Accurate proteome-wide protein quantification from high-resolution 15N mass spectra.

TitleAccurate proteome-wide protein quantification from high-resolution 15N mass spectra.
Publication TypeJournal Articles
Year of Publication2011
AuthorsKhan Z, Amini S, Bloom JS, Ruse C, Caudy AA, Kruglyak L, Singh M, Perlman DH, Tavazoie S
JournalGenome Biol
Date Published2011
Keywordsalgorithms, Amino Acid Sequence, Bacterial Proteins, Escherichia coli, Isotope Labeling, Mass Spectrometry, Molecular Sequence Data, Nitrogen Isotopes, Proteome, proteomics, Sensitivity and Specificity, software

In quantitative mass spectrometry-based proteomics, the metabolic incorporation of a single source of 15N-labeled nitrogen has many advantages over using stable isotope-labeled amino acids. However, the lack of a robust computational framework for analyzing the resulting spectra has impeded wide use of this approach. We have addressed this challenge by introducing a new computational methodology for analyzing 15N spectra in which quantification is integrated with identification. Application of this method to an Escherichia coli growth transition reveals significant improvement in quantification accuracy over previous methods.

Alternate JournalGenome Biol.
PubMed ID22182234
PubMed Central IDPMC3334617
Grant List5R01AI077562 / AI / NIAID NIH HHS / United States
DP1 ES022578 / ES / NIEHS NIH HHS / United States
P50 GM071508 / GM / NIGMS NIH HHS / United States
R01 AI077562 / AI / NIAID NIH HHS / United States
/ / Howard Hughes Medical Institute / United States