Fig. 6

Genome-wide transcriptional responses during fate bifurcation events. A Log2 scaled expression levels (read counts corrected for sequencing depth) of differentially expressed transcription factors in “trios.” For each heatmap, the left column represents the parent cell type, the middle column is the “induced” sibling cell type, and the right column is the “uninduced” cell type. Color maps are scaled to each heatmap (See also supplemental table 4). Dot size represents the percent of cells expressing each gene as in Fig. 4D. B Different mechanisms of changes in expression level that lead to upregulation in daughter #1 compared to daughter #2, and percentages observed of each mechanism in our “trios.” C A simple “induction metric” (see text and methods) can be used to predict FGF sensitivity. Green = U0126 insensitive cell types by chi-square test, Red = U0126 sensitive cell types by chi-square test, Blue = untestable cell types by chi-square test (corresponds to Fig. 4B). D Distances between sibling cell types in gene expression space for each bifurcation occurring at the 64-cell stage. E Distances between sibling cell types in gene expression space for all bifurcations occurring at each stage (Germ lineage not included). F The expression level over time of TFs that are differentially upregulated in the endoderm, mesenchyme, muscle, and notochord lineages compared to their sibling cell types. Dot size represents the percent of cells expressing each gene