bone

Project: r01_doug_adams

2 loci · 7 genes with independent associations · 212 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 chr5 151116412 151912508 1 1 1.15e-07 4.68e-05 8.47e-01 Tmco4
2 chr7 128200675 132528160 211 6 8.24e-09 2.97e-08 NaN Ccdc65 LOC102546778 LOC102548155 Mettl7a Slc11a2 Tmprss12

Pleiotropic Associations

Trait Chi2 ratio # genes+ # genes++ % genes++ Corr Corr P Genes
BMI with tail 5.04 42 0 0 1 1.23e-185 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Cacnb3 Ccdc65 Ccnt1 Cela1 Ddx23 Dhh Dnajc22 Faim2 Fkbp11 Kansl2 Letmd1 Lmbr1l LOC100362820 LOC102546778 LOC108351553 LOC108351554 LOC120093735 LOC120093830 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prph Rhebl1 Rnd1 Slc11a2 Slc48a1 Smagp Smarcd1 Spats2 Tmbim6 Tuba1a Tuba1b Tuba1c Zfp641
Body weight 5.76 70 32 457.1 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmco4 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Length without tail 7.64 45 0 0 1 0.00e+00 Adcy6 Asb8 Asic1 Bcdin3d C1ql4 Cacnb3 Ccdc65 Ccnt1 Ddn Ddx23 Dhh Dnajc22 Faim2 Fkbp11 Fmnl3 Kansl2 Kcnh3 Kmt2d Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC120093732 LOC120093830 LOC120093831 Mcrs1 Nckap5l Olr1877 Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc48a1 Spats2 Tmbim6 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b
Extensor digitorum longus weight 4.74 61 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102556302 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Zfp641
Tibialis anterior weight 4.56 3 0 0 1 4.95e-35 Letmd1 Mettl7a Slc11a2
Tibia length 7.23 60 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Kansl2 Kcnh3 Kmt2d Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093830 LOC120093831 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: apparent density 10.68 49 0 0 1 0.00e+00 Adcy6 Asb8 Asic1 Bcdin3d C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Ddn Ddx23 Dhh Dnajc22 Faim2 Fkbp11 Fmnl3 Kansl2 Kcnh3 Kmt2d Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351554 LOC120093732 LOC120093830 LOC120093831 Mcrs1 Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc48a1 Spats2 Tmbim6 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone surface 11.4 68 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone volume 9.61 65 0 0 1 0.00e+00 Adcy6 Aqp5 Asic1 Atf1 Bcdin3d Bin2 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: connectivity density 9.99 2 0 0 0 1.00e+00 Tuba1a Tuba1b
Bone: cortical area 10.61 29 0 0 1 7.88e-182 Adcy6 Asb8 Cacnb3 Ccdc65 Ccnt1 Ddx23 Dhh Fkbp11 Kansl2 Kcnh3 Kmt2d Lmbr1l LOC100362820 LOC102548155 LOC102556302 LOC120093732 LOC120093830 Olr1877 Pfkm Prkag1 Rhebl1 Rnd1 Senp1 Slc48a1 Tuba1a Tuba1b Tuba1c Wnt1 Zfp641
Bone: endosteal estimation 7.9 68 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: endosteal perimeter 7.58 40 0 0 1 1.34e-152 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 Cacnb3 Cela1 Csrnp2 Dip2b Dnajc22 Faim2 Kansl2 Kcnh3 Larp4 Letmd1 Lmbr1l LOC100362820 LOC102546778 LOC108351553 LOC108351554 LOC120093830 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Rnd1 Slc11a2 Slc48a1 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Zfp641
Bone: final force 10.77 68 0 0 1 0.00e+00 Adcy6 Aqp5 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: final moment 11.73 69 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: marrow area 7.8 62 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093830 LOC120093831 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: maximum force 14.57 69 22 314.3 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: maximum moment 15.7 69 55 785.7 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: minimum diameter 9.07 66 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: periosteal estimation 11.03 69 12 171.4 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Cox14 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Gpd1 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: periosteal perimeter 10.21 67 0 0 1 0.00e+00 Adcy6 Aqp5 Asb8 Asic1 Atf1 Bcdin3d Bin2 C1ql4 Cacnb3 Ccdc65 Ccnt1 Cela1 Cers5 Csrnp2 Ddn Ddx23 Dhh Dip2b Dnajc22 Faim2 Fkbp11 Fmnl3 Kansl2 Kcnh3 Kmt2d Larp4 Letmd1 Lima1 Lmbr1l LOC100362820 LOC102546778 LOC102548155 LOC102555574 LOC102556302 LOC103692978 LOC108351553 LOC108351554 LOC120093732 LOC120093735 LOC120093830 LOC120093831 LOC120093832 Mcrs1 Mettl7a Nckap5l Olr1877 Pfkm Prkag1 Prpf40b Prph Rhebl1 Rnd1 Senp1 Slc11a2 Slc48a1 Slc4a8 Smagp Smarcd1 Spats2 Tmbim6 Tmprss12 Tuba1a Tuba1b Tuba1c Wnt1 Wnt10b Zfp641
Bone: post-yield work 11.67 2 0 0 0 1.00e+00 Dip2b LOC100362820
Bone: trabecular number 9.79 2 0 0 0 1.00e+00 Tuba1a Tuba1b

Associations by panel

Tissue RNA modality # hits % hits/tests Avg chisq
Adipose alternative polyA 11 0.3 1.61
Adipose alternative TSS 8 0.2 1.6
Adipose gene expression 19 0.2 1.55
Adipose isoform ratio 7 0.2 1.5
Adipose intron excision ratio 4 0.1 1.48
Adipose mRNA stability 7 0.2 1.6
BLA alternative polyA 6 0.3 1.57
BLA alternative TSS 2 0.1 1.54
BLA gene expression 22 0.3 1.67
BLA isoform ratio 3 0.1 1.48
BLA intron excision ratio 6 0.2 1.51
BLA mRNA stability 8 0.3 1.6
Brain alternative polyA 11 0.3 1.54
Brain alternative TSS 1 0 1.55
Brain gene expression 24 0.2 1.57
Brain isoform ratio 8 0.1 1.58
Brain intron excision ratio 11 0.2 1.52
Brain mRNA stability 15 0.3 1.59
Eye alternative polyA 0 0 1.7
Eye alternative TSS 0 0 1.43
Eye gene expression 6 0.5 1.56
Eye isoform ratio 1 0.2 1.82
Eye intron excision ratio 2 0.2 1.54
Eye mRNA stability 1 0.3 1.43
IL alternative polyA 2 0.2 1.68
IL alternative TSS 0 0 1.48
IL gene expression 9 0.2 1.68
IL isoform ratio 1 0.1 1.54
IL intron excision ratio 1 0.1 1.58
IL mRNA stability 5 0.4 1.62
LHb alternative polyA 3 0.3 1.71
LHb alternative TSS 0 0 1.65
LHb gene expression 12 0.3 1.69
LHb isoform ratio 0 0 1.56
LHb intron excision ratio 1 0.1 1.53
LHb mRNA stability 5 0.4 1.61
Liver alternative polyA 3 0.1 1.5
Liver alternative TSS 4 0.1 1.56
Liver gene expression 18 0.2 1.55
Liver isoform ratio 6 0.2 1.49
Liver intron excision ratio 6 0.1 1.49
Liver mRNA stability 10 0.3 1.6
NAcc alternative polyA 5 0.2 1.55
NAcc alternative TSS 7 0.3 1.68
NAcc gene expression 19 0.2 1.62
NAcc isoform ratio 4 0.1 1.55
NAcc intron excision ratio 9 0.2 1.53
NAcc mRNA stability 12 0.4 1.67
OFC alternative polyA 4 0.4 1.62
OFC alternative TSS 3 0.4 1.87
OFC gene expression 9 0.2 1.64
OFC isoform ratio 0 0 1.52
OFC intron excision ratio 1 0.1 1.5
OFC mRNA stability 5 0.4 1.64
PL alternative polyA 8 0.2 1.5
PL alternative TSS 8 0.2 1.65
PL gene expression 26 0.3 1.64
PL isoform ratio 9 0.2 1.61
PL intron excision ratio 11 0.2 1.54
PL mRNA stability 10 0.3 1.6
pVTA alternative polyA 11 0.7 1.63
pVTA alternative TSS 6 0.5 1.58
pVTA gene expression 15 0.3 1.69
pVTA isoform ratio 6 0.3 1.57
pVTA intron excision ratio 4 0.1 1.61
pVTA mRNA stability 7 0.5 1.61
RMTg alternative polyA 0 0 1.41
RMTg alternative TSS 1 0.2 1.55
RMTg gene expression 5 0.3 1.64
RMTg isoform ratio 3 0.5 1.67
RMTg intron excision ratio 1 0.1 1.42
RMTg mRNA stability 4 0.6 1.66