epiRomics

epiRomics integrates ChIP, histone modification, ATAC-seq, and RNA sequencing data to identify and characterize enhancer regions and regulatory networks in epigenomic studies.

Key Features:

• Multi-Omics Integration: Integrates Chromatin Immunoprecipitation (ChIP), histone modification data, ATAC-seq, and RNA sequencing to combine epigenomic and transcriptomic evidence.
• Enhancer Identification: Infers enhancer regions by combining ChIP and histone modification datasets.
• Regulatory Network Analysis: Identifies and characterizes enhanceosome regions and regulatory interactions among genomic elements.
• Data Co-occurrence Analysis: Detects co-occurrences between enhancer regions and other datasets, including chromatin accessibility (ATAC-seq) and gene expression (RNA-seq).
• High-Resolution Visualization: Produces high-resolution visualizations of integrated epigenomic data and identified regulatory regions.

Scientific Applications:

• Gene Regulation Studies: Correlates enhancer activity with gene expression to study transcriptional regulation mechanisms.
• Epigenetic Mechanism Analysis: Characterizes histone modification and chromatin accessibility patterns associated with regulatory elements.
• Development and Disease Research: Applies integrated epigenomic profiles to investigate regulatory changes in development and disease progression.
• Environmental Response Studies: Examines epigenomic alterations and regulatory element activity in response to environmental stimuli.

Methodology:

Combines ChIP and histone modification datasets with ATAC-seq and RNA sequencing to infer enhancer regions and analyze their co-occurrence with chromatin accessibility and gene expression.