A statistical model of proteolytic digestion

I. J. Wang, C. P. Diehl, F. J. Pineda

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

We present a stochastic model of proteolytic digestion of a proteome, assuming the distribution of parent protein lengths in the proteome, the relative abundances of the 20 amino acids in the proteome, and the digestion "rules" of the enzyme used in the digestion. We derived a closed form expression for the fragment mass distribution for a large class of enzymes including the widely used trypsin. The expression uses the distribution of lengths in a mixture of proteins taken from a proteome, as well as the relative abundances of the 20 amino acids in the proteome. The agreement between theory and the in silica digest is excellent.

Original languageEnglish (US)
Title of host publicationProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages506-508
Number of pages3
ISBN (Electronic)0769520006, 9780769520001
DOIs
StatePublished - Jan 1 2003
Event2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003 - Stanford, United States
Duration: Aug 11 2003Aug 14 2003

Publication series

NameProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003

Other

Other2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003
Country/TerritoryUnited States
CityStanford
Period8/11/038/14/03

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Computer Science Applications

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