Hierarchical cluster analysis of gene expression patterns derived from the transgenic Lin^-Sca-1^hic-Kit^- population and the reconstituted CD41⁺c-Kit^- cells. Gene expression patterns of (A) transgenic Lin^-Sca-1^hic-Kit^- (D1 after cessation of GCV treatment) and (B) reconstituted CD41⁺c-Kit^- cells compared with the transcriptional expression profiles of different wt subpopulations, including HSC, myelomegakaryocytic cells (CMP, CD41⁺c-Kit⁺, CD41⁺c-Kit^-) and lymphoid B cells (CLP, Pro-B, B lymphocytes). All samples were hybridized independently on cDNA microarrays against total BM of wt animals as a common reference. Hierarchical clustering analysis of the 2474 genes showing significant expression within all the populations was performed with GeneSpring software using a Spearman correlation coefficient (separation ratio, 0.9; minimum distance, 0.001) and was visualized as trees. Tree branch lengths show relative degrees of analogy among cell populations. Each population is represented by a single column, and each gene is represented by a single row. The color designates the expression level compared to that of the reference as represented on the color bar.