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ProteomicsRNA oligomers training set for the Pytheas scoring function
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 i...
ORGANISM(S): Escherichia coli 
2022-05-04 | PXD030435 | Pride
Training set Scoring function Rna Pytheas 
ProteomicsPytheas E. coli 16S rRNA sample analysis
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 i...
ORGANISM(S): Escherichia coli 
2022-05-04 | PXD030538 | Pride
16s Rna Ribosome Isotope labeling Pytheas 
ProteomicsPytheas S. cerevisiae tRNA sample analysis
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 i...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-05-04 | PXD030844 | Pride
Rna modifications Yeast Pytheas 
ProteomicsPytheas S. cerevisiae 18S rRNA sample analysis
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 i...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-05-04 | PXD030563 | Pride
Rna modifications Yeast Ribosome Pytheas 
ProteomicsPytheas SARS-CoV-2 spike protein mRNA sample analysis
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 i...
ORGANISM(S): Escherichia coli 
2022-05-04 | PXD030845 | Pride
Isotope labeling Sars-cov-2 spike protein Pytheas Mrna 
UnknownPytheas: a software package for the automated analysis of RNA sequences and modifications via tandem mass spectrometry.
Not available
S-EPMC9065004 | biostudies-literature
UnknownHorizontal gene transfer of the Pytheas sequence from Cuscuta to Orobanche via a host-mediated pathway.
Not available
S-EPMC12808232 | biostudies-literature
ProteomicsE.coli total RNA RNase T1 and A digests LC-MS/MS
Four open-source software suites for the analysis of oligonucleotide data from tandem MS have been reported. These tools are all based on matching theoretical spectral libraries generated by silico digestion. While some software publications have included simple comparisons with previously published...
ORGANISM(S): Escherichia coli 
2026-03-09 | PXD075396 | Pride
E.coli rna Oligonucleotide Lc-ms/ms 
ProteomicsE.coli total RNA digests higer-collision dissociation energies test in LC-MS/MS
Four open-source software suites for the analysis of oligonucleotide data from tandem MS have been reported. These tools are all based on matching theoretical spectral libraries generated by silico digestion. While some software publications have included simple comparisons with previously published...
ORGANISM(S): Escherichia coli 
2026-03-11 | PXD075509 | Pride
E.coli rna Hcd Oligonucleotide Lc-ms/ms 
ProteomicstRNA-Phe digest and ligation of signal enhancer sample analysis
Mass spectrometry analysis of RNA enables measurement and quantification of modifications with sequence context. Since mass spectrometry sensitivity is limited by poor ionization efficiences of RNA oligonucleotides, we developed a ligation based sample preparation approach to improve ionization of R...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2026-09-16 | PXD076675 | Pride
Lc-msms Rna modifications S. cerevisiae Pytheas 
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