A Galaxy of informatics resources for MS-based proteomics

Area of Science:

• Proteomics
• Bioinformatics
• Computational Biology

Background:

• Advances in mass spectrometry (MS) technologies necessitate robust bioinformatic resources for complex proteomic and multi-omic data analysis.
• Existing resources often lack the scalability, diverse analytical capabilities, and ease of adoption required for large-scale, compute-intensive applications.

Purpose of the Study:

• To highlight the Galaxy ecosystem as a solution for MS-based proteomics data analysis.
• To review the current capabilities and ongoing developments of Galaxy for proteomic informatics.
• To encourage wider adoption and community contribution to the Galaxy platform.

Main Methods:

• Review of the Galaxy ecosystem's features and tools relevant to MS-based proteomics.
• Discussion of community-driven maintenance and training resources.
• Exploration of emerging challenges and future developments in proteomic informatics within Galaxy.

Main Results:

• The Galaxy ecosystem offers a scalable, adaptable, and accessible computing environment with numerous open-source tools for MS-based proteomics.
• A global community actively maintains Galaxy software and provides training, empowering researcher-driven analyses.
• Galaxy serves as a crucial resource for biological and clinical studies utilizing MS-based proteomics.

Conclusions:

• The Galaxy ecosystem effectively addresses the need for comprehensive and accessible bioinformatic resources in MS-based proteomics.
• Ongoing developments aim to meet emerging challenges in proteomic informatics.
• Increased use of Galaxy and community contributions will further enhance its value for researchers and developers.