References
- 1. Saini R, Jaskolski M, Davis SJ. Circadian oscillator proteins across the kingdoms of life: structural aspects. BMC Biology 2019;17:13-5210.1186/s12915-018-0623-3637874330777051
- 2. Li S, Zhang L. Circadian Control of Global Transcription. BioMed Research International 2015;14:1-810.1155/2015/187809467084626682214
- 3. Takahashi JS, Hong HK, Ko CH, McDearmon EL. The Genetics of Mammalian Circadian Order and Disorder: Implications for Physiology and Disease. Nat Rev Genet. 2008;9(10):764–77510.1038/nrg2430375847318802415
- 4. Umemura Y, Yagita K. Development of the Circadian Core Machinery in Mammals. J Mol Biol 2020; 29;432(12):3611-361710.1016/j.jmb.2019.11.02631931007
- 5. Riede SJ, van der Vinne V, Hut RA. The flexible clock: predictive and reactive homeostasis, energy balance and the circadian regulation of sleep–wake timing. Journal of Experimental Biology 2017;220:738-74910.1242/jeb.13075728250173
- 6. Maury E. Off the Clock: From Circadian Disruption to Metabolic Disease. Int. J. Mol. Sci. 2019;20(7):159710.3390/ijms20071597648001530935034
- 7. Albrecht U, Ripperger JA. Clock Genes. In: Binder M.D., Hirokawa N., Windhorst U. (eds) Encyclopedia of Neuroscience. Springer, Berlin, Heidelberg, 2019
- 8. Takahashi JS. Transcriptional architecture of the mammalian circadian clock. Nat Genet Review 2017;18:164–17910.1038/nrg.2016.150550116527990019
- 9. Li X, Leisheng S, Zhang K et al. CirGRDB: a database for the genome-wide deciphering circadian genes and regulators. Nucleic Acids Research 2018;D1(46):D64–D7010.1093/nar/gkx944575320529059379
- 10. Preußner M, Heyd F. Post-transcriptional control of the mammalian circadian clock: implications for health and disease. Pflugers Arch - Eur J Physiol 2016;468:983–99110.1007/s00424-016-1820-y489306127108448
- 11. Mohawk JA, Green CB, Takahashi JS. Central and peripheral circadian clocks in mammals. Ann Rev Neurosci 2012;35:445–46210.1146/annurev-neuro-060909-153128371058222483041
- 12. Honma S. The mammalian circadian system: a hierarchical multi-oscillator structure for generating circadian rhythm. The Journal of Physiological Sciences 2018;68:207–21910.1007/s12576-018-0597-529460036
- 13. Rijo-Fereira F, Takahashi JS. Genomics of circadian rhythms in health and disease. Genome Medicine 2019;11:8210.1186/s13073-019-0704-0691651231847894
- 14. Zhang R, Lahens NF, Balance HI, Hughes ME, Hogenesch JB. A circadian gene expression atlas in mammals: Implications for biology and medicine. PNAS 2014;111(45):16219-1622410.1073/pnas.1408886111423456525349387
- 15. Edgar RS, Stangherlin A, Nagy AD, et al. Cell autonomous regulation of herpes and influenza virus infection by the circadian clock. Proc Natl Acad Sci U S A. 2016;113:10085–1009010.1073/pnas.1601895113501879527528682
- 16. Okamura H, Doi M, Fustin JM, Yamaguchi Y, Matsuo M. Mammalian circadian clock system: Molecular mechanisms for pharmaceutical and medical sciences. Advanced Drug Delivery Reviews 2010;62:876–88410.1016/j.addr.2010.06.00420620185
- 17. Ruben MD, Wu G, Smith DF, et al. A database of tissue-specific rhythmically expressed human genes has potential applications in circadian medicine. Sci Transl Med. 2018;12;10(458):eaat880610.1126/scitranslmed.aat8806896134230209245
- 18. The UniProt Consortium. UniProt: a worldwide hub of protein knowledge. Nucleic Acids Research. 2019;49(D1):D506–D515 - www.uniprot.org10.1093/nar/gky1049632399230395287
- 19. Gene (Internet). Bethesda (MD): National Library of Medicine (US), National Center for Biotechnology Information; 2020 – (cited 2020 Nov 28). Available from: https://www.ncbi.nlm.nih.gov/gene/
- 20. HGNC Database, HUGO Gene Nomenclature Committee (HGNC), European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom - www.genenames.org. (data retrieved January 2019)
- 21. Online Mendelian Inheritance in Man, OMIM. McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University (Baltimore, MD), July 2019. World Wide Web URL: https://omim.org/
- 22. Andrew D Yates, Premanand Achuthan, Wasiu Akanni, et al. Ensembl 2020. Nucleic Acids Research. 2020;48(D1): D682–D688 - www. ensembl.org
- 23. Mehra A, Baker CL, Loros JJ, Dunlap JC. Post-translational modifications in circadian rhythms. Trends Biochem Sci. 2009;34:483–49010.1016/j.tibs.2009.06.006276505719740663
- 24. Ko CH, Takahashi JS. Molecular components of the mammalian circadian clock. Hum Mol Genet. 2006;15(2):R271–R27710.1093/hmg/ddl20716987893
- 25. Koike N, Yoo SH, Huang HC, Kumar V, Lee C, Kim TK, Takahashi JS. Transcriptional architecture and chromatin landscape of the core circadian clock in mammals. Science 2012;338:349–35410.1126/science.1226339369477522936566
- 26. Bellet MM, Sassone-Corsi P. Mammalian circadian clock and metabolism – the epigenetic link. Journal of Cell Science 2010;123 (22):3837-384810.1242/jcs.051649297227121048160
- 27. Etchegaray JP, Lee C, Wade PA, Reppert SM. Rhythmic histone acetylation underlies transcription in the mammalian circadian clock. Nature 2003;421:177-18210.1038/nature0131412483227
- 28. Terajima H, Yoshitane H, Ozaki H, et al. ADARB1 catalyzes circadian A-to-I editing and regulates RNA rhythm. Nat Genet 2017;49:146–15110.1038/ng.373127893733
- 29. Partch CL, Green CB, Takahashi JS. Molecular architecture of the mammalian circadian clock. Trends in Cell Biology 2014;24(2):90-9910.1016/j.tcb.2013.07.002394676323916625
- 30. Cox KH, Takahashi JS. Circadian clock genes and the transcriptional architecture of the clock mechanism. Journal of Molecular Endocrinology 2019;4(63):R93–R10210.1530/JME-19-0153687294531557726
- 31. Mazzoccoli G, Pazienza V, Vinciguerra M. Clock Genes and Clock-Controlled Genes in the Regulation of Metabolic Rhythms. Chronobiology International 2012;29(3):227–25110.3109/07420528.2012.65812722390237
- 32. Wang Z, Wy Y, Li L, Su XD. Intermolecular recognition revealed by the complex structure of human CLOCK-BMAL1 basic helix-loop-helix domains with E-box DNA. Cell Res 2013;23:213-22410.1038/cr.2012.170356781323229515
- 33. Ueda HR, Hayashi S, Chen W, et al. System-level identification of transcriptional circuits underlying mammalian circadian clocks. Nat Genet 2005;37:187–19210.1038/ng150415665827
- 34. Reinke H, Asher G. Crosstalk between metabolism and circadian clocks. Nature Reviews Molecular Cell Biology 2019;20: 227–24110.1038/s41580-018-0096-930635659
- 35. Panda S. Circadian physiology of metabolism. Science 2016;354(6315):1008-101510.1126/science.aah4967726159227885007
- 36. Pacheco-Bernal I, Pérez FB, Aguilar-Arnal L.Circadian rhythms in the three-dimensional genome: implications of chromatin interactions for cyclic transcription. Clinical Epigenetics 2019;11:79-9210.1186/s13148-019-0677-2652141331092281
- 37. Ye R, Selby CP, Chiou YY, et al. Dual modes of CLOCK:BMAL1 inhibition mediated by Cryptochrome and Period proteins in the mammalian circadian clock. Genes & Development 2014;28:1989–199810.1101/gad.249417.114417315925228643
- 38. Fu L, Lee CC. The circadian clock: pacemaker and tumour suppressor. Nat Rev Cancer 3:350-36110.1038/nrc107212724733
- 39. Stratmann M, Stadler F, Tamanini F, van der Horst GTJ, Ripperger JA. Flexible phase adjustment of circadian albumin D site-binding protein (Dbp) gene expression by CRY1. Genes & Development 2010;24:1317–132810.1101/gad.578810288566620551177
- 40. Minami Y KL Ode, Ueda HR. Mammalian circadian clock: the roles of transcriptional repression and delay. Handb Exp Pharmacol. 2013;217:359-37710.1007/978-3-642-25950-0_1523604487
- 41. Stelzer G, Rosen R, Plaschkes I, et al. The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analysis. Curr Protoc Bioinformatics. 2016;54:1.30.1-1.30.33 - www.genecards.org10.1002/cpbi.527322403
- 42. Stojkovic K, Wing SS, Cermakian N. A central role for ubiquitination within a circadian clock protein modification code. Front Mol Neurosci. 2014;7:6910.3389/fnmol.2014.00069412479325147498
- 43. Rey G, Reddy AB. Connecting cellular metabolism to circadian clocks. Trends in Cell Biology 2013: 23(5):234-24110.1016/j.tcb.2013.01.00323391694
- 44. Mazzoccoli M, Pazienza V, Vinciguerra M. Clock Genes and Clock-Controlled Genes in the Regulation of Metabolic Rhythms. Chronobiology International 2012;29(3):227–25110.3109/07420528.2012.65812722390237
- 45. Charrier A, Olliac B, Roubertoux P, Tordjman S. Clock Genes and Altered Sleep–Wake Rhythms: Their Role in the Development of Psychiatric Disorders. Int J Mol Sci 2017;18:938-95010.3390/ijms18050938545485128468274
- 46. Partonen T. Clock gene variants in mood and anxiety disorders. J Neural Transm 2012;119:1133–114510.1007/s00702-012-0810-222538398
- 47. Albrecht U. Molecular mechanisms in mood regulation involving the circadian clock. Front Neurol 2017;8:3010.3389/fneur.2017.00030529381728223962
- 48. Asher G, Schibler U. Crosstalk between components of circadian and metabolic cycles in mammals. Cell Metab 2011;13(2):125-13710.1016/j.cmet.2011.01.00621284980
- 49. Liu C, Li S, Liu T, Borjigin J, Lin JD. Transcriptional coactivator PGC-1alpha integrates the mammalian clock and energy metabolism. Nature 2007; 447:477–48110.1038/nature0576717476214
- 50. Zimmet P, Alberti KGMM, Stern N, et al. The Circadian Syndrome: is the Metabolic Syndrome and much more! J Intern Med 2019;286(2):181-191
- 51. Ramanathan C, Kathale ND, Liu D, et al. mTOR signaling regulates central and peripheral circadian clock function. PLoS Genet 2018;14(5):e1007369.10.1371/journal.pgen.1007369596590329750810
- 52. Tamaru T, Takamatsu K. Circadian modification network of a core clock driver BMAL1 to harmonize physiology from brain to peripheral tissues. Neurochem Int. 2018;119:11-1610.1016/j.neuint.2017.12.01329305918
- 53. Albrecht U. The circadian clock, metabolism and obesity. Obesity Reviews 2017;18(S1):25–3310.1111/obr.1250228164453
- 54. Kim P, Oster H, Lehnert H, et al. Coupling the Circadian Clock to Homeostasis: The Role of Period in Timing Physiology. Endocr Rev 2019;40(1):66-9510.1210/er.2018-0004930169559