MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays

• Main Authors: Abdel-Mageed, A. (Author), Aldape, K. (Author), Apolo, A. (Author), Berzofsky, J.A (Author), Camphausen, K. (Author), Cook, S. (Author), Cooks, T. (Author), Ghiran, I. (Author), Gorgens, A. (Author), Greten, T. (Author), Gulley, J.L (Author), Harris, C.C (Author), Ivanov, A.R (Author), Jacobson, S. (Author), Jones, J.C (Author), Kepley, J. (Author), Killingsworth, B. (Author), Lamszus, K. (Author), LeBlanc, A. (Author), Lee, M.-J (Author), Linehan, W.M (Author), Maeng, H.M (Author), Magana, S. (Author), Maire, C.L (Author), Marte, J. (Author), Merino, M.J (Author), Milosavljevic, A. (Author), Pleet, M.L (Author), Ricklefs, F.L (Author), Roth, M. (Author), Ruppin, E. (Author), Savage, J. (Author), Théry, C. (Author), Tkach, M. (Author), Traynor, T. (Author), Trepel, J.B (Author), Welsh, J.A (Author)
• Format: Article
• Language: English
• Published: Cell Press 2022
• Subjects: atlas; EV flow cytometry; liquid biopsy methods; multiplex; standardization
• Online Access: View Fulltext in Publisher
• ISBN: 26672375 (ISSN)
• DOI: 10.1016/j.crmeth.2021.100136

Extracellular vesicles (EVs) of various types are released or shed from all cells. EVs carry proteins and contain additional protein and nucleic acid cargo that relates to their biogenesis and cell of origin. EV cargo in liquid biopsies is of widespread interest owing to its ability to provide a retrospective snapshot of cell state at the time of EV release. For the purposes of EV cargo analysis and repertoire profiling, multiplex assays are an essential tool in multiparametric analyte studies but are still being developed for high-parameter EV protein detection. Although bead-based EV multiplex analyses offer EV profiling capabilities with conventional flow cytometers, the utilization of EV multiplex assays has been limited by the lack of software analysis tools for such assays. To facilitate robust EV repertoire studies, we developed multiplex analysis post-acquisition analysis (MPAPASS) open-source software for stitched multiplex analysis, EV database-compatible reporting, and visualization of EV repertoires. © 2022