Problem
This project uses a public DMD vs WT mouse RNA-seq dataset and turns raw sequencing inputs into a structured, reproducible computational biology workflow.
The pipeline is implemented in Nextflow DSL2 and designed for reproducibility, maintainability, and transparent computational reporting.
It processes single-end RNA-seq reads from raw FASTQ through quality control, trimming, transcript quantification, and final expression matrix generation for downstream comparative analysis.
Pipeline
Dataset Information
GEO: GSE156496
SRA: SRP278118
Biological context: WT vs DMD DeltaEx51 mouse tibialis anterior muscle RNA-seq
Analysis
Expression matrix generation for all samples
TPM-based comparison between WT and DMD groups
PCA and heatmap visualization for downstream transcriptomics analysis
TPM-based gene expression comparison for downstream review
Fully reproducible end-to-end workflow execution