Regulating gene expression using optimal control theory

Yunlong Liu, Hui (Herb) Sun, Hiroki Yokota

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

6 Citations (Scopus)

Abstract

We described development of a novel genome-based model-driven strategy useful for regulating eukaryotic gene expression. In order to extract biologically meaningful information from a large volume of mRNA expression data, we built previously a PROmoter-Based Estimation (PROBE) model. The PROBE model allowed us to establish a quantitative relationship between transcription-factor binding motifs in regulatory DNA sequences and mRNA expression levels. Here, we extended PROBE formulation to derive an optimal control law for gene regulation. The responses to shear stress in human synovial cells were chosen as a model biological system, and the system dynamics was identified from the expression pattern of the genes involved in degradation and maintenance of extracellular matrix. In order to suppress the responses to mechanical stimuli, a Ricatti equation was solved and an admissible control law was derived. The approach presented here can be implemented in any biological process, and it would be useful to develop a transcription-mediated strategy for gene therapies and tissue engineering.

Original languageEnglish (US)
Title of host publicationProceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages313-318
Number of pages6
ISBN (Electronic)0769519075, 9780769519074
DOIs
StatePublished - 2003
Externally publishedYes
Event3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003 - Bethesda, United States
Duration: Mar 10 2003Mar 12 2003

Other

Other3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003
CountryUnited States
CityBethesda
Period3/10/033/12/03

Fingerprint

Control theory
Gene expression
Genes
Gene therapy
Transcription factors
DNA sequences
Biological systems
Transcription
Tissue engineering
Shear stress
Dynamical systems
Degradation
Messenger RNA

ASJC Scopus subject areas

  • Computer Networks and Communications
  • Signal Processing
  • Electrical and Electronic Engineering

Cite this

Liu, Y., Sun, H. H., & Yokota, H. (2003). Regulating gene expression using optimal control theory. In Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003 (pp. 313-318). [1188968] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BIBE.2003.1188968

Regulating gene expression using optimal control theory. / Liu, Yunlong; Sun, Hui (Herb); Yokota, Hiroki.

Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003. Institute of Electrical and Electronics Engineers Inc., 2003. p. 313-318 1188968.

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

Liu, Y, Sun, HH & Yokota, H 2003, Regulating gene expression using optimal control theory. in Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003., 1188968, Institute of Electrical and Electronics Engineers Inc., pp. 313-318, 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003, Bethesda, United States, 3/10/03. https://doi.org/10.1109/BIBE.2003.1188968
Liu Y, Sun HH, Yokota H. Regulating gene expression using optimal control theory. In Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003. Institute of Electrical and Electronics Engineers Inc. 2003. p. 313-318. 1188968 https://doi.org/10.1109/BIBE.2003.1188968
Liu, Yunlong ; Sun, Hui (Herb) ; Yokota, Hiroki. / Regulating gene expression using optimal control theory. Proceedings - 3rd IEEE Symposium on BioInformatics and BioEngineering, BIBE 2003. Institute of Electrical and Electronics Engineers Inc., 2003. pp. 313-318
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