期刊
JOURNAL OF PROTEOME RESEARCH
卷 7, 期 1, 页码 51-61出版社
AMER CHEMICAL SOC
DOI: 10.1021/pr700758r
关键词
LC-MS; quantitative proteomics; quantification strategies; software review; label-free; differential labeling; spectral counting
资金
- DIVISION OF HEART AND VASCULAR DISEASES [N01HV028179] Funding Source: NIH RePORTER
- NHLBI NIH HHS [N01-HV-28179] Funding Source: Medline
Over the past decade, a series of experimental strategies for mass spectrometry based quantitative proteomics and corresponding computational methodology for the processing of the resulting data have been generated. We provide here an overview of the main quantification principles and available software solutions for the analysis of data generated by liquid chromatography coupled to mass spectrometry (LC-MS). Three conceptually different methods to perform quantitative LC-MS experiments have been introduced. In the first, quantification is achieved by spectral counting, in the second via differential stable isotopic labeling, and in the third by using the ion current in label-free LC-MS measurements. We discuss here advantages and challenges of each quantification approach and assess available software solutions with respect to their instrument compatibility and processing functionality. This review therefore serves as a starting point for researchers to choose an appropriate software solution for quantitative proteomic experiments based on their experimental and analytical requirements.
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