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http://hdl.handle.net/1942/24162
Title: | Computational quality control tools for mass spectrometry proteomics | Authors: | Bittremieux, Wout VALKENBORG, Dirk Martens, Lennart Laukens, Kris |
Issue Date: | 2017 | Publisher: | WILEY | Source: | PROTEOMICS, 17(3-4), p. 1-11 (Art N° 1600159) | Abstract: | As mass-spectrometry-based proteomics has matured during the past decade, a growing emphasis has been placed on quality control. For this purpose, multiple computational quality control tools have been introduced. These tools generate a set of metrics that can be used to assess the quality of a mass spectrometry experiment. Here we review which types of quality control metrics can be generated, and how they can be used to monitor both intra-and inter-experiment performances. We discuss the principal computational tools for quality control and list their main characteristics and applicability. Asmost of these tools have specific use cases, it is not straightforward to compare their performances. For this survey, we used different sets of quality control metrics derived from information at various stages in a mass spectrometry process and evaluated their effectiveness at capturing qualitative information about an experiment using a supervised learning approach. Furthermore, we discuss currently available algorithmic solutions that enable the usage of these quality control metrics for decision-making. | Notes: | [Bittremieux, Wout; Laukens, Kris] Univ Antwerp, Dept Math & Comp Sci, Antwerp, Belgium. [Bittremieux, Wout; Laukens, Kris] Univ Antwerp, Univ Hosp, Biomed Informat Res Ctr Antwerp Biomina, Edegem, Belgium. [Valkenborg, Dirk] Flemish Inst Technol Res VITO, Mol, Belgium. [Valkenborg, Dirk] Univ Antwerp, CFP, Antwerp, Belgium. [Valkenborg, Dirk] Hasselt Univ, I BioStat, Diepenbeek, Belgium. [Martens, Lennart] VIB, Ctr Med Biotechnol, Ghent, Belgium. [Martens, Lennart] Univ Ghent, Fac Med & Hlth Sci, Dept Biochem, Ghent, Belgium. [Martens, Lennart] Univ Ghent, Bioinformat Inst Ghent, Zwijnaarde, Belgium. | Keywords: | Bioinformatics; Mass spectrometry; Quality control;bioinformatics; mass spectrometry; quality control | Document URI: | http://hdl.handle.net/1942/24162 | ISSN: | 1615-9853 | e-ISSN: | 1615-9861 | DOI: | 10.1002/pmic.201600159 | ISI #: | 000397012800005 | Rights: | (C) 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim | Category: | A1 | Type: | Journal Contribution | Validations: | ecoom 2018 |
Appears in Collections: | Research publications |
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