MSConnect: Open-Source, End-to-End Platform for Automated Mass Spectrometry Data Management, Analysis, and
Xiaofeng Xie1, Parker S Reyes2, Hsien-Jung L Lin2
1MicrOmics Technologies, LLC, Spanish Fork, Utah 84660, United States.
Journal of Proteome Research
|February 28, 2025
Summary
MSConnect streamlines complex mass spectrometry proteomics data analysis. This integrated platform enhances workflow repeatability and automates steps from data collection to visualization for omics researchers.
Area of Science:
- Proteomics
- Bioinformatics
- Data Science
Background:
- Mass spectrometry-based proteomics data sets are growing in scale.
- Current analysis workflows involve multiple, often disparate, software programs.
- Manual data handling across these programs is error-prone, labor-intensive, and hinders reproducibility.
Purpose of the Study:
- To develop an integrated data management and analysis platform for mass spectrometry (MS)-based proteomics.
- To improve the simplicity, traceability, and repeatability of complex proteomics data processing workflows.
- To automate common backup and analysis steps from data collection to summarization and visualization.
Main Methods:
- Development of MSConnect, an integrated data management and analysis platform.
- Implementation of traceable processing workflows across multiple software programs.
- Design enabling seamless integration of third-party tools and custom workflow automation.
Main Results:
- MSConnect simplifies and makes traceable the processing of large-scale proteomics data.
- The platform automates common data handling, backup, and analysis steps.
- It enhances workflow repeatability and reduces manual labor and errors.
Conclusions:
- MSConnect provides a unified solution for managing and analyzing complex MS-based proteomics data.
- Its open nature fosters community integration of diverse tools and custom workflows.
- The platform has the potential to become a community-driven resource for omics researchers.
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