NDLI: Stochastic Gene Expression Modeling with Hill Function for Switch-Like Gene Responses

Content Provider	IEEE Xplore Digital Library
Author	Haseong Kim Gelenbe, E.
Copyright Year	2004
Abstract	Gene expression models play a key role to understand the mechanisms of gene regulation whose aspects are grade and switch-like responses. Though many stochastic approaches attempt to explain the gene expression mechanisms, the Gillespie algorithm which is commonly used to simulate the stochastic models requires additional gene cascade to explain the switch-like behaviors of gene responses. In this study, we propose a stochastic gene expression model describing the switch-like behaviors of a gene by employing Hill functions to the conventional Gillespie algorithm. We assume eight processes of gene expression and their biologically appropriate reaction rates are estimated based on published literatures. We observed that the state of the system of the toggled switch model is rarely changed since the Hill function prevents the activation of involved proteins when their concentrations stay below a criterion. In ScbA-ScbR system, which can control the antibiotic metabolite production of microorganisms, our modified Gillespie algorithm successfully describes the switch-like behaviors of gene responses and oscillatory expressions which are consistent with the published experimental study.
Sponsorship	IEEE Computer Society
Page Count	7
File Size	644304
Starting Page	973
Ending Page	979
File Format	PDF
ISSN	15455963
Volume Number	9
Issue Number	4
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2012-07-01
Publisher Place	U.S.A.
Access Restriction	One Nation One Subscription (ONOS)
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Proteins Mathematical model Switches Stochastic processes Gene expression Equations Degradation Gillespie algorithm. Stochastic gene expression modeling gene regulatory networks switch-like gene responses
Content Type	Text
Resource Type	Article
Subject	Applied Mathematics Genetics Biotechnology

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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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