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Updated: Jul 15, 2025
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2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications
Published on: July 10, 2020
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SWAMNA: a comprehensive platform for analysis of nucleic acid modifications
Yixuan Xie1, Francisca N De Luna Vitorino1, Ye Chen1
1Department of Biochemistry and Molecular Biophysics, Washington University School of Medicine, St. Louis, Missouri, USA. bagarcia@wustl.edu.
Chemical Communications (Cambridge, England)
|October 3, 2023
Summary
A new SWATH analysis of modified nucleic acids (SWAMNA) platform identifies and quantifies RNA and DNA modifications. This mass spectrometry-based approach aids discoveries in nucleic acid therapeutics and characterization.
Area of Science:
- Biochemistry
- Analytical Chemistry
- Genomics
Background:
- Growing interest in nucleic acid therapeutics drives demand for advanced analytical methods.
- Current platforms for characterizing nucleic acid modifications are limited and not integrated.
- Mass spectrometry (MS) is a powerful tool for analyzing biomolecules, including modified nucleic acids.
Purpose of the Study:
- To develop a general, integrated mass spectrometry-based platform for identifying and quantifying both RNA and DNA modifications.
- To address the limitations of existing platforms for comprehensive nucleic acid modification analysis.
Main Methods:
- Development of a SWATH-based platform, termed SWATH analysis of modified nucleic acids (SWAMNA).
- Integration of the NuMo finder search engine for data analysis.
- Analysis of nucleic acid modifications in both native and permethylated forms.
Main Results:
- SWAMNA provides a unified approach for the identification and quantification of diverse nucleic acid modifications.
- The platform enables comprehensive characterization of both RNA and DNA modifications.
- NuMo finder facilitates analysis across different sample preparation methods.
Conclusions:
- SWAMNA offers a versatile and powerful tool for the analysis of modified nucleic acids.
- This platform will advance research in nucleic acid therapeutics and fundamental biology.
- SWAMNA is expected to accelerate discoveries related to the roles of nucleic acid modifications.
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