Multidimensional Age-Structured Modeling Carbon fixation by cyanobacteria accounts for nearly 40% of the global total. A carbon concentrating mechanism facilitates this process by gathering the cell’s available carbon supply around the key enzymes, carbonic anhydrase and RuBisCO, which are encapsulated into icosahedral nanostructures called carboxysomes. Carboxysome efficiency is thus a...
An ALE method for large structural displacements in fluid-structure interaction simulations of venous valves Veins are blood vessels subjected to very low blood pressures, and they rely on muscle contractions and one-way valves to push blood back to the heart. The main contribution of venous valves is to prevent back...
Using Oriented Matroids To Understand Metabolic Networks Genome scale models of cellular metabolism involve thousands of reactions, even for relatively simple model organisms such as E. coli . Given a stoichiometric matrix, S, one could parametrize a system of thousands of ODEs for the metabolite concentrations: x' = S*v(x;k). Instead,...
Applications of Positive Semigroups for Modeling a Dually-Age-Structured Population Cyanobacteria take in atmospheric CO2 and use light energy to synthesize the necessary organic compounds to gain energy and grow biomass, releasing oxygen as a byproduct. Their biomass and metabolic capabilities have wide-ranging and valuable applications in many environmentally impactful areas...
Sama Shrestha, Department of Applied Mathematics, University of Colorado Boulder Bayesian Inference in coupled epizootic disease models An important aspect of epizootic disease transmission modeling is to infer the extent to which small-scale processes affect large-scale dynamics. Models that couple the disease dynamics at the population level with the host-pathogen...
Subekshya Bidari, Department of Applied Mathematics, University of Colorado Boulder Optimizing flexibility in the collective decisions of honeybees Honeybees make decisions as a group while searching for a new home site or foraging. The quality of each choice influences the rate at which scout bees recruit others via a waggle...
Mathematical and Computational Studies of the Biomechanics of Bacterial Biofilms Bacterial biofilms are communities of bacteria growing on a surface, typically in anaqueous environment. Interest in understanding biofilm behavior arises from a variety of applications; strategies to mitigate corrosion in industrial machinery, the treatment of bacterial infections, and process control...
Partial Differential Equation Models of Collective Migration During Wound Healing I will discuss the collective migration of epithelial cells. As epithelial cells are known to remain physically connected to their neighbors during migration, we begin with a study into the role of cell-cell adhesions on keratinocyte migration during wound healing...
Jacqui Wentz, Department of Applied Mathematics, University of Colorado Boulder Spatial flux balance analysis for studying pattern formation Flux balance analysis is a mathematical technique used to study biochemical networks. In contrast to other methods, flux balance analysis requires limited information about kinetic parameters and metabolite concentrations. I will present...
Lewis Baker, Department of Applied Mathematics, University of Colorado Boulder Rules Rule! Rule-Based Modeling in Biochemistry Rule-based modeling is becoming increasingly recognized for its potential to heuristically simplify problems involving large interacting networks. It has recently been implemented to study the complex multi-ligand dynamics of receptor tyrosine kinase signaling pathways,...
