Literature DB >> 28466791

Computational modeling of the cell-autonomous mammalian circadian oscillator.

Olga A Podkolodnaya1, Natalya N Tverdokhleb1,2, Nikolay L Podkolodnyy3,4.   

Abstract

This review summarizes various mathematical models of cell-autonomous mammalian circadian clock. We present the basics necessary for understanding of the cell-autonomous mammalian circadian oscillator, modern experimental data essential for its reconstruction and some special problems related to the validation of mathematical circadian oscillator models. This work compares existing mathematical models of circadian oscillator and the results of the computational studies of the oscillating systems. Finally, we discuss applications of the mathematical models of mammalian circadian oscillator for solving specific problems in circadian rhythm biology.

Entities:  

Keywords:  Mammalian circadian oscillator; Mathematical modeling

Mesh：

Year:  2017        PMID： 28466791      PMCID： PMC5333193          DOI： 10.1186/s12918-016-0379-8

Source DB:  PubMed          Journal:  BMC Syst Biol        ISSN： 1752-0509


  126 in total

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Review 2.  Systems biology: experimental design.

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3.  A model of the mammalian circadian oscillator including the REV-ERBalpha module.

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Journal:  Genome Inform       Date:  2004

4.  Rhythmic degradation explains and unifies circadian transcriptome and proteome data.

Authors:  Sarah Lück; Kevin Thurley; Paul F Thaben; Pål O Westermark
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5.  Distinct roles for GABA across multiple timescales in mammalian circadian timekeeping.

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6.  Rev-erbα and Rev-erbβ coordinately protect the circadian clock and normal metabolic function.

Authors:  Anne Bugge; Dan Feng; Logan J Everett; Erika R Briggs; Shannon E Mullican; Fenfen Wang; Jennifer Jager; Mitchell A Lazar
Journal:  Genes Dev       Date:  2012-04-01       Impact factor: 11.361

7.  Cold-inducible RNA-binding protein modulates circadian gene expression posttranscriptionally.

Authors:  Jörg Morf; Guillaume Rey; Kim Schneider; Markus Stratmann; Jun Fujita; Felix Naef; Ueli Schibler
Journal:  Science       Date:  2012-08-23       Impact factor: 47.728

8.  Feedback repression is required for mammalian circadian clock function.

Authors:  Trey K Sato; Rikuhiro G Yamada; Hideki Ukai; Julie E Baggs; Loren J Miraglia; Tetsuya J Kobayashi; David K Welsh; Steve A Kay; Hiroki R Ueda; John B Hogenesch
Journal:  Nat Genet       Date:  2006-02-12       Impact factor: 38.330

Review 9.  RNA around the clock - regulation at the RNA level in biological timing.

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Journal:  Front Plant Sci       Date:  2015-05-05       Impact factor: 5.753

Review 10.  Reverse engineering and identification in systems biology: strategies, perspectives and challenges.

Authors:  Alejandro F Villaverde; Julio R Banga
Journal:  J R Soc Interface       Date:  2013-12-04       Impact factor: 4.118
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  2 in total

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2.  A Phenomenological Mouse Circadian Pacemaker Model.

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