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

Genome Biol. 2011 Dec 19;12(12):R122. doi: 10.1186/gb-2011-12-12-r122.


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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Amino Acid Sequence
  • Bacterial Proteins / analysis*
  • Escherichia coli
  • Isotope Labeling / methods*
  • Mass Spectrometry / methods*
  • Molecular Sequence Data
  • Nitrogen Isotopes
  • Proteome / analysis*
  • Proteomics
  • Sensitivity and Specificity
  • Software*


  • Bacterial Proteins
  • Nitrogen Isotopes
  • Proteome