Cargando…
Issues and Applications in Label-Free Quantitative Mass Spectrometry
To address the challenges associated with differential expression proteomics, label-free mass spectrometric protein quantification methods have been developed as alternatives to array-based, gel-based, and stable isotope tag or label-based approaches. In this paper, we focus on the issues associated...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Hindawi Publishing Corporation
2013
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3562690/ https://www.ncbi.nlm.nih.gov/pubmed/23401775 http://dx.doi.org/10.1155/2013/756039 |
_version_ | 1782258128044163072 |
---|---|
author | Lai, Xianyin Wang, Lianshui Witzmann, Frank A. |
author_facet | Lai, Xianyin Wang, Lianshui Witzmann, Frank A. |
author_sort | Lai, Xianyin |
collection | PubMed |
description | To address the challenges associated with differential expression proteomics, label-free mass spectrometric protein quantification methods have been developed as alternatives to array-based, gel-based, and stable isotope tag or label-based approaches. In this paper, we focus on the issues associated with label-free methods that rely on quantitation based on peptide ion peak area measurement. These issues include chromatographic alignment, peptide qualification for quantitation, and normalization. In addressing these issues, we present various approaches, assembled in a recently developed label-free quantitative mass spectrometry platform, that overcome these difficulties and enable comprehensive, accurate, and reproducible protein quantitation in highly complex protein mixtures from experiments with many sample groups. As examples of the utility of this approach, we present a variety of cases where the platform was applied successfully to assess differential protein expression or abundance in body fluids, in vitro nanotoxicology models, tissue proteomics in genetic knock-in mice, and cell membrane proteomics. |
format | Online Article Text |
id | pubmed-3562690 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | Hindawi Publishing Corporation |
record_format | MEDLINE/PubMed |
spelling | pubmed-35626902013-02-11 Issues and Applications in Label-Free Quantitative Mass Spectrometry Lai, Xianyin Wang, Lianshui Witzmann, Frank A. Int J Proteomics Review Article To address the challenges associated with differential expression proteomics, label-free mass spectrometric protein quantification methods have been developed as alternatives to array-based, gel-based, and stable isotope tag or label-based approaches. In this paper, we focus on the issues associated with label-free methods that rely on quantitation based on peptide ion peak area measurement. These issues include chromatographic alignment, peptide qualification for quantitation, and normalization. In addressing these issues, we present various approaches, assembled in a recently developed label-free quantitative mass spectrometry platform, that overcome these difficulties and enable comprehensive, accurate, and reproducible protein quantitation in highly complex protein mixtures from experiments with many sample groups. As examples of the utility of this approach, we present a variety of cases where the platform was applied successfully to assess differential protein expression or abundance in body fluids, in vitro nanotoxicology models, tissue proteomics in genetic knock-in mice, and cell membrane proteomics. Hindawi Publishing Corporation 2013 2013-01-16 /pmc/articles/PMC3562690/ /pubmed/23401775 http://dx.doi.org/10.1155/2013/756039 Text en Copyright © 2013 Xianyin Lai et al. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Review Article Lai, Xianyin Wang, Lianshui Witzmann, Frank A. Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title | Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title_full | Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title_fullStr | Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title_full_unstemmed | Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title_short | Issues and Applications in Label-Free Quantitative Mass Spectrometry |
title_sort | issues and applications in label-free quantitative mass spectrometry |
topic | Review Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3562690/ https://www.ncbi.nlm.nih.gov/pubmed/23401775 http://dx.doi.org/10.1155/2013/756039 |
work_keys_str_mv | AT laixianyin issuesandapplicationsinlabelfreequantitativemassspectrometry AT wanglianshui issuesandapplicationsinlabelfreequantitativemassspectrometry AT witzmannfranka issuesandapplicationsinlabelfreequantitativemassspectrometry |