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Fig. 3 | BMC Bioinformatics

Fig. 3

From: Bulk brain tissue cell-type deconvolution with bias correction for single-nuclei RNA sequencing data using DeTREM

Fig. 3

Deconvolution accuracy assessment using 69 matched IHC and ROSMAP bulk RNA-seq samples of the ROSMAP. ell-type fraction estimates from seven bulk RNA-seq deconvolution runs are plotted against cell marker IHC measurements from matched samples in the left panel. Each column shows a different deconvolution method: MuSiC, MuSiC its “C” and “N” parameters, SCDC, CIBERSORTx, and DeTREM. IHC measurements are scaled linearly from zero to one. Neuron (NEU) estimates are obtained by adding glutamatergic and GABAergic neuron percentages. A linear model trend line is shown for each plot. The right panel shows Pearson’s correlations between cell type percentage estimates and IHC measurements for non-zero estimates. The proportion of non-zero estimates are indicated in parentheses. These values were averaged for each method and shown in the bottom row

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BMC Bioinformatics

ISSN: 1471-2105

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