Fig. 3.

a Two dimensional embeddings of gene expression in YMC using PC2 and PC3 scores u _kj,k=2,3, (the list of genes is shown in Additional file 1: Table S1B). Black circle, red triangles, and green crosses represent genes extracted and gray circles represent other genes. Biological terms enriched in genes shown as black circles, red triangles and green crosses are available in columns Cluster_1, Cluster_2, and Cluster_3 in Additional file 4: Table S3, respectively. Colors correspond to clusters identified by K-means. Solid blue lines represent PC2 and PC3 loadings and broken blue lines represent the boundary between the three clusters. b Time dependence of PC2 (black) and PC3 (red) loadings u _kj,k=2,3