Curated miRNA alias lookup table (miRBase v22.1) — mirna_alias

Returns a data.frame with one row per canonical mature miRNA and columns for the primary mature miRNA name, MIMAT accession, optional precursor MI accession, and a semicolon-separated list of known alternate identifiers. The table covers the ~92 high-priority circulating miRNAs used in the OmicSelector single-sample scoring bank: all members of ws_default_sbp and ws_default_pivot_pool, the five canonical haemolysis markers, the Mitchell 2008 / miRBiT panel members, and frequently-deposited Toray / FirePlex identifiers.

Usage

mirna_alias_table()

Value

A data.frame with columns:

mirna_name: Canonical mature miRNA name (miRBase v22.1), e.g. "hsa-miR-451a".
mimat: Primary MIMAT accession, e.g. "MIMAT0001631".
mimat_pre: Precursor MI accession (character; NA when not unambiguously resolvable to a single mature arm).
aliases: Semicolon-separated list of alternate identifiers including legacy names, abbreviated forms, and platform-specific probe name stems.

Details

MIMAT accessions are taken from miRBase v22.1 (released March 2018). Aliases include: legacy names from earlier miRBase releases, Affy probe ID stems, Agilent probe name stems, and common shortened forms encountered in published GEO depositions. This table is frozen at package build time; downstream callers that need fresher annotations should supply a custom table via the table argument of resolve_mirna_aliases.

References

Kozomara A., Birgaoanu M., Griffiths-Jones S. (2019) miRBase: from microRNA sequences to function. Nucleic Acids Research 47(D1): D155–D162. DOI: doi:10.1093/nar/gky1141

Examples

tbl <- mirna_alias_table()
nrow(tbl)                                # number of curated miRNAs
#> [1] 88
tbl[tbl$mimat == "MIMAT0001631", ]       # hsa-miR-451a row
#>     mirna_name        mimat mimat_pre                                  aliases
#> 1 hsa-miR-451a MIMAT0001631 MI0001729 miR-451;hsa-miR-451;miR451a;MIMAT0001631