🧬 Gene Expression Analysis: Prostate Cancer vs BPH

🔬 Project Overview

This project focuses on analyzing gene expression data from patients with prostate cancer and benign prostatic hyperplasia (BPH). We aim to identify differentially expressed genes and pathways that may contribute to the development and progression of prostate cancer.

📊 Key Features

• 🧪 Data preprocessing and quality control
• 📈 Differential expression analysis
• 🌳 Gene Ontology (GO) enrichment analysis
• 🛤️ Pathway enrichment analysis using Reactome

🚀 Getting Started

1. Clone this repository
2. Install required R packages
3. Run the main analysis script

📦 Dependencies

• maEndToEnd
• limma
• topGO
• ReactomePA
• clusterProfiler
• and more (see full list in the script)

📝 Analysis Steps

1. 📥 Data import and preprocessing
2. 🧹 Quality control and normalization
3. 🔍 Differential expression analysis
4. 🌐 GO enrichment analysis
5. 🧩 Pathway enrichment analysis

📊 Visualizations

• PCA plots
• Heatmaps
• Volcano plots
• GO and pathway enrichment plots

📚 Reference

This details of the analysis can be found via:

Gene expression analysis of patients with prostate cancer and benign prostatic hyperplasia

👥 Contributors

• [Mahdi Saeedi]