Using annotated peptide mass spectrum libraries for protein identification.

By R. Craig, J. Cortens, D. Fenyö, Ronald C. Beavis. Journal of Proteome Research, 2006

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Exosomes as Critical Agents of Cardiac Regeneration Triggered by Cell Therapy (2014, background): “The acute MI model, while used extensively to assess bioactivity, cannot distinguish cardioprotective effects from genuine regeneration (Malliaras et al., 2013).”
Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis* (2012, background): “To increase the reliability of such libraries, consensus spectra can be generated from repeated observations of the same peptide using freely available tools (35–37).”
A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics (2010, methodology): “Instead of searching acquired MS/MS spectra against theoretically predicted spectra, MS/ MS spectra can be assigned peptides by matching against a spectral library [89-92].”
Protein Identification False Discovery Rates for Very Large Proteomics Data Sets Generated by Tandem Mass Spectrometry* (2009, background): “Well curated data repositories are a prerequisite of the success of applications like spectrum library searching (Stein 1995; Craig, Cortens et al. 2006; Lam, Deutsch et al. 2007), protein expression estimates by spectral counting (Liu, Sadygov et al. 2004) and targeted proteomics approaches based…”