miRBaseConverter

miRBaseConverter provides conversion and retrieval of miRNA names (IDs), accessions, sequences, species information, version history, and family assignments across miRBase releases as an R/Bioconductor package to harmonize miRNA annotations for comparative and reproducible analyses.

Key Features:

• Cross-version conversion: Convert miRNA names and accessions across all supported miRBase versions, including v22.
• Sequence and species retrieval: Retrieve precursor and mature miRNA sequences and associated species information.
• Version history tracking: Provide version history for miRNA entries across miRBase releases.
• Family assignment retrieval: Batch retrieval of miRNA family information for downstream analyses.
• Built-in version-resolved database: Include an internal, version-resolved miRNA database enabling mappings across miRBase releases.
• Batch processing: Enable fast batch processing of large miRNA lists for precursor and mature miRNAs across all species catalogued in miRBase.

Scientific Applications:

• Annotation harmonization: Harmonize miRNA annotations across datasets referencing different miRBase releases.
• Data integration and reproducibility: Support integration of datasets and reproduction of published results using consistent miRBase mappings.
• Comparative analyses: Compare miRNA identities, sequences, and family assignments across studies and miRBase versions.
• Functional analysis support: Provide miRNA family information required for downstream functional and pathway analyses.

Methodology:

Use an internal, version-resolved miRBase database to map and convert miRNA names, accessions, sequences, species information, version histories, and family assignments across miRBase releases, supporting batch processing of precursor and mature miRNAs.