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    Hawk vs. Dove Game
    Hawk vs. Dove Game is a model of conflict for two players in game theory.

    Keywords: mathematical modelcomputational modelagent-based model

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    Critical Zone Science Part II
    As part of our effort to model the redwood forest water budget, we used the InTeGrate Unit 5.2 to put numbers to pathways.
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    Fitting Exponential and Logistic Growth Models to Bacterial Cell Count Data
    In this activity, students will model a noisy set of bacterial cell count data using both exponential and logistic growth models. For each model the students will plot the data (or a linear...

    Keywords: modelingdata analysislinear regressiongraphingExponentsoptimizationcalculusInterpreting GraphsFunctionsqbccCellular and Molecular BiologyChoosing modelsUnderstanding ratesConcepts in Statisticsmeasurementsmanipulating equationscreating graphsExponential and Logarithmic Functionsinterpreting tables

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    A Hands-on Introduction to Hidden Markov Models
    A lesson in which students will understand the basic structure of an HMM, the types of data used in ab initio gene prediction, and its consequent limitations.

    Keywords: Markov modelbioinformaticsgenomicsNIBLSEtranscriptionCourseSourceexonintronsplicing

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    Discrete Modeling and Structures (Course Materials)
    These are the materials for DCS course offered at Bates College. This is a sampler of structures and ways they are used to model biological and social phenomena.

    Keywords: labsagent-based modelingoctavematlabDiscrete Difference Equationsmatrix modelscoursezombiesbiomath courseeconomicsdemonstrationin-class activitylab protocolproblem sethamlet

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    Diseasebots
    This module explores the effects of host density on contact rates and transmission of pathogens or mutualist symbionts using a hands-on simulation, a computer agent-based model in NetLogo, and an...

    Keywords: NetLogoDisease ecologydensity dependenceSpreadsheethost-parasitemutualismOpen-inquiry group projectsmanipulative models (‘beanbag biology’)plotting

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    Developing a phylogram from computational resources.
    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBINIBLSEalgorithmsBLASTmultiple sequence alignmentsequence similarityneighbor-joining distance matrixCourseSourcephylogrampercent identity matrix

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    Sequence Similarity: Introducing Biological Databases to Community College Biology Students
    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBINIBLSEalgorithmsincubatorsBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixneighbor-joining distance matrixCourseSourcephylogramZika virus

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    Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses
    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBINIBLSEalgorithmsincubatorsBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixneighbor-joining distance matrixCourseSourcephylogramZika virus

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    Fitzhugh-Nagumo Model
    The FitzHugh–Nagumo model describes a prototype of an excitable system (e.g., a neuron).

    Keywords: differential equationsmathematical modeldifferential equation modelordinary differential equation modelneuroscienceexcitable

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    Pharmacokinetics
    This Excel module explores how drugs are processed and absorbed in the human body.

    Keywords: drug metabolismpharmacokinetics

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    Introduction to Mathematical Modeling in Biotechnology, Cell Biology, and Physiology
    The course is a mathematical and computational exploration of five diverse areas of biology: human locomotion, gene sequence analysis, signal transduction pathways involved in cancer,...

    Keywords: mathematical modelingcoursehuman locomotionneuroanatomyneurophysiologysignal transductiongene sequence analysis

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    Frayer model growth mindset
    A Frayer model worksheet for the concept of growth mindset.

    Keywords: growth mindsetFrayer model

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    Using computational molecular modeling software to demonstrate how DNA mutations cause phenotypes
    This lesson is a five-week series of laboratory activities designed to help students transition from applying lower order thinking skills to the central dogma to applying higher-order thinking skills.

    Keywords: bioinformaticsNIBLSEProtein StructureDNAmolecular modelinggenotypephenotypeCourseSourcecomputational modelingcentral dogmaplant leaf structure

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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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    COVID-19 Model
    This Excel worksheet implements an SEAIHRD model for Covid-19 (Susceptible, Exposed, Asymptomatic infective, symptomatic Infective, Hospitalized infective, Recovered, Deceased).

    Keywords: infectious diseaseCOVID19

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    Deme 2.0
    This workbook simulates the population genetics of a single gene with two alleles. It can simultaneously model up to three local populations, which may differ in their selection coefficients.

    Keywords: population geneticsGenetic DriftNatural Selection

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    Linkage Analysis
    This Excel workbook simulates a linkage analysis problem with up to four alleles. Based on the offspring produced by a multihybrid testcross, the user builds a model of the gene order,...

    Keywords: recombinationlinkage analysis

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    The Stomata Lab. What the past can tell us about our future - using fossil and modern plants to model atmospheric carbon dioxide
    Students will develop a mathematical model of the relationship between atmospheric CO2 and the number of stomata on a leaf (Stomata Index). They will evaluate the model graphically, statistically,...

    Keywords: introductory biologyQuantitative reasoninginterdisciplinaryclimate changeregressionEcology and EvolutionStomataNIQBC2. Data and GraphsC4. mathematical modelsC3. Statistical AnalysisSmithsonian

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    COVID-19 educational module | Department of Mathematics
    This resource is a module you can use to teach your students the basics of epidemic behavior using a model geared specifically to Covid-19. Students can address key questions using pre-designed...
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