Computational modeling and analysis of the impacts of sleep deprivation on glucose stimulated insulin secretion
暂无分享,去创建一个
Jamil Ahmad | Amjad Ali | Hufsah Ashraf | Azka Hassan | Amjad Ali | J. Ahmad | Hufsah Ashraf | Azka Hassan | Jamil Ahmad
[1] Fred W. Turek,et al. Obesity and Metabolic Syndrome in Circadian Clock Mutant Mice , 2005, Science.
[2] Steven M Reppert,et al. mCRY1 and mCRY2 Are Essential Components of the Negative Limb of the Circadian Clock Feedback Loop , 1999, Cell.
[3] Gene D. Block,et al. Disruption of Circadian Rhythms Accelerates Development of Diabetes through Pancreatic Beta-Cell Loss and Dysfunction , 2011, Journal of biological rhythms.
[4] Aurélien Naldi,et al. A Reduction of Logical Regulatory Graphs Preserving Essential Dynamical Properties , 2009, CMSB.
[5] D. A. Baxter,et al. A reduced model clarifies the role of feedback loops and time delays in the Drosophila circadian oscillator. , 2002, Biophysical journal.
[6] Krešimir Josić,et al. Molecular mechanisms that regulate the coupled period of the mammalian circadian clock. , 2014, Biophysical journal.
[7] Assieh Saadatpour,et al. A Reduction Method for Boolean Network Models Proven to Conserve Attractors , 2013, SIAM J. Appl. Dyn. Syst..
[8] Aurore Woller,et al. A Mathematical Model of the Liver Circadian Clock Linking Feeding and Fasting Cycles to Clock Function. , 2016, Cell reports.
[9] Nicolas Cermakian,et al. Molecular Circadian Rhythms in Central and Peripheral Clocks in Mammals , 2007, Chronobiology international.
[10] Daniel B. Forger,et al. A mechanism for robust circadian timekeeping via stoichiometric balance , 2012, Molecular systems biology.
[11] F. Scheer,et al. Metabolic effects of sleep disruption, links to obesity and diabetes , 2014, Current opinion in endocrinology, diabetes, and obesity.
[12] S. Leibler,et al. Mechanisms of noise-resistance in genetic oscillators , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[13] Hiroki R Ueda,et al. Feedback repression is required for mammalian circadian clock function , 2006, Nature Genetics.
[14] C. Weitz,et al. Light-independent role of CRY1 and CRY2 in the mammalian circadian clock. , 1999, Science.
[15] Hidde de Jong,et al. Modeling and Simulation of Genetic Regulatory Systems: A Literature Review , 2002, J. Comput. Biol..
[16] J. Meijer,et al. Daily and seasonal adaptation of the circadian clock requires plasticity of the SCN neuronal network , 2010, The European journal of neuroscience.
[17] J. Takahashi,et al. Mammalian circadian biology: elucidating genome-wide levels of temporal organization. , 2004, Annual review of genomics and human genetics.
[18] C. Möller-Levet,et al. Effects of insufficient sleep on circadian rhythmicity and expression amplitude of the human blood transcriptome , 2013, Proceedings of the National Academy of Sciences.
[19] Monika Heiner,et al. Modeling membrane systems using colored stochastic Petri nets , 2013, Natural Computing.
[20] Ke Ma,et al. Loss of Bmal1 leads to uncoupling and impaired glucose-stimulated insulin secretion in β-cells , 2011, Islets.
[21] Benita Middleton,et al. Effect of sleep deprivation on rhythms of clock gene expression and melatonin in humans , 2013, Chronobiology international.
[22] Claudine Chaouiya,et al. Petri net modelling of biological networks , 2007, Briefings Bioinform..
[23] Min Zhou,et al. A Period2 Phosphoswitch Regulates and Temperature Compensates Circadian Period. , 2015, Molecular cell.
[24] Emmanouil T. Dermitzakis,et al. A functional circadian clock is required for proper insulin secretion by human pancreatic islet cells , 2016, Diabetes, obesity & metabolism.
[25] Adrien Richard,et al. Formal Methods for Modeling Biological Regulatory Networks , 2006 .
[26] Jitender S. Deogun,et al. Yeast pheromone pathway modeling using Petri nets , 2014, BMC Bioinformatics.
[27] Samar Hayat Khan Tareen,et al. Modelling and Analysis of the Feeding Regimen Induced Entrainment of Hepatocyte Circadian Oscillators Using Petri Nets , 2015, PloS one.
[28] Sobia Rana,et al. Circadian rhythm and its role in malignancy , 2010, Journal of circadian rhythms.
[29] René Thomas,et al. Kinetic logic : a Boolean approach to the analysis of complex regulatory systems : proceedings of the EMBO course "Formal analysis of genetic regulation," held in Brussels, September 6-16, 1977 , 1979 .
[30] Angel Nadal,et al. The clock gene Rev-erbα regulates pancreatic β-cell function: modulation by leptin and high-fat diet. , 2012, Endocrinology.
[31] Gene D. Block,et al. Consequences of Exposure to Light at Night on the Pancreatic Islet Circadian Clock and Function in Rats , 2013, Diabetes.
[32] Jana Husse,et al. Circadian Desynchrony Promotes Metabolic Disruption in a Mouse Model of Shiftwork , 2012, PloS one.
[33] Katsumi Inoue,et al. Proceedings of the Twenty-Second International Joint Conference on Artificial Intelligence Logic Programming for Boolean Networks , 2022 .
[34] A. Goldbeter,et al. Toward a detailed computational model for the mammalian circadian clock , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[35] Daniel B Forger,et al. Model based conjectures on mammalian clock controversies. , 2004, Journal of theoretical biology.
[36] G. Coupland,et al. The genetic basis of flowering responses to seasonal cues , 2012, Nature Reviews Genetics.
[37] Daniel B. Forger,et al. It is not the parts, but how they interact that determines the behaviour of circadian rhythms across scales and organisms , 2014, Interface Focus.
[38] Aamir Shafi,et al. Formal modeling and analysis of the hexosamine biosynthetic pathway: role of O-linked N-acetylglucosamine transferase in oncogenesis and cancer progression , 2016, PeerJ.
[39] Guangsen Shi,et al. An intensity ratio of interlocking loops determines circadian period length , 2014, Nucleic acids research.
[40] M. A. Henson,et al. A molecular model for intercellular synchronization in the mammalian circadian clock. , 2007, Biophysical journal.
[41] Paolo Sassone-Corsi,et al. Bimodal regulation of mPeriod promoters by CREB-dependent signaling and CLOCK/BMAL1 activity , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[42] Hanspeter Herzel,et al. Timing of circadian genes in mammalian tissues , 2014, Scientific Reports.
[43] Matjaz Perc,et al. Modeling the Seasonal Adaptation of Circadian Clocks by Changes in the Network Structure of the Suprachiasmatic Nucleus , 2012, PLoS Comput. Biol..
[44] J. Tyson,et al. A simple model of circadian rhythms based on dimerization and proteolysis of PER and TIM. , 1999, Biophysical journal.
[45] D. P. King,et al. Role of the CLOCK protein in the mammalian circadian mechanism. , 1998, Science.
[46] Hitoshi Onouchi,et al. CONSTANS mediates between the circadian clock and the control of flowering in Arabidopsis , 2001, Nature.
[47] Ueli Schibler,et al. System-Driven and Oscillator-Dependent Circadian Transcription in Mice with a Conditionally Active Liver Clock , 2007, PLoS biology.
[48] A. Goldbeter,et al. Modeling the mammalian circadian clock: sensitivity analysis and multiplicity of oscillatory mechanisms. , 2004, Journal of Theoretical Biology.
[49] Francis J Doyle,et al. A model of the cell-autonomous mammalian circadian clock , 2009, Proceedings of the National Academy of Sciences.
[50] Adrien Richard,et al. Delays in Biological Regulatory Networks (BRN) , 2006, International Conference on Computational Science.
[51] Martin Schwarick,et al. Snoopy - A Unifying Petri Net Tool , 2012, Petri Nets.
[52] J. Bass,et al. Circadian topology of metabolism , 2012, Nature.
[53] J. Bass,et al. Circadian clocks and metabolism. , 2013, Handbook of experimental pharmacology.
[54] Hanspeter Herzel,et al. A model of the mammalian circadian oscillator including the REV-ERBalpha module. , 2004, Genome informatics. International Conference on Genome Informatics.
[55] Peter Ruoff,et al. The Temperature-Compensated Goodwin Model Simulates Many Circadian Clock Properties , 1996 .
[56] U. Schibler,et al. The mammalian circadian timing system: synchronization of peripheral clocks. , 2011, Cold Spring Harbor symposia on quantitative biology.
[57] José Halloy,et al. Stochastic models for circadian rhythms: effect of molecular noise on periodic and chaotic behaviour. , 2003, Comptes rendus biologies.
[58] Ke Ma,et al. Bmal1 and β-Cell Clock Are Required for Adaptation to Circadian Disruption, and Their Loss of Function Leads to Oxidative Stress-Induced β-Cell Failure in Mice , 2013, Molecular and Cellular Biology.
[59] Joseph S. Takahashi,et al. Circadian Integration of Metabolism and Energetics , 2010, Science.
[60] Ina Koch,et al. Model validation of biological pathways using Petri nets , 2004 .
[61] Paul Smolen,et al. Simulation of Drosophila circadian oscillations, mutations, and light responses by a model with VRI, PDP-1, and CLK. , 2004, Biophysical journal.
[62] Hiroshi Matsuno,et al. A new regulatory interaction suggested by simulations for circadian genetic control mechanism in mammals , 2006, APBC.
[63] Achim Kramer,et al. Tuning the Mammalian Circadian Clock: Robust Synergy of Two Loops , 2011, PLoS Comput. Biol..
[64] A. Knutsson,et al. Health disorders of shift workers. , 2003, Occupational medicine.
[65] Gilles Bernot,et al. Discrete Delay Model for the Mammalian Circadian Clock , 2007, Complexus.
[66] Amjad Ali,et al. Modeling and analysis of the impacts of jet lag on circadian rhythm and its role in tumor growth , 2018, PeerJ.
[67] K. Yau,et al. Intrinsically photosensitive retinal ganglion cells. , 2010, Physiological reviews.
[68] S H Strogatz,et al. Human sleep and circadian rhythms: a simple model based on two coupled oscillators , 1987, Journal of mathematical biology.
[69] S. Leibler,et al. Biological rhythms: Circadian clocks limited by noise , 2000, Nature.
[70] H. Kitano,et al. Robust oscillations within the interlocked feedback model of Drosophila circadian rhythm. , 2001, Journal of theoretical biology.
[71] K. Spiegel,et al. Impact of sleep debt on metabolic and endocrine function , 1999, The Lancet.
[72] Denis Thieffry,et al. Qualitative modelling of regulated metabolic pathways: application to the tryptophan biosynthesis in E.Coli , 2005, ECCB/JBI.
[73] Ook Joon Yoo,et al. PERIOD2::LUCIFERASE real-time reporting of circadian dynamics reveals persistent circadian oscillations in mouse peripheral tissues. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[74] Denis Thieffry,et al. Qualitative Petri Net Modelling of Genetic Networks , 2006, Trans. Comp. Sys. Biology.
[75] U. Schibler,et al. Glucocorticoid hormones inhibit food‐induced phase‐shifting of peripheral circadian oscillators , 2001, The EMBO journal.
[76] Joseph S. Takahashi,et al. Disruption of the Clock Components CLOCK and BMAL 1 Leads to Hypoinsulinemia and Diabetes , 2012 .
[77] Derk-Jan Dijk,et al. Light, Sleep, and Circadian Rhythms: Together Again , 2009, PLoS biology.
[78] Vsevolod Afanasyev,et al. At–Sea Behavior Varies with Lunar Phase in a Nocturnal Pelagic Seabird, the Swallow-Tailed Gull , 2013, PloS one.
[79] Andrea Sackmann,et al. Petri net based model of the body iron homeostasis , 2007, J. Biomed. Informatics.
[80] Rachel Leproult,et al. Circadian Misalignment Augments Markers of Insulin Resistance and Inflammation, Independently of Sleep Loss , 2014, Diabetes.
[81] Aurélien Naldi,et al. Logical modelling of gene regulatory networks with GINsim. , 2012, Methods in molecular biology.
[82] Christel Baier,et al. Principles of model checking , 2008 .
[83] U. Niazi,et al. Formal Modeling and Analysis of the MAL-Associated Biological Regulatory Network: Insight into Cerebral Malaria , 2012, PloS one.
[84] Adrien Richard,et al. Application of formal methods to biological regulatory networks: extending Thomas' asynchronous logical approach with temporal logic. , 2004, Journal of theoretical biology.
[85] Joseph S. Takahashi,et al. A tunable artificial circadian clock in clock-defective mice , 2015, Nature Communications.
[86] Edmund M. Clarke,et al. Model Checking , 1999, Handbook of Automated Reasoning.
[87] Didier Gonze,et al. Modeling circadian clocks: Roles, advantages, and limitations , 2011, Central European Journal of Biology.
[88] El Houssine Snoussi,et al. Logical identification of all steady states: The concept of feedback loop characteristic states , 1993 .
[89] Wolfgang Reisig,et al. Carl Adam Petri and "Petri Nets" , 2007 .
[90] Hassane Alla,et al. Discrete, continuous, and hybrid Petri Nets , 2004 .
[91] H. Herzel,et al. Modeling feedback loops of the Mammalian circadian oscillator. , 2004, Biophysical journal.
[92] E. van Cauter,et al. The metabolic consequences of sleep deprivation. , 2007, Sleep medicine reviews.
[93] R. Illner,et al. A model for generating circadian rhythm by coupling ultradian oscillators , 2006, Theoretical Biology and Medical Modelling.
[94] René Thomas. Regulatory networks seen as asynchronous automata: A logical description , 1991 .
[95] Thomas P. Burris,et al. Involvement of the Clock Gene Rev-erb alpha in the Regulation of Glucagon Secretion in Pancreatic Alpha-Cells , 2013, PloS one.
[96] J. Takahashi,et al. Central and peripheral circadian clocks in mammals. , 2012, Annual review of neuroscience.
[97] I. Quesada,et al. Clock genes, pancreatic function, and diabetes. , 2014, Trends in molecular medicine.
[98] K. Aihara,et al. Bifurcations in a mathematical model for circadian oscillations of clock genes. , 2006, Journal of theoretical biology.
[99] S. Kauffman. Metabolic stability and epigenesis in randomly constructed genetic nets. , 1969, Journal of theoretical biology.
[100] Hiroki Yokota,et al. Application of Petri Nets in Bone Remodeling , 2009, Gene regulation and systems biology.
[101] Rachel Leproult,et al. HIGHLIGHTED TOPIC Physiology and Pathophysiology of Sleep Apnea Sleep loss: a novel risk factor for insulin resistance and Type 2 diabetes , 2022 .
[102] Denis Thieffry,et al. Petri net modelling of biological regulatory networks , 2008, J. Discrete Algorithms.
[103] Franck Delaplace,et al. Semantics of Biological Regulatory Networks , 2007, Electron. Notes Theor. Comput. Sci..
[104] A. B. Reddy,et al. Healthy clocks, healthy body, healthy mind , 2010, Trends in cell biology.
[105] G. Sridhar,et al. Prevalence of sleep disturbances in diabetes mellitus. , 1994, Diabetes research and clinical practice.
[106] Marco Pistore,et al. NuSMV 2: An OpenSource Tool for Symbolic Model Checking , 2002, CAV.
[107] Liza Gross. Central and Peripheral Signals Set the Circadian Liver Clock , 2007, PLoS biology.