Fig. 7

Functional analysis of genes differentially expressed in organoids grown at different media compositions. Analyses for organoids grown in +ND, +NF, and +NFD media were referenced to expression in +N media. a Dot plot visualizing gene ontology (GO) overrepresentation results for upregulated genes. Unique GO terms identified for each condition are labeled (a fully labeled plot is provided in Fig. S4a). The color and size of the dots indicate the P-value and gene ratio of each representative GO term, respectively. Enrichment maps of skin development-related GO terms for +ND (b) and +NFD (c) media. The color and size of the dots indicate the P-value and gene number of each representative GO term, respectively. The thickness of the solid lines linking the dots represents the number of genes shared between two GO terms. d A gene network of extracellular matrix-, odontogenesis-, and skin epidermis development-related GO terms (large dots) and related genes upregulated in the organoids cultured in the +NFD medium. The size of the open dots indicates the number of genes found in each term. Upregulated genes related to each term are visualized as closed dots. The color of the small dots represents the fold change in gene expression