Systematic evaluation of quantotypic peptides for targeted analysis of the human kinome

Nat Methods. 2014 Oct;11(10):1041-4. doi: 10.1038/nmeth.3072. Epub 2014 Aug 24.


In targeted proteomics it is critical that peptides are not only proteotypic but also accurately represent the level of the protein (quantotypic). Numerous approaches are used to identify proteotypic peptides, but quantotypic properties are rarely assessed. We show that measuring ratios of proteotypic peptides across biological samples can be used to empirically identify peptides with good quantotypic properties. We applied this technique to identify quantotypic peptides for 21% of the human kinome.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Cell Line, Tumor
  • Chromatography / methods
  • Computational Biology / methods
  • Gene Expression Regulation, Neoplastic
  • Humans
  • Peptides / chemistry
  • Protein Kinases / chemistry*
  • Proteins / chemistry*
  • Proteome / analysis*
  • Proteomics / methods*


  • Peptides
  • Proteins
  • Proteome
  • Protein Kinases