================================================================
This repository contains code for single-cell RNA and ATAC-Seq analysis of the MLL-AF9 leukemic model across different time points. The analysis is performed using Scanpy and Seurat/Signac.
- Data Import & Preprocessing: Loading datasets and filtering low-quality cells
- Doublet Removal: Identifying and removing doublets
- Cell Type Annotation: Assigning cell identities
- Cell Population Analysis: Investigating MSC and bone marrow cell populations
- Chromosomal Status Changes: Analyzing genomic alterations
- Cell-Cell Interaction Analysis: Studying intercellular communication
- Genome Modification & Processing: The genome was modified by introducing oncogenic fusion MLL-AF9 and human HNGFR receptor genes via retroviral expression. This modified genome was used for Cell Ranger processing to generate single-cell gene expression and chromatin accessibility data.
This repository provides a comprehensive workflow for exploring leukemic progression at the single-cell level.