RnBeads

RnBeads analyzes genome-scale DNA methylation data to perform large-scale analysis and interpretation across assays such as whole-genome bisulfite sequencing, reduced representation bisulfite sequencing, and Infinium microarrays.

Key Features:

• Assay support: Processes whole-genome bisulfite sequencing (WGBS), reduced representation bisulfite sequencing (RRBS), Infinium microarrays, and other protocols yielding high-resolution DNA methylation data.
• Single-CpG resolution: Handles data at single-CpG resolution for high-resolution methylation analysis.
• Large-scale analysis: Performs large-scale analysis and interpretation of DNA methylation datasets.
• Report generation: Produces detailed hypertext reports summarizing analysis results.
• EWAS applicability: Provides analysis capabilities applicable to epigenome-wide association studies (EWAS).
• Biomarker discovery: Facilitates identification of epigenetic biomarkers in cancer cohorts.

Scientific Applications:

• Epigenome-wide association studies (EWAS): Supports analysis and interpretation of methylation patterns in EWAS contexts.
• Epigenetic biomarker discovery: Enables discovery of diagnostic or prognostic methylation biomarkers in cancer cohorts.
• Cross-protocol methylation analysis: Enables comparative analysis of methylation data generated by WGBS, RRBS, Infinium microarrays, and other high-resolution protocols.

Methodology:

Provides a workflow that processes WGBS, RRBS, and Infinium microarray data and generates detailed hypertext reports.