R-loopBase

R-loopBase provides an integrated knowledgebase of genome-wide R-loop mapping data and curated regulatory information to define human R-loop zones and support studies of R-loop formation, regulation, and disease associations.

Key Features:

• Systematic Integration of Data: Integrates 107 high-quality genome-wide R-loop mapping datasets generated by 11 distinct technologies to establish a reference set of human R-loop zones with high-confidence localization.
• Comprehensive Regulatory Network: Uses literature mining and multi-omics analyses to curate R-loop regulatory proteins across multiple species and to annotate their targeted R-loops, enabling mapping of global regulatory relationships relevant to cancers and neurological disorders.
• Functional Genomic Annotations: Incorporates billions of functional genomic annotations to contextualize R-loops and their regulators within genomic features for downstream analysis.

Scientific Applications:

• R-loop localization and characterization: Use the reference human R-loop zones to investigate genomic features associated with R-loop formation and localization.
• Regulatory network analysis: Analyze curated R-loop regulatory proteins and their targets to elucidate regulatory mechanisms across species.
• Disease association studies: Explore potential links between R-loop regulation and disease mechanisms, including cancers and neurological disorders.

Methodology:

Integration of 107 genome-wide R-loop mapping datasets from 11 technologies; literature mining and multi-omics analyses to curate R-loop regulatory proteins and their targeted R-loops; incorporation of billions of functional genomic annotations.