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The aim is to develop an accessible tool for analyzing multiplex substrate profiling data generated by mass spectrometry.

January 26, 2026BMC BioinformaticsOpen Access

mspms: an R package and GUI for multiplex substrate profiling by mass spectrometry

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The aim is to develop an accessible tool for analyzing multiplex substrate profiling data generated by mass spectrometry.
Developed an R package named mspms for data analysis.
Created a graphical user interface to enhance usability.
Standardized workflows for data preparation, processing, and visualization.
Validated the tool using data from four cathepsins (A–D).
Mspms effectively captures the substrate specificities of proteolytic enzymes.
Demonstrated reliable performance in analyzing complex mass spectrometry datasets.
Integrated functionalities for preprocessing, normalization, statistical testing, and visualization.

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This tool simplifies the analysis of multiplex substrate profiling in protease research, indicating enhanced accessibility for various users.

Bayne et al. (2026) studied this question.

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This tool simplifies the analysis of multiplex substrate profiling in protease research, indicating enhanced accessibility for various users.