{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,9]],"date-time":"2026-01-09T23:43:17Z","timestamp":1768002197819,"version":"3.49.0"},"reference-count":62,"publisher":"Public Library of Science (PLoS)","issue":"12","license":[{"start":{"date-parts":[[2010,12,23]],"date-time":"2010-12-23T00:00:00Z","timestamp":1293062400000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1001040","type":"journal-article","created":{"date-parts":[[2010,12,23]],"date-time":"2010-12-23T21:10:43Z","timestamp":1293138643000},"page":"e1001040","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":40,"title":["Phase-Locked Signals Elucidate Circuit Architecture of an Oscillatory Pathway"],"prefix":"10.1371","volume":"6","author":[{"given":"Andreja","family":"Jovic","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bryan","family":"Howell","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Michelle","family":"Cote","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Susan M.","family":"Wade","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Khamir","family":"Mehta","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Atsushi","family":"Miyawaki","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Richard R.","family":"Neubig","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jennifer J.","family":"Linderman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shuichi","family":"Takayama","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2010,12,23]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"1327","DOI":"10.1016\/j.cell.2007.11.039","article-title":"STIM2 is a feedback regulator that stabilizes basal cytosolic and endoplasmic reticulum Ca2+ levels.","volume":"131","author":"O Brandman","year":"2007","journal-title":"Cell"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"1235","DOI":"10.1016\/j.cub.2005.05.055","article-title":"STIM is a Ca2+ sensor essential for Ca2+-store-depletion-triggered Ca2+ influx.","volume":"15","author":"J Liou","year":"2005","journal-title":"Curr Biol"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"517","DOI":"10.1038\/nrm1155","article-title":"Calcium signalling: Dynamics, homeostasis and remodelling.","volume":"4","author":"MJ Berridge","year":"2003","journal-title":"Nat Rev Mol Cell Biol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"610","DOI":"10.1210\/edrv-14-5-610","article-title":"The Inositol Phosphate-Calcium Signaling System in Nonexcitable Cells.","volume":"14","author":"JW Putney","year":"1993","journal-title":"Endocr Rev"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"1675","DOI":"10.1073\/pnas.0506135103","article-title":"A method for determining the dependence of calcium oscillations on inositol trisphosphate oscillations.","volume":"103","author":"J Sneyd","year":"2006","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"1350","DOI":"10.1126\/science.7313693","article-title":"Phase Locking, Period-Doubling Bifurcations, and Irregular Dynamics in Periodically Stimulated Cardiac-Cells.","volume":"214","author":"MR Guevara","year":"1981","journal-title":"Science"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"1880","DOI":"10.1016\/S0006-3495(95)80058-5","article-title":"In vitro study of phase resetting and phase locking in a time-comparison circuit in the electric fish, Eigenmannia.","volume":"69","author":"R Wessel","year":"1995","journal-title":"Biophys J"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"041915","DOI":"10.1103\/PhysRevE.78.041915","article-title":"Simplified model of cytosolic Ca2+ dynamics in the presence of one or several clusters of Ca2+-release channels.","volume":"78","author":"G Solovey","year":"2008","journal-title":"Phys Rev E"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"e1000870","DOI":"10.1371\/journal.pcbi.1000870","article-title":"Calcium Signals Driven by Single Channel Noise.","volume":"6","author":"A Skupin","year":"2010","journal-title":"PLoS Comput Biol"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1006\/jtbi.1995.0077","article-title":"Appearance of phase-locked Wenckebach-like rhythms, devil's staircase and unviersality in intracellular calcium spikes in nonexcitable cell models.","volume":"174","author":"TR Chay","year":"1995","journal-title":"J Theor Biol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"3120","DOI":"10.1529\/biophysj.105.072249","article-title":"Models of IP3 and Ca2+ oscillations: Frequency encoding and identification of underlying feedbacks.","volume":"90","author":"A Politi","year":"2006","journal-title":"Biophys J"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1113\/jphysiol.1996.sp021169","article-title":"Calcium dependence of calcium extrusion and calcium uptake in mouse pancreatic acinar cells.","volume":"490","author":"P Camello","year":"1996","journal-title":"J Physiol (Lond)"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1006\/jtbi.1994.1041","article-title":"Equations for INSP(3) Receptor-mediated [Ca2+](i) oscillations derived from a detailed kinetic-model- a Hodgkin-Huxley-like formalism.","volume":"166","author":"YX Li","year":"1994","journal-title":"J Theor Biol"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"14483","DOI":"10.1016\/S0021-9258(19)49738-X","article-title":"Functional Comparisons between Isoforms of the Sarcoplasmic or Endoplasmic-Reticulum Family of Calcium Pumps.","volume":"267","author":"J Lytton","year":"1992","journal-title":"J Biol Chem"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1007\/11406501_2","article-title":"Modeling IP3-dependent calcium dynamics in non-excitable cells.","volume":"1867","author":"J Sneyd","year":"2005","journal-title":"Tutor Math Biosci II"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"1727","DOI":"10.1016\/S0006-3495(93)81191-3","article-title":"A Single-Pool Model for Intracellular Calcium Oscillations and Waves in the Xenopus-Laevis Oocyte.","volume":"65","author":"A Atri","year":"1993","journal-title":"Biophys J"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1016\/S0143-4160(97)90017-8","article-title":"Simulations of the effects of inositol 1,4,5-trisphosphate 3-kinase and 5-phosphatase activities on Ca2+ oscillations.","volume":"22","author":"G Dupont","year":"1997","journal-title":"Cell Calcium"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1006\/jtbi.1994.1041","article-title":"Equations for Insp(3) Receptor-Mediated [Ca2+](I) Oscillations Derived from a Detailed Kinetic-Model - a Hodgkin-Huxley Like Formalism.","volume":"166","author":"YX Li","year":"1994","journal-title":"J Theor Biol"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"149","DOI":"10.1007\/s00249-009-0469-2","article-title":"Effectors of the frequency of calcium oscillations in HEK-293 cells: wavelet analysis and a computer model.","volume":"39","author":"D Szekely","year":"2009","journal-title":"Eur Biophys J"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1038\/335040a0","article-title":"Repetitive spikes in cytoplasmic calcium evoked by histamine in human endothelial cells.","volume":"335","author":"R Jacob","year":"1988","journal-title":"Nature"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"11044","DOI":"10.1016\/S0021-9258(18)37915-8","article-title":"Cell-specific patterns of oscillating free Ca2+ in carbamylcholine-stimulated insulinoma cells.","volume":"263","author":"M Prentki","year":"1988","journal-title":"J Biol Chem"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"600","DOI":"10.1038\/319600a0","article-title":"Repetitive transient rises in cytoplasmic free calcium in hormone-stimulated hepatocytes.","volume":"319","author":"NM Woods","year":"1986","journal-title":"Nature"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1016\/S0022-5193(80)81040-X","article-title":"Driven Oscillations of a Limit-Cycle Oscillator.","volume":"84","author":"S Machlup","year":"1980","journal-title":"J Theor Biol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1016\/j.cell.2010.03.021","article-title":"Periodic cyclin-Cdk activity entrains an autonomous Cdc14 release oscillator.","volume":"141","author":"Y Lu","journal-title":"Cell"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"149","DOI":"10.1039\/B510901A","article-title":"Handheld recirculation system and customized media for microfluidic cell culture.","volume":"6","author":"N Futai","year":"2006","journal-title":"Lab Chip"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"137","DOI":"10.1042\/bj3560137","article-title":"Single-cell imaging of graded Ins(1,4,5)P-3 production following G-protein-coupled-receptor activation.","volume":"356","author":"MS Nash","year":"2001","journal-title":"Biochem J"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"933","DOI":"10.1038\/31960","article-title":"Calcium oscillations increase the efficiency and specificity of gene expression.","volume":"392","author":"RE Dolmetsch","year":"1998","journal-title":"Nature"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"855","DOI":"10.1038\/386855a0","article-title":"Differential activation of transcription factors induced by Ca2+ response amplitude and duration.","volume":"386","author":"RE Dolmetsch","year":"1997","journal-title":"Nature"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1049\/sb:20050002","article-title":"Precision of intracellular calcium spike timing in primary rat hepatocytes.","volume":"2","author":"K Prank","year":"2005","journal-title":"Syst Biol"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"510","DOI":"10.1016\/j.jtbi.2006.11.007","article-title":"A quantitative kinetic model for ATP-induced intracellular Ca2+ oscillations.","volume":"245","author":"JH Wang","year":"2007","journal-title":"J Theor Biol"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"231","DOI":"10.1016\/j.bpc.2009.02.004","article-title":"Stimulus perturbation induced signal: A case study in mesoscopic intracellular calcium system.","volume":"141","author":"L Ji","year":"2009","journal-title":"Biophys Chem"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"835","DOI":"10.1042\/bj2710835","article-title":"Computer-Simulation of a Cytosolic Calcium Oscillator.","volume":"271","author":"S Swillens","year":"1990","journal-title":"Biochem J"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"722","DOI":"10.1016\/j.bpj.2009.05.016","article-title":"Synchronization of pancreatic islet oscillations by intrapancreatic ganglia: a modeling study.","volume":"97","author":"B Fendler","year":"2009","journal-title":"Biophys J"},{"issue":"4","key":"ref34","doi-asserted-by":"crossref","first-page":"e1000739","DOI":"10.1371\/journal.pcbi.1000739","article-title":"Global Entrainment of Transcriptional Systems to Periodic Inputs.","volume":"6","author":"G Russo","year":"2010","journal-title":"PLoS Comput Biol"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"330","DOI":"10.1016\/0014-4894(89)90082-9","article-title":"Trypanosoma-Cruzi - Infection of Cultured Human-Endothelial Cells Alters Inositol Phosphate Synthesis.","volume":"69","author":"SA Morris","year":"1989","journal-title":"Exp Parasitol"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"633","DOI":"10.1021\/bi962141c","article-title":"Synergism of constitutive activity in alpha(1)-adrenergic receptor activation.","volume":"36","author":"J Hwa","year":"1997","journal-title":"Biochem"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"15297","DOI":"10.1016\/S0021-9258(19)37587-8","article-title":"Formation and Metabolism of [H-3]Inositol Phosphates in Ar42j Pancreatoma Cells - Substance P-Induced Ca-2+ Mobilization in the Apparent Absence of Inositol 1,4,5-Trisphosphate 3-Kinase Activity.","volume":"263","author":"DA Horstman","year":"1988","journal-title":"J Biol Chem"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1016\/0143-4160(91)90012-4","article-title":"Modeling receptor-controlled intracellular calcium oscillators.","volume":"12","author":"KSR Cuthbertson","year":"1991","journal-title":"Cell Calcium"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"1188","DOI":"10.1016\/S0006-3495(00)76373-9","article-title":"Switching from simple to complex oscillations in calcium signaling.","volume":"79","author":"U Kummer","year":"2000","journal-title":"Biophys J"},{"key":"ref40","doi-asserted-by":"crossref","first-page":"339","DOI":"10.1007\/BF00275153","article-title":"A simple model for phase locking of biological oscillators.","volume":"7","author":"L Glass","year":"1979","journal-title":"J Math Biol"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"1059","DOI":"10.1038\/4541059a","article-title":"Systems biology - Reverse engineering the cell.","volume":"454","author":"NT Ingolia","year":"2008","journal-title":"Nature"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"8097","DOI":"10.1073\/pnas.0500230102","article-title":"A chemical waveform synthesizer.","volume":"102","author":"J Olofsson","year":"2005","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1371\/journal.pone.0004847","article-title":"Probing Cellular Dynamics with a Chemical Signal Generator.","volume":"4","author":"B Kuczenski","year":"2009","journal-title":"PLoS One"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"332","DOI":"10.1038\/msb.2009.90","article-title":"Rapid and sustained nuclear-cytoplasmic ERK oscillations induced by epidermal growth factor.","volume":"5","author":"H Shankaran","year":"2009","journal-title":"Mol Syst Biol"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"704","DOI":"10.1126\/science.1099962","article-title":"Oscillations in NF-kappa B signaling control the dynamics of gene expression.","volume":"306","author":"DE Nelson","year":"2004","journal-title":"Science"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"271","DOI":"10.1016\/S0092-8674(00)80566-8","article-title":"Molecular bases for circadian clocks.","volume":"96","author":"JC Dunlap","year":"1999","journal-title":"Cell"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"1093","DOI":"10.1038\/ncb1922","article-title":"Ultradian hormone stimulation induces glucocorticoid receptor-mediated pulses of gene transcription.","volume":"11","author":"DA Stavreva","year":"2009","journal-title":"Nat Cell Biol"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"2411","DOI":"10.1016\/S0006-3495(99)77078-5","article-title":"A simple model of circadian rhythms based on dimerization and proteolysis of PER and TIM.","volume":"77","author":"JJ Tyson","year":"1999","journal-title":"Biophys J"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1098\/rspb.1995.0153","article-title":"A Model for Circadian Oscillations in the Drosophila Period Protein (Per).","volume":"261","author":"A Goldbeter","year":"1995","journal-title":"Proc R Soc Lond Ser B Biol Sci"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"10554","DOI":"10.1073\/pnas.0400417101","article-title":"Expanded dynamic range of fluorescent indicators for Ca2+ by circularly permuted yellow fluorescent proteins.","volume":"101","author":"T Nagai","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"153","DOI":"10.1146\/annurev.matsci.28.1.153","article-title":"Soft lithography.","volume":"28","author":"YN Xia","year":"1998","journal-title":"Annu Rev Mater Sci"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"1320","DOI":"10.1002\/adma.200400595","article-title":"Rapid prototyping of microstructures with bell-shaped cross-sections and its application to deformation-based microfluidic valves.","volume":"16","author":"N Futai","year":"2004","journal-title":"Adv Mater"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"15861","DOI":"10.1073\/pnas.0404353101","article-title":"Computerized microfluidic cell culture using elastomeric channels and Braille displays.","volume":"101","author":"W Gu","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"1057","DOI":"10.1038\/nprot.2006.172","article-title":"Measuring calcium signaling using genetically targetable fluorescent indicators.","volume":"1","author":"AE Palmer","year":"2006","journal-title":"Nat Protoc"},{"key":"ref55","doi-asserted-by":"crossref","first-page":"1126","DOI":"10.1021\/ac061990v","article-title":"Characterization and resolution of evaporation-mediated osmolality shifts that constrain microfluidic cell culture in poly(dimethylsiloxane) devices.","volume":"79","author":"YS Heo","year":"2007","journal-title":"Anal Chem"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1016\/S1534-5807(02)00224-1","article-title":"Lateral propagation of EGF signaling after local stimulation is dependent on receptor density.","volume":"3","author":"A Sawano","year":"2002","journal-title":"Dev Cell"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1021\/bp00025a005","article-title":"Calcium Signaling in Individual Bc(3)H1 Cells - Speed of Calcium Mobilization and Heterogeneity.","volume":"10","author":"PA Mahama","year":"1994","journal-title":"Biotechnol Prog"},{"key":"ref58","doi-asserted-by":"crossref","first-page":"5613","DOI":"10.1074\/jbc.M007524200","article-title":"Signaling pathways underlying muscarinic receptor-induced [Ca2+](i) oscillations in HEK293 cells.","volume":"276","author":"D Luo","year":"2001","journal-title":"J Biol Chem"},{"key":"ref59","doi-asserted-by":"crossref","first-page":"229","DOI":"10.2307\/1403510","article-title":"Sensitivity and uncertainty analysis of complex-models of disease transmission- an HIV model, as an example.","volume":"62","author":"SM Blower","year":"1994","journal-title":"In Stat Rev"},{"key":"ref60","doi-asserted-by":"crossref","first-page":"178","DOI":"10.1016\/j.jtbi.2008.04.011","article-title":"A methodology for performing global uncertainty and sensitivity analysis in systems biology.","volume":"254","author":"S Marino","year":"2008","journal-title":"J Theor Biol"},{"key":"ref61","first-page":"239","article-title":"Comparison of 3 methods for selecting values of input variables in the analysis of output from a computer code.","volume":"21","author":"MD McKay","year":"1979","journal-title":"Technometrics"},{"issue":"1","key":"ref62","doi-asserted-by":"crossref","first-page":"e6","DOI":"10.1371\/journal.pcbi.0030006","article-title":"Both ligand- and cell-specific parameters control ligand agonism in a kinetic model of G protein-coupled receptor signaling.","volume":"3","author":"TL Kinzer-Ursem","year":"2007","journal-title":"PLoS Comput Biol"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1001040","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,11,16]],"date-time":"2021-11-16T06:33:02Z","timestamp":1637044382000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1001040"}},"subtitle":[],"editor":[{"given":"David","family":"Gross","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2010,12,23]]},"references-count":62,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2010,12,23]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1001040","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,12,23]]}}}