Fig. 3: Selected pathway enrichments run for differentially abundant molecules for each -omic.
Each dot indicates an enrichment of a pathway for a particular -omic; its size indicates the −log10FDR of the enrichment (a larger dot indicates a smaller adjusted P value) and the color indicates the median log2FC. a, Enrichment analyses for the transcriptome and proteome (separately) were performed using IPA and upregulated and downregulated molecules were enriched separately, although only downregulated enrichments were significant. Pathways were selected that reflected strong agreement between the proteome and transcriptome and were distributed across a variety of cellular and molecular functions relevant to CRC. b, Enrichment analysis for the lipidome and metabolome used the CPDB and MSEA tools rather than IPA and, similarly to the transcriptome and proteome, selected pathways spanning a variety of molecular and cellular functions relevant to CRC were selected (for example, arachidonic acid). Enrichments were performed with all differential molecules and pathways were deemed upregulated and downregulated according to the median log2FC of the enriched molecules. E1, estrone; CA, caffeine; ALA, alpha-linolenic acid; LA, linoleic acid; PL, phospholipid; S, sphingosine; HcyH, homocysteine; Met, methionine; [Hypo]Taurine, taurine and hypotaurine.
