EpiRegio

EpiRegio maps regulatory elements (REMs) and links chromatin accessibility variations to gene expression to characterize regulatory influences on protein-coding and non-protein coding genes across human primary cell types and tissues.

Key Features:

• Integration of Epigenomic and Gene Expression Data: Combines epigenomic data with gene expression profiles across human primary cell types and tissues to associate chromatin states with transcriptional output.
• Analysis of Regulatory Elements (REMs): Analyzes REMs for both protein-coding and non-protein coding genes, estimating element activity and cell type-specific contributions to target gene expression.
• Exploration of Genomic Regions: Enables examination of genomic regions for regulatory potential, including dissection of areas with overlapping REMs.
• Programmatic Access: Provides a REST API for automated querying and large-scale analyses.

Scientific Applications:

• GWAS Variant Interpretation: Facilitates interpretation of non-coding genomic variants from genome-wide association studies by linking variants to REMs and candidate target genes.
• Target Gene Identification: Supports identification and analysis of genes associated with REMs to elucidate regulatory relationships.
• Regulatory Mechanism Elucidation: Aids investigation of how variation in non-coding regions and chromatin accessibility contribute to changes in gene expression and influence phenotypic traits or disease states.

Methodology:

Integrates epigenomic and gene expression data, correlates variations in chromatin accessibility with changes in gene expression, estimates cell type-specific contributions of REMs to target gene expression, and examines overlapping REMs.