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Figure 3 | BMC Bioinformatics

Figure 3

From: Robust computational reconstitution – a new method for the comparative analysis of gene expression in tissues and isolated cell fractions

Figure 3

Results for mixing experiment 2. Mean and standard deviation of the computed mRNA proportions of macrophages (macro), fibroblasts (fibro) and non-adherent cells (nadc) for the second mixing experiment as a function of the number of included genes. This experiment corresponds to Figure 2, except that the tissue expression profile was not obtained by preparing mRNA from the whole synovial tissue, but by mixing mRNA samples from the isolated cell fractions according to the relative proportions p M = 0.86, p F = 0.11, and p N = 0.03. These proportions were almost perfectly determined when no further normalization of the reconstituted tissue profile was performed (dashed curves): p M = 0.86, p F = 0.10, p N = 0.04. Applying additional stepwise normalization (lr) (solid curves) resulted in p M = 0.85, p F = 0.13, p N = 0.02. All proportions were determined at 4000 included genes.

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