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- W2123260358 abstract "Protein identifications with the borderline statistical confidence are typically produced by matching a few marginal quality MS/MS spectra to database peptide sequences and represent a significant bottleneck in the reliable and reproducible characterization of proteomes. Here, we present a method for rapid validation of borderline hits that circumvents the need in, often biased, manual inspection of raw MS/MS spectra. The approach takes advantage of the independent interpretation of corresponding MS/MS spectra by PepNovo de novo sequencing software followed by mass spectrometry-driven BLAST (MS BLAST) sequence-similarity database searches that utilize all partially inaccurate, degenerate and redundant candidate peptide sequences. In a case study involving the identification of more than 180 Caenorhabditis elegans proteins by nanoLC −MS/MS analysis on a linear ion trap LTQ mass spectrometer, the approach enabled rapid assignment (confirmation or rejection) of more than 70% of Mascot hits of borderline statistical confidence. Keywords: de novo sequencing • database searching • borderline hits • MS/MS • MS BLAST • PepNovo" @default.
- W2123260358 created "2016-06-24" @default.
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- W2123260358 date "2006-07-22" @default.
- W2123260358 modified "2023-09-27" @default.
- W2123260358 title "Rapid Validation of Protein Identifications with the Borderline Statistical Confidence via De Novo Sequencing and MS BLAST Searches" @default.
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- W2123260358 doi "https://doi.org/10.1021/pr060200v" @default.
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