Fig. 6

Differential expression of co-ordinately regulated genes relevant to erythroid expansion and terminal differentiation identified using SMART. a Standard hierarchical clustering analysis by Euclidean distance of the union of DE genes from all cells of origin, in all media, clustered by gene only, of all samples utilised in the study, regardless of medium type or cell-of-origin, to visualise clusters of robustly co-regulated genes. The colour bar on the left hand side denotes clusters of co-regulated genes. b Transcription factor binding site analysis of 1kb of genomic DNA sequence upstream of the TSS for genes in the DNA repair/cell-cycle cluster. Matches from MEME/TOMTOM analysis are depicted: upper panels are motifs from the database; lower panels are the enriched motif detected within cluster 20 from our SMART analysis. Vertical axes are scaled to 2 bits in all images, and horizontal axes show sequential bases in the relevant motifs. c Examples of genes in SMART cluster 1, important in autophagic processes, which are differentially expressed between AB-erythroblasts and hiPSC-erythroblasts during the last phases of differentiation