GARDEN-NET & ChAseR: 3D Chromatin Interaction Networks
Published:
This project involved the development of a comprehensive suite of tools for the representation and analysis of 3D genome architecture.
Key Contributions:
- GARDEN-NET (Web Tool): Built a web-based visualization platform that allows researchers to project genomic features onto pre-loaded chromatin interaction networks.
- ChAseR (R Package): Developed an R package to explore chromatin network topology and compute chromatin assortativity, highlighting associations between epigenomic features and 3D structure.
- Scientific Impact: Demonstrated the utility of these tools by analyzing human haematopoietic cells, leading to a publication in Nucleic Acids Research.
- Data Integration: Enabled the seamless integration of gene expression, DNA methylation, and histone modification data into 3D structural contexts.
Technologies: R, Shiny/Web Development, Network Analysis, Epigenomics, Bioinformatics.
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