Algorithms for the Quantification of Proteins from High-Throughput Liquid Chromatography-Mass Spectrometry (LC-MS) Data pp. 53-76
Authors: (Ole Schulz-Trieglaff, Free University of Berlin, Institute for Computer Science, Berlin, Germany)
Abstract: In this commentary, we review algorithms for the analysis of liquid chromatography-mass spectrometry(LC-MS)data. Massspectrometry is a technology that can be used to determine the identities and abundances of the compounds in complex samples. In combination with liquidchro- matography, it has become a popular method in the field of proteomics, the large-scale study of proteins and peptides in living systems. The data sets obtained from an LC-MS experiment are large and highly complex. The outcome of such an experiment is called an LC-MS map and is a collection of mass spectra. Theyc ontain, among the signals of interest, a high amount of noise and other disturbances. That is why algorithms for the low-level processing of LC-MS data are becoming increasingly important. In this commentary, we revied the state-of-the-art of quantification algorithms, their capabilities and also limitations and outline avenues for future research.