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Systematic evaluation of data‐independent acquisition for sensitive and reproducible proteomics‐a prototype design for a single injection assay
Author(s) -
Heaven M. R.,
Funk A. J.,
Cobbs A. L.,
Haffey W. D.,
Norris J. L.,
McCullumsmith R. E.,
Greis K. D.
Publication year - 2016
Publication title -
journal of mass spectrometry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.475
H-Index - 121
eISSN - 1096-9888
pISSN - 1076-5174
DOI - 10.1002/jms.3648
Subject(s) - chemistry , shotgun proteomics , proteomics , chromatography , mass spectrometry , tandem mass spectrometry , peptide , label free quantification , computational biology , shotgun , data acquisition , liquid chromatography–mass spectrometry , quantitative proteomics , biochemistry , computer science , operating system , biology , gene
Liquid chromatography interfaced to tandem mass spectrometers (LC‐MS/MS) allows targeted and discovery‐based identification of proteins, post‐translational modifications, and isoform variants. More work however remains to be done to develop robust discoverybased reproducible quantitative proteomic platforms. In this Perspective Special Feature, Dr. Michael R. Heaven and co‐workers describe an improved single injection LC‐dataindependent acquisition (DIA) method that targets the most dense peptide precursor m/z range in complex tryptic peptide digests in order to obtain the maximum amount of information possible from a single injection. Altogether, their findings indicate the proposed LC‐DIA approach offers better reproducibility than shotgun based proteomics and allows more peptides and proteins to be quantified with the same instrument and LC conditions. Ultimately, it should facilitate the acquisition of reliable quantitative data in future proteomic studies.