Figure 5

Transcriptome-level comparison of in vitro and in vivo scar models. (a) Venn diagrams showing limited overlap in the DE probe set/gene set identified in scar VFFs compared with naïve cells (at P1), and the DE probe set/gene set identified in scarred VF mucosa compared with naïve mucosa. Fourteen genes were identified as DE in both experimental systems. (b) Summary of DE probes/genes identified in direct in vivo vs in vitro comparisons of naïve VFFs and naïve VF mucosa, and scar VFF and scarred VF mucosa. (c) Heat maps showing mean-centered log₂-expression data for the 6346 DE genes identified in naïve VFF vs naïve VF mucosa, and the 6700 DE genes identified in scar VFF vs scarred VF mucosa. DE genes are ranked by log₂ fold change (in vitro normalized to in vivo) along the vertical axis. The annotations indicate a subset of DE genes associated with wound healing, fibrosis and ECM that were highly upregulated in the in vitro, compared with in vivo, condition (log₂ fold change>3) for both naïve and scar comparisons. All experiments were performed with n=3–5 biological replicates per condition.