Genome-wide circadian regulation: A unique system for computational biology
Circadian rhythms are 24-hour oscillations affecting an organism at multiple levels from gene expression all the way to tissues and organs. They have been observed in organisms across the kingdom of life, spanning from cyanobacteria to humans. In mammals, the master circadian pacemaker is located in...
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| Format: | Article |
| Language: | English |
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Elsevier
2020-01-01
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| Series: | Computational and Structural Biotechnology Journal |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2001037020303342 |
| _version_ | 1818451911429324800 |
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| author | Linying Sun Junjie Ma Christoph W. Turck Pin Xu Guang-Zhong Wang |
| author_facet | Linying Sun Junjie Ma Christoph W. Turck Pin Xu Guang-Zhong Wang |
| author_sort | Linying Sun |
| collection | DOAJ |
| description | Circadian rhythms are 24-hour oscillations affecting an organism at multiple levels from gene expression all the way to tissues and organs. They have been observed in organisms across the kingdom of life, spanning from cyanobacteria to humans. In mammals, the master circadian pacemaker is located in the hypothalamic suprachiasmatic nuclei (SCN) in the brain where it synchronizes the peripheral oscillators that exist in other tissues. This system regulates the circadian activity of a large part of the transcriptome and recent findings indicate that almost every cell in the body has this clock at the molecular level. In this review, we briefly summarize the different factors that can influence the circadian transcriptome, including light, temperature, and food intake. We then summarize recently identified general principles governing genome-scale circadian regulation, as well as future lines of research. Genome-scale circadian activity represents a fascinating study model for computational biology. For this purpose, systems biology methods are promising exploratory tools to decode the global regulatory principles of circadian regulation. |
| first_indexed | 2024-12-14T21:14:43Z |
| format | Article |
| id | doaj.art-391f9a8eaba6486f93931e8e5913a9f8 |
| institution | Directory Open Access Journal |
| issn | 2001-0370 |
| language | English |
| last_indexed | 2024-12-14T21:14:43Z |
| publishDate | 2020-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Computational and Structural Biotechnology Journal |
| spelling | doaj.art-391f9a8eaba6486f93931e8e5913a9f82022-12-21T22:47:07ZengElsevierComputational and Structural Biotechnology Journal2001-03702020-01-011819141924Genome-wide circadian regulation: A unique system for computational biologyLinying Sun0Junjie Ma1Christoph W. Turck2Pin Xu3Guang-Zhong Wang4CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaCAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaMax Planck Institute of Psychiatry, Department of Translational Research in Psychiatry, Munich 80804, GermanyDepartment of Neuroscience, University of Texas Southwestern Medical Center, Dallas, TX 75390-9111, USA; Corresponding authors.CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, China; Corresponding authors.Circadian rhythms are 24-hour oscillations affecting an organism at multiple levels from gene expression all the way to tissues and organs. They have been observed in organisms across the kingdom of life, spanning from cyanobacteria to humans. In mammals, the master circadian pacemaker is located in the hypothalamic suprachiasmatic nuclei (SCN) in the brain where it synchronizes the peripheral oscillators that exist in other tissues. This system regulates the circadian activity of a large part of the transcriptome and recent findings indicate that almost every cell in the body has this clock at the molecular level. In this review, we briefly summarize the different factors that can influence the circadian transcriptome, including light, temperature, and food intake. We then summarize recently identified general principles governing genome-scale circadian regulation, as well as future lines of research. Genome-scale circadian activity represents a fascinating study model for computational biology. For this purpose, systems biology methods are promising exploratory tools to decode the global regulatory principles of circadian regulation.http://www.sciencedirect.com/science/article/pii/S2001037020303342Circadian rhythmsCycling genesCircadian transcriptomeEnergetic costCircadian regulatory network |
| spellingShingle | Linying Sun Junjie Ma Christoph W. Turck Pin Xu Guang-Zhong Wang Genome-wide circadian regulation: A unique system for computational biology Computational and Structural Biotechnology Journal Circadian rhythms Cycling genes Circadian transcriptome Energetic cost Circadian regulatory network |
| title | Genome-wide circadian regulation: A unique system for computational biology |
| title_full | Genome-wide circadian regulation: A unique system for computational biology |
| title_fullStr | Genome-wide circadian regulation: A unique system for computational biology |
| title_full_unstemmed | Genome-wide circadian regulation: A unique system for computational biology |
| title_short | Genome-wide circadian regulation: A unique system for computational biology |
| title_sort | genome wide circadian regulation a unique system for computational biology |
| topic | Circadian rhythms Cycling genes Circadian transcriptome Energetic cost Circadian regulatory network |
| url | http://www.sciencedirect.com/science/article/pii/S2001037020303342 |
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