Stochastic modeling of dynamic effects of copy number alterations upon gene expression levels

Fang Han Hsu, Erchin Serpedin, Yidong Chen, Edward R. Dougherty

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

    1 Scopus citations

    Abstract

    DNA copy number alterations (CNAs) are known to be related to genetic diseases, including cancer. Our previous study proposed a stochastic model to investigate the relationship between copy number and gene expression values. The simulation results revealed that the relationship is not generally linear except when the ratio of transcription factor (TF) arrival rate to TF departure rate is large. However, only a transcription productive (ON) state was considered in the previous study. Under certain environmental conditions, the demand for mRNA is limited and hence the transcription is turned off and strictly regulated. In this study, an alternative (OFF) state of transcription is proposed, in which, bound TFs are assumed to be shut down, or unloaded, immediately after stimulating a transcription. Using the Laplace-Stieltjes transform and numerical analysis, the relationship between DNA copy number and gene expression level is evaluated. The stochastic models show that CNAs would potentially alter, or even reverse, the amplitude changes of gene expression levels between the productive (ON) state and the alternative (OFF) state.

    Original languageEnglish (US)
    Title of host publicationProceedings 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
    PublisherIEEE Computer Society
    Pages83-86
    Number of pages4
    ISBN (Print)9781467304900
    DOIs
    StatePublished - 2011
    Event2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11 - San Antonio, TX, United States
    Duration: Dec 4 2011Dec 6 2011

    Publication series

    NameProceedings - IEEE International Workshop on Genomic Signal Processing and Statistics
    ISSN (Print)2150-3001
    ISSN (Electronic)2150-301X

    Other

    Other2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
    Country/TerritoryUnited States
    CitySan Antonio, TX
    Period12/4/1112/6/11

    ASJC Scopus subject areas

    • Biochemistry, Genetics and Molecular Biology (miscellaneous)
    • Computational Theory and Mathematics
    • Signal Processing
    • Biomedical Engineering

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