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Methods Mol Biol. 2016;1410:65-76. doi: 10.1007/978-1-4939-3524-6_4.

Label-Free Quantitation for Clinical Proteomics.

Author information

1
Centre for Biotechnology, University of Turku, Biocity, Tykistökatu 6, Turku, Finland. rmoulder@btk.fi.
2
Mass Spectrometry Center, University of Maryland-Baltimore, 20 North Pine Street, Baltimore, MD, USA. ygoo@rx.umaryland.edu.
3
Mass Spectrometry Center, University of Maryland-Baltimore, 20 North Pine Street, Baltimore, MD, USA. dgoodlett@rx.umaryland.edu.

Abstract

Label-free quantification (LFQ) has emerged as a viable option for quantitative LC-MS/MS-based proteomic analyses for use on the scale of hundreds of samples such as are encountered in clinical analysis. Notably, sample preparation, sample loading, HPLC separations, and mass spectrometric performance must be highly reproducible for this approach to be effective. The following protocols describe the key steps in the methods related to sample preparation and analysis for LC-MS/MS-based label-free quantitation using standard data-dependent acquisition.

KEYWORDS:

Area under the curve (AUC); Label-free quantification; Mass spectrometry; Proteomics

PMID:
26867738
DOI:
10.1007/978-1-4939-3524-6_4
[Indexed for MEDLINE]

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