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. 2020 Aug 5;12(9):e12104. doi: 10.15252/emmm.202012104

Figure 2. Signature open chromatin regions distinguish T‐cell developmental stages.

Figure 2

  • A
    Unsupervised hierarchical clustering based on the variance stabilizing transformation (VST) normalized read counts (each row is also normalized by the row mean) of the 2,021 signature open chromatin regions of 7 stages (see Fig EV2 for five stages).
  • B
    ATAC‐Seq genome tracks showing three signature peaks located near the genes SAE1, RAG1, and CD8A. Framed regions indicate cell‐type-specific signature ATAC‐Seq peaks. Blue triangles indicate known promoter or enhancer regions, which are annotated in the GeneHancer (GH) Regulatory Elements database (Fishilevich et al, 2017).
  • C
    Functional enrichment analysis of the signature OCRs allocated to three developmental groups by GREAT. Top five unique GO‐terms which have the lowest FDR q‐val are shown. In parenthesis: number of uniquely enriched GO‐terms / total number of enriched GO‐terms.