SPA: A Quantitation Strategy for MS Data in Patient-derived Xenograft Models.

ABSTRACT: With the development of mass spectrometry (MS)-based proteomics technologies, patient-derived xenograft (PDX), which is generated from the primary tumor of a patient, is widely used for the proteome-wide analysis of cancer mechanism and biomarker identification of a drug. However, the proteomics data interpretation is still challenging due to complex data deconvolution from the PDX sample that is a cross-species mixture of human cancerous tissues and immunodeficient mouse tissues. In this study, by using the lab-assembled mixture of human and mouse cells with different mixing ratios as a benchmark, we developed and evaluated a new method, SPA (shared peptide allocation), for protein quantitation by considering the unique and shared peptides of both species. The results showed that SPA coul

SUBMITTER: Cheng X 

PROVIDER: S-EPMC9040016 | biostudies-literature | 2021 Aug

REPOSITORIES: biostudies-literature