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Fig. 3 | Journal of Neuroinflammation

Fig. 3

From: Ambient RNAs removal of cortex-specific snRNA-seq reveals Apoe+ microglia/macrophage after deeper cerebral hypoperfusion in mice

Fig. 3

The features of nuclei depleted by the decontamination treatment. Neun, neuron; MG/Immu, microglia and other immune cell; Ast, astrocyte; Ol, oligodendrocyte; OPC, oligodendrocyte precursor cell; FB, fibroblast; EndoOther, endothelial cell and other cell. A Sankey plots show the nuclei with changing annotation after the two-step decontamination treatment. B Tables show the count of nuclei before and after decontamination treatments in different cell types of the sham and BCAS groups. C t-SNE plots show the nuclei depleted in CellBender and subcluster cleaning treatments, respectively. D t-SNE plots show the nCount and nFeature of all nuclei. E Violin plots show the comparison of the nCount and nFeature in different cell types between NoRemove and CellBender cleaning. Retained, the nuclei retained after CellBender cleaning; CellBender depletion, the nuclei depleted after CellBender cleaning

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Journal of Neuroinflammation

ISSN: 1742-2094