PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry.

By Bin Ma, Kaizhong Zhang, Christopher Hendrie, Chengzhi Liang, Ming Li, A. Doherty-Kirby, Gilles A. Lajoie. Rapid Communications in Mass Spectrometry, 2003

1,645 citations recorded by the source corpus.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/245feaa852eede7ff9b856c7e2f3bab0ef1225ef

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Citations in the corpus

Trypsin Cleaves Exclusively C-terminal to Arginine and Lysine Residues*S (2004, result): “It has been known for some time that high mass accuracy can be very beneficial for database searches (18,19), and this notion is strongly supported by these experiments.”
Competitive fragmentation modeling of ESI-MS/MS spectra for putative metabolite identification (2013, background): “Fragmentation patterns in peptides are reasonably well understood (Papayannopoulos 1995; Paizs and Suhai 2005), leading to effective algorithms for identifying peptides from their ESI MS/MS data—e.g. (Perkins et al. 1999; Eng et al. 1994; Ma et al. 2003).”
CFM-ID: a web server for annotation, spectrum prediction and metabolite identification from tandem mass spectra (2014, neutral): “A number of web servers are available that allow MS / MS spectrum searches against computationally predicted spectra for molecules from specific chemical classes, e.g. proteins (17–19) and lipids (20).”
Spectral Probabilities and Generating Functions of Tandem Mass Spectra: a Strike Against Decoy Databases (2008, neutral): “SCORE can be estimated using de novo peptide sequencing algorithms [29,30,31,32,33,34,35,36,37,38,39,40].”
PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification (2011, positive): “The quick scorer is derived from the same de novo sequencing scoring function used in PEAKS de novo sequencing (1).”
A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics (2010, background): “html , b PEAKS [271] www.”