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Fig. 10 | Molecular Neurodegeneration

Fig. 10

From: Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer’s disease: review, recommendation, implementation and application

Fig. 10

Cell-type deconvolution of the bulk RNA-seq data in the prefrontal cortex in the ROSMAP AD cohort. A The input of cell-type deconvolution analysis. The cell-type marker gene or scRNA-seq expression matrix was used to infer cell type fractions of the bulk RNA-seq datasets. B Cell-type fractions from the deconvolution analysis of 15 individuals from the ROSMAP database. Four different deconvolution methods were applied, including bulk RNA-seq based method (CIBERSORT) and single-cell-based methods (Bisque, MuSiC, and SCDC). The pink color indicates the cell type fractions estimated by the snRNA-seq experiment. C Evaluation of different deconvolution methods by comparing with the cell-type fractions from the snRNA-seq experiment. Two matrices were used to benchmark the tool performance: the Pearson correlation (top panel) and the root-mean-square deviation (RMSE, bottom panel)

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Molecular Neurodegeneration

ISSN: 1750-1326