Eatomics: Shiny Exploration of Quantitative Proteomics Data.

Area of Science:

• Proteomics
• Bioinformatics
• Data Science

Background:

• Quantitative proteomics data is rapidly expanding, increasing the need for accessible analysis tools.
• Many users analyzing proteomics data lack extensive programming experience.
• Complex experimental designs, particularly with tissue biopsies, add to analysis challenges.

Purpose of the Study:

• To develop a user-friendly application, Eatomics, for the exploration and analysis of quantitative proteomics data.
• To address the needs of researchers with limited programming skills in proteomics data interpretation.
• To integrate established quality control, differential abundance, and enrichment analysis workflows into a single platform.

Main Methods:

• Utilized the R Shiny framework to build the Eatomics application.
• Implemented key components of established proteomics analysis workflows.
• Developed an interactive experimental design module to translate research hypotheses into analysis formulas.

Main Results:

• Eatomics provides an accessible and user-friendly interface for quantitative proteomics data analysis.
• The application offers interactive exploration features for data visualization and interpretation.
• A unique module facilitates the setup of experimental designs, simplifying complex analyses.

Conclusions:

• Eatomics empowers researchers, especially those with less programming expertise, to conduct sophisticated quantitative proteomics analyses.
• The application democratizes access to advanced proteomics data interpretation tools.
• Eatomics supports the growing community of quantitative proteomics data analysts by providing an integrated solution.