%0 Journal Article %1 Rosa_2004_533 %A Rosales, Rafael A %A Fill, Michael %A Escobar, Ariel L %D 2004 %J J. Gen. Physiol. %K 15111644 Algorithms, Animals, B, Bayes Biological, Calcium Calcium, Cardiac, Carlo Cells, Chains, Channel Channel, Channels, Comparative Computer Cultured, Data Dogs, Gating, Gov't, Homeostasis, Interpretation, Ion Markov Membrane Method, Microsomes, Models, Monte Myocytes, Non-U.S. P.H.S., Patch-Clamp Potentials, Processes, Receptor Release Reproducibility Research Results, Ryanodine Sensitivity Signaling, Simulation, Specificity, Statistical, Stochastic Study, Support, Techniques, Theorem, U.S. and iological, of %N 5 %P 533--553 %R 10.1085/jgp.200308868 %T Calcium regulation of single ryanodine receptor channel gating analyzed using HMM/MCMC statistical methods. %U http://dx.doi.org/10.1085/jgp.200308868 %V 123 %X Type-II ryanodine receptor channels (RYRs) play a fundamental role in intracellular Ca$^2+$ dynamics in heart. The processes of activation, inactivation, and regulation of these channels have been the subject of intensive research and the focus of recent debates. Typically, approaches to understand these processes involve statistical analysis of single RYRs, involving signal restoration, model estimation, and selection. These tasks are usually performed by following rather phenomenological criteria that turn models into self-fulfilling prophecies. Here, a thorough statistical treatment is applied by modeling single RYRs using aggregated hidden Markov models. Inferences are made using Bayesian statistics and stochastic search methods known as Markov chain Monte Carlo. These methods allow extension of the temporal resolution of the analysis far beyond the limits of previous approaches and provide a direct measure of the uncertainties associated with every estimation step, together with a direct assessment of why and where a particular model fails. Analyses of single RYRs at several Ca$^2+$ concentrations are made by considering 16 models, some of them previously reported in the literature. Results clearly show that single RYRs have Ca$^2+$-dependent gating modes. Moreover, our results demonstrate that single RYRs responding to a sudden change in Ca$^2+$ display adaptation kinetics. Interestingly, best ranked models predict microscopic reversibility when monovalent cations are used as the main permeating species. Finally, the extended bandwidth revealed the existence of novel fast buzz-mode at low Ca$^2+$ concentrations.

@article{Rosa_2004_533, abstract = {Type-II ryanodine receptor channels (RYRs) play a fundamental role in intracellular {C}a$^{2+}$ dynamics in heart. The processes of activation, inactivation, and regulation of these channels have been the subject of intensive research and the focus of recent debates. Typically, approaches to understand these processes involve statistical analysis of single RYRs, involving signal restoration, model estimation, and selection. These tasks are usually performed by following rather phenomenological criteria that turn models into self-fulfilling prophecies. Here, a thorough statistical treatment is applied by modeling single RYRs using aggregated hidden Markov models. Inferences are made using Bayesian statistics and stochastic search methods known as Markov chain Monte Carlo. These methods allow extension of the temporal resolution of the analysis far beyond the limits of previous approaches and provide a direct measure of the uncertainties associated with every estimation step, together with a direct assessment of why and where a particular model fails. Analyses of single RYRs at several {C}a$^{2+}$ concentrations are made by considering 16 models, some of them previously reported in the literature. Results clearly show that single RYRs have {C}a$^{2+}$-dependent gating modes. Moreover, our results demonstrate that single RYRs responding to a sudden change in {C}a$^{2+}$ display adaptation kinetics. Interestingly, best ranked models predict microscopic reversibility when monovalent cations are used as the main permeating species. Finally, the extended bandwidth revealed the existence of novel fast buzz-mode at low {C}a$^{2+}$ concentrations.}, added-at = {2009-06-03T11:20:58.000+0200}, author = {Rosales, Rafael A and Fill, Michael and Escobar, Ariel L}, biburl = {https://www.bibsonomy.org/bibtex/2752a309c0077aa36276c223260ed7e69/hake}, description = {The whole bibliography file I use.}, doi = {10.1085/jgp.200308868}, file = {Rosa_2004_533.pdf:Rosa_2004_533.pdf:PDF}, interhash = {7a6b4a8e1b5390e3bfe5a87da9dc739a}, intrahash = {752a309c0077aa36276c223260ed7e69}, journal = {J. Gen. Physiol.}, key = 126, keywords = {15111644 Algorithms, Animals, B, Bayes Biological, Calcium Calcium, Cardiac, Carlo Cells, Chains, Channel Channel, Channels, Comparative Computer Cultured, Data Dogs, Gating, Gov't, Homeostasis, Interpretation, Ion Markov Membrane Method, Microsomes, Models, Monte Myocytes, Non-U.S. P.H.S., Patch-Clamp Potentials, Processes, Receptor Release Reproducibility Research Results, Ryanodine Sensitivity Signaling, Simulation, Specificity, Statistical, Stochastic Study, Support, Techniques, Theorem, U.S. and iological, of}, month = May, number = 5, pages = {533--553}, pii = {jgp.200308868}, pmid = {15111644}, timestamp = {2009-06-03T11:21:27.000+0200}, title = {Calcium regulation of single ryanodine receptor channel gating analyzed using {HMM}/{MCMC} statistical methods.}, url = {http://dx.doi.org/10.1085/jgp.200308868}, volume = 123, year = 2004 }