Strategies and Algorithms for Quantitative Proteomics based on Mass Spectrometry

Quantitative proteomics has been one of important areas in omics research. The continuous innovation of experiment strategies and computational algorithms prompts the rapid development of quantitative proteomics. The common quantitative strategies are label-free and stable isotope labeled quantification. There are many quantitative algorithms and tools for each kind of quantification strategy. On the one hand, these computational methods improve the further development of quantitative proteomics. On the other hand, they are being updated continuously with the improvement of the quantitative strategies. Therefore, it is necessary to summarize the advances of strategies and algorithms for quantitative proteomics. In this review, we systematically expatiate upon the characters of the label-free and labeled quantitative algorithms from the view of bioinformatics. Also, this review summarizes the development of absolute quantification methods and lists the common software tools for quantitative proteomics. The quality control methods of the quantification results are discussed as well.