Encyclopedia of Systems Biology

2013 Edition
| Editors: Werner Dubitzky, Olaf Wolkenhauer, Kwang-Hyun Cho, Hiroki Yokota

Protein Identification Analysis

  • Roger Higdon
Reference work entry
DOI: https://doi.org/10.1007/978-1-4419-9863-7_1208

Synonyms

Definition

Protein identification analysis describes the process by which the protein contents of cellular and biological samples are identified through interrogation by mass spectrometry.

Characteristics

The most common method for identifying proteins in biological samples is known as “shotgun” or “bottom-up” proteomics (Aebersold and Mann 2003). The approach is detailed in Fig.  1. The approach typically begins by enzymatically digesting (most commonly with trypsin) protein sequences into peptides and separating them using liquid chromatography (LC), and then analyzing them via tandem mass spectrometry (MS/MS). Tandem mass spectrometry generates data by first analyzing the masses of the peptides eluting from an LC column and then fragmenting those peptides and performing a second round of MS analysis to generate MS/MS spectra.
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References

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  5. Hather G, Higdon R, Bauman A, von Haller PD, Kolker E (2010) Estimating false discovery rates for peptide and protein identification using randomized databases. Proteomics 10:2369–2373PubMedGoogle Scholar
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Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  1. 1.Seattle Children’s Research InstituteSeattleUSA