Figure 2. Functional Enrichment Analysis of differentially expressed gene sets and expression of HIF1a across the BJ model in both oxygen conditions.

(A) Enrichment map showing significantly enriched GO terms among all 3,063 hDEGs. Nodes represent gene-sets and edges represent mutual overlap, grouping highly redundant gene-sets together as clusters. Here, node size corresponds to the number of genes within the gene-set and edge thickness corresponds to the number of genes that overlap between two connected gene-sets. Lists of included gene-sets are supplied in Supplementary Table 2. (B) Top three significantly enriched clusters based on the Gene Ontology domain Biological Function in DAVID, separated for up- and downregulated genes in hypoxia at each stage of the BJ model. Lists of included gene-sets are supplied in Supplementary Table 2. (C) Confocal images of the four cell lines in the model immunofluorescently stained with an antibody (HPA000907) targeting HIF1a in atmospheric oxygen and hypoxia. HIF1a expression is shown in green and microtubules (Tubulin) in red. White scale bar indicates 10 um. (D) Bar plot showing log₂ Fold Change for eight hDEGs involved in enriched functions. Only genes significantly differentially expressed in each stage respectively are included in the plots (p < 0.01, log₂FC > 1, TPM > 1).