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MODOMICS: a database of RNA modification pathways. 2017 update.

Pietro Boccaletto1, Magdalena A Machnicka1,2, Elzbieta Purta1

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This summary is machine-generated.

The MODOMICS database now offers expanded data on RNA modifications, including mass spectrometry, new tRNA sequence links, and updated information on modified ribonucleosides and enzymes. This resource aids research into RNA modification patterns and functions.

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Bioinformatics

Background:

  • RNA modifications are crucial for RNA function and stability.
  • Databases like MODOMICS are essential for organizing and accessing information on these modifications.
  • Previous versions of MODOMICS provided a foundation for RNA modification data.

Purpose of the Study:

  • To update and expand the MODOMICS database with new features and data.
  • To enhance the accessibility and utility of RNA modification information for researchers.
  • To integrate MODOMICS with other relevant biological databases.

Main Methods:

  • Incorporation of extended mass spectrometry and liquid chromatography data.
  • Development of machine-friendly unified abbreviations for modified nucleosides.
  • Linking human tRNA sequences to MINTbase for tRNA fragment exploration.
  • Inclusion of new bacterial and updated mammalian tRNA modification data.
  • Integration with the RNAcentral database.

Main Results:

  • The database now includes comprehensive mass spectrometry and liquid chromatography data for modified nucleosides.
  • New links to MINTbase facilitate the exploration of tRNA fragments.
  • A unified system for modified nucleoside abbreviations enhances machine readability.
  • The database features updated collections of mammalian and new bacterial tRNA modifications, including 19 newly identified ribonucleosides and 66 characterized proteins.

Conclusions:

  • The updated MODOMICS database provides a significantly enhanced resource for studying RNA modifications.
  • The new features improve data accessibility, machine readability, and integration with other sequence databases.
  • MODOMICS continues to be a vital hub for comprehensive RNA modification information.