Computational Methods in Mass Spectrometry-Based Proteomics

Adv Exp Med Biol. 2016:939:63-89. doi: 10.1007/978-981-10-1503-8_4.

Abstract

This chapter introduces computational methods used in mass spectrometry-based proteomics, including those for addressing the critical problems such as peptide identification and protein inference, peptide and protein quantification, characterization of posttranslational modifications (PTMs), and data-independent acquisitions (DIA). The chapter concludes with emerging applications of proteomic techniques, such as metaproteomics, glycoproteomics, and proteogenomics.

Keywords: Algorithms; Mass spectrometry; Post-translational modifications; Protein identification; Protein quantification; Proteomics.

Publication types

  • Research Support, N.I.H., Extramural
  • Review

MeSH terms

  • Algorithms
  • Databases, Protein
  • Peptides / chemistry*
  • Protein Processing, Post-Translational*
  • Proteins / chemistry*
  • Proteins / metabolism
  • Proteomics / methods*
  • Sequence Analysis, Protein
  • Software
  • Tandem Mass Spectrometry / methods*

Substances

  • Peptides
  • Proteins