m5C-Atlas

m5C-Atlas catalogs high-resolution RNA 5-methylcytosine (m5C) sites and annotates their conservation, genetic associations, structural context, and condition-specific methylation to support epitranscriptomic research.

Key Features:

• Extensive Data Collection: Compiles 166,540 m5C sites across 13 species identified using five base-resolution epitranscriptome profiling technologies.
• Condition-Specific Methylation Levels: Quantifies condition-specific methylation levels by integrating 351 RNA bisulfite sequencing samples from 22 studies via an integrative pipeline.
• Evolutionary Conservation: Provides evolutionary conservation annotations of m5C loci across species.
• Association with SNPs: Annotates associations between m5C sites and single nucleotide polymorphisms (SNPs).
• RNA Secondary Structure Relevance: Includes information on the relevance of m5C modifications to RNA secondary structures.
• Post-Transcriptional Mechanism Annotations: Includes annotations for RNA-binding protein (RBP) interactions, microRNA interactions, and splicing sites.

Scientific Applications:

• Regulatory Mechanism Analysis: Investigating how m5C influences nuclear export, RNA stability, and translation.
• Comparative Epitranscriptomics: Comparing conservation and distribution of m5C sites across 13 species.
• Genetic Association Studies: Linking m5C sites to SNPs to explore genetic influences on methylation patterns.
• Structure–Function Studies: Assessing impacts of m5C on RNA secondary structure and on post-transcriptional regulation mediated by RBPs, microRNAs, and splicing.

Methodology:

Sites were identified using five base-resolution epitranscriptome profiling technologies and methylation levels were quantified by an integrative pipeline across 351 RNA bisulfite sequencing samples from 22 studies.