A stochastic model of gene transcription: An application to L1 retrotransposition events

Grzegorz A. Rempala, Kenneth Ramos, Ted Kalbfleisch

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

A simplified mathematical model of gene transcription is presented based on a system of coupled chemical reactions and a corresponding set of stochastic equations similar to those used in enzyme kinetics theory. The quasi-stationary distribution for the model is derived and its usefulness illustrated with an example of model parameters estimation using sparse time course data on L1 retrotransposon expression kinetics. The issue of model validation is also discussed and a simple validation procedure for the estimated model is devised. The procedure compares model predicted values with the laboratory data via the standard Bayesian techniques with the help of modern Markov-Chain Monte-Carlo methodology.

Original languageEnglish (US)
Pages (from-to)101-116
Number of pages16
JournalJournal of Theoretical Biology
Volume242
Issue number1
DOIs
StatePublished - Sep 7 2006
Externally publishedYes

Fingerprint

Transcription
Stochastic models
Stochastic Model
transcription (genetics)
Genes
Gene
Markov Chains
Retroelements
Theoretical Models
genes
Quasi-stationary Distribution
Enzyme Kinetics
enzyme kinetics
Model Validation
retrotransposons
model validation
Kinetic Theory
Enzymes
chemical reactions
Markov Chain Monte Carlo

Keywords

  • Bayesian inference
  • Chemical reaction kinetics
  • Gene transcription model
  • L-retrotransposon
  • Northern blot
  • Reaction constants estimation
  • Stochastic intracellular network

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)

Cite this

A stochastic model of gene transcription : An application to L1 retrotransposition events. / Rempala, Grzegorz A.; Ramos, Kenneth; Kalbfleisch, Ted.

In: Journal of Theoretical Biology, Vol. 242, No. 1, 07.09.2006, p. 101-116.

Research output: Contribution to journalArticle

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