Validation of a mathematical model of gene transcription in aggregated cellular systems: Application to L1 retrotransposition

Grzegorz A. Rempala, Kenneth Ramos, Ted Kalbfleisch, Ivo Teneng

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

We present a methodology aimed at partial validation and accuracy-precision assessment of a mathematical model of gene transcription at the cellular level. The method is based on the analysis of time-series measurements aggregated over a large number of cells. Such measurements are typically obtained via reverse transcriptase-polymerase chain reaction (RT-PCR) experiments. The validation procedure presented herein uses as an example data on L1 retrotransposon gene in HeLa cells. The procedure compares model predicted values with the RT-PCR data for L1 by means of the standard Bayesian statistical techniques with the help of modern Markov-Chain Monte-Carlo methodology.

Original languageEnglish (US)
Pages (from-to)339-349
Number of pages11
JournalJournal of Computational Biology
Volume14
Issue number3
DOIs
StatePublished - Apr 2007
Externally publishedYes

Fingerprint

Polymerase Chain Reaction
Cellular Systems
Polymerase chain reaction
Transcription
Reverse
Theoretical Models
Genes
Mathematical Model
Mathematical models
Gene
Reverse Transcriptase Polymerase Chain Reaction
Methodology
Cell
Markov Chain Monte Carlo
Markov processes
Time series
Markov Chains
Retroelements
HeLa Cells
Partial

Keywords

  • Aggregated data
  • Gene transcription model
  • L1 retrotransposon
  • Model validation
  • Posterior confidence bounds
  • Reaction rate equation
  • RT-PCR

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Validation of a mathematical model of gene transcription in aggregated cellular systems : Application to L1 retrotransposition. / Rempala, Grzegorz A.; Ramos, Kenneth; Kalbfleisch, Ted; Teneng, Ivo.

In: Journal of Computational Biology, Vol. 14, No. 3, 04.2007, p. 339-349.

Research output: Contribution to journalArticle

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