ABRF Proteome Informatics Research Group (iPRG) 2015 Study: Detection of Differentially Abundant Proteins in Label-Free Quantitative LC–MS/MS Experiments

• Published in: Journal of proteome research Vol. 16; no. 2; pp. 945 - 957
• Main Authors: Choi, Meena, Eren-Dogu, Zeynep F, Colangelo, Christopher, Cottrell, John, Hoopmann, Michael R, Kapp, Eugene A, Kim, Sangtae, Lam, Henry, Neubert, Thomas A, Palmblad, Magnus, Phinney, Brett S, Weintraub, Susan T, MacLean, Brendan, Vitek, Olga
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 03.02.2017
• Subjects: Chromatography, Liquid - standards; Data Interpretation, Statistical; Humans; Laboratory Proficiency Testing; Professional Competence; Proteome - isolation & purification; Proteome - standards; Proteomics - instrumentation; Proteomics - methods; Proteomics - standards; Reproducibility of Results; Tandem Mass Spectrometry - standards; Uncertainty; mass spectrometry; LC−MS/MS; quantitative proteomics; bioinformatics; differential abundance; statistics

Detection of differentially abundant proteins in label-free quantitative shotgun liquid chromatography–tandem mass spectrometry (LC–MS/MS) experiments requires a series of computational steps that identify and quantify LC–MS features. It also requires statistical analyses that distinguish systematic...