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. 2015 Oct 8;10(10):e0139520. doi: 10.1371/journal.pone.0139520

Fig 3. Coregulation of gene sets during myogenic differentiation as well as TNF-α and IGF1 treatment.

Fig 3

Self-organizing tree algorithm (SOTA) analysis of gene expression data within the first 72 h of differentiation as well as TNF-α and IGF1 treatment revealed the following clusters of gene sets: (A) cluster A contained 335 genes upregulated during very early differentiation and (B) cluster B comprised 351 genes upregulated during later differentiation. (C) Genes totaling 172, which were downregulated during very early differentiation, were summarized by cluster C. (D) Genes induced by TNF-α but suppressed during late myotubes were visualized by cluster C implying eight genes. (E) Cluster E included 40 genes specifically induced by TNF-α. (F) Forty genes downregulated later during differentiation were represented by cluster F. Gene identities and signal transduction pathway associations of genes within the individual SOTA clusters are depicted in S4 Table. Furthermore, clusters G, H, and I bear the minority of genes and are depicted in S2 Fig.