The Metabolomics Shared Resource (MeSR) housed at the University of Hawaiʻi Cancer Center (UHCC) provides high-quality service in a variety of MS-based metabolomics assays in a timely and cost-efficient manner. To maintain cutting edge technology, MeSR is developing an integrated quantitative protocol that enables large scale and accurate metabolomics analyses. MeSR holds one of the largest metabolite libraries in a metabolomics lab in the world. This reference standard library contains over 1,200 endogenous metabolites, including amino acids, organic acids, vitamins, amines, alcohols, steroids, fatty acids, carbohydrates, bile acids, and nucleic acids. MeSR continues to improve its analytical technology and capacity by developing a number of protocols that can quantitatively determine specific panels of metabolites in serum, urine, tumor tissue, and cell lysate samples of humans and other mammals. MeSR has multiple state-of-the-art TOF-MS systems, providing the highest sensitivity and specificity available for automated, high-throughput profiling, quantitation and speciation of mammalian and microbial metabolites, with automated data analysis software capable of handling large metabolomics and microbiome data. The Core has well-established protocols for translating GC-TOFMS data to microbial metabolite profiling and use UPLC-TQMS for targeted identification and quantitation of different panels of metabolites. Above all, the key strength of the MeSR is its technical expertise derived from >20 years of experience in developing metabolomics SOPs and software for global metabolite profiling, biomarker discovery, and highly specialized, cell-based metabolic pathway analysis.