The repository features Excel worksheets including all the data used through this work and reported in the manuscript figures and graphs. More precisely, we included the following: Figure 4. SHG intensity values measured from WT and KO murine spines counterparts, both in parallel and orthogonal light polarization with respect to the craniocaudal axis of the vertebrae. Figure 5A. Quantization of ColIa1 gene expression level after mRNA extraction from WT and Dpp3 KO mice. Figure 5B. Absorbance values at 540 nm after Sirius Red staining of primary osteoblast isolated from WT and Dpp3 KO neonatal calvaria, used to assess and compare the in-vitro collagen production of the two murine models. Figure 7. SRS intensity ratios measured between bone and bone marrow regions of WT and Dpp3 KO models, both at the 2850 cm-1 Raman mode of CH2 stretching in lipids and at the 2920 cm-1 Raman mode of CH3 stretching in proteins. Figure 8. Data of gene expression analysis of selected genes relevant for lipid transport, uptake, and metabolism (i.e., CD 36, Fabp4, Lrp1, Fatp1, PGC1, CPT1, Pex7 and Glut1), in the flushed bone of WT and Dpp3 KO mice.