Code for Mapping Pesticide-Induced Metabolic Alterations in Human Gut Bacteria

We developed custom R code to facilitate the processing and visualization of the UPLC-QE Orbitrap MS data obtained from the in vitro and in vivo experiments. The complete code for each step can be accessed. The customized R code encompasses the following analyses:
1) Metabolomics analysis for each bacteria strain in vitro.
2) Metabolomics summary for each pesticide in vitro.
3) Metabolomics analysis for all bacteria species and pesticides in vitro.
4) Lipidomics analysis for each bacteria strain in vitro.
5) Lipidomics summary for each pesticide in vitro.
6) Lipidomics analysis for all bacteria species and pesticides in vitro.
7) Correlation analysis between metabolites and Gip
This code provides a comprehensive toolkit for data analysis and facilitates the exploration of various aspects of the metabolomics and lipidomics datasets.