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- Kenneth Verheggen, Lennart Martens, Frode S Berven, Harald Barsnes, and Marc Vaudel.
- Department of Medical Protein Research, VIB, Ghent, Belgium.
- Adv Exp Med Biol. 2016 Jan 1; 919: 147-156.
AbstractThe first step in identifying proteins from mass spectrometry based shotgun proteomics data is to infer peptides from tandem mass spectra, a task generally achieved using database search engines. In this chapter, the basic principles of database search engines are introduced with a focus on open source software, and the use of database search engines is demonstrated using the freely available SearchGUI interface. This chapter also discusses how to tackle general issues related to sequence database searching and shows how to minimize their impact.
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