Label-free mass spectrometric quantification

from Wikipedia, the free encyclopedia

The label-free mass spectrometric quantification ( English label-free quantification , also label-free quantitation ) is a mass spectrometric method for the relative quantity determination of high molecular weight compounds.

properties

Label-free mass spectrometric quantification is used in biochemistry to compare the amounts of proteins in a sample, among other things .

The quantification can take place via two different parameters, the signal intensity of the precursor ion or from the mass spectrum. The method with the determination of the signal intensity has a smaller resolution, z. B. in a time-of-flight , Fourier transform ion cyclotron resonance (FT-ICR) or Orbitrap mass spectrometer . The method with counting the mass spectrum, on the other hand, uses several spectra for a specific peptide , which integrates the results of all measured peptides. Software has been developed to analyze label-free mass spectrometric quantification, e.g. B. ProtQuant .

Alternative methods are e.g. B. ICAT , isobaric labeling ( Tandem Mass Tag ), isobaric protein tags ( iTRAQ ), label-free quantification metal-coded tags ( MeCAT ), N -terminal labeling , stable isotope labeling with amino acids in cell culture ( SILAC ) and terminal amine isotopic labeling of substrates (TAILS).

Individual evidence

  1. ^ S. Tate, B. Larsen, R. Bonner, AC Gingras: Label-free quantitative proteomics trends for protein-protein interactions. In: Journal of proteomics. Volume 81, April 2013, ISSN  1876-7737 , pp. 91-101, doi : 10.1016 / j.jprot.2012.10.027 , PMID 23153790 .
  2. ^ SK Van Riper, EP de Jong, JV Carlis, TJ Griffin: Mass spectrometry-based proteomics: basic principles and emerging technologies and directions. In: Advances in Experimental Medicine and Biology . Volume 990, 2013, ISSN  0065-2598 , pp. 1-35, doi : 10.1007 / 978-94-007-5896-4_1 , PMID 23378000 .
  3. ↑ Lukas N. Mueller et al .: An Assessment of Software Solutions for the Analysis of Mass Spectrometry Based Quantitative Proteomics Data . In: Journal of Proteome Research . 7, No. 1, 2008, pp. 51-61. doi : 10.1021 / pr700758r . PMID 18173218 .
  4. ↑ M. Sandin, J. Teleman, J. Malmström, F. Levander: Data processing methods and quality control strategies for label-free LC-MS protein quantification. In: Biochimica et Biophysica Acta . Volume 1844, number 1 Pt A, January 2014, ISSN  0006-3002 , pp. 29-41, doi : 10.1016 / j.bbapap.2013.03.026 , PMID 23567904 .
  5. ^ S. Nahnsen, C. Bielow, K. Reinert, O. Kohlbacher: Tools for label-free peptide quantification. In: Molecular & cellular proteomics: MCP. Volume 12, number 3, March 2013, ISSN  1535-9484 , pp. 549-556, doi : 10.1074 / mcp.R112.025163 , PMID 23250051 , PMC 3591650 (free full text).
  6. ↑ Bridges SM, Magee GB, Wang N, Williams WP, Burgess SC, Nanduri B: ProtQuant: a tool for the label-free quantification of MudPIT proteomics data . In: BMC Bioinformatics . 8 Suppl 7, 2007, p. S24. doi : 10.1186 / 1471-2105-8-S7-S24 . PMID 18047724 . PMC 2099493 (free full text).
  7. ↑ L. Van Oudenhove, B. Devreese: A review on recent developments in mass spectrometry instrumentation and quantitative tools advancing bacterial proteomics. In: Applied Microbiology and Biotechnology . Volume 97, Number 11, June 2013, ISSN  1432-0614 , pp. 4749-4762, doi : 10.1007 / s00253-013-4897-7 , PMID 23624659 .
  8. ^ DA Megger, T. Bracht, HE Meyer, B. Sitek: Label-free quantification in clinical proteomics. In: Biochimica et Biophysica Acta . Volume 1834, number 8, August 2013, ISSN  0006-3002 , pp. 1581-1590, doi : 10.1016 / j.bbapap.2013.04.001 , PMID 23567906 .