Abstract
The organization of a sample space for studying the probability density functions whose temporal variation is able to describe the evolution of protein domains as registered in biological almanacs (protein databases) is done through two concurrent processes. The “poissonization” of a binomial process, and a multinomial process leading to a Gibbs–Shannon Entropy. The present approach is aimed to span the bridge across the difficulties of constructing a new theory which will be able to describe the function and evolution of protein families and their association into clans with the usual methods of Statistical Physics.
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References
R.P. Mondaini, S.C. de Albuquerque Neto, Entropy measures and the statistical analysis of protein family classification, in BIOMAT 2015 (2016), pp. 193–210
R.P. Mondaini, S.C. de Albuquerque Neto, The pattern recognition of probability distributions of amino acids in protein families, in BIOMAT 2016 (2017), pp. 29–50
R.P. Mondaini, A survey of geometric techniques for pattern recognition of probability of occurrence of amino acids in protein families, in BIOMAT 2016 (2017), pp. 304–326
R.P. Mondaini, Entropy measures based method for the classification of protein domains into families and clans, in BIOMAT 2013 (2014), pp. 209–218
R.D. Finn et al., Pfam: clans, web tools and services. Nucleic Acids Res. 34, D247–D251 (2006)
M. Punta et al, The Pfam protein families database. Nucleic Acids Res. 40, D290–D301 (2012)
R.D. Finn et al., The Pfam protein families database. Nucleic Acids Res. 42, D222–D230 (2015)
R.D. Finn et al., The Pfam protein families database. Nucleic Acids Res. 44 D279–D285 (2016)
W. Bialek, Biophysics – Searching for Principles (Princeton University Press, Princeton, 2012)
E.T. Jaynes, Probability Theory - The Logic of Science (Cambridge University Press, Cambridge, 2003)
Yu.B. Rumer, M.Sh. Ryvkin, Thermodynamics, Statistical Physics and Kinetics (Mir Publishers, 1980), pp. 576
H. Risken, The Fokker-Planck Methods of Solutions and Applications, 2nd edn. Springer Series in Synergetics (Springer, Berlin, 2008)
N.G. Van Kampen, Stochastic Process in Physics and Chemistry, 3rd edn. (North-Holland, Amsterdam, 2007)
Acknowledgements
S.C. de Albuquerque Neto thanks to the International Union of Biological Sciences (IUBS) for partial support of living expenses in Moscow, during the 17th BIOMAT International Symposium, October 29–November 04, 2017.
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Mondaini, R.P., de Albuquerque Neto, S.C. (2018). Stochastic Assessment of Protein Databases by Generalized Entropy Measures. In: Mondaini, R. (eds) Trends in Biomathematics: Modeling, Optimization and Computational Problems. Springer, Cham. https://doi.org/10.1007/978-3-319-91092-5_7
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DOI: https://doi.org/10.1007/978-3-319-91092-5_7
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