Metabolic cycles as an underlying basis of biological oscillations.

Tu, Benjamin P., McKnight, Steven L.·2006·Nature Reviews Molecular Cell Biology

Cited by (229)

Items 101–200 of 229

  1. Effect of Resveratrol, a SIRT1 Activator, on the Interactions of the CLOCK/BMAL1 Complex
    Insung Park, Yool Lee, Hee-Dae Kim, Kyungjin Kim · 2014 · Endocrinology and Metabolism
  2. Approaching the molecular origins of collective dynamics in oscillating cell populations
    Pankaj Mehta, Thomas Gregor · 2010 · Current Opinion in Genetics & Development
  3. Division enzyme regulates metabolism
    Abigail S. Krall, Heather R. Christofk · 2017 · Nature
  4. Measurements of intracellularATP provide new insight into the regulation of glycolysis in the yeast Saccharomyces cerevisiae
    Cecilie K. Ytting, Anja T. Fuglsang, J. Kalervo Hiltunen, Alexander J. Kastaniotis, Veli Cengiz Özalp, Lise Junker Nielsen, Lars Folke Olsen · 2011 · Integrative Biology
  5. Cellular Deconstruction: Finding Meaning in Individual Cell Variation
    James H. Eberwine, Junhyong Kim · 2015 · Trends in Cell Biology
  6. Global Self-Organization of the Cellular Metabolic Structure
    Ildefonso M. De la Fuente, Luis Martínez, Alberto Pérez‐Samartín, Leyre Ormaetxea, Cristian Amezaga, Antonio Vera López · 2008 · PLoS ONE
  7. Modelling chronotaxicity of cellular energy metabolism to facilitate the identification of altered metabolic states
    Gemma Lancaster, Yevhen F. Suprunenko, Kirsten Jenkins, Aneta Stefanovska · 2016 · Scientific Reports
  8. Circadian Output, Input, and Intracellular Oscillators: Insights into the Circadian Systems of Single Cells
    Jennifer Loros, Jay Dunlap, Luis Fernando Larrondo, Mi Shi, William J. Belden, Van D. Gooch, C.-H. Chen, Christopher L. Baker, Arun Mehra, Hildur V. Colot et al. · 2007 · Cold Spring Harbor Symposia on Quantitative Biology
  9. Behavior of a Metabolic Cycling Population at the Single Cell Level as Visualized by Fluorescent Gene Expression Reporters
    Sunil Laxman, Benjamin M. Sutter, Benjamin P. Tu · 2010 · PLoS ONE
  10. Interplay Between the Circadian Clock and Sirtuins
    Yan Zhuang, Yantong Zhang, Chao Liu, Yingbin Zhong · 2024 · International Journal of Molecular Sciences
  11. Time-Structure of the Yeast Metabolism In vivo
    Kalesh Sasidharan, Masaru Tomita, Miguel Antonio Aon, David Lloyd, Douglas B. Murray · 2011 · Advances in experimental medicine and biology
  12. Evidence of carbon monoxide-mediated phase advancement of the yeast metabolic cycle
    Benjamin P. Tu, Steven Lanier McKnight · 2009 · Proceedings of the National Academy of Sciences
  13. Insights into Transcriptional Regulation of Hepatic Glucose Production
    Komsan Anyamaneeratch, Pinnara Rojvirat, Witchuda Sukjoi, Sarawut Jitrapakdee · 2015 · International review of cytology
  14. Aging and the Mammalian regulatory triumvirate.
    C. David Rollo · 2010 · Europe PMC (PubMed Central)
  15. Circadian Clocks in Fuel Harvesting and Energy Homeostasis
    Kathryn Moynihan Ramsey, Joseph T. Bass · 2011 · Cold Spring Harbor Symposia on Quantitative Biology
  16. Blood plasma metabolic profiling of pregnant women with antenatal depressive symptoms
    Hanna E. Henriksson, Christina J. Malavaki, Emma Bränn, Vasilis Drainas, Susanne Lager, Stavros I. Iliadis, Fotios C. Papadopoulos, Inger Sundström Poromaa, George Panagiotis Chrousos, Maria I. Klapa et al. · 2019 · Translational Psychiatry
  17. How and Why the Circadian Clock Regulates Proliferation of Adult Epithelial Stem Cells
    Bogi Andersen M. D, Junyan Duan, Satya Swaroop Karri · 2023 · Stem Cells
  18. Interactions between the circadian clock and metabolism: there are good times and bad times
    Mi Shi, Xiangzhong Zheng · 2012 · Acta Biochimica et Biophysica Sinica
  19. The mesoscale order of nacreous pearls
    Jiseok Gim, Alden Koch, Laura M. Otter, Benjamin H. Savitzky, Sveinung Erland, Lara A. Estroff, Dorrit E. Jacob, Robert Hovden · 2021 · Proceedings of the National Academy of Sciences
  20. A Conserved GEF for Rho-Family GTPases Acts in an EGF Signaling Pathway to Promote Sleep-like Quiescence inCaenorhabditis elegans
    Amanda L. Fry, Jocelyn T. Laboy, Huiyan Huang, Anne C. Hart, Kenneth R. Norman · 2016 · Genetics
  21. Circadian Rhythm of Lipid Metabolism in Health and Disease
    Zhihui Zhang, Haoran Xin, Min‐Dian Li · 2020 · Small Methods
  22. Degradation of Serotonin N-Acetyltransferase, a Circadian Regulator, by the N-end Rule Pathway
    Brandon C. Wadas, Jimo Borjigin, Zheping Huang, Jang‐Hyun Oh, Cheol-Sang Hwang, Alexander J. Varshavsky · 2016 · Journal of Biological Chemistry
  23. Flavin-based metabolic cycles are integral features of growth and division in single yeast cells
    Bridget L. Baumgartner, Richard O’Laughlin, Meng Jin, Lev S. Tsimring, Nan Hao, Jeff Hasty · 2018 · Scientific Reports
  24. Rapid alterations in cortical protein profiles underlie spontaneous sleep and wake bouts
    Vazquez, Jacqueline, Hall, Steven C., Witkowska, H. Ewa, Greco, Mary Ann · 2008 · Journal of Cellular Biochemistry
  25. Understanding Sleep Regulation in Normal and Pathological Conditions, and Why It Matters
    Mathieu Nollet, Nicholas P. Franks, William Wisden · 2023 · Journal of Huntington s Disease
  26. Diurnal regulation of oxidative phosphorylation restricts hepatocyte proliferation and inflammation
    Xiaojie Bai, Yilie Liao, Fangfang Sun, Xia Xiao, Suneng Fu · 2021 · Cell Reports
  27. Collective behavior in gene regulation: Metabolic clocks and cross‐talking
    Michele Maria Bianchi · 2008 · FEBS Journal
  28. Synchronous plasma membrane electrochemical potential oscillations during yeast colony development and aging
    Zdena Palková, Zdena Palková, Libuše Váchová, Zdena Palková, Libuše Váchová, Dana Gášková, Helena Kučerová · 2009 · Molecular Membrane Biology
  29. Is Neuronal Histamine Signaling Involved in Cancer Cachexia? Implications and Perspectives
    Hannes Zwickl, Elisabeth Zwickl-Traxler, Martin Pecherstorfer · 2019 · Frontiers in Oncology
  30. Let the data speak
    Benjamin P. Tu, Andrzej S. Kudlicki, Maga Rowicka, Steven Lanier McKnight · 2006 · Nature Reviews Molecular Cell Biology
  31. Regulation of the yeast metabolic cycle by transcription factors with periodic activities
    Aliz R. Rao, Matteo A. Pellegrini · 2011 · BMC Systems Biology
  32. Seasonal pattern in bipolar disorders and cardio-vascular risk factors: A study from the FACE-BD cohort
    Pierre A. Geoffroy, Ophélia Godin, Diane Mahee, Chantal Henry, V. Aubin, Jean‐Michel Azorin, Thierry Bougerol, Philippe Courtet, Sébastien Gard, Jean‐Pierre Kahn et al. · 2017 · Chronobiology International
  33. Role of chromatin, environmental changes and single cell heterogeneity in non-coding transcription and gene regulation
    Manuele Castelnuovo, Françoise Stutz · 2015 · Current Opinion in Cell Biology
  34. Environmental light exposure and mealtime regularity: Implications for human health
    Choon Ming Ng, Satvinder Kaur · 2022 · Chronobiology International
  35. Systems approaches for the study of metabolic cycles in yeast
    Sunil Laxman, Benjamin P. Tu · 2010 · Current Opinion in Genetics & Development
  36. Neural Signaling Metabolites May Modulate Energy Use in Hibernation
    Kelly L. Drew, Carla Frare, Sarah A. Rice · 2016 · Neurochemical Research
  37. Reconstructed cell-type-specific rhythms in human brain link Alzheimer’s pathology, circadian stress, and ribosomal disruption
    Henry C Hollis, Ashish Sharma, Patrick W. Sheehan, Leonard B. Maggi, Jason D. Weber, Jan A. Hammarlund, David Alan Bennett, Vilas Menon, Erik S. Musiek, Ron C. Anafi · 2025 · Neuron
  38. Pathway bias and emergence of quasi-irreversibility in reversible reaction networks: Extension of Curtin-Hammett principle
    Satoshi Takahashi, Tsukasa Abe, Hirofumi Sato, Shûichi Hiraoka · 2023 · Chem
  39. Sex-specific association between sleep and basal metabolic rate in great tits
    Erica F. Stuber, Kimberley J. Mathot, Bart Kempenaers, Niels Jeroen Dingemanse, Jakob C. Mueller · 2015 · Animal Behaviour
  40. A metabolic–transcriptional network links sleep and cellular energetics in the brain
    Jonathan P. Wisor · 2011 · Pflügers Archiv - European Journal of Physiology
  41. Metabolic rhythms: A framework for coordinating cellular function
    Helen C. Causton · 2018 · European Journal of Neuroscience
  42. The respiratory oscillation in yeast phase definitions and periodicity
    Douglas B. Murray · 2006 · Nature Reviews Molecular Cell Biology
  43. Design patterns of biological cells
    Steven S. Andrews, H. Steven Wiley, Herbert M. Sauro · 2024 · BioEssays
  44. Studying the Human Microbiota: Advances in Understanding the Fundamentals, Origin, and Evolution of Biological Timekeeping
    Adam Siebieszuk, Monika Sejbuk, Anna Maria Witkowska · 2023 · International Journal of Molecular Sciences
  45. Dynamic motif occupancy (DynaMO) analysis identifies transcription factors and their binding sites driving dynamic biological processes
    Zheng Kuang, Zhicheng Ji, Jef D. Boeke, Hongkai Ji · 2017 · Nucleic Acids Research
  46. Bidirectionality and Compartmentation of Metabolic Fluxes Are Revealed in the Dynamics of Isotopomer Networks
    David W. Schryer, Pearu Peterson, Toomas Paalme, Marko Vendelin · 2009 · International Journal of Molecular Sciences
  47. Glycolysis–Wnt signaling axis tunes developmental timing of embryo segmentation
    Hidenobu Miyazawa, Jona Rada, Paul Gerald Layague Sanchez, Emilia Esposito, Daria Bunina, Charles Girardot, Judith B. Zaugg, Alexander Aulehla · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  48. Parameter-less approaches for interpreting dynamic cellular response
    Kumar Selvarajoo · 2014 · Journal of Biological Engineering
  49. Modeling Cell Energy Metabolism as Weighted Networks of Non-autonomous Oscillators
    Joe Rowland Adams, Aneta Stefanovska · 2021 · Frontiers in Physiology
  50. Maximizing average throughput in oscillatory biochemical synthesis systems: an optimal control approach
    M. Ali Al-Radhawi, Michael Margaliot A, Eduardo D. Sontag · 2021 · Royal Society Open Science
  51. Ultradian Metabolic Cycles in Yeast
    Benjamin P. Tu · 2010 · Methods in enzymology on CD-ROM/Methods in enzymology
  52. Recognition of acetylated histone by Yaf9 regulates metabolic cycling of transcription initiation and chromatin regulatory factors
    Jibo Zhang, Aakanksha Gundu, Brian D. Strahl · 2021 · Genes & Development
  53. A noncanonical role of glycolytic metabolites controlling the timing of mouse embryo segmentation
    Hidenobu Miyazawa, Jona Rada, Nicole Prior, Paul Gerald Layague Sanchez, Emilia Esposito, Daria Bunina, Charles Girardot, Judith B. Zaugg, Alexander Aulehla · 2025 · Science Advances
  54. Evolution: How Fruit Flies Adapt to Seasonal Stresses
    Karen D. Williams, Marla B. Sokolowski · 2009 · Current Biology
  55. A study of periodic operation in bioprocess systems: Internal and external oscillations
    Chi Zhai, Ahmet Palazoğlu, Wei Hua Sun · 2019 · Computers & Chemical Engineering
  56. The ultradian clock: not to be confused with the cell cycle
    David Lloyd · 2006 · Nature Reviews Molecular Cell Biology
  57. Temporal oscillation of phospholipids promotes metabolic efficiency
    Sen Yang, Yuan Wang, Sisi Huang, Tong Zhang, Pinglong Xu, Chao Jiang, Cunqi Ye · 2025 · Nature Chemical Biology
  58. Adaptive regulation of glycerophospholipid metabolism
    Tong Zhang, Yuan Wang, Cunqi Ye · 2026 · Journal of Cell Science
  59. Behavior and physiology in female Cricetulus barabensis are associated with the expression of circadian genes
    Hanyi Zhu, Ming Wu, Junjie Mou, Xueqi Yang, Qian Xu, Yongjian Zhang, Hao Zhang, Xinran Wang, Huiliang Xue, Jin-Hui Xu et al. · 2024 · Frontiers in Endocrinology
  60. Anorexia nervosa: A rogue hibernation?
    Barbara Scolnick, David I. Mostofsky · 2013 · Medical Hypotheses
  61. The Sleep in Caenorhabditis elegans: What We Know Until Now
    Maryam Moosavi, Gholamreza Hatam · 2017 · Molecular Neurobiology
  62. The Fractal Tapestry of Life: II Entailment of Fractional Oncology by Physiology Networks
    Bruce J. West · 2022 · Frontiers in Network Physiology
  63. Photoperiodism in Insects: Molecular Basis and Consequences of Diapause
    Karen D. Williams, PAUL S. SCHMIDT, Marla B. Sokolowski · 2009
  64. Transcriptional changes are regulated by metabolic pathway dynamics but decoupled from protein levels
    Jack Feltham, Shidong Xi, Struan C. Murray, Meredith Wouters, Julian Urdiain‐Arraiza, Raphael Heilig, Charlotte L. George, Anna F. Townley, Emile Roberts, Benedikt Mathias Kessler et al. · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
  65. Fructose-1,6-bisphosphatase 1 in cancer: Dual roles, mechanistic insights, and therapeutic potential – A comprehensive review
    Qinghang Song, Jiazhen Sui, Yuxuan Yang, Huhu Zhang, Ya Li, Lina Yang · 2025 · International Journal of Biological Macromolecules
  66. Exploring the Dynamics of Large-Scale Biochemical Networks: A Computational Perspective
    Ralf Steuer · 2011 · The Open Bioinformatics Journal
  67. A Conserved Structural Signature of the Homeobox Coding DNA in HOX genes
    Bernard Fongang, Fanping Kong, Surendra S. Negi, Werner A. Braun, Andrzej S. Kudlicki · 2016 · Scientific Reports
  68. The Mammalian Circadian Timekeeping System
    Ueli Schibler · 2008 · Springer eBooks
  69. mRNA stability and the unfolding of gene expression in the long-period yeast metabolic cycle
    Nicola Soranzo, Mattia Zampieri, Lorenzo Farina, Claudio Altafini · 2009 · BMC Systems Biology
  70. Detecting separate time scales in genetic expression data
    David A. Orlando, Siobhán M. Brady, Thomas Fink, Philip N. Benfey, Sebastian E. Ahnert · 2010 · BMC Genomics
  71. The emergence of feedforward periodicity for the fed-batch penicillin fermentation process
    Chi Zhai, Tong Qiu, Ahmet Palazoğlu, Wei Hua Sun · 2018 · IFAC-PapersOnLine
  72. Origins of the Embryo: Self-organization through cybernetic regulation
    Robert Stone, Tom Portegys, George E. Mikhailovsky, Bradly Alicea · 2018 · Biosystems
  73. Networked collective dynamics in animal ecology and cell biology
    Yongzheng Sun, Huimin Wang, Xiaoting Liu, Guanghui Wen, Wei Lin, Philip K. Maini · 2026 · Physics of Life Reviews
  74. Reverse genetic screening during L1 arrest reveals a role of the diacylglycerol kinase 1 gene dgk-1 and sphingolipid metabolism genes in sleep regulation
    Anastasios Koutsoumparis, Inka Busack, Chung‐Kuan Chen, Yu Hayashi, Bart P. Braeckman, David Meierhofer, Henrik Bringmann · 2023 · Genetics
  75. The circadian rhythm regulates branched-chain amino acids metabolism in fast muscle of Chinese perch (Siniperca chuatsi) during short-term fasting by Clock-KLF15-Bcat2 pathway
    Xinxia Zhu, Jingjie Liu, Minglang Cai, Lingsheng Bao, Ya‐Xiong Pan, Ping Wu, Wuying Chu, Jianshe Zhang · 2022 · British Journal Of Nutrition
  76. Multi‐equilibrium property of metabolic networks: Exclusion of multi‐stability for SSN metabolic modules
    Hongbo Lei, Ji‐Feng Zhang, Luonan Chen · 2011 · International Journal of Robust and Nonlinear Control
  77. The effects of different light–dark cycles on the metabolism of the diazotrophic, unicellular cyanobacteria C yanothece sp. ATCC 51142, and C yanothecesp. PCC 7822
    Sarah Arshad, Sujata R. Mishra, Louis A. Sherman · 2014 · Journal of Phycology
  78. Characterizing glucose, illumination, and nitrogen-deprivation phenotypes ofSynechocystisPCC6803 with Raman spectroscopy
    Imen Tanniche, Eva Collakova, Cynthia J. Denbow, Ryan S. Senger · 2020 · PeerJ
  79. Extracellular metabolite dynamics and temporal organization of metabolic function in E. coli
    Martin Robert, Douglas B. Murray, Masayuki Honma, Kenji Nakahigashi, Tomoyoshi Soga, Masaru Tomita · 2012 · ICME International Conference on Complex Medical Engineering (CME)
  80. Timing Is Everything: The Fungal Circadian Clock as a Master Regulator of Stress Response and Pathogenesis
    Víctor Coca Ruiz, Daniel Boy‐Ruiz · 2025 · Stresses
  81. Circadian Rhythms and the Transcriptional Feedback Loop (Nobel Lecture)**
    Michael Rosbash · 2021 · Angewandte Chemie
  82. BIOLOGICAL SIMULATIONS BY AUTONOMOUS AGENTS: TWO EXAMPLES USING THE NETLOGO ENVIRONMENT.
    Alfredo Colosimo · 2008
  83. Saccharomyces cerevisiae: Oscillatory Orchestration of Growth
    David Lloyd · 2019 · Springer eBooks
  84. Composing Semi-algebraic O-Minimal Automata
    Alberto Casagrande, Pietro Corvaja, Carla Piazza, Bud Mishra · 2007 · Springer eBooks
  85. Mini-Review on the Design Principles of Biochemical Oscillators for the Continuous Ethanol Fermentation Processes
    Chi Zhai, Cheng Ji, Wei Hua Sun · 2024 · Processes
  86. The Application Potential of Synthetic Biology in Microbial Communication
    Yan Wang, Jin Zhou · 2023 · Current Clinical Microbiology Reports
  87. Concerted Effort: Oscillations in Global Gene Expression during Nematode Development
    Sunil Laxman, Benjamin P. Tu, Steven Lanier McKnight · 2014 · Molecular Cell
  88. High glucose, no cry
    Joseph T. Bass · 2010 · Nature Medicine
  89. Synchronous protein cycling in batch cultures of the yeast Saccharomyces cerevisiae at log growth phase
    Gabriele Romagnoli, Enrico Cundari, Rodolfo Negri, Marco Crescenzi, Lorenzo Farina, Alessandro Giuliani, Michele Maria Bianchi · 2011 · Experimental Cell Research
  90. Dull plots, pale colors early in the morning
    Timo Partonen · 2013 · Annals of Medicine
  91. Energy-Metabolism Oscillation in the Living Organisms with Circadian Rhythms
    Kunio Tsurugi · 2007 · Institutional Repositories DataBase (IRDB)
  92. Nuclear receptors: at the heart of the biological crosstalk between metabolism and circadian rhythm
    Vincent Laudet · 2008 · Expert Review of Endocrinology & Metabolism
  93. Circadian Clocks and Metabolism
    Henrik Oster · 2009 · Springer eBooks
  94. A Reaction Network Scheme Which Implements Inference and Learning for Hidden Markov Models
    Abhinav Singh, Carsten Wiuf, Abhishek Behera, Manoj Gopalkrishnan · 2019 · Lecture notes in computer science
  95. Comparative Clocks
    Martha W. Merrow, David Lenssen, Till Roenneberg · 2009 · Springer eBooks
  96. Extensive Regulation of Metabolism and Growth during the Cell Division Cycle
    Nikolai Slavov, David Botstein, Amy A. Caudy · 2014 · bioRxiv (Cold Spring Harbor Laboratory)
  97. Synchronized product of semi-algebraic O-minimal hybrid automata
    Bud Mishra, Alberto Casagrande, Pietro Corvaja, Carla Piazza · 2007
  98. Searching for Order in Body Clocks: Circadian Rhythms and Redox Balance
    Marta del Olmo · 2021 · Logos Verlag Berlin eBooks
  99. La mitocondria: un nuevo paradigma en oncología
    María Sánchez Aragó, Jose Manuel Cuezva · 2012 · Monografías de la Real Academia Nacional de Farmacia
  100. Heartbeat and Respiration: Toward a Functional Chronobiology
    Branko Furst · 2019 · Springer eBooks