ptmRS protocols

ptmRS specifications


Unique identifier OMICS_06877
Name ptmRS
Alternative name phosphoRS
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Requirements Thermo Scientific Proteome Discoverer
Maintained Yes


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  • person_outline Thomas Koecher <>

Additional information

Publication for ptmRS

ptmRS IN pipelines

PMCID: 5702644
PMID: 29214152
DOI: 10.3389/fcell.2017.00097

[…] and tyrosine, isotopically heavy label (+ 8.04437) at peptide amino-termini and lysines, were searched as variable modifications. probability of phosphorylation site localization was determined by phosphors (taus et al., 2011). quantification of lc-ms/ms spectra was performed using masschroq (valot et al., 2011)., ck2α expression in hela-flp was induced by addition of doxycycline for 48 h, […]

PMCID: 4395114
PMID: 25867750
DOI: 10.1371/journal.ppat.1004826

[…] defined as 40 ppm and fragment ion tolerance was set to 0.30 da (ion trap ms/ms) and 0.02 da (ft ms/ms)[68]. search results were filtered to 1% false discovery rate (fdr) using precursor mass error. phosphors[69] was used to localize phosphorylation to amino acid residues using a fragment mass tolerance of 0.02 da, automatically considering neutral loss peaks for hcd and considering a maximum […]

ptmRS institution(s)
Research Institute of Molecular Pathology, Vienna, Austria

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