Supplementary Figure 2: LM22 signature matrix and comparison to Abbas et al.

(a) Heat map of the LM22 signature matrix (Supplementary Table 1) depicting the relative expression of each gene across 22 leukocyte subsets. Gene expression levels were unit variance normalized, and cell subsets and genes were clustered hierarchically using Euclidean distance (higher expression, red; lower expression, blue). (b) Overlap between LM22 and a previously published signature matrix (GSE22886) with respect to genes, cell subsets, and expression arrays used. For gene overlap between Abbas et al. and LM22, we considered all Affymetrix probesets as ‘genes’, including those not resolvable to HUGO gene symbols (n = 36). For cell subset overlap, we only considered cell types profiled in GSE22886; this dataset contains 22 distinct phenotypes, and six were pooled into three phenotypes for incorporation into LM22, resulting in an overlap of 13 (for details, see Supplementary Table 1). (c) All-versus-all heat map of correlation coefficients (Pearson) comparing the reference profiles of each cell subset in LM22 (genes were normalized as described in Methods; same as Supplementary Table 1).

Reference (Main Text)

4. Abbas, A.R., Wolslegel, K., Seshasayee, D., Modrusan, Z. & Clark, H.F. PLoS One 4, e6098 (2009).