A single-cell transcriptomic dataset of enterocyte-specific HHEX knockdown in the Drosophila larval midgut

This project provides public access to all reproducible scripts, raw matrix, and annotated integrated matrices associated with the research publication, including the following: 1. Analysis Pipeline Scripts 00.geth5ad.py: Raw data preprocessing and conversion to AnnData format 01.qc.py: Quality control for single-cell data 02.scvi.py: Multi-library integration using the scVI algorithm 03.clu.py: Cell clustering and subpopulation annotation 04.cell_changes.py: Statistical analysis of cell abundance variations 2. Raw Data Files Ctrl-1.zip: Raw matrices for Control Sample 1 (barcodes.tsv.gz, features.tsv.gz, matrix.mtx.gz) Ctrl-2.zip: Raw matrices for Control Sample 2 (barcodes.tsv.gz, features.tsv.gz, matrix.mtx.gz) KD-1.zip: Raw matrices for Knockdown Sample 1 (barcodes.tsv.gz, features.tsv.gz, matrix.mtx.gz) KD-2.zip: Raw matrices for Knockdown Sample 2 (barcodes.tsv.gz, features.tsv.gz, matrix.mtx.gz) 3. Annotated Integrated Matrix NP1_HHEX_anno.h5ad: Integrated matrix in standard AnnData format 1. Cell type annotations: .obs['anno'] 2. Sample identifiers: .obs['samples'] 3. Raw expression matrix: .layers['counts_X']