@Article{kim09spectral-dictionaries,
  author    = {Sangtae Kim and Nitin Gupta and Nuno Bandeira and Pavel A Pevzner},
  title     = {Spectral dictionaries: Integrating de novo peptide sequencing with database search of tandem mass spectra.},
  journal   = {Mol Cell Proteomics},
  year      = {2009},
  volume    = {8},
  number    = {1},
  pages     = {53--69},
  abstract  = {Database search tools identify peptides by matching tandem mass spectra against a protein database. We study an alternative approach when all plausible de novo interpretations of a spectrum (spectral dictionary) are generated and then quickly matched against the database. We present a new MS-Dictionary algorithm for efficiently generating spectral dictionaries and demonstrate that MS-Dictionary can identify spectra that are missed in the database search. We argue that MS-Dictionary enables proteogenomics searches in six-frame translation of genomic sequences that may be prohibitively time-consuming for existing database search approaches. We show that such searches allow one to correct sequencing errors and find programmed frameshifts.},
  doi       = {10.1074/mcp.M800103-MCP200},
  keywords  = {MS; Mass Spectrometry; computational MS; peptide sequencing; de novo sequencing},
  owner     = {Sebastian},
  pmid      = {18703573},
  timestamp = {2010.11.24},
}

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