Single-nucleus multiregion transcriptomic analysis of brain vasculature in Alzheimer’s disease - Nature Neuroscience

. Chromogenic RNAscope for ABCC9 and SLC6A1. Prefrontal cortex brain sections were sectioned at 20 µm , then stored at -80 °C. Sections were then prepared for RNAscope using the manufacturer’s instructions. Scale bar, 20 µm.. Quantification of SLC6A and ABCC9 double-positive cells per image. P value was calculated by t-test. Data are presented as mean values +/− standard deviation.. Additional images of collagen-4 immunohistochemistry. Scale bar, 20 µm..

Extended Data Fig. 8 Dynamics of cell-cell communications between vascular cell types and neuron/glial cells in AD.. Computational framework to infer cell-cell communications. For each cell type, a set of genes was clustered into a number of co-expressed modules. The pairwise Pearson correlation coefficient was calculated between modules for each pair of cell types.

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