MetaboAnalyst V5 was used to analyze the biochemical pathway enrichment using the metabolite abundance data sets obtained from the GC-MS analysis [11]. Enrichment analysis was performed based on the Kyoto Encyclopedia of Genes and Genomes (KEGG) and was used to investigate how groups of functionally related metabolites are significantly enriched that would potentially eliminate requirements of preselect compounds based on arbitrary cut-off thresholds. Identified metabolites were mapped against PubChem and KEGG identifiers. Pathway analysis was performed based on KEGG identifiers, where out-degree centrality was used for topology analysis, and Fisher’s Exact Test was used as enrichment method.
Do you have any questions about this protocol?
Post your question to gather feedback from the community. We will also invite the authors of this article to respond.