Gene expression profie at single cell level of immune cells from the deep cervical lymph nodes (dCLNs), superficial cervical lymph nodes (sCLNs), and inguinal lymph nodes (iLNs) of wild-type (WT) and Alzheimer's disease (AD) transgenic animals (5xFAD)

The dCLNs are lymph nodes specialized in draining cerebrospinal fluid (CSF). We used single cell RNA sequencing (scRNA-seq) to characterize the immune cell populations in the dCLNs compared to other draining lymph nodes. We compared the immune landscape of the dCLNs between healthy WT mice and 5xFAD mice to investigate the role of dCLNs immunity in AD progression. Additionaly, we sequenced the TCR and BCR transcripts to analyze the clonal distribution of T-cells and B-cells in each lymph node.