Chapter 3

Peptide Spectrum Matching via Database Search and Spectral Library Search

Brian Netzel, Surendra Dasari

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

High-throughput shotgun proteomics is the mainstay of protein identification in biological samples. Efficient proteomic analysis requires streamlined and accurate workflows for protein identification. Database searching has been the most basic and reliable workflow for identifying the peptides and proteins that are present in the sample. This method derives peptides from a list of protein sequences and matches them against the experimental MS2 spectra. The resulting peptide spectrum matches are scored to quantify their goodness of fit. Spectral library searching has been recently developed as a fast, and viable, alternative to sequence database searching. This method attempts to identify the peptides by matching their corresponding experimental MS2 spectra to a library of curated MS2 peptide spectra. Each method has its own merit and application in the proteomics field. This chapter aims to highlight the foundations of peptide spectrum matching via protein sequence database and spectral library searching.

Original languageEnglish (US)
Title of host publicationProteome Informatics
PublisherRoyal Society of Chemistry
Pages39-68
Number of pages30
Volume2017-January
Edition5
DOIs
StatePublished - 2017

Publication series

NameNew Developments in Mass Spectrometry
Number5
Volume2017-January

Fingerprint

Peptides
Proteins
Throughput
Proteomics

ASJC Scopus subject areas

  • Spectroscopy
  • Analytical Chemistry

Cite this

Netzel, B., & Dasari, S. (2017). Chapter 3: Peptide Spectrum Matching via Database Search and Spectral Library Search. In Proteome Informatics (5 ed., Vol. 2017-January, pp. 39-68). (New Developments in Mass Spectrometry; Vol. 2017-January, No. 5). Royal Society of Chemistry. https://doi.org/10.1039/9781782626732-00039

Chapter 3 : Peptide Spectrum Matching via Database Search and Spectral Library Search. / Netzel, Brian; Dasari, Surendra.

Proteome Informatics. Vol. 2017-January 5. ed. Royal Society of Chemistry, 2017. p. 39-68 (New Developments in Mass Spectrometry; Vol. 2017-January, No. 5).

Research output: Chapter in Book/Report/Conference proceedingChapter

Netzel, B & Dasari, S 2017, Chapter 3: Peptide Spectrum Matching via Database Search and Spectral Library Search. in Proteome Informatics. 5 edn, vol. 2017-January, New Developments in Mass Spectrometry, no. 5, vol. 2017-January, Royal Society of Chemistry, pp. 39-68. https://doi.org/10.1039/9781782626732-00039
Netzel B, Dasari S. Chapter 3: Peptide Spectrum Matching via Database Search and Spectral Library Search. In Proteome Informatics. 5 ed. Vol. 2017-January. Royal Society of Chemistry. 2017. p. 39-68. (New Developments in Mass Spectrometry; 5). https://doi.org/10.1039/9781782626732-00039
Netzel, Brian ; Dasari, Surendra. / Chapter 3 : Peptide Spectrum Matching via Database Search and Spectral Library Search. Proteome Informatics. Vol. 2017-January 5. ed. Royal Society of Chemistry, 2017. pp. 39-68 (New Developments in Mass Spectrometry; 5).
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