TY - JOUR AU - DeCoursey, P. J. AU - Krulas, J. R. AU - Mele, G. AU - Holley, D. C. PY - 1997 DA - 1997// TI - Circadian performance of Suprachiasmatic nuclei (SCN)-Lesioned Antelope ground squirrels in a desert enclosure JO - Physiol Behav. VL - 62 UR - https://doi.org/10.1016/S0031-9384(97)00263-1 DO - 10.1016/S0031-9384(97)00263-1 ID - DeCoursey1997 ER - TY - JOUR AU - Klarsfeld, A. AU - Rouyer, F. PY - 1998 DA - 1998// TI - Effects of circadian mutations and LD periodicity on the life span of Drosophila melanogaster JO - J Biol Rhythm. VL - 13 UR - https://doi.org/10.1177/074873098129000309 DO - 10.1177/074873098129000309 ID - Klarsfeld1998 ER - TY - JOUR AU - Ouyang, Y. AU - Andersson, C. R. AU - Kondo, T. AU - Golden, S. S. AU - Johnson, C. H. PY - 1998 DA - 1998// TI - Resonating circadian clocks enhance fitness in cyanobacteria JO - Proc Natl Acad Sci. VL - 95 UR - https://doi.org/10.1073/pnas.95.15.8660 DO - 10.1073/pnas.95.15.8660 ID - Ouyang1998 ER - TY - JOUR AU - Atamian, H. S. AU - Creux, N. M. AU - Brown, E. A. AU - Garner, A. G. AU - Blackman, B. K. AU - Harmer, S. L. PY - 2016 DA - 2016// TI - Circadian regulation of sunflower heliotropism, floral orientation, and pollinator visits JO - Science. VL - 353 UR - https://doi.org/10.1126/science.aaf9793 DO - 10.1126/science.aaf9793 ID - Atamian2016 ER - TY - JOUR AU - Reppert, S. M. AU - Weaver, D. R. PY - 2002 DA - 2002// TI - Coordination of circadian timing in mammals JO - Nature. VL - 418 UR - https://doi.org/10.1038/nature00965 DO - 10.1038/nature00965 ID - Reppert2002 ER - TY - STD TI - deMairan JJ. Histoire de l’Académie royale des sciences ... avec les mémoires de mathématique & de physique... tirez des registres de cette Académie. Hist Acad R Sci. 1729:35–6. [cited 2020 Feb 12]. Available from: https://gallica.bnf.fr/ark:/12148/bpt6k3527h. UR - https://gallica.bnf.fr/ark:/12148/bpt6k3527h ID - ref6 ER - TY - JOUR AU - McClung, C. R. PY - 2006 DA - 2006// TI - Plant circadian rhythms JO - Plant Cell. VL - 18 UR - https://doi.org/10.1105/tpc.106.040980 DO - 10.1105/tpc.106.040980 ID - McClung2006 ER - TY - JOUR AU - Oren, M. AU - Tarrant, A. M. AU - Alon, S. AU - Simon-Blecher, N. AU - Elbaz, I. AU - Appelbaum, L. PY - 2015 DA - 2015// TI - Profiling molecular and behavioral circadian rhythms in the non-symbiotic sea anemone Nematostella vectensis JO - Sci Rep. VL - 5 UR - https://doi.org/10.1038/srep11418 DO - 10.1038/srep11418 ID - Oren2015 ER - TY - JOUR AU - Bell-Pedersen, D. AU - Cassone, V. M. AU - Earnest, D. J. AU - Golden, S. S. AU - Hardin, P. E. AU - Thomas, T. L. PY - 2005 DA - 2005// TI - Circadian rhythms from multiple oscillators: lessons from diverse organisms JO - Nat Rev Genet. VL - 6 UR - https://doi.org/10.1038/nrg1633 DO - 10.1038/nrg1633 ID - Bell-Pedersen2005 ER - TY - JOUR AU - Ikeno, T. AU - Numata, H. AU - Goto, S. G. PY - 2008 DA - 2008// TI - Molecular characterization of the circadian clock genes in the bean bug, Riptortus pedestris, and their expression patterns under long- and short-day conditions JO - Gene. VL - 419 UR - https://doi.org/10.1016/j.gene.2008.05.002 DO - 10.1016/j.gene.2008.05.002 ID - Ikeno2008 ER - TY - STD TI - Dunlap JC, Loros JJ. Making time: conservation of biological clocks from Fungi to animals. Microbiol Spectr. 2017; https://doi.org/10.1128/microbiolspec.FUNK-0039-2016. ID - ref11 ER - TY - JOUR AU - Huang, R. -. C. PY - 2018 DA - 2018// TI - The discoveries of molecular mechanisms for the circadian rhythm: the 2017 Nobel prize in physiology or medicine JO - Biom J. VL - 41 ID - Huang2018 ER - TY - JOUR AU - Dunlap, J. C. PY - 1999 DA - 1999// TI - Molecular bases for circadian clocks JO - Cell. VL - 96 UR - https://doi.org/10.1016/S0092-8674(00)80566-8 DO - 10.1016/S0092-8674(00)80566-8 ID - Dunlap1999 ER - TY - JOUR AU - Loudon, A. S. I. PY - 2012 DA - 2012// TI - Circadian biology: a 2.5 billion year old clock JO - Curr Biol CB. VL - 22 UR - https://doi.org/10.1016/j.cub.2012.06.023 DO - 10.1016/j.cub.2012.06.023 ID - Loudon2012 ER - TY - JOUR AU - Hurley, J. M. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2016 DA - 2016// TI - Circadian oscillators: around the transcription–translation feedback loop and on to output JO - Trends Biochem Sci. VL - 41 UR - https://doi.org/10.1016/j.tibs.2016.07.009 DO - 10.1016/j.tibs.2016.07.009 ID - Hurley2016 ER - TY - JOUR AU - Partch, C. L. AU - Green, C. B. AU - Takahashi, J. S. PY - 2014 DA - 2014// TI - Molecular architecture of the mammalian circadian clock JO - Trends Cell Biol. VL - 24 UR - https://doi.org/10.1016/j.tcb.2013.07.002 DO - 10.1016/j.tcb.2013.07.002 ID - Partch2014 ER - TY - JOUR AU - Mure, L. S. AU - Le, H. D. AU - Benegiamo, G. AU - Chang, M. W. AU - Rios, L. AU - Jillani, N. PY - 2018 DA - 2018// TI - Diurnal transcriptome atlas of a primate across major neural and peripheral tissues JO - Science. VL - 359 UR - https://doi.org/10.1126/science.aao0318 DO - 10.1126/science.aao0318 ID - Mure2018 ER - TY - JOUR AU - Hughes, M. E. AU - Grant, G. R. AU - Paquin, C. AU - Qian, J. AU - Nitabach, M. N. PY - 2012 DA - 2012// TI - Deep sequencing the circadian and diurnal transcriptome of Drosophila brain JO - Genome Res. VL - 22 UR - https://doi.org/10.1101/gr.128876.111 DO - 10.1101/gr.128876.111 ID - Hughes2012 ER - TY - JOUR AU - Hurley, J. M. AU - Dasgupta, A. AU - Emerson, J. M. AU - Zhou, X. AU - Ringelberg, C. S. AU - Knabe, N. PY - 2014 DA - 2014// TI - Analysis of clock-regulated genes in Neurospora reveals widespread posttranscriptional control of metabolic potential JO - Proc Natl Acad Sci. VL - 111 UR - https://doi.org/10.1073/pnas.1418963111 DO - 10.1073/pnas.1418963111 ID - Hurley2014 ER - TY - JOUR AU - Akhtar, R. A. AU - Reddy, A. B. AU - Maywood, E. S. AU - Clayton, J. D. AU - King, V. M. AU - Smith, A. G. PY - 2002 DA - 2002// TI - Circadian cycling of the mouse liver Transcriptome, as revealed by cDNA microarray, is driven by the Suprachiasmatic nucleus JO - Curr Biol. VL - 12 UR - https://doi.org/10.1016/S0960-9822(02)00759-5 DO - 10.1016/S0960-9822(02)00759-5 ID - Akhtar2002 ER - TY - JOUR AU - Vitalini, M. W. AU - Paula, R. M. AU - Park, W. D. AU - Bell-Pedersen, D. PY - 2006 DA - 2006// TI - The rhythms of life: circadian output pathways in Neurospora JO - J Biol Rhythm. VL - 21 UR - https://doi.org/10.1177/0748730406294396 DO - 10.1177/0748730406294396 ID - Vitalini2006 ER - TY - JOUR AU - Hurley, J. M. AU - Jankowski, M. S. AU - Santos, H. AU - Crowell, A. M. AU - Fordyce, S. B. AU - Zucker, J. D. PY - 2018 DA - 2018// TI - Circadian Proteomic Analysis Uncovers Mechanisms of Post-Transcriptional Regulation in Metabolic Pathways JO - Cell Syst. VL - 7 UR - https://doi.org/10.1016/j.cels.2018.10.014 DO - 10.1016/j.cels.2018.10.014 ID - Hurley2018 ER - TY - STD TI - Jankowski MS, Chase ZA, Hurley JM. Chapter 4. From genetics to molecular oscillations: the circadian clock in Neurospora Crassa. In: Benz JP, Schipper K, editors. Genet Biotechnol. 3rd ed: Springer International Publishing; 2020. p. 130. Available from: https://doi.org/10.1007/978-3-030-49924-2. ID - ref23 ER - TY - CHAP AU - Fuller, K. K. AU - Hurley, J. M. AU - Loros, J. J. AU - Dunlap, J. C. ED - Nowrousian, M. PY - 2014 DA - 2014// TI - 6 photobiology and circadian clocks in Neurospora BT - Fungal genomics PB - Springer CY - Berlin, Heidelberg UR - https://doi.org/10.1007/978-3-642-45218-5_6 DO - 10.1007/978-3-642-45218-5_6 ID - Fuller2014 ER - TY - JOUR AU - Allada, R. AU - Chung, B. Y. PY - 2010 DA - 2010// TI - Circadian Organization of Behavior and Physiology in Drosophila JO - Annu Rev Physiol. VL - 72 UR - https://doi.org/10.1146/annurev-physiol-021909-135815 DO - 10.1146/annurev-physiol-021909-135815 ID - Allada2010 ER - TY - JOUR AU - Bass, J. AU - Lazar, M. A. PY - 2016 DA - 2016// TI - Circadian time signatures of fitness and disease JO - Science. VL - 354 UR - https://doi.org/10.1126/science.aah4965 DO - 10.1126/science.aah4965 ID - Bass2016 ER - TY - STD TI - Khan S, Malik BH, Gupta D, Rutkofsky I. The Role of Circadian Misalignment due to Insomnia, Lack of Sleep, and Shift Work in Increasing the Risk of Cardiac Diseases: A Systematic Review. Cureus. 12. ID - ref27 ER - TY - JOUR AU - Stevens, R. G. AU - Blask, D. E. AU - Brainard, G. C. AU - Hansen, J. AU - Lockley, S. W. AU - Provencio, I. PY - 2007 DA - 2007// TI - Meeting report: the role of environmental lighting and circadian disruption in Cancer and other diseases JO - Environ Health Perspect. VL - 115 UR - https://doi.org/10.1289/ehp.10200 DO - 10.1289/ehp.10200 ID - Stevens2007 ER - TY - JOUR AU - Schernhammer, E. S. AU - Laden, F. AU - Speizer, F. E. AU - Willett, W. C. AU - Hunter, D. J. AU - Kawachi, I. PY - 2001 DA - 2001// TI - Rotating night shifts and risk of breast Cancer in women participating in the nurses’ health study JO - JNCI J Natl Cancer Inst. VL - 93 UR - https://doi.org/10.1093/jnci/93.20.1563 DO - 10.1093/jnci/93.20.1563 ID - Schernhammer2001 ER - TY - JOUR AU - Bechtold, D. A. AU - Gibbs, J. E. AU - Loudon, A. S. I. PY - 2010 DA - 2010// TI - Circadian dysfunction in disease JO - Trends Pharmacol Sci. VL - 31 UR - https://doi.org/10.1016/j.tips.2010.01.002 DO - 10.1016/j.tips.2010.01.002 ID - Bechtold2010 ER - TY - STD TI - Evans JA, Davidson AJ. Health Consequences of Circadian Disruption in Humans and Animal Models. Prog Mol Biol Transl Sci. 2013:283–323. ID - ref31 ER - TY - JOUR AU - Zhang, R. AU - Lahens, N. F. AU - Ballance, H. I. AU - Hughes, M. E. AU - Hogenesch, J. B. PY - 2014 DA - 2014// TI - A circadian gene expression atlas in mammals: implications for biology and medicine JO - Proc Natl Acad Sci. VL - 111 UR - https://doi.org/10.1073/pnas.1408886111 DO - 10.1073/pnas.1408886111 ID - Zhang2014 ER - TY - JOUR AU - Chang, A. -. M. AU - Aeschbach, D. AU - Duffy, J. F. AU - Czeisler, C. A. PY - 2015 DA - 2015// TI - Evening use of light-emitting eReaders negatively affects sleep, circadian timing, and next-morning alertness JO - Proc Natl Acad Sci. VL - 112 UR - https://doi.org/10.1073/pnas.1418490112 DO - 10.1073/pnas.1418490112 ID - Chang2015 ER - TY - JOUR AU - Edery, I. PY - 2000 DA - 2000// TI - Circadian rhythms in a nutshell JO - Physiol Genomics. VL - 3 UR - https://doi.org/10.1152/physiolgenomics.2000.3.2.59 DO - 10.1152/physiolgenomics.2000.3.2.59 ID - Edery2000 ER - TY - JOUR AU - Figueiro, M. G. AU - Plitnick, B. AU - Roohan, C. AU - Sahin, L. AU - Kalsher, M. AU - Rea, M. S. PY - 2019 DA - 2019// TI - Effects of a tailored lighting intervention on sleep quality, rest–activity, mood, and behavior in older adults with Alzheimer disease and related dementias: a randomized clinical trial JO - J Clin Sleep Med. VL - 15 UR - https://doi.org/10.5664/jcsm.8078 DO - 10.5664/jcsm.8078 ID - Figueiro2019 ER - TY - JOUR AU - Takahashi, J. S. PY - 2017 DA - 2017// TI - Transcriptional architecture of the mammalian circadian clock JO - Nat Rev Genet. VL - 18 UR - https://doi.org/10.1038/nrg.2016.150 DO - 10.1038/nrg.2016.150 ID - Takahashi2017 ER - TY - STD TI - Partch CL. Orchestration of Circadian Timing by Macromolecular Protein Assemblies. J Mol Biol. 2020; [cited 2020 Feb 25]; Available from: http://www.sciencedirect.com/science/article/pii/S0022283620300322romanow. UR - http://www.sciencedirect.com/science/article/pii/S0022283620300322romanow ID - ref37 ER - TY - JOUR AU - Baker, C. L. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2012 DA - 2012// TI - The circadian clock of Neurospora crassa JO - FEMS Microbiol Rev. VL - 36 UR - https://doi.org/10.1111/j.1574-6976.2011.00288.x DO - 10.1111/j.1574-6976.2011.00288.x ID - Baker2012 ER - TY - JOUR AU - Dunlap, J. C. PY - 2008 DA - 2008// TI - Salad days in the rhythms trade JO - Genetics. VL - 178 UR - https://doi.org/10.1534/genetics.104.86496 DO - 10.1534/genetics.104.86496 ID - Dunlap2008 ER - TY - JOUR AU - Larrondo, L. F. AU - Olivares-Yanez, C. AU - Baker, C. L. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2015 DA - 2015// TI - Decoupling circadian clock protein turnover from circadian period determination JO - Science. VL - 347 UR - https://doi.org/10.1126/science.1257277 DO - 10.1126/science.1257277 ID - Larrondo2015 ER - TY - JOUR AU - Lim, C. AU - Allada, R. PY - 2013 DA - 2013// TI - Emerging roles for post-transcriptional regulation in circadian clocks JO - Nat Neurosci. VL - 16 UR - https://doi.org/10.1038/nn.3543 DO - 10.1038/nn.3543 ID - Lim2013 ER - TY - JOUR AU - Wang, J. AU - Symul, L. AU - Yeung, J. AU - Gobet, C. AU - Sobel, J. AU - Lück, S. PY - 2018 DA - 2018// TI - Circadian clock-dependent and -independent posttranscriptional regulation underlies temporal mRNA accumulation in mouse liver JO - Proc Natl Acad Sci. VL - 115 UR - https://doi.org/10.1073/pnas.1715225115 DO - 10.1073/pnas.1715225115 ID - Wang2018 ER - TY - JOUR AU - Preußner, M. AU - Heyd, F. PY - 2016 DA - 2016// TI - Post-transcriptional control of the mammalian circadian clock: implications for health and disease JO - Pflugers Arch. VL - 468 UR - https://doi.org/10.1007/s00424-016-1820-y DO - 10.1007/s00424-016-1820-y ID - Preußner2016 ER - TY - JOUR AU - Romanowski, A. AU - Yanovsky, M. J. PY - 2015 DA - 2015// TI - Circadian rhythms and post-transcriptional regulation in higher plants JO - Front Plant Sci. VL - 6 UR - https://doi.org/10.3389/fpls.2015.00437 DO - 10.3389/fpls.2015.00437 ID - Romanowski2015 ER - TY - STD TI - Collins EJ, Cervantes-Silva MP, Timmons GA, O’Siorain JR, Curtis AM, Hurley JM. Post-transcriptional circadian regulation in macrophages organizes temporally distinct Immunometabolic states. Mol Biol. 2020; Available from: http://biorxiv.org/lookup/doi/10.1101/2020.02.28.970715. UR - http://biorxiv.org/lookup/doi/10.1101/2020.02.28.970715 ID - ref45 ER - TY - JOUR AU - Brody, S. PY - 2020 DA - 2020// TI - A comparison of the Neurospora and Drosophila clocks JO - J Biol Rhythm. VL - 35 UR - https://doi.org/10.1177/0748730419892434 DO - 10.1177/0748730419892434 ID - Brody2020 ER - TY - JOUR AU - Dunlap, J. C. AU - Loros, J. J. PY - 2018 DA - 2018// TI - Just-so stories and origin myths: phosphorylation and structural disorder in circadian clock proteins JO - Mol Cell Elsevier. VL - 69 UR - https://doi.org/10.1016/j.molcel.2017.11.028 DO - 10.1016/j.molcel.2017.11.028 ID - Dunlap2018 ER - TY - STD TI - Pelham JF, Mosier AE, Hurley JM. Characterizing Time-of-Day Conformational Changes in the Intrinsically Disordered Proteins of the Circadian Clock. Methods Enzymol. 2018:503–29. ID - ref48 ER - TY - JOUR AU - Loros, J. J. PY - 2020 DA - 2020// TI - Principles of the animal molecular clock learned from Neurospora JO - Eur J Neurosci. VL - 51 UR - https://doi.org/10.1111/ejn.14354 DO - 10.1111/ejn.14354 ID - Loros2020 ER - TY - JOUR AU - Hurley, J. M. AU - Larrondo, L. F. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2013 DA - 2013// TI - Conserved RNA helicase FRH acts nonenzymatically to support the intrinsically disordered Neurospora clock protein FRQ JO - Mol Cell. VL - 52 UR - https://doi.org/10.1016/j.molcel.2013.11.005 DO - 10.1016/j.molcel.2013.11.005 ID - Hurley2013 ER - TY - STD TI - Romero P, Obradovic Z, Li X, Garner EC, Brown CJ, Dunker AK. Sequence complexity of disordered protein. 11. ID - ref51 ER - TY - JOUR AU - Peng, K. AU - Vucetic, S. AU - Radivojac, P. AU - Brown, C. J. AU - Dunker, A. K. AU - Obradovic, Z. PY - 2005 DA - 2005// TI - Optimizing Long intrinsic disorder predictors with protein evolutionary information JO - J Bioinforma Comput Biol. VL - 03 UR - https://doi.org/10.1142/S0219720005000886 DO - 10.1142/S0219720005000886 ID - Peng2005 ER - TY - JOUR AU - Peng, K. AU - Radivojac, P. AU - Vucetic, S. AU - Dunker, A. K. AU - Obradovic, Z. PY - 2006 DA - 2006// TI - Length-dependent prediction of protein intrinsic disorder JO - BMC Bioinformatics. VL - 7 UR - https://doi.org/10.1186/1471-2105-7-208 DO - 10.1186/1471-2105-7-208 ID - Peng2006 ER - TY - JOUR AU - Mészáros, B. AU - Erdos, G. AU - Dosztányi, Z. PY - 2018 DA - 2018// TI - IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding JO - Nucleic Acids Res. VL - 46 UR - https://doi.org/10.1093/nar/gky384 DO - 10.1093/nar/gky384 ID - Mészáros2018 ER - TY - JOUR AU - Fung, H. Y. J. AU - Birol, M. AU - Rhoades, E. PY - 2018 DA - 2018// TI - IDPs in macromolecular complexes: the roles of multivalent interactions in diverse assemblies JO - Curr Opin Struct Biol. VL - 49 UR - https://doi.org/10.1016/j.sbi.2017.12.007 DO - 10.1016/j.sbi.2017.12.007 ID - Fung2018 ER - TY - JOUR AU - Oldfield, C. J. AU - Dunker, A. K. PY - 2014 DA - 2014// TI - Intrinsically disordered proteins and intrinsically disordered protein regions JO - Annu Rev Biochem. VL - 83 UR - https://doi.org/10.1146/annurev-biochem-072711-164947 DO - 10.1146/annurev-biochem-072711-164947 ID - Oldfield2014 ER - TY - JOUR AU - Deiana, A. AU - Forcelloni, S. AU - Porrello, A. AU - Giansanti, A. PY - 2019 DA - 2019// TI - Intrinsically disordered proteins and structured proteins with intrinsically disordered regions have different functional roles in the cell JO - Permyakov EA, editor. PLOS ONE. VL - 14 UR - https://doi.org/10.1371/journal.pone.0217889 DO - 10.1371/journal.pone.0217889 ID - Deiana2019 ER - TY - JOUR AU - Dosztányi, Z. AU - Csizmok, V. AU - Tompa, P. AU - Simon, I. PY - 2005 DA - 2005// TI - IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content JO - Bioinformatics. VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti541 DO - 10.1093/bioinformatics/bti541 ID - Dosztányi2005 ER - TY - STD TI - Riquelme M, Martínez-Núñez L. Hyphal ontogeny in Neurospora crassa: a model organism for all seasons. F1000Research. 2016;5 Available from: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5133687/. UR - https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5133687/ ID - ref59 ER - TY - JOUR AU - Carrillo, A. J. AU - Schacht, P. AU - Cabrera, I. E. AU - Blahut, J. AU - Prudhomme, L. AU - Dietrich, S. PY - 2017 DA - 2017// TI - Functional Profiling of Transcription Factor Genes in Neurospora crassa JO - G3 GenesGenomesGenetics. VL - 7 UR - https://doi.org/10.1534/g3.117.043331 DO - 10.1534/g3.117.043331 ID - Carrillo2017 ER - TY - STD TI - Aramayo R, Selker EU. Neurospora crassa, a Model System for Epigenetics Research. Cold Spring Harb Perspect Biol. 2013;5 Available from: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3783048/. UR - https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3783048/ ID - ref61 ER - TY - JOUR AU - Tan, Y. AU - Merrow, M. AU - Roenneberg, T. PY - 2004 DA - 2004// TI - Photoperiodism in Neurospora Crassa JO - J Biol Rhythm. VL - 19 UR - https://doi.org/10.1177/0748730404263015 DO - 10.1177/0748730404263015 ID - Tan2004 ER - TY - JOUR AU - Filippovich, S. AU - Bachurina, G. AU - Shcherbakov, D. PY - 2015 DA - 2015// TI - Quantitative assessment of the combined effect of the nitrogen status, Light and dehydration of mycelium on Conidiation in Neurospora crassa JO - Prikl Biokhim Mikrobiol. VL - 51 ID - Filippovich2015 ER - TY - STD TI - Dunlap JC, Borkovich KA, Henn MR, Turner GE, Sachs MS, Glass NL, et al. Enabling a Community to Dissect an Organism: Overview of the Neurospora Functional Genomics Project. Adv Genet: Academic Press; 2007. p. 49–96. [cited 2020 Feb 25]. Available from: http://www.sciencedirect.com/science/article/pii/S0065266006570026. UR - http://www.sciencedirect.com/science/article/pii/S0065266006570026 ID - ref64 ER - TY - JOUR AU - Beadle, G. W. AU - Tatum, E. L. PY - 1941 DA - 1941// TI - Genetic control of biochemical reactions in Neurospora JO - Proc Natl Acad Sci U S A. VL - 27 UR - https://doi.org/10.1073/pnas.27.11.499 DO - 10.1073/pnas.27.11.499 ID - Beadle1941 ER - TY - JOUR AU - Wang, B. AU - Kettenbach, A. N. AU - Zhou, X. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2019 DA - 2019// TI - The Phospho-Code Determining Circadian Feedback Loop Closure and Output in Neurospora JO - Mol Cell. VL - 74 UR - https://doi.org/10.1016/j.molcel.2019.03.003 DO - 10.1016/j.molcel.2019.03.003 ID - Wang2019 ER - TY - JOUR AU - Aronson, B. AU - Johnson, K. AU - Loros, J. AU - Dunlap, J. PY - 1994 DA - 1994// TI - Negative feedback defining a circadian clock: autoregulation of the clock gene frequency JO - Science. VL - 263 UR - https://doi.org/10.1126/science.8128244 DO - 10.1126/science.8128244 ID - Aronson1994 ER - TY - BOOK AU - Santos, H. AU - Collins, E. J. AU - Hurley, J. M. AU - Bennett, K. P. PY - 2017 DA - 2017// TI - Circadian Rhythms in Neurospora Exhibit Biologically Relevant Driven and Damped Harmonic Oscillations PB - ACM Press CY - Boston ID - Santos2017 ER - TY - JOUR AU - Ward, J. J. AU - Sodhi, J. S. AU - McGuffin, L. J. AU - Buxton, B. F. AU - Jones, D. T. PY - 2004 DA - 2004// TI - Prediction and functional analysis of native disorder in proteins from the three kingdoms of life JO - J Mol Biol. VL - 337 UR - https://doi.org/10.1016/j.jmb.2004.02.002 DO - 10.1016/j.jmb.2004.02.002 ID - Ward2004 ER - TY - JOUR AU - Bellay, J. AU - Han, S. AU - Michaut, M. AU - Kim, T. AU - Costanzo, M. AU - Andrews, B. J. PY - 2011 DA - 2011// TI - Bringing order to protein disorder through comparative genomics and genetic interactions JO - Genome Biol. VL - 12 UR - https://doi.org/10.1186/gb-2011-12-2-r14 DO - 10.1186/gb-2011-12-2-r14 ID - Bellay2011 ER - TY - JOUR AU - Holehouse, A. S. AU - Das, R. K. AU - Ahad, J. N. AU - Richardson, M. O. G. AU - Pappu, R. V. PY - 2017 DA - 2017// TI - CIDER: resources to analyze sequence-ensemble relationships of intrinsically disordered proteins JO - Biophys J. VL - 112 UR - https://doi.org/10.1016/j.bpj.2016.11.3200 DO - 10.1016/j.bpj.2016.11.3200 ID - Holehouse2017 ER - TY - JOUR AU - Querfurth, C. AU - Diernfellner, A. C. R. AU - Gin, E. AU - Malzahn, E. AU - Höfer, T. AU - Brunner, M. PY - 2011 DA - 2011// TI - Circadian conformational change of the Neurospora clock protein FREQUENCY triggered by clustered hyperphosphorylation of a basic domain JO - Mol Cell. VL - 43 UR - https://doi.org/10.1016/j.molcel.2011.06.033 DO - 10.1016/j.molcel.2011.06.033 ID - Querfurth2011 ER - TY - JOUR AU - Csizmók, V. AU - Szollosi, E. AU - Friedrich, P. AU - Tompa, P. PY - 2006 DA - 2006// TI - A novel two-dimensional electrophoresis technique for the identification of intrinsically unstructured proteins JO - Mol Cell Proteomics MCP. VL - 5 UR - https://doi.org/10.1074/mcp.M500181-MCP200 DO - 10.1074/mcp.M500181-MCP200 ID - Csizmók2006 ER - TY - JOUR AU - Galea, C. A. AU - High, A. AU - Obenauer, J. C. AU - Mishra, A. AU - Park, C. -. G. AU - Punta, M. PY - 2009 DA - 2009// TI - Large-scale analysis of thermo-stable, mammalian proteins provides insights into the intrinsically disordered proteome JO - J Proteome Res. VL - 8 UR - https://doi.org/10.1021/pr800308v DO - 10.1021/pr800308v ID - Galea2009 ER - TY - JOUR AU - Häckel, M. AU - Konno, T. AU - Hinz, H. PY - 2000 DA - 2000// TI - A new alternative method to quantify residual structure in “unfolded” proteins JO - Biochim Biophys Acta. VL - 1479 UR - https://doi.org/10.1016/S0167-4838(00)00051-0 DO - 10.1016/S0167-4838(00)00051-0 ID - Häckel2000 ER - TY - CHAP AU - Tantos, A. AU - Tompa, P. ED - Uversky, V. N. ED - Dunker, A. K. PY - 2012 DA - 2012// TI - Identification of intrinsically disordered proteins by a special 2D electrophoresis BT - Intrinsically Disord protein anal Vol 2 methods Exp tools PB - Springer CY - New York UR - https://doi.org/10.1007/978-1-4614-3704-8_13 DO - 10.1007/978-1-4614-3704-8_13 ID - Tantos2012 ER - TY - JOUR AU - Uversky, V. N. AU - Dunker, A. K. PY - 2010 DA - 2010// TI - Understanding Protein Non-Folding JO - Biochim Biophys Acta. VL - 1804 UR - https://doi.org/10.1016/j.bbapap.2010.01.017 DO - 10.1016/j.bbapap.2010.01.017 ID - Uversky2010 ER - TY - JOUR AU - Tsvetkov, P. AU - Reuven, N. AU - Shaul, Y. PY - 2009 DA - 2009// TI - The nanny model for IDPs JO - Nat Chem Biol. VL - 5 UR - https://doi.org/10.1038/nchembio.233 DO - 10.1038/nchembio.233 ID - Tsvetkov2009 ER - TY - JOUR AU - Cheng, P. AU - Yang, Y. AU - Heintzen, C. AU - Liu, Y. PY - 2001 DA - 2001// TI - Coiled-coil domain-mediated FRQ-FRQ interaction is essential for its circadian clock function in Neurospora JO - EMBO J. VL - 20 UR - https://doi.org/10.1093/emboj/20.1.101 DO - 10.1093/emboj/20.1.101 ID - Cheng2001 ER - TY - JOUR AU - Lee, R. AU - Lang, B. AU - Kruse, K. AU - Gsponer, J. AU - Sánchez de Groot, N. AU - Huynen, M. A. PY - 2014 DA - 2014// TI - Intrinsically Disordered Segments Affect Protein Half-Life in the Cell and during Evolution JO - Cell Rep. VL - 8 UR - https://doi.org/10.1016/j.celrep.2014.07.055 DO - 10.1016/j.celrep.2014.07.055 ID - Lee2014 ER - TY - JOUR AU - Wright, P. E. AU - Dyson, H. J. PY - 2015 DA - 2015// TI - Intrinsically disordered proteins in cellular signalling and regulation JO - Nat Rev Mol Cell Biol. VL - 16 UR - https://doi.org/10.1038/nrm3920 DO - 10.1038/nrm3920 ID - Wright2015 ER - TY - JOUR AU - Dyson, H. J. AU - Komives, E. A. PY - 2012 DA - 2012// TI - Role of disorder in IκB-NFκB interaction JO - IUBMB Life. VL - 64 UR - https://doi.org/10.1002/iub.1044 DO - 10.1002/iub.1044 ID - Dyson2012 ER - TY - JOUR AU - Gustafson, C. L. AU - Partch, C. L. PY - 2015 DA - 2015// TI - Emerging models for the molecular basis of mammalian circadian timing JO - Biochemistry. VL - 54 UR - https://doi.org/10.1021/bi500731f DO - 10.1021/bi500731f ID - Gustafson2015 ER - TY - JOUR AU - Baker, C. L. AU - Kettenbach, A. N. AU - Loros, J. J. AU - Gerber, S. A. AU - Dunlap, J. C. PY - 2009 DA - 2009// TI - Quantitative proteomics reveals a dynamic Interactome and phase-specific phosphorylation in the Neurospora circadian clock JO - Mol Cell. VL - 34 UR - https://doi.org/10.1016/j.molcel.2009.04.023 DO - 10.1016/j.molcel.2009.04.023 ID - Baker2009 ER - TY - JOUR AU - Tang, C. -. T. AU - Li, S. AU - Long, C. AU - Cha, J. AU - Huang, G. AU - Li, L. PY - 2009 DA - 2009// TI - Setting the pace of the Neurospora circadian clock by multiple independent FRQ phosphorylation events JO - Proc Natl Acad Sci. VL - 106 UR - https://doi.org/10.1073/pnas.0904898106 DO - 10.1073/pnas.0904898106 ID - Tang2009 ER - TY - JOUR AU - Iakoucheva, L. M. PY - 2004 DA - 2004// TI - The importance of intrinsic disorder for protein phosphorylation JO - Nucleic Acids Res. VL - 32 UR - https://doi.org/10.1093/nar/gkh253 DO - 10.1093/nar/gkh253 ID - Iakoucheva2004 ER - TY - JOUR AU - Pejaver, V. AU - Hsu, W. -. L. AU - Xin, F. AU - Dunker, A. K. AU - Uversky, V. N. AU - Radivojac, P. PY - 2014 DA - 2014// TI - The structural and functional signatures of proteins that undergo multiple events of post-translational modification: structural and functional signatures of PTM crosstalk JO - Protein Sci. VL - 23 UR - https://doi.org/10.1002/pro.2494 DO - 10.1002/pro.2494 ID - Pejaver2014 ER - TY - JOUR AU - Liu, X. AU - Chen, A. AU - Caicedo-Casso, A. AU - Cui, G. AU - Du, M. AU - He, Q. PY - 2019 DA - 2019// TI - FRQ-CK1 interaction determines the period of circadian rhythms in Neurospora JO - Nat Commun. VL - 10 UR - https://doi.org/10.1038/s41467-019-12239-w DO - 10.1038/s41467-019-12239-w ID - Liu2019 ER - TY - JOUR AU - Hilser, V. J. AU - Thompson, E. B. PY - 2007 DA - 2007// TI - Intrinsic disorder as a mechanism to optimize allosteric coupling in proteins JO - Proc Natl Acad Sci. VL - 104 UR - https://doi.org/10.1073/pnas.0700329104 DO - 10.1073/pnas.0700329104 ID - Hilser2007 ER - TY - JOUR AU - Garcia-Pino, A. AU - Balasubramanian, S. AU - Wyns, L. AU - Gazit, E. AU - Greve, H. AU - Magnuson, R. D. PY - 2010 DA - 2010// TI - Allostery and intrinsic disorder mediate transcription regulation by conditional Cooperativity JO - Cell. VL - 142 UR - https://doi.org/10.1016/j.cell.2010.05.039 DO - 10.1016/j.cell.2010.05.039 ID - Garcia-Pino2010 ER - TY - JOUR AU - Berlow, R. B. AU - Dyson, H. J. AU - Wright, P. E. PY - 2018 DA - 2018// TI - Expanding the paradigm: intrinsically disordered proteins and allosteric regulation JO - J Mol Biol. VL - 430 UR - https://doi.org/10.1016/j.jmb.2018.04.003 DO - 10.1016/j.jmb.2018.04.003 ID - Berlow2018 ER - TY - JOUR AU - Fuxreiter, M. AU - Tompa, P. AU - Simon, I. AU - Uversky, V. N. AU - Hansen, J. C. AU - Asturias, F. J. PY - 2008 DA - 2008// TI - Malleable machines take shape in eukaryotic transcriptional regulation JO - Nat Chem Biol. VL - 4 UR - https://doi.org/10.1038/nchembio.127 DO - 10.1038/nchembio.127 ID - Fuxreiter2008 ER - TY - JOUR AU - Cortese, M. S. AU - Uversky, V. N. AU - Dunker, A. K. PY - 2008 DA - 2008// TI - Intrinsic disorder in scaffold proteins: getting more from less JO - Prog Biophys Mol Biol. VL - 98 UR - https://doi.org/10.1016/j.pbiomolbio.2008.05.007 DO - 10.1016/j.pbiomolbio.2008.05.007 ID - Cortese2008 ER - TY - JOUR AU - Mohan, A. AU - Oldfield, C. J. AU - Radivojac, P. AU - Vacic, V. AU - Cortese, M. S. AU - Dunker, A. K. PY - 2006 DA - 2006// TI - Analysis of molecular recognition features (MoRFs) JO - J Mol Biol. VL - 362 UR - https://doi.org/10.1016/j.jmb.2006.07.087 DO - 10.1016/j.jmb.2006.07.087 ID - Mohan2006 ER - TY - JOUR AU - Hsu, W. -. L. AU - Oldfield, C. J. AU - Xue, B. AU - Meng, J. AU - Huang, F. AU - Romero, P. PY - 2013 DA - 2013// TI - Exploring the binding diversity of intrinsically disordered proteins involved in one-to-many binding: exploring the binding diversity of IDPs JO - Protein Sci. VL - 22 UR - https://doi.org/10.1002/pro.2207 DO - 10.1002/pro.2207 ID - Hsu2013 ER - TY - JOUR AU - Oyama, Y. AU - Bartman, C. M. AU - Bonney, S. AU - Lee, J. S. AU - Walker, L. A. AU - Han, J. PY - 2019 DA - 2019// TI - Intense Light-Mediated Circadian Cardioprotection via Transcriptional Reprogramming of the Endothelium JO - Cell Rep. VL - 28 UR - https://doi.org/10.1016/j.celrep.2019.07.020 DO - 10.1016/j.celrep.2019.07.020 ID - Oyama2019 ER - TY - JOUR AU - Chiu, J. C. AU - Vanselow, J. T. AU - Kramer, A. AU - Edery, I. PY - 2008 DA - 2008// TI - The phospho-occupancy of an atypical SLIMB-binding site on PERIOD that is phosphorylated by DOUBLETIME controls the pace of the clock JO - Genes Dev. VL - 22 UR - https://doi.org/10.1101/gad.1682708 DO - 10.1101/gad.1682708 ID - Chiu2008 ER - TY - JOUR AU - Ode, K. L. AU - Ukai, H. AU - Susaki, E. A. AU - Narumi, R. AU - Matsumoto, K. AU - Hara, J. PY - 2017 DA - 2017// TI - Knockout-rescue embryonic stem cell-derived mouse reveals circadian-period control by quality and quantity of CRY1 JO - Mol Cell. VL - 65 UR - https://doi.org/10.1016/j.molcel.2016.11.022 DO - 10.1016/j.molcel.2016.11.022 ID - Ode2017 ER - TY - JOUR AU - Liu, Y. AU - Garceau, N. Y. AU - Loros, J. J. AU - Dunlap, J. C. PY - 1997 DA - 1997// TI - Thermally regulated translational control of FRQ mediates aspects of temperature responses in the Neurospora circadian clock JO - Cell. VL - 89 UR - https://doi.org/10.1016/S0092-8674(00)80228-7 DO - 10.1016/S0092-8674(00)80228-7 ID - Liu1997 ER - TY - JOUR AU - Colot, H. V. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2005 DA - 2005// TI - Temperature-modulated alternative splicing and promoter use in the circadian clock gene frequency□D JO - Mol Biol Cell VL - 16 UR - https://doi.org/10.1091/mbc.e05-08-0756 DO - 10.1091/mbc.e05-08-0756 ID - Colot2005 ER - TY - JOUR AU - Diernfellner, A. AU - Colot, H. V. AU - Dintsis, O. AU - Loros, J. J. AU - Dunlap, J. C. AU - Brunner, M. PY - 2007 DA - 2007// TI - Long and short isoforms of Neurospora clock protein FRQ support temperature-compensated circadian rhythms JO - FEBS Lett. VL - 581 UR - https://doi.org/10.1016/j.febslet.2007.11.043 DO - 10.1016/j.febslet.2007.11.043 ID - Diernfellner2007 ER - TY - STD TI - Romero PR, Zaidi S, Fang YY, Uversky VN, Radivojac P, Oldfield CJ, et al. Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms. 6. ID - ref102 ER - TY - STD TI - Niklas KJ, Bondos SE, Dunker AK, Newman SA. Rethinking gene regulatory networks in light of alternative splicing, intrinsically disordered protein domains, and post-translational modifications. Front Cell Dev Biol. 2015;3 [cited 2020 Feb 26]. Available from: https://www.frontiersin.org/articles/10.3389/fcell.2015.00008/full?report=reader. UR - https://www.frontiersin.org/articles/10.3389/fcell.2015.00008/full?report=reader ID - ref103 ER - TY - STD TI - Dunker AK. Intrinsically disordered proteins and multicellular organisms. Dev Biol. 2015; https://doi.org/10.1016/j.semcdb.2014.09.025. ID - ref104 ER - TY - JOUR AU - Zhou, J. AU - Zhao, S. AU - Dunker, A. K. PY - 2018 DA - 2018// TI - Intrinsically disordered proteins link alternative splicing and post-translational modifications to complex cell signaling and regulation JO - J Mol Biol. VL - 430 UR - https://doi.org/10.1016/j.jmb.2018.03.028 DO - 10.1016/j.jmb.2018.03.028 ID - Zhou2018 ER - TY - JOUR AU - Cheng, P. PY - 2005 DA - 2005// TI - Regulation of the Neurospora circadian clock by an RNA helicase JO - Genes Dev. VL - 19 UR - https://doi.org/10.1101/gad.1266805 DO - 10.1101/gad.1266805 ID - Cheng2005 ER - TY - JOUR AU - Guo, J. AU - Cheng, P. AU - Liu, Y. PY - 2010 DA - 2010// TI - Functional significance of FRH in regulating the phosphorylation and stability of Neurospora circadian clock protein FRQ JO - J Biol Chem. VL - 285 UR - https://doi.org/10.1074/jbc.M109.071688 DO - 10.1074/jbc.M109.071688 ID - Guo2010 ER - TY - JOUR AU - Morales, Y. AU - Olsen, K. J. AU - Bulcher, J. M. AU - Johnson, S. J. PY - 2018 DA - 2018// TI - Structure of frequency-interacting RNA helicase from Neurospora crassa reveals high flexibility in a domain critical for circadian rhythm and RNA surveillance. Pizarro JC, editor JO - PLOS ONE VL - 13 UR - https://doi.org/10.1371/journal.pone.0196642 DO - 10.1371/journal.pone.0196642 ID - Morales2018 ER - TY - JOUR AU - LaCava, J. AU - Houseley, J. AU - Saveanu, C. AU - Petfalski, E. AU - Thompson, E. AU - Jacquier, A. PY - 2005 DA - 2005// TI - RNA degradation by the exosome is promoted by a nuclear Polyadenylation complex JO - Cell. VL - 121 UR - https://doi.org/10.1016/j.cell.2005.04.029 DO - 10.1016/j.cell.2005.04.029 ID - LaCava2005 ER - TY - JOUR AU - Cha, J. AU - Yuan, H. AU - Liu, Y. PY - 2011 DA - 2011// TI - Regulation of the activity and cellular localization of the circadian clock protein FRQ JO - J Biol Chem. VL - 286 UR - https://doi.org/10.1074/jbc.M111.219782 DO - 10.1074/jbc.M111.219782 ID - Cha2011 ER - TY - JOUR AU - Conrad, K. S. AU - Hurley, J. M. AU - Widom, J. AU - Ringelberg, C. S. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2016 DA - 2016// TI - Structure of the frequency-interacting RNA helicase: a protein interaction hub for the circadian clock JO - EMBO J. VL - 35 UR - https://doi.org/10.15252/embj.201694327 DO - 10.15252/embj.201694327 ID - Conrad2016 ER - TY - JOUR AU - Borgia, A. AU - Borgia, M. B. AU - Bugge, K. AU - Kissling, V. M. AU - Heidarsson, P. O. AU - Fernandes, C. B. PY - 2018 DA - 2018// TI - Extreme disorder in an ultra-high-affinity protein complex JO - Nature. VL - 555 UR - https://doi.org/10.1038/nature25762 DO - 10.1038/nature25762 ID - Borgia2018 ER - TY - JOUR AU - Gast, K. AU - Damaschun, H. AU - Eckert, K. AU - Schulze-Forster, K. AU - Maurer, H. R. AU - Mueller-Frohne, M. PY - 1995 DA - 1995// TI - Prothymosin .alpha.: A Biologically Active Protein with Random Coil Conformation. Biochemistry JO - Am Chem Soc VL - 34 ID - Gast1995 ER - TY - JOUR AU - Uversky, V. N. AU - Gillespie, J. R. AU - Millett, I. S. AU - Khodyakova, A. V. AU - Vasiliev, A. M. AU - Chernovskaya, T. V. PY - 1999 DA - 1999// TI - Natively unfolded human Prothymosin α adopts partially folded collapsed conformation at acidic pH JO - Biochemistry. VL - 38 UR - https://doi.org/10.1021/bi990752+ DO - 10.1021/bi990752+ ID - Uversky1999 ER - TY - JOUR AU - Hansen, J. C. AU - Lu, X. AU - Ross, E. D. AU - Woody, R. W. PY - 2006 DA - 2006// TI - Intrinsic protein disorder, amino acid composition, and histone terminal domains JO - J Biol Chem. VL - 281 UR - https://doi.org/10.1074/jbc.R500022200 DO - 10.1074/jbc.R500022200 ID - Hansen2006 ER - TY - JOUR AU - Vanselow, K. AU - Kramer, A. PY - 2007 DA - 2007// TI - Role of phosphorylation in the mammalian circadian clock JO - Cold Spring Harb Symp Quant Biol. VL - 72 UR - https://doi.org/10.1101/sqb.2007.72.036 DO - 10.1101/sqb.2007.72.036 ID - Vanselow2007 ER - TY - JOUR AU - Chiu, J. C. AU - Ko, H. W. AU - Edery, I. PY - 2011 DA - 2011// TI - NEMO/NLK phosphorylates PERIOD to initiate a time-delay phosphorylation circuit that sets circadian clock speed JO - Cell. VL - 145 UR - https://doi.org/10.1016/j.cell.2011.04.002 DO - 10.1016/j.cell.2011.04.002 ID - Chiu2011 ER - TY - JOUR AU - Padmanabhan, K. AU - Robles, M. S. AU - Westerling, T. AU - Weitz, C. J. PY - 2012 DA - 2012// TI - Feedback regulation of transcriptional termination by the mammalian circadian clock PERIOD complex JO - Science. VL - 337 UR - https://doi.org/10.1126/science.1221592 DO - 10.1126/science.1221592 ID - Padmanabhan2012 ER - TY - JOUR AU - Kim, J. Y. AU - Kwak, P. B. AU - Gebert, M. AU - Duong, H. A. AU - Weitz, C. J. PY - 2015 DA - 2015// TI - Purification and analysis of PERIOD protein complexes of the mammalian circadian clock JO - Methods Enzymol. VL - 551 UR - https://doi.org/10.1016/bs.mie.2014.10.013 DO - 10.1016/bs.mie.2014.10.013 ID - Kim2015 ER - TY - JOUR AU - Turoverov, K. K. AU - Kuznetsova, I. M. AU - Fonin, A. V. AU - Darling, A. L. AU - Zaslavsky, B. Y. AU - Uversky, V. N. PY - 2019 DA - 2019// TI - Stochasticity of biological soft matter: emerging concepts in intrinsically disordered proteins and biological phase separation JO - Trends Biochem Sci. VL - 44 UR - https://doi.org/10.1016/j.tibs.2019.03.005 DO - 10.1016/j.tibs.2019.03.005 ID - Turoverov2019 ER - TY - JOUR AU - Uversky, V. N. PY - 2011 DA - 2011// TI - Intrinsically disordered proteins from a to Z JO - Int J Biochem Cell Biol. VL - 43 UR - https://doi.org/10.1016/j.biocel.2011.04.001 DO - 10.1016/j.biocel.2011.04.001 ID - Uversky2011 ER - TY - JOUR AU - Patil, A. AU - Kinoshita, K. AU - Nakamura, H. PY - 2010 DA - 2010// TI - Hub promiscuity in protein-protein interaction networks JO - Int J Mol Sci VL - 11 UR - https://doi.org/10.3390/ijms11041930 DO - 10.3390/ijms11041930 ID - Patil2010 ER - TY - JOUR AU - Ekman, D. AU - Light, S. AU - Björklund, Å. K. AU - Elofsson, A. PY - 2006 DA - 2006// TI - What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae? JO - Genome Biol. VL - 7 UR - https://doi.org/10.1186/gb-2006-7-6-r45 DO - 10.1186/gb-2006-7-6-r45 ID - Ekman2006 ER - TY - STD TI - Haynes C, Oldfield CJ, Ji F, Klitgord N, Cusick ME, Radivojac P, et al. Intrinsic Disorder Is a Common Feature of Hub Proteins from Four Eukaryotic Interactomes. PLoS Comput Biol. 2006;2 Available from: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1526461/. UR - https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1526461/ ID - ref124 ER - TY - STD TI - Xu H, Gustafson CL, Sammons PJ, Khan SK, Parsley NC, Ramanathan C, et al. Cryptochrome 1 regulates the circadian clock through dynamic interactions with the BMAL1 C terminus. Nat Struct Mol Biol. 2015;(6):476–84. ID - ref125 ER - TY - JOUR AU - Partch, C. L. AU - Clarkson, M. W. AU - Özgür, S. AU - Lee, A. L. AU - Sancar, A. PY - 2005 DA - 2005// TI - Role of structural plasticity in signal transduction by the Cryptochrome blue-Light photoreceptor JO - Biochemistry. VL - 44 UR - https://doi.org/10.1021/bi047545g DO - 10.1021/bi047545g ID - Partch2005 ER - TY - STD TI - Parico GCG, Perez I, Fribourgh JL, Hernandez BN, Lee H-W, Partch CL. The CRY1 tail controls circadian timing by regulating its association with CLOCK: BMAL1. Biochemistry. 2019; Available from: http://biorxiv.org/lookup/doi/10.1101/758714. UR - http://biorxiv.org/lookup/doi/10.1101/758714 ID - ref127 ER - TY - JOUR AU - Czarna, A. AU - Breitkreuz, H. AU - Mahrenholz, C. C. AU - Arens, J. AU - Strauss, H. M. AU - Wolf, E. PY - 2011 DA - 2011// TI - Quantitative analyses of Cryptochrome-mBMAL1 interactions: mechanistic insights into the transcriptional regulation of the mammalian circadian clock JO - J Biol Chem. VL - 286 UR - https://doi.org/10.1074/jbc.M111.244749 DO - 10.1074/jbc.M111.244749 ID - Czarna2011 ER - TY - JOUR AU - Patke, A. AU - Murphy, P. J. AU - Onat, O. E. AU - Krieger, A. C. AU - Özçelik, T. AU - Campbell, S. S. PY - 2017 DA - 2017// TI - Mutation of the Human Circadian Clock Gene CRY1 in Familial Delayed Sleep Phase Disorder JO - Cell VL - 169 UR - https://doi.org/10.1016/j.cell.2017.03.027 DO - 10.1016/j.cell.2017.03.027 ID - Patke2017 ER - TY - JOUR AU - Khan, S. K. AU - Xu, H. AU - Ukai-Tadenuma, M. AU - Burton, B. AU - Wang, Y. AU - Ueda, H. R. PY - 2012 DA - 2012// TI - Identification of a novel Cryptochrome differentiating domain required for feedback repression in circadian clock function JO - J Biol Chem. VL - 287 UR - https://doi.org/10.1074/jbc.M112.368001 DO - 10.1074/jbc.M112.368001 ID - Khan2012 ER - TY - JOUR AU - Gao, P. AU - Yoo, S. -. H. AU - Lee, K. -. J. AU - Rosensweig, C. AU - Takahashi, J. S. AU - Chen, B. P. PY - 2013 DA - 2013// TI - Phosphorylation of the cryptochrome 1 C-terminal tail regulates circadian period length JO - J Biol Chem. VL - 288 UR - https://doi.org/10.1074/jbc.M113.509604 DO - 10.1074/jbc.M113.509604 ID - Gao2013 ER - TY - JOUR AU - Busza, A. AU - Emery-Le, M. AU - Rosbash, M. AU - Emery, P. PY - 2004 DA - 2004// TI - Roles of the two Drosophila CRYPTOCHROME structural domains in circadian photoreception JO - Science. VL - 304 UR - https://doi.org/10.1126/science.1096973 DO - 10.1126/science.1096973 ID - Busza2004 ER - TY - JOUR AU - Dissel, S. AU - Codd, V. AU - Fedic, R. AU - Garner, K. J. AU - Costa, R. AU - Kyriacou, C. P. PY - 2004 DA - 2004// TI - A constitutively active cryptochrome in Drosophila melanogaster JO - Nat Neurosci. VL - 7 UR - https://doi.org/10.1038/nn1285 DO - 10.1038/nn1285 ID - Dissel2004 ER - TY - JOUR AU - Michael, A. K. AU - Fribourgh, J. L. AU - Chelliah, Y. AU - Sandate, C. R. AU - Hura, G. L. AU - Schneidman-Duhovny, D. PY - 2017 DA - 2017// TI - Formation of a repressive complex in the mammalian circadian clock is mediated by the secondary pocket of CRY1 JO - Proc Natl Acad Sci. VL - 114 UR - https://doi.org/10.1073/pnas.1615310114 DO - 10.1073/pnas.1615310114 ID - Michael2017 ER - TY - JOUR AU - Martin Anduaga, A. AU - Evantal, N. AU - Patop, I. L. AU - Bartok, O. AU - Weiss, R. AU - Kadener, S. PY - 2019 DA - 2019// TI - Thermosensitive alternative splicing senses and mediates temperature adaptation in Drosophila JO - eLife. VL - 8 UR - https://doi.org/10.7554/eLife.44642 DO - 10.7554/eLife.44642 ID - Martin Anduaga2019 ER - TY - JOUR AU - Lee, C. AU - Parikh, V. AU - Itsukaichi, T. AU - Bae, K. AU - Edery, I. PY - 1996 DA - 1996// TI - Resetting the Drosophila clock by photic regulation of PER and a PER-TIM complex JO - Science. VL - 271 UR - https://doi.org/10.1126/science.271.5256.1740 DO - 10.1126/science.271.5256.1740 ID - Lee1996 ER - TY - JOUR AU - Zeng, H. AU - Qian, Z. AU - Myers, M. P. AU - Rosbash, M. PY - 1996 DA - 1996// TI - A light-entrainment mechanism for the Drosophila circadian clock JO - Nature. VL - 380 UR - https://doi.org/10.1038/380129a0 DO - 10.1038/380129a0 ID - Zeng1996 ER - TY - JOUR AU - Meyer, P. PY - 2006 DA - 2006// TI - PER-TIM interactions in living Drosophila cells: an interval timer for the circadian clock JO - Science. VL - 311 UR - https://doi.org/10.1126/science.1118126 DO - 10.1126/science.1118126 ID - Meyer2006 ER - TY - JOUR AU - Curtin, K. D. AU - Huang, Z. J. AU - Rosbash, M. PY - 1995 DA - 1995// TI - Temporally regulated nuclear entry of the Drosophila period protein contributes to the circadian clock JO - Neuron. VL - 14 UR - https://doi.org/10.1016/0896-6273(95)90292-9 DO - 10.1016/0896-6273(95)90292-9 ID - Curtin1995 ER - TY - JOUR AU - Chang, D. C. AU - Reppert, S. M. PY - 2003 DA - 2003// TI - A novel C-terminal domain of Drosophila PERIOD inhibits dCLOCK:CYCLE-mediated transcription JO - Curr Biol. VL - 13 UR - https://doi.org/10.1016/S0960-9822(03)00286-0 DO - 10.1016/S0960-9822(03)00286-0 ID - Chang2003 ER - TY - JOUR AU - Darlington, T. K. PY - 1998 DA - 1998// TI - Closing the circadian loop: CLOCK-induced transcription of its own inhibitors per and tim JO - Science. VL - 280 UR - https://doi.org/10.1126/science.280.5369.1599 DO - 10.1126/science.280.5369.1599 ID - Darlington1998 ER - TY - JOUR AU - Edery, I. AU - Zwiebel, L. J. AU - Dembinska, M. E. AU - Rosbash, M. PY - 1994 DA - 1994// TI - Temporal phosphorylation of the Drosophila period protein JO - Proc Natl Acad Sci. VL - 91 UR - https://doi.org/10.1073/pnas.91.6.2260 DO - 10.1073/pnas.91.6.2260 ID - Edery1994 ER - TY - JOUR AU - Myers, M. P. AU - Wager-Smith, K. AU - Rothenfluh-Hilfiker, A. AU - Young, M. W. PY - 1996 DA - 1996// TI - Light-induced degradation of TIMELESS and entrainment of the Drosophila circadian clock JO - Science. VL - 271 UR - https://doi.org/10.1126/science.271.5256.1736 DO - 10.1126/science.271.5256.1736 ID - Myers1996 ER - TY - JOUR AU - Meissner, R. -. A. AU - Kilman, V. L. AU - Lin, J. -. M. AU - Allada, R. PY - 2008 DA - 2008// TI - TIMELESS is an important mediator of CK2 effects on circadian clock function in vivo JO - J Neurosci. VL - 28 UR - https://doi.org/10.1523/JNEUROSCI.0840-08.2008 DO - 10.1523/JNEUROSCI.0840-08.2008 ID - Meissner2008 ER - TY - JOUR AU - Genov, N. AU - Basti, A. AU - Abreu, M. AU - Astaburuaga, R. AU - Relógio, A. PY - 2019 DA - 2019// TI - A bioinformatic analysis identifies circadian expression of splicing factors and time-dependent alternative splicing events in the HD-MY-Z cell line JO - Sci Rep. VL - 9 UR - https://doi.org/10.1038/s41598-019-47343-w DO - 10.1038/s41598-019-47343-w ID - Genov2019 ER - TY - JOUR AU - El-Athman, R. AU - Knezevic, D. AU - Fuhr, L. AU - Relógio, A. PY - 2019 DA - 2019// TI - A computational analysis of alternative splicing across mammalian tissues reveals circadian and Ultradian rhythms in splicing events JO - Int J Mol Sci. VL - 20 UR - https://doi.org/10.3390/ijms20163977 DO - 10.3390/ijms20163977 ID - El-Athman2019 ER - TY - JOUR AU - Petrillo, E. AU - Sanchez, S. E. AU - Kornblihtt, A. R. AU - Yanovsky, M. J. PY - 2011 DA - 2011// TI - Alternative splicing adds a new loop to the circadian clock JO - Commun Integr Biol. VL - 4 UR - https://doi.org/10.4161/cib.4.3.14777 DO - 10.4161/cib.4.3.14777 ID - Petrillo2011 ER - TY - JOUR AU - Dunker, A. K. AU - Bondos, S. E. AU - Huang, F. AU - Oldfield, C. J. PY - 2015 DA - 2015// TI - Intrinsically disordered proteins and multicellular organisms JO - Semin Cell Dev Biol. VL - 37 UR - https://doi.org/10.1016/j.semcdb.2014.09.025 DO - 10.1016/j.semcdb.2014.09.025 ID - Dunker2015 ER - TY - JOUR AU - Liu, J. AU - Perumal, N. B. AU - Oldfield, C. J. AU - Su, E. W. AU - Uversky, V. N. AU - Dunker, A. K. PY - 2006 DA - 2006// TI - Intrinsic disorder in transcription factors JO - Biochemistry. VL - 45 UR - https://doi.org/10.1021/bi0602718 DO - 10.1021/bi0602718 ID - Liu2006 ER - TY - JOUR AU - Minezaki, Y. AU - Homma, K. AU - Kinjo, A. R. AU - Nishikawa, K. PY - 2006 DA - 2006// TI - Human transcription factors contain a High fraction of intrinsically disordered regions essential for transcriptional regulation JO - J Mol Biol. VL - 359 UR - https://doi.org/10.1016/j.jmb.2006.04.016 DO - 10.1016/j.jmb.2006.04.016 ID - Minezaki2006 ER - TY - JOUR AU - Singh, G. P. AU - Dash, D. PY - 2007 DA - 2007// TI - Intrinsic disorder in yeast transcriptional regulatory network JO - Proteins Struct Funct Bioinforma. VL - 68 UR - https://doi.org/10.1002/prot.21497 DO - 10.1002/prot.21497 ID - Singh2007 ER - TY - JOUR AU - Xie, H. AU - Vucetic, S. AU - Iakoucheva, L. M. AU - Oldfield, C. J. AU - Dunker, A. K. AU - Uversky, V. N. PY - 2007 DA - 2007// TI - Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with Long disordered regions JO - J Proteome Res. VL - 6 UR - https://doi.org/10.1021/pr060392u DO - 10.1021/pr060392u ID - Xie2007 ER - TY - JOUR AU - Crosthwaite, S. K. PY - 1997 DA - 1997// TI - Neurospora wc-1 and wc-2: transcription, Photoresponses, and the origins of circadian rhythmicity JO - Science. VL - 276 UR - https://doi.org/10.1126/science.276.5313.763 DO - 10.1126/science.276.5313.763 ID - Crosthwaite1997 ER - TY - JOUR AU - Schafmeier, T. AU - Diernfellner, A. AU - Schäfer, A. AU - Dintsis, O. AU - Neiss, A. AU - Brunner, M. PY - 2008 DA - 2008// TI - Circadian activity and abundance rhythms of the Neurospora clock transcription factor WCC associated with rapid nucleo–cytoplasmic shuttling JO - Genes Dev. VL - 22 UR - https://doi.org/10.1101/gad.507408 DO - 10.1101/gad.507408 ID - Schafmeier2008 ER - TY - JOUR AU - Wang, B. AU - Zhou, X. AU - Loros, J. J. AU - Dunlap, J. C. PY - 2016 DA - 2016// TI - Alternative use of DNA binding domains by the Neurospora white collar complex dictates circadian regulation and Light responses JO - Mol Cell Biol. VL - 36 UR - https://doi.org/10.1128/MCB.00841-15 DO - 10.1128/MCB.00841-15 ID - Wang2016 ER - TY - JOUR AU - Gekakis, N. AU - Staknis, D. AU - Nguyen, H. B. AU - Davis, F. C. AU - Wilsbacher, L. D. AU - King, D. P. PY - 1998 DA - 1998// TI - Role of the CLOCK protein in the mammalian circadian mechanism JO - Science. VL - 280 UR - https://doi.org/10.1126/science.280.5369.1564 DO - 10.1126/science.280.5369.1564 ID - Gekakis1998 ER - TY - JOUR AU - King, D. P. AU - Zhao, Y. AU - Sangoram, A. M. AU - Wilsbacher, L. D. AU - Tanaka, M. AU - Antoch, M. P. PY - 1997 DA - 1997// TI - Positional cloning of the mouse circadian clock gene JO - Cell. VL - 89 UR - https://doi.org/10.1016/S0092-8674(00)80245-7 DO - 10.1016/S0092-8674(00)80245-7 ID - King1997 ER - TY - JOUR AU - Kiyohara, Y. B. AU - Tagao, S. AU - Tamanini, F. AU - Morita, A. AU - Sugisawa, Y. AU - Yasuda, M. PY - 2006 DA - 2006// TI - The BMAL1 C terminus regulates the circadian transcription feedback loop JO - Proc Natl Acad Sci. VL - 103 UR - https://doi.org/10.1073/pnas.0601416103 DO - 10.1073/pnas.0601416103 ID - Kiyohara2006 ER - TY - JOUR AU - Sato, T. K. AU - Yamada, R. G. AU - Ukai, H. AU - Baggs, J. E. AU - Miraglia, L. J. AU - Kobayashi, T. J. PY - 2006 DA - 2006// TI - Feedback repression is required for mammalian circadian clock function JO - Nat Genet. VL - 38 UR - https://doi.org/10.1038/ng1745 DO - 10.1038/ng1745 ID - Sato2006 ER - TY - JOUR AU - Doi, M. AU - Hirayama, J. AU - Sassone-Corsi, P. PY - 2006 DA - 2006// TI - Circadian regulator CLOCK is a histone Acetyltransferase JO - Cell. VL - 125 UR - https://doi.org/10.1016/j.cell.2006.03.033 DO - 10.1016/j.cell.2006.03.033 ID - Doi2006 ER - TY - JOUR AU - Hirayama, J. AU - Sahar, S. AU - Grimaldi, B. AU - Tamaru, T. AU - Takamatsu, K. AU - Nakahata, Y. PY - 2007 DA - 2007// TI - CLOCK-mediated acetylation of BMAL1 controls circadian function JO - Nature. VL - 450 UR - https://doi.org/10.1038/nature06394 DO - 10.1038/nature06394 ID - Hirayama2007 ER - TY - JOUR AU - Gustafson, C. L. AU - Parsley, N. C. AU - Asimgil, H. AU - Lee, H. -. W. AU - Ahlbach, C. AU - Michael, A. K. PY - 2017 DA - 2017// TI - A Slow Conformational Switch in the BMAL1 Transactivation Domain Modulates Circadian Rhythms JO - Mol Cell VL - 66 UR - https://doi.org/10.1016/j.molcel.2017.04.011 DO - 10.1016/j.molcel.2017.04.011 ID - Gustafson2017 ER - TY - JOUR AU - Bettencourt, B. R. AU - Hogan, C. C. AU - Nimali, M. PY - 2007 DA - 2007// TI - Polyglutamine expansion in Drosophila: thermal stress and Hsp70 as selective agents JO - J Biosci. VL - 32 UR - https://doi.org/10.1007/s12038-007-0053-9 DO - 10.1007/s12038-007-0053-9 ID - Bettencourt2007 ER - TY - JOUR AU - Michael, T. P. AU - Park, S. AU - Kim, T. -. S. AU - Booth, J. AU - Byer, A. AU - Sun, Q. PY - 2007 DA - 2007// TI - Simple Sequence Repeats Provide a Substrate for Phenotypic Variation in the Neurospora crassa Circadian Clock. Redfield R, editor JO - PLoS ONE VL - 2 UR - https://doi.org/10.1371/journal.pone.0000795 DO - 10.1371/journal.pone.0000795 ID - Michael2007 ER - TY - JOUR AU - Saleem, Q. AU - Anand, A. AU - Jain, S. AU - Brahmachari, S. PY - 2001 DA - 2001// TI - The polyglutamine motif is highly conserved at the clock locus in various organisms and is not polymorphic in humans JO - Hum Genet. VL - 109 UR - https://doi.org/10.1007/s004390100550 DO - 10.1007/s004390100550 ID - Saleem2001 ER - TY - JOUR AU - Tajima, T. AU - Oda, A. AU - Nakagawa, M. AU - Kamada, H. AU - Mizoguchi, T. PY - 2007 DA - 2007// TI - Natural variation of polyglutamine repeats of a circadian clock gene ELF3 in Arabidopsis JO - Plant Biotechnol. VL - 24 UR - https://doi.org/10.5511/plantbiotechnology.24.237 DO - 10.5511/plantbiotechnology.24.237 ID - Tajima2007 ER - TY - JOUR AU - Undurraga, S. F. AU - Press, M. O. AU - Legendre, M. AU - Bujdoso, N. AU - Bale, J. AU - Wang, H. PY - 2012 DA - 2012// TI - Background-dependent effects of polyglutamine variation in the Arabidopsis thaliana gene ELF3 JO - Proc Natl Acad Sci. VL - 109 UR - https://doi.org/10.1073/pnas.1211021109 DO - 10.1073/pnas.1211021109 ID - Undurraga2012 ER - TY - BOOK AU - Langdon, E. M. AU - Qiu, Y. AU - Niaki, A. G. AU - McLaughlin, G. A. AU - Weidmann, C. A. AU - Gerbich, T. M. PY - 2018 DA - 2018// TI - mRNA structure determines specificity of a polyQ-driven phase separation ID - Langdon2018 ER - TY - STD TI - Frazer C, Staples MI, Kim Y, Hirakawa M, Dowell MA, Johnson NV, et al. Epigenetic cell fate in Candida albicans is controlled by transcription factor condensates acting at super-enhancer-like elements. Nat Microbiol. 2020; [cited 2020 Aug 16]. Available from: http://www.nature.com/articles/s41564-020-0760-7. UR - http://www.nature.com/articles/s41564-020-0760-7 ID - ref169 ER - TY - JOUR AU - Jang, C. AU - Lahens, N. F. AU - Hogenesch, J. B. AU - Sehgal, A. PY - 2015 DA - 2015// TI - Ribosome profiling reveals an important role for translational control in circadian gene expression JO - Genome Res. VL - 25 UR - https://doi.org/10.1101/gr.191296.115 DO - 10.1101/gr.191296.115 ID - Jang2015 ER - TY - JOUR AU - Sachdev, R. AU - Hondele, M. AU - Linsenmeier, M. AU - Vallotton, P. AU - Mugler, C. F. AU - Arosio, P. PY - 2019 DA - 2019// TI - Pat1 promotes processing body assembly by enhancing the phase separation of the DEAD-box ATPase Dhh1 and RNA JO - eLife. VL - 8 UR - https://doi.org/10.7554/eLife.41415 DO - 10.7554/eLife.41415 ID - Sachdev2019 ER - TY - JOUR AU - Hubstenberger, A. AU - Courel, M. AU - Bénard, M. AU - Souquere, S. AU - Ernoult-Lange, M. AU - Chouaib, R. PY - 2017 DA - 2017// TI - P-Body Purification Reveals the Condensation of Repressed mRNA Regulons JO - Mol Cell VL - 68 UR - https://doi.org/10.1016/j.molcel.2017.09.003 DO - 10.1016/j.molcel.2017.09.003 ID - Hubstenberger2017 ER -