Abstract
In this review, we will discuss peak detection in Liquid-Chromatography-Mass Spectrometry (LC/MS) from a signal processing perspective. A brief introduction to LC/MS is followed by a description of the major processing steps in LC/MS. Specifically, the problem of peak detection is formulated and various peak detection algorithms are described and compared.
Highlights
The identification and quantification of proteins in biological samples play a crucial role in biological and biomedical research [1,2,3,4]
There exist a number of Liquid Chromatography/Mass Spectrometry (LC/Mass Spectrometry (MS)) peak detection and feature selection software packages that detect peaks mainly based on isotope pattern matching in the m/z dimension
We treat the set of observed peptides in Liquid Chromatography (LC)/MS/MS scans associated with these 46 proteins as the set of “true peptides” denoted as Lpeptide with size N p that is contained in the trypsin digested sample
Summary
The identification and quantification of proteins in biological samples play a crucial role in biological and biomedical research [1,2,3,4]. As data are collected in LC/MS mode only up to this point, the identity (i.e., the amino acid sequence) of the selected peaks (peptides) is yet unknown Another aliquot of the sample is often injected onto a different LC/MS/MS system, where a tandem mass spectrometer collects MS/MS spectra from (differentially) expressed peptides. In this two-step, and often two-instrument, approach to biomarker discovery, quantitative and qualitative (sequence) information are collected separately by LC/MS and LC/MS/MS. Fig. (6) shows an example of a chromatographic peak in an elution time profile
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