Unit

UNIT 25.5 Using Spectral Libraries for Peptide Identification from Tandem Mass Spectrometry (MS/MS) Data

  1. Henry Lam1,
  2. Ruedi Aebersold2

Published Online: 1 APR 2010

DOI: 10.1002/0471140864.ps2505s60

Current Protocols in Protein Science

Current Protocols in Protein Science

How to Cite

Lam, H. and Aebersold, R. 2010. Using Spectral Libraries for Peptide Identification from Tandem Mass Spectrometry (MS/MS) Data. Current Protocols in Protein Science. 60:25.5:25.5.1–25.5.9.

Author Information

  1. 1

    Hong Kong University of Science and Technology, Kowloon, Hong Kong

  2. 2

    Institute for Systems Biology, Seattle, Washington

Publication History

  1. Published Online: 1 APR 2010
  2. Published Print: APR 2010

Abstract

Spectral library searching is an emerging approach in proteomic data analysis for the inference of peptide identifications from tandem mass spectra. It offers a promising alternative to sequence database searching, currently the dominant method for this purpose. In spectral searching, a spectral library is first meticulously compiled from a large collection of previously observed and identified peptide MS/MS spectra. The spectrum of the unknown peptide can then by identified by comparing it to all the candidates in the spectral library for the best match. This unit covers the basic principles of spectral searching, describes its advantages and limitations, and reviews the available software tools developed for spectral library searching and building, in terms of their algorithms and their surrounding informatics support. Curr. Protoc. Protein Sci. 60:25.5.1-25.5.9. © 2010 by John Wiley & Sons, Inc.

Keywords:

  • spectral library;
  • spectral searching;
  • X!Hunter;
  • Bibliospec;
  • SpectraST;
  • NIST MS search