IDEAS home Printed from https://ideas.repec.org/a/hin/complx/9261793.html
   My bibliography  Save this article

Design of Fixed Points in Boolean Networks Using Feedback Vertex Sets and Model Reduction

Author

Listed:
  • Koichi Kobayashi

Abstract

Fixed points in Boolean networks (BNs) represent cell types or states of cells and are important to decide characteristics of cells. As the control problem on fixed points, it is important to consider the problem of changing fixed points by using external stimuli (i.e., control inputs). In this paper, we propose two methods for designing fixed points. First, a design method using model reduction is proposed. Using the reduced model, the problem of placing fixed points can be rewritten as an integer linear programming problem. Next, we consider the design problem using only the graph structure of a given BN and derive some results. In both methods, a feedback vertex set of a directed graph plays an important role. Finally, a biological example is presented.

Suggested Citation

  • Koichi Kobayashi, 2019. "Design of Fixed Points in Boolean Networks Using Feedback Vertex Sets and Model Reduction," Complexity, Hindawi, vol. 2019, pages 1-9, March.
    • Handle: RePEc:hin:complx:9261793
    DOI: 10.1155/2019/9261793
    as

    Download full text from publisher

    File URL: http://downloads.hindawi.com/journals/8503/2019/9261793.pdf
    Download Restriction: no
    File URL: http://downloads.hindawi.com/journals/8503/2019/9261793.xml
    Download Restriction: no
    File URL: https://libkey.io/10.1155/2019/9261793?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Filippo Menolascina & Gianfranco Fiore & Emanuele Orabona & Luca De Stefano & Mike Ferry & Jeff Hasty & Mario di Bernardo & Diego di Bernardo, 2014. "In-Vivo Real-Time Control of Protein Expression from Endogenous and Synthetic Gene Networks," PLOS Computational Biology, Public Library of Science, vol. 10(5), pages 1-14, May.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Artémis Llamosi & Andres M Gonzalez-Vargas & Cristian Versari & Eugenio Cinquemani & Giancarlo Ferrari-Trecate & Pascal Hersen & Gregory Batt, 2016. "What Population Reveals about Individual Cell Identity: Single-Cell Parameter Estimation of Models of Gene Expression in Yeast," PLOS Computational Biology, Public Library of Science, vol. 12(2), pages 1-18, February.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:hin:complx:9261793. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Mohamed Abdelhakeem (email available below). General contact details of provider: https://www.hindawi.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.