Figure 6

Venn diagrams showing genes associated with intergenic CSSs and transcription factors SOX2, OCT4, and NANOG. (A) Overlap between CSS-associated genes and genes regulated by transcription factors SOX2, OCT4, and NANOG. The denominator of each fraction indicates the number of total genes, and the numerator indicates the number of genes that encode transcription factors. A total of 142 genes are both associated with intergenic CSSs and proximal to binding sites for the three transcription factors, and 82 of them encode transcription factors. (B) Genes associated with CSSs are classified as to whether they are adjacent to binding sites for SOX2, OCT4, and NANOG. Genes denoted with an asterisk are not transcription factor-encoding genes and the gene denoted with a question mark has unknown function. For most of the genes, only one of the associated intergenic CSSs could be bound by corresponding transcription factors, except for genes denoted with parenthesis within which the number indicates the number of associated CSSs that could be bound by corresponding transcription factors.