title: Alignment of LC-MS images, with applications to biomarker discovery and protein identification.
abstract: LC-MS-based approaches have gained considerable interest for the analysis of complex peptide or protein mixtures, due to their potential for full automation and high sampling rates. Advances in resolution and accuracy of modern mass spectrometers allow new analytical LC-MS-based applications, such as biomarker discovery and cross-sample protein identification. Many of these applications compare multiple LC-MS experiments, each of which can be represented as a 2-D image. In this article, we survey current approaches to LC-MS image alignment. LC-MS image alignment corrects for experimental variations in the chromatography and represents a computational key technology for the comparison of LC-MS experiments. It is a required processing step for its two major applications: biomarker discovery and protein identification. Along with descriptions of the computational analysis approaches, we discuss their relative merits and potential pitfalls.
authors.affiliation: Unité de Biologie Systémique, Institut Pasteur, Paris, France.
authors.forename: Mathias
authors.initials: M
authors.lastname: Vandenbogaert
authors.forename: Sébastien
authors.initials: S
authors.lastname: Li-Thiao-Té
authors.forename: Hans-Michael
authors.initials: HM
authors.lastname: Kaltenbach
authors.forename: Runxuan
authors.initials: R
authors.lastname: Zhang
authors.forename: Tero
authors.initials: T
authors.lastname: Aittokallio
authors.forename: Benno
authors.initials: B
authors.lastname: Schwikowski
mesh_terms: D000465:Algorithms; D015415:Biomarkers / Q000032:analysis*; D002851:Chromatography, High Pressure Liquid; D019295:Computational Biology / Q000379:methods; D001330:Electronic Data Processing; D013058:Mass Spectrometry; D019151:Peptide Library; D011506:Proteins / Q000032:analysis* / Q000302:isolation & purification; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D054928:Validation Studies as Topic
chemical_list: D015415:Biomarkers; D019151:Peptide Library; D011506:Proteins