Figure S2.

Classification of Single-Cell Gene Expression Profiles, Related to Figure 2

(A) Hierarchical clustering of single-cell transcriptome profiles of 2-cell embryos (embryo numbers are indicated).

(B) Hierarchical clustering of single-cell transcriptome profiles of 4-cell embryos (branches are colored according to the cell type).

(C) Hierarchical clustering of single-cell transcriptome profiles of 8-cell embryos (branches are colored according to the cell type).

(D) Expression levels (as measured by scRNA-Seq) of genes that classify single cells of 8-cell embryos into three cell types.

(E) Hierarchical clustering of single-cell transcriptome profiles of 16-cell embryos (branches are colored according to the cell type).

(F) Expression levels (as measured by scRNA-Seq) of genes that classify five cell types in single cells of 16-cell embryos.

(G) SCECTION identifies five cell types in 16-cell embryos.The groups of two cells that inherit the maternal factors belong to the germ cell lineage and are transcriptionally silent at that stage.

(H) Hierarchical clustering of single-cell transcriptome profiles of 32-cell embryos (branches are colored according to the cell type determined by SCECTION).

(I) Hierarchical clustering of single-cell transcriptome profiles of 64-cell embryos (branches are colored according to the cell type determined by SCECTION).

(J) SCECTION applied to 29 single cells from an individual 32-cell embryo. SCECTION identified 8 cell types (SCEC.: SCECTION).

(K) Expression levels (as measured by scRNA-Seq) of genes that classify 8 cell types in 29 single cells of a single 32-cell embryo.

(L) Expression levels (as measured by scRNA-Seq) of genes that classify 17 cell types in 58 single cells of a single 64-cell embryo.