1st Edition

Theoretical Physics for Biological Systems

By Paola Lecca, Angela Re Copyright 2019
    160 Pages
    by CRC Press

    160 Pages 5 Color & 21 B/W Illustrations
    by CRC Press

    160 Pages 5 Color & 21 B/W Illustrations
    by CRC Press

    Quantum physics provides the concepts and their mathematical formalization that lend themselves to describe important properties of biological networks topology, such as vulnerability to external stress and their dynamic response to changing physiological conditions. A theory of networks enhanced with mathematical concepts and tools of quantum physics opens a new area of biological physics, the one of systems biological physics.



    Quantum Mechanics in Biology

    General Definitions

    The Time-independent Schrödinger Equation

    Time-dependent Schrödinger Equation

    Transition Probability Per Unit of Time

    Quantum Coherence and Entanglement

    Quantum Interference

    Quantum Effects in Biology

    Statistical Physics in Biology

    Why Statistical Physics in Biology?

    Markov Processes

    The Chemical Master Equation

    Chemical Master Equation and Curse of Dimensionality

    Discrete Approach to Chemical Kinetics

    Stochastic Simulation Algorithm

    An Example of Real Enzymatic Reactions Simulated with Gillespie Algorithm

    Graph Theory and Physics Meet Network Biology

    Physics at the Birth of Network Biology

    Mutual Information-Based Network Inference

    Thermodynamics Applications in Biological Network Analysis

    Electronic Physics Applications in Network Analysis

    Assessment of Network Inference Methods and the Issue of Generation of Gold-Standard Data

    Network Biology is Transformed by Physics

    Applied Descriptors for Complexity and Centrality to Network Biology

    Network Theory

    Measures for Network Complexity and Centrality

    Comparative Network Analysis



    Systems Theory and Quantum Physics

    Various Recapitulation Exercises



    Dr. Paola Lecca is Research Scientist at the Department of Mathematics of University of Trento (Italy), and

    Paola Lecca has a Master Degree in Theoretical Physics and a PhD in Computer Science and Telecommunications. She worked for several years since its foundations as researcher and principal investigator at the Microsoft Research - University of Trento, Centre for Computational and Systems Biology, where she was the leader of the research team "Knowledge inference and data management". She is currently researcher at the Department of Mathematics of University of Trento, scholarship holder at the Department of Medicine of University of Verona, and Senior Professional Member of Association for Computing Machinery. Her main research activities focus on computational modelling and algorithmic procedures implementing efficient solutions for identiafiability, controllability, and simulation of complex dynamical networks. The main applicative domains of these studies are network biology, biochemistry, biological physics, microbiology, and synthetic biology. Dr. Paola Lecca is author of about hundred publications including books and journal and conference papers on international journals in computer science, computational biology, bioinformatics, and biophysics. She carries on an intense editorial activity as editor and reviewer for high impact journals in these subjects.

    Angela Re obtained her Master degree in Physics in 2004 and Ph.D. degree in 2007 in the programme – Complex Systems Applied to Post-Genomic Biology – at the University of Turin. Since then, she has been conducting an active research program in international research centres, abroad and in Italy such as the Centre for Integrative Biology in Trento and the Centre for Sustainable Future Technologies in Torino. She has a long-proven track record working with mathematical conceptualization and statistical analysis of a variety of different biological data types. Specific areas of interest include the study of eukaryotic post-transcriptional regulatory mechanisms and their inclusion in cancer and stem cell pathways as well as the application of systems and synthetic biology approaches to bacterial RNA biology, proteomics and metabolism. She contributes to develop statistical software for the analysis of network modular organization and its dynamical properties, and she is interested into integrative multi-assay genomic data visualization and integration. She is in charge of editor ad reviewer activities in peer-reviewed scientific journals.