DirectRMDB

DirectRMDB catalogs and provides quantitative profiles of post-transcriptional RNA modifications detected by direct RNA sequencing (DRS) from Oxford Nanopore Technologies (ONT) to enable isoform-specific epitranscriptomic analysis.

Key Features:

• Modification coverage: Quantitative profiles of 16 types of RNA modifications across 904,712 modification sites.
• Species and studies: Aggregates data from 25 species compiled from 39 independent studies.
• DRS-based detection: Uses direct RNA sequencing (DRS) to interrogate individual transcripts without relying on selective chemical treatments or antibody immunoprecipitation.
• Isoform resolution: Supports isoform-specific identification and profiling of RNA modifications.
• Gene annotations: Integrates standard gene annotations for mapped modification sites.
• Post-transcriptional associations: Includes capabilities for post-transcriptional association analyses linking modification patterns to transcript features.

Scientific Applications:

• Epitranscriptome mapping: Enables mapping and quantitative profiling of RNA modifications across transcripts and isoforms.
• Cross-species comparison: Facilitates comparative epitranscriptomic analyses across 25 species.
• Isoform-specific regulation studies: Supports investigation of isoform-resolved roles of RNA modifications in transcript regulation.
• Post-transcriptional association analysis: Allows analysis of associations between RNA modification patterns and post-transcriptional processes.
• Disease and functional investigations: Provides data for examining potential links between RNA modifications and biological processes or diseases.

Methodology:

Compiles and quantifies modification sites and profiles identified from 39 independent direct RNA sequencing (DRS) studies produced with Oxford Nanopore Technologies (ONT), covering 16 modification types across 25 species.