miRBaseConverter

miRBaseConverter is an R package that integrates the latest miRBase version 22 available in Bioconductor and provides a suite of functions for converting and retrieving miRNA information (name, accession, sequence, species, version, and family) in different miRBase versions. The package includes a built-in database for querying miRNA information in all species and is the first tool for batch querying the miRNA family information. It also includes a Shiny-based GUI for non-R users, available as a standalone application and a web application. The package aims to provide a comprehensive and easy-to-use tool for miRNA research community, allowing researchers to utilize published miRNA data from different sources.

Topic

Functional, regulatory and non-coding RNA;Microarray experiment

Detail

  • Operation: Query and retrieval

  • Software interface: Library

  • Language: R

  • License: GNU General Public License, version 2

  • Cost: Free

  • Version name: 1.22.0

  • Credit: Australian Research Council Discovery Project, the National Health and Medical Research council, Presidential Foundation of Hefei Institutes of Physical Science, Chinese Academy of Sciences, National Natural Science Foundation of China, Applied Basic Research Foundation of Science and Technology of Yunnan Province, Shanghai Key Laboratory of Intelligent Information Processing, China.

  • Input: -

  • Output: -

  • Contact: taosheng.x@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • miRBaseConverter: an R/Bioconductor package for converting and retrieving miRNA name, accession, sequence and family information in different versions of miRBase.
  • Xu T, et al. miRBaseConverter: an R/Bioconductor package for converting and retrieving miRNA name, accession, sequence and family information in different versions of miRBase. miRBaseConverter: an R/Bioconductor package for converting and retrieving miRNA name, accession, sequence and family information in different versions of miRBase. 2018; 19:514. doi: 10.1186/s12859-018-2531-5
  • https://doi.org/10.1186/s12859-018-2531-5
  • PMID: 30598108
  • PMC: PMC6311916

Download and documentation

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