Identification and modeling of co-rhythmic genes from micro-array time series data

Wenxue Wang, Bijoy Ghosh

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

Abstract

"Circadian Rhythm" is a biological phenomenon observed in a large number of organisms ranging from unicellular bacteria to human beings. In this paper, transcriptome data from Cyanothece, a photosynthetic cyanobacteria, has been analyzed for the purpose of discovering genes whose expressions are rhythmically close (co-rhythmic). Subsequently we study if these rhythms can be modeled, up to phase, using a cascade of three phase oscillators. One of the phase oscillator in the network is derived from the model of a "limit cycle oscillator" using KaiC protein (the master clock). We conclude that "Circadian Rhythms in Cyanothece transcriptome data can be dynamically modeled up to phase using a single master clock derived from limit cycle oscillator using KaiC protein cascaded with a pair of interconnected phase oscillators". Biologically substrates of the phase oscillators are presently unknown.

Original languageEnglish
Title of host publicationProceedings of the 17th World Congress, International Federation of Automatic Control, IFAC
Edition1 PART 1
DOIs
StatePublished - 2008
Event17th World Congress, International Federation of Automatic Control, IFAC - Seoul, Korea, Republic of
Duration: Jul 6 2008Jul 11 2008

Publication series

NameIFAC Proceedings Volumes (IFAC-PapersOnline)
Number1 PART 1
Volume17
ISSN (Print)1474-6670

Conference

Conference17th World Congress, International Federation of Automatic Control, IFAC
CountryKorea, Republic of
CitySeoul
Period07/6/0807/11/08

Keywords

  • Bioinformatics
  • Dynamics and control
  • Modelling and identification

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  • Cite this

    Wang, W., & Ghosh, B. (2008). Identification and modeling of co-rhythmic genes from micro-array time series data. In Proceedings of the 17th World Congress, International Federation of Automatic Control, IFAC (1 PART 1 ed.). (IFAC Proceedings Volumes (IFAC-PapersOnline); Vol. 17, No. 1 PART 1). https://doi.org/10.3182/20080706-5-KR-1001.2495