Dr. Jomar F. Rabajante
(University of the Philippines Los Baños) Workshop Facilitator Dr. Neelendra Joshi
(University of Arkansas) Importance of Pollinators and Plant-Pollinator Networks Dr. Kusum Naithani
(University of Arkansas) Special talk on exploring genotype x environment interaction using photosynthesis models |
Project 1: From pollinators to cuisine: a network analysisWorkshop on Pollination facilitated by Dr. Jomar Rabajante (UP Los Baños) with special talks by Dr. Neelendra Joshi (University of Arkansas) and Dr. Kusum Naithani (University of Arkansas).
Abstract: In this workshop, we will learn how to use multipartite networks in visualizing and analyzing the relationships between pollinator and plants (e.g., crops), and between plants and ingredients of Filipino cuisines. We will study the graph-theoretic properties of the derived tripartite network, and investigate how this network will change if there are disturbances in the pollination services. In addition to the mathematical knowledge that they will gain from this exercise, the students are also expected to appreciate the value of pollinators, especially in relation to the food that Filipinos usually love to consume.
For advanced reading:
Suggested software: https://cytoscape.org |
May Anne Mata
(University of the Philippines Mindanao) Workshop Facilitator |
Project 2: Modelling noise-induced temporal dynamics with stochastic ordinary differential equations (SDEs)Abstract: This workshop will introduce noise-induced temporal patterns, such as noisy cycles that are observed in nature, and will present how these patterns can be generated using stochastic differential equations (SDEs). Participants will learn basic SDE model formulation of biological systems using Linda Allen's approach, Master-Equation-based approach, and Greenwood-Gordillo-Kurtz approach. Participants will also learn about deriving the theoretical power spectral density (PSD), which is a useful measure for characterizing the simulated time-series from the formulated SDEs. The theoretical PSD will be compared to the numerical PSD from MATLAB toolbox. Participants will work on a given system where they are expected to formulate SDEs using the introduced approaches and investigate their differences using the simulated sample paths as well as their associated theoretical PSD.
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Juancho Collera
(University of the Philippines Baguio) Workshop Facilitator |
Project 3: Numerical Continuation and Bifurcation Analysis of Time Delay Systems
Abstract: The goal of this workshop is to introduce participants to the use of numerical continuation and numerical bifurcation analysis in time delay systems [1]. An introduction to delay differential equations (DDEs) with emphasis to applications in the life sciences will be given first to acquaint students and researchers to the basic theory of DDEs and the areas where time delays occur [2]. An example in ecology will then be examined in detail to illustrate both theoretical and numerical approaches. For the mini-project, participants will apply what they learn on a model of the cardiovascular system [3]. The author of [3] will give a plenary talk during the IWOMB 2019, so students have the unique opportunity to discuss both modelling and physiological aspects as well.
References: [1] http://ddebiftool.sourceforge.net/ [2] Smith, Hal L. An introduction to delay differential equations with applications to the life sciences. New York: Springer, 2011. [3] Ottesen, Johnny T. "Modelling of the baroreflex-feedback mechanism with time-delay." Journal of Mathematical Biology 36(1), 41-63 (1997). |
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Project 4: Chemical Reaction Network Theory (CRNT) Tools and ApplicationsAbstract: In this workshop, we will learn how to apply CRNT concepts in analyzing biochemical models. Fundamentals of CRNT will be discussed and available tools will be used to investigate CRNs. We will study some algorithms to represent a Biochemical Systems Theory (BST) model (in either GMA or S-system form) as a chemical reaction network (CRN) with power law kinetics. With the help of some CRNT software tools, the students will learn to analyze this BST models using the CRN representations.
For advanced reading:
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Workshop Facilitators:
Aurelio A. de los Reyes V
(University of the Philippines Diliman) Sunhwa Choi
(Konkuk University, Seoul, South Korea) Soyoung Kim
(Konkuk University, Seoul, South Korea) |
Project 5: Optimal strategies for mitigating infectious diseases
Abstract : Infectious diseases pose major threats to human health and cause substantial economic burden. In this workshop, strategies to control the spread of infectious diseases will be explored in the framework of optimal control theory. In particular, intervention measures for tuberculosis and influenza transmission dynamics will be investigated. Participants of this mini-project will learn how to formulate and solve numerically optimal control problems with biological applications.
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Seunggyu Lee
National Institute for Mathematical Sciences Daejeon, South Korea |
Project 6: Simulation of micro-scaled elastic swimmer using phase-field methodAbstract: In this workshop, we will study the phase-field method and its numerical simulations of a micro-scaled elastic swimmer (e.g. jellyfish). The phase-field method can be applied to model a variety of phenomena including elastic bio-membrane. Participants will learn the governing equation of the phase-field method briefly, consider the simple model of a swimmer as an example of the method coupling with a fluid equation, and finally perform some simulations based on MATLAB or Octave code.
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