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 Bone mineral density and IGF-1 levels in F2 progeny from a C57BL/6J x C3H/HeJ intercross
  An intercross of C3H/HeJ and C57BL/6J was generated to identify quantitative trait loci for serum insulin-like growth factor-1 (IGF-1) levels and bone-related phenotypes. F2 females were tested for IGF-1 and analyzed for femur bone mineral density (BMD), strength, and geometry. For detailed protocols see Beamer et al 2001 and Rosen et al 2000.

  Excel files
  (descriptions and data)
    • Data_Description_B6xC3H_Beamer2001.xlsx  
  CSV files
  for loading into R/qtl
    • Beamer2001_B6xC3H_B37_Data.csv  
  Readme text files     • readme_Beamer2001txt.txt  
  (quality control plots)
    • QCReport_Beamer2001.pdf  

Initial release: Jan 2008            see the readme file for details.
Recent change: 02 Nov 2011 ... Updated map to build 37 sex-averaged cM; change the name of the map (from 'Shifman' to 'Cox' map) in description file; add QC report PDF file and please see readme file for details.

Reference Beamer WG, Shultz KL, Donahue LR, Churchill GA, Sen S, Wergedal JR, Baylink DJ, Rosen CJ. Quantitative trait loci for femoral and lumbar vertebral bone mineral density in C57BL/6J and C3H/HeJ inbred strains of mice. J Bone Miner Res. 2001 Jul;16(7):1195-206.   PMID:11450694   MGI

Rosen CJ, Churchill GA, Donahue LR, Shultz KL, Burgess JK, Powell DR, Ackert C, Beamer WG. Mapping quantitative trait loci for serum insulin-like growth factor-1 levels in mice. Bone. 2000 Oct;27(4):521-8.   PMID:11033447   MGI

Bouxsein ML, Uchiyama T, Rosen CJ, Shultz KL, Donahue LR, Turner CH, Sen S, Churchill GA, Müller R, Beamer WG. Mapping quantitative trait loci for vertebral trabecular bone volume fraction and microarchitecture in mice. J Bone Miner Res. 2004 Apr;19(4):587-99. Epub 2003 Dec 22.   PMID:15005846   MGI

Ackert-Bicknell CL, Karasik D, Li Q, Smith RV, Hsu YH, Churchill GA, Paigen BJ, Tsaih SW. Mouse BMD quantitative trait loci show improved concordance with human genome-wide association loci when recalculated on a new, common mouse genetic map. J Bone Miner Res. 2010 Aug;25(8):1808-20.   PMID:20200990   FullText   MGI

Other QTL Archive data sets that are also associated with above publication(s):
    Beamer_1999   Ishimori_2004   Wergedal_2006  

Acknowledgements Funding provided by NIH AR43618, AR45433, CA34196; and the U.S. Army (DAMD17-96-1-6306)

Progenitor strains C57BL/6J     C3H/HeJ
F2 intercross     Direction: (B6xC3H) F1 x (B6xC3H) F1
Population N=999  

Phenotype data collected           List order:

Age at testing: 16 wks.   Diet for all measurements was Autoclaved NIH-31 (6% fat, 18% protein, Ca:P 1:1, vitamin and mineral fortified); PMI Richmond, IN.  

body weight size and growth – body weight
bw   body weight [g]
bone – mineral density and content
femur_cort_BMD   femur, cortical shell volumetric bone mineral density [mg/mm3]
femur_tot_BMD   femur, total bone mineral density [mg/mm3]
femur_tot_vBMD   femur, total volumetric bone mineral density [g/cm3]
bone – morphology
femur_mid_tot_vol   femur, average bone volume (total, mid-diaphysis) [g/cm3]
femur_mid_cort_vol   femur, average cortical bone volume (mid-diaphysis) [g/cm3]
femur_pct_cort   femur, percent of total volume that is cortical bone [%]
femur_ratio   femur, surface area to tissue volume (index) [ratio]
femur_length   femur, length (condyles to rostral tip of greater trochanter) [mm]
femur_thickness   femur, average cortical thickness (mid-diaphysis) [mm]
femur_ML   femur, medial to lateral width (mid-diaphysis) [mm]
femur_AP   femur, anterior to posterior (rostral to caudal) width (mid-diaphysis) [mm]
femur_ML_AP   femur, ratio of medial-lateral (ML) to anterior-posterior (AP) [ratio]
trab_ratio   trabecular bone, surface area to volume (ratio) [ratio]
trab_thickness   trabecular bone, average thickness [mm]
trab_number   trabecular bone, average number [n]
trab_spacing   trabecular bone, average spacing [mm]
bone – strength
femur_load   femur, ultimate load [Ng/mL]
femur_energy   femur, energy to failure [N⋅mm]
femur_stiffness   femur, stiffness [N⋅mm]
femur_inertia   femur, cross-sectional moment of inertia [mm4]
femur_stress   femur, ultimate stress [N]
femur_tough   femur, elastic modulus (toughness) [N/mm2]
femur_break   femur, load at specimen failure (break point) [N]
endocrine – hormones
IGF1_adj   insulin-like growth factor 1 (serum IGF-1), normalized [ng/mL]



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