De Novo Peptide Sequencing and Identification with Precision Mass Spectrometry
2006; American Chemical Society; Volume: 6; Issue: 1 Linguagem: Inglês
10.1021/pr060271u
ISSN1535-3907
AutoresAri Frank, Mikhail M. Savitski, Michael L. Nielsen, Roman A. Zubarev, Pavel A. Pevzner,
Tópico(s)Genomics and Phylogenetic Studies
ResumoThe recent proliferation of novel mass spectrometers such as Fourier transform, QTOF, and OrbiTrap marks a transition into the era of precision mass spectrometry, providing a 2 orders of magnitude boost to the mass resolution, as compared to low-precision ion-trap detectors. We investigate peptide de novo sequencing by precision mass spectrometry and explore some of the differences when compared to analysis of low-precision data. We demonstrate how the dramatically improved performance of de novo sequencing with precision mass spectrometry paves the way for novel approaches to peptide identification that are based on direct sequence lookups, rather than comparisons of spectra to a database. With the direct sequence lookup, it is not only possible to search a database very efficiently, but also to use the database in novel ways, such as searching for products of alternative splicing or products of fusion proteins in cancer. Our de novo sequencing software is available for download at http://peptide.ucsd.edu/. Keywords: precision MS • MS/MS • de novo • database search • pattern matching • filtration • FTMS • FT-ICR • LTQ-FT
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