Proteomics

Dataset Information

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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): 6520A 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

Json Xml

Dataset's files

Source:
Action DRS
calibration_set.mgf Mgf
calibration_set_sequences.fasta Fasta
charges_MS1_calibration.txt Txt
charges_MS2_calibration.txt Txt
decoys_calibration_set.csv Csv
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Publications

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]

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