Proteomics

Dataset Information

0

Pytheas E. coli 16S rRNA sample analysis

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 analysis of 14N and 15N-labeled 16S RNA from E. coli, including all the known RNA modifications (excluding pseudouridines). The analysis has been performed using three different protocols and instruments: Agilent Q-TOF, Waters Synapt G2-S, and Thermo Scientific Orbitrap Fusion Lumos.

INSTRUMENT(S): 6520A Quadrupole Time-of-Flight LC/MS, Orbitrap Fusion Lumos, Synapt MS

ORGANISM(S): Escherichia Coli

SUBMITTER: Luigi D'Ascenzo  

LAB HEAD: James R. Williamson

PROVIDER: PXD030538 | Pride | 2022-05-04

REPOSITORIES: pride

Json Xml

Dataset's files

Source:
Action DRS
16S_ecoli.fasta Fasta
Digest_16S_ecoli_16_40_seqx.txt Txt
Lumos_Orbi.mgf Mgf
QTOF.mgf Mgf
Synapt_G2S.mgf Mgf
Items per page:
1 - 5 of 9
altmetric image

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]

PMID: 35505047

Publication: 1/2

Similar Datasets

Proteomics Pytheas S. cerevisiae 18S rRNA sample analysis
2022-05-04 | PXD030563 | Pride
Proteomics Pytheas SARS-CoV-2 spike protein mRNA sample analysis
2022-05-04 | PXD030845 | Pride
Proteomics Pytheas S. cerevisiae tRNA sample analysis
2022-05-04 | PXD030844 | Pride
Proteomics RNA oligomers training set for the Pytheas scoring function
2022-05-04 | PXD030435 | Pride
Proteomics Annotation of the genes responsible for helix 69 rRNA modifications in 23S of Bacillus subtilis.
2024-08-06 | PXD051518 | Pride
Proteomics Complete list of canonical post-transcriptional modifications in Bacillus subtilis ribosome.
2024-08-06 | PXD050367 | Pride
Proteomics Quantitative proteomic comparison between wild type Col and acinus-2 pinin-1 mutant using 15N metabolic labeling
2022-02-04 | PXD030081 | Pride
Proteomics Cathepsin B Promotes Aβ Proteotoxicity by Modulating Aging Regulating Mechanisms
2024-09-04 | PXD045561 | Pride
Proteomics Quantitative proteomic comparison between wild type Col and sec-5 mutant using 15N metabolic labeling
2022-02-04 | PXD030575 | Pride
Proteomics A type 2C protein phosphatase activates high-affinity nitrate uptake by directly dephosphorylating NRT2.1 in Arabidopsis
2021-03-02 | PXD022343 | Pride