Abstract
Single channel ionic current at several conductance states has been evaluated by a machine learning approach based on fuzzy clustering. Current jumps values have been clustered into an optimal number of well separated partitions using an original fuzzy validation index. This optimal partitions scheme allows to discriminate single channel classes discarding multi channels and spike due current evaluating and using of the proper open single channel noise. This method may be applied to step-like or burst-like single ionic current jumps. Specifically, burst-like single ionic current jumps generated by tetanus toxin (TeTx) have been studied. This case study represents a typical methodological validation example due to the presence of several spikes, current multi-channels and different conductance.
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References
Y. Xia and P. Yang, “Guest editorial: Chemistry and physics of nanowires,” Adv. Mater., vol. 15, no. 5, pp. 351–352, 2003.
P. C. Jordan, “Fifty years of progress in ion channel research,” NanoBioscience, IEEE Trans., vol. 4, no. 1, pp. 3–9, 2005.
O. S. Andersen, R. E. Koeppe, and B. Roux, “Gramicidin channels,” NanoBioscience, IEEE Trans., vol. 4, no. 1, pp. 10–20, 2005.
F. Gambale, A. Menini, and G. Rauch, “Effects of calcium on the gramicidin A single channel in phosphatidylserine membranes,” Eur. Biophys. J., vol. 14, no. 6, pp. 369–374, 1987.
O. S. Andersen, “Ion movement through gramicidin A channels. Single-channel measurements at very high potentials,” Biophys. J., vol. 41, no. 2, pp. 119–133, 1983.
F. Gambale and M. Montal, “Characterization of the channel properties of tetanus toxin in planar lipid bilayers,” Biophys. J., vol. 53, no. 5, pp. 771–783, 1988.
G. Rauch, F. Gambale, and M. Montal, “Tetanus toxin channel in phosphatidylserine planar bilayers: conductance states and pH dependence,” Eur. Biophys. J., vol. 18, no. 2, pp. 79–83, 1990.
M. S. Monta, R. Blewitt, J. M. Tomich, and M. Montal, “Identification of an ion channel-forming motif in the primary structure of tetanus and botulinum neurotoxins,” FEBS Lett., vol. 313, no. 1, pp. 12–18, 1992.
D. Colquhoun and A. G. Hawkes, “The principles of the stochastic interpretation of ion-channel mechanisms,” in Single-channel recording, Springer, 1995, pp. 397–482.
D. Colquhoun and F. J. Sigworth, “Fitting and statistical analysis of single-channel records,” Single-channel Rec., vol. 2, pp. 483–587, 1995.
G. Rauch, F. Gambale, L. Spadavecchia, P. Gagna, A. Menini, and E. Gaggero, “A microcomputer-based system for data acquisition and analysis of step-like current jumps due to the opening of single ionic channels in model membranes,” Int. J. Biomed. Comput., vol. 19, no. 1, pp. 9–22, 1986.
G. Rauch and F. Gambale, “Computerized analysis of ionic channel multi-state conductance in planar lipid bilayers,” Comput. Methods Programs Biomed., vol. 30, no. 4, pp. 297–303, 1989.
G. Rauch, S. Bertolini, R. Sacile, M. Giacomini, and C. Ruggiero, “Generalized entropy in single ion channel current analysis,” in Nanotechnology, 2009. IEEE-NANO 2009. 9th IEEE Conference on, 2009, pp. 583–584.
G. Rauch, S. Bertolini, R. Sacile, M. Giacomini, and C. Ruggiero, “Ionic Channel Current Burst Analysis by a Machine Learning Based Approach,” IEEE Transactions on NanoBioscience, vol. 10, no. 3. IEEE, pp. 152–159, 2011.
J. C. Bezdek, R. Ehrlich, and W. Full, “FCM: The fuzzy< i> c</i>-means clustering algorithm,” Comput. Geosci., vol. 10, no. 2, pp. 191–203, 1984.
D.-W. Kim, K. H. Lee, and D. Lee, “On cluster validity index for estimation of the optimal number of fuzzy clusters,” Pattern Recognit., vol. 37, no. 10, pp. 2009–2025, 2004.
W. Wang and Y. Zhang, “On fuzzy cluster validity indices,” Fuzzy sets Syst., vol. 158, no. 19, pp. 2095–2117, 2007.
C. A. Hübner and T. J. Jentsch, “Ion channel diseases,” Hum. Mol. Genet., vol. 11, no. 20, pp. 2435–2445, 2002.
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Rauch, G., Ruggiero, C., Giacomini, M. (2016). Evaluating Single Channel Ionic Current by Fuzzy Clustering with a Partition Validation Index. In: Kyriacou, E., Christofides, S., Pattichis, C. (eds) XIV Mediterranean Conference on Medical and Biological Engineering and Computing 2016. IFMBE Proceedings, vol 57. Springer, Cham. https://doi.org/10.1007/978-3-319-32703-7_87
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DOI: https://doi.org/10.1007/978-3-319-32703-7_87
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