Regulatory Community Analysis for ChIA-PET

소개

Transforms ChIA-PET interaction data into structured chromatin networks to uncover the 3D architecture of the genome. By modeling protein binding sites as nodes and loops as edges, this skill performs community detection and centrality analysis to identify functional regulatory modules and critical hub anchors. It provides an automated workflow for bioinformaticians to visualize complex interactions between enhancers and promoters, facilitating the study of protein-mediated gene regulation and network rewiring across different experimental conditions.

주요 기능

• Constructs chromatin interaction networks from BED and BEDPE files
• Standardizes ChIA-PET peak data for automated network analysis
• Generates multi-page visual layouts for top regulatory modules
• Detects 3D regulatory communities using Louvain graph clustering
• 2 GitHub stars
• Prioritizes hub anchors through network centrality measurements

사용 사례

• Mapping enhancer-promoter clusters around disease-associated loci
• Comparing chromatin network rewiring between control and treated biological samples
• Identifying transcriptional hubs for protein factors like CTCF or RNAPII