Figure 2: Gene expression profiling of hESCs transduced with transcription factors.

(a) Principal Component (PC) analysis of global gene expression demonstrates the differences in global gene expression in H1 hESCs transduced with indicated genes. The relative distance is collapsed to two PC1/PC2 and PC1/PC3 dimensions. hESC is non-transduced H1 hESCs control. (b) Heat map shows the expression of genes associated with HSC development, expansion and self-renewal in hESCs transduced with blood-inducing combinations and CD34⁺ cord blood cells. Gene expression is estimated in tpm values. (c,d) The Venn diagrams summarize the number of overlapping and selectively induced genes in hESCs transduced with ETV2, GATA2, TAL1, ETV2/GATA2, and GATA2/TAL1 TFs. Venn diagram shows differentially expressed genes as compared with control hESCs (posterior probability ≥0.99 as determined by EBseq analysis). There is a high overlap between ETV2 and GATA2-induced genes. TAL1 alone has little effect on gene expression; however, in combination with GATA2, TAL1 causes profound changes in the transcriptome. (e–i) The classification of genes induced by indicated combinations of factors into functional categories defined by Gene Ontology (GO) Term using DAVID programme. For GO analysis, each gene set was reduced to include only genes with tpm ≥10 in at least one sample. ETV2/GATA2 and GATA2/TAL1 show genes uniquely induced by two factors together as compared with single factor-transduced cells. The all (TAL1, ETV2/GATA2) or top ten (ETV2, GATA2, GATA2/TAL1) significantly overrepresented categories with FDR below 0.05 (computed according to Benjamini–Hochberg method) are shown.