Systematic Comparison of Bone Proteome Extraction Methods to Allow for Integrated Proteomics-Metabolomics Correlation.

ABSTRACT: Bone tissue poses significant challenges for proteomic analysis due to its dense, mineral-rich matrix and predominance of collagen, overshadowing low-abundance proteins critical for understanding bone physiology during LC-MS/MS-based proteomic analysis. In this study, we present a rapid sequential two-step extraction protocol designed to enhance proteome coverage, reduce collagen interference without using collagenase, and ensure robust quantification while enabling simultaneous metabolome analysis. We systematically compared it with two previously reported methods, which attempt to reduce collagen content through enzymatic collagen digestion or by employing four sequential extractions. Performance was evaluated based on reproducible protein quantification, variance, collagen content, proc

SUBMITTER: Wiltzsch V 

PROVIDER: S-EPMC12418499 | biostudies-literature | 2025 Sep

REPOSITORIES: biostudies-literature