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    COVID-19 Spread NetLogo ABM
    This project aimed to utilize agent-based modeling in NetLogo to create a simulation of COVID-19 spread in a traditional college classroom. The model allows for an evaluation of different...

    Keywords: classroomNetLogoagent-based modelingdisease prevention

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    Central Dogma, Dictionaries, and Functions: Using Programming Concepts to Simulate Biological Processes
    Technologies like next-generation sequencing, proteomics, and high-throughput phenotyping have transformed the way we do biology. There is a continued need for scientists with computational skills...

    Keywords: computationpythonJupyter notebookFunctionscentral dogmaDictionaries

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    Simulating Cortical Rotation, Axis Induction, and Experimental Embryology in Amphibian Embryos Using Clay Models
    The study of development requires learners to understand spatially complex concepts like embryo anatomy. Embryo anatomy is dynamic over time, and it is often manipulated by researchers in...

    Keywords: developmentXenopusfertilizationEmbryologyinductionSymmetry breakingOrganizerCortical rotationPatterning

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    The Developmental Origins of Mythology: A Pandemic-Inspired Innovative Developmental Biology Laboratory Exercise
    From an experiential, hands-on perspective, the Developmental Biology Laboratory is easily amenable to a wide range of undergraduate-friendly experiments. Thus, pivoting to a virtual laboratory...

    Keywords: gastrulationaxis formationlimb developmentchimeramidline

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    2018-Joseph-EtAl-A Nonlinear differential equation model of Asthma effect of environmental pollution using LHAM
    In this paper, we investigated a nonlinear differential equation mathematical model to study the spread of asthma in the environmental pollutants from industry and mainly from tobacco smoke from...

    Keywords: asthmatobacco smokeLiao’s Homotopy analysis Method (environmental pollutants

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    2018-Hu-Huang-Dynamic Regulation Responding to an External Stimulus
    This study examines the dynamic regulation process responding to an external stimulus. This study introduces the driven damped oscillator model which has an additional parameter to identify...

    Keywords: dynamical systemsregulationsteady statesales modelexternal stimulus

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    2017-Varanis-Mereles-Mathematical Model of a Vehicle Crash A Case Study
    The model proposed in this paper allows one to obtain the parameters of the system, and then compare them with the ones obtained experimentally to test the suitability of the model with the vehicle...

    Keywords: case studyRunge-Kuttaspring mass dampervehicle crash

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    2017-Justin_Krueger-Parameter Estimation Methods for Ordinary Differential Equation Models with Applications to Microbiology
    We demonstrate the feasibility of principal differential analysis using simulation studies and then apply the method to intestinal and vaginal microbiota data.

    Keywords: microbiologyLotka Volterrramicrobiota

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    2017-Floyd_Ballard-Dice Activities for DE Models
    This document includes descriptions of four activities that are appropriate for a calculus or differential equations class, all using dice to motivate a differential equation model for a real-world...

    Keywords: simulationcurve fittingcdicecollect dataclass activitiesanalyze dataclass activity

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    2017-D_Goulet-Modeling, Simulating, and Parameter Fitting of Biochemical Kinetic Experiments
    In many chemical and biological applications, systems of differential equations containing unknown parameters are used to explain empirical observations and experimental data. The differential...

    Keywords: optimizationBiochemistrysensitivity analysischromatographymass actioncluster analysisconservation lawsdimerizationestrogen receptor protein

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    2016-Manheim-EtAl-Improving Decision Support for Infectious Disease Prevention and Control
    This report describes decision-support tools, including models and nonmodeling approaches, that are relevant to infectious disease prevention, detection, and response and aligns these tools with...

    Keywords: infectious diseaseecosystemepidemicmodel policy

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    2016-Lofgren-EtAl-Equations of the End Teaching Mathematical Modeling Using the Zombie Apocalypse
    In this article, we explore several uses of zombie epidemics to make mathematical modeling and infectious disease epidemiology more accessible to public health professionals, students, and the...

    Keywords: simulationinfectious diseasediseaseepidemicZombieWhite Zed

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    2016-Barbarossa-Kuttler-Mathematical Modeling of Bacteria Communication in Continuous Cultures
    This paper presents a simple system of delay differential equations (DDEs) for quorum sensing of Pseudomonas putida with one positive feedback plus one (delayed) negative feedback mechanism.

    Keywords: gene regulatory networkschemostatbifurcationNumerical Simulationquorum sensing

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    2015-Peter_Cumber-Waggling pendulums and visualization in mechanics
    This article describes an equation of motion for a waggling pendulum.

    Keywords: resonanceinverted pendulummechanicsdamped pendulum

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    2015-Cano-EtAl-Bringing partial differential equations to life for students
    This work describes how to use an authoring tool, Easy Java Simulations, to build interactive simulations using FreeFem++ (Hecht F 2012 J. Numer. Math. 20 251) as a PDE solver engine.

    Keywords: Java SimulationFreeFemauthoring toolsauthoring methodsphysical modellingclassroom teaching

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    2015-Boggess-EtAl-Mathematical Modeling in Ecology - Simulating the Reintroduction of the Extinct Passenger Pigeon
    To determine under which conditions a Passenger Pigeon could survive a reintroduction into a natural habitat, we used two types of models.

    Keywords: simulationagent-based modelingallee_effectPassenger Pigeonsforest envirnomentHolling Type III functional responseBio-energeticstree distributions

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    2014-Wang-EtAl-Estimating Mixed-Effects Differential Equation Models
    When multiple replicates of measurements are available for the dynamic process, it is of great interest to estimate mixed-effects in the ODE model for the process. We propose a semiparametric...

    Keywords: pharmacokineticsdynamic modelssmoothingsplinemixed-effects modelsHiV combination therapy

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    2013-Deboeck-Bergeman-The reservoir model-DE model of psychological regulation
    The following article describes a differential equation model based on the concept of a reservoir for psychological regulation.

    Keywords: adaptive copingReservoirsNotre Dame Longitudinal Study on Agingoutputinput distributionstressorscoping resources

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    2012-Nokkaew-EtAl-Estimation of Algae Growth Model Parameters by a Double Layer Genetic Algorithm
    This paper presents a double layer genetic algorithm (DLGA) to improve performance of the information-constrained parameter estimations.

    Keywords: optimizationalgae growthgenetic algorithmssimulated dataconvergence of parameters

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    2012-Arvind_Kumar_Misra-A simple mathematical model for the spread of two political parties
    In this paper, a non-linear mathematical model for the spread of two political parties has been proposed and analyzed by using epidemiological approach.

    Keywords: epidemiccompartmentpolitical parties

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