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The ether aliphatic and acyl chain identities of these identified PtdEtn molecular species were similarly determined by multi-dimensional MS analyses of Fmoc-PtdEtn using a QqQ mass spectrometer as previously described [18] [20].
Briefly, by using a QqQ mass spectrometer with selective reaction monitoring (SRM), we are able to distinguish different modifications on the histone fragments and can use this to quantitate the amount of acetylation of a given lysine.
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The highest sensitivity, that is, lowest LODs, was obtained when MS/MS was used with a QqQ mass analyzer [ 25, 29, 44, 45].
Currently, the use of a dual ionization source coupled to a QqQ mass analyzer operated in MS/MS mode offers the best performance in most circumstances for OGSR analysis.
If a QqQ mass spectrometer instead of a high mass accuracy/high resolution instrument was used to analyze the molecular ions corresponding to PtdEtn molecular species in general and to pPtdEtn molecular species in particular, three approaches were employed.
Shotgun lipidomics analyses of PtdEtn molecular species of all lipid extracts were also performed on a QqQ mass spectrometer (Thermo Fisher TSQ Quantum Ultra Plus, San Jose, CA, USA) equipped with an electrospray ion source as previously described [20].
SRMAtlas [102] is a specific compendium of targeted proteomics assays, resulting from high-quality measurements of natural and synthetic peptides conducted on a QQQ mass spectrometer and is intended as a resource for SRM-based proteomic workflows.
GC analyses were carried out using a GC-QqQ-MS instrument in selected reaction monitoring (SRM) acquisition mode which has allowed the achievement of high specificity by selecting appropriate precursor product ion couples improving the capability in analyte identification.
Warfarin concentrations in all plasma samples were analyzed via the MS method using the Agilent 6410 QQQ mass spectrometer (Agilent Technologies, USA).
Assay of PFCAs was performed by using a gas chromatography triple quadrupole mass spectrometry (GC QqQ MS) system in negative chemical ionization mode with ammonia as reagent gas.
Assay of derivatized analytes was performed by using a gas chromatography triple quadrupole mass spectrometry (GC QqQ-MS) system in selected reaction monitorinGC QqQ-MScquisystem.
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