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RNA oligomers training set for the Pytheas scoring function

ABSTRACT: Mass spectrometry remains an important method for analysis of modified nucleosides ubiquitously present in cellular RNAs, in particular for ribosomal and transfer RNAs that play crucial roles in mRNA translation and decoding. Furthermore, modifications have effect on the lifetimes of nucleic acids in plasma and cells and are consequently incorporated into RNA therapeutics. To provide an analytical tool for sequence characterization of modified RNAs, we developed Pytheas, an open-source software package for automated analysis of tandem MS data for RNA. This dataset contains the 95 MS/MS spectra of 3-14 nts-long oligomers, used for the training and validation of Pytheas' scoring function.

INSTRUMENT(S): 6520 Quadrupole Time-of-Flight LC/MS

ORGANISM(S): Escherichia Coli

SUBMITTER: Luigi D'Ascenzo

LAB HEAD: James R. Williamson

PROVIDER: PXD030435 | Pride | 2022-05-04

REPOSITORIES: Pride

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Pytheas: a software package for the automated analysis of RNA sequences and modifications via tandem mass spectrometry.

D'Ascenzo Luigi L Popova Anna M AM Abernathy Scott S Sheng Kai K Limbach Patrick A PA Williamson James R JR

Nature communications 20220503 1

Mass spectrometry is an important method for analysis of modified nucleosides ubiquitously present in cellular RNAs, in particular for ribosomal and transfer RNAs that play crucial roles in mRNA translation and decoding. Furthermore, modifications have effect on the lifetimes of nucleic acids in plasma and cells and are consequently incorporated into RNA therapeutics. To provide an analytical tool for sequence characterization of modified RNAs, we developed Pytheas, an open-source software packa ...[more]

PMID: 35505047

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