spatzie

spatzie identifies significantly co-enriched motif pairs from enhancer-promoter interaction data.

Key Features:

• Co-enrichment analysis: Identifies motifs that are significantly co-enriched from enhancer-promoter interaction data.
• Flexible anchor support: Supports co-enrichment analysis between preprocessed interaction anchors in addition to enhancer-promoter annotation.
• Multiple assay compatibility: Supports BEDPE interaction data derived from genome-wide assays such as HiC, ChIA-PET, and HiChIP.
• Differential analysis: Can identify differentially enriched motif pairs between two interaction experiments.

Scientific Applications:

• Enhancer-promoter interaction analysis: Identifies co-enriched motif pairs from enhancer-promoter interaction data to understand regulatory element communication.
• Chromatin interaction motif discovery: Detects enriched motif pairs from chromatin interaction data generated by HiC, ChIA-PET, and HiChIP assays.
• Comparative interaction analysis: Identifies differentially enriched motif pairs between two interaction experiments to reveal condition-specific regulatory mechanisms.

Methodology:

spatzie performs co-enrichment analysis on BEDPE interaction data, using enhancer-promoter annotation or preprocessed interaction anchors to define groups of interaction anchors.