Projects and reanalyses of single-cell RNA sequencing datasets
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Notebook PBMC_3k_scRNA_seq: contains reanalysis of the publicly available Peripheral Blood Mononuclear Cells dataset. These are immune cells from human blood (e.g., T cells, B cells, NK cells, monocytes). Includes scRNA-seq workflows and testing pipelines (QC → normalization → clustering → annotation). Analysis was aimed at practicing cell type identification, dimensionality reduction (PCA, UMAP) and marker gene discovery.
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Notebook The_transcriptional_and_regulatory_identity_of-EPO_producing_cells_scRNA_seq: contains reanalysis of publicly available dataset from publication Kragesteen BK et all The transcriptional and regulatory identity of erythropoietin producing cells. Nat Med. 2023 May;29(5):1191-1200. Using single-cell RNA and ATAC sequencing, this study identifies a distinct kidney stromal population—termed Norn cells—as the main source of Epo in mice. This notebook works with the scRNA seq dataset from mice kidneys.