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    A CURE for Salmonella: A Laboratory Course in Pathogen Microbiology and Genomics
    Rapid advances in genomics and bioinformatics, the vast amount of data generated by next-generation sequencing, and the penetration of the ‘-omics’ into many areas of biology have created a need...

    Keywords: epidemiologyresearchbioinformaticsgenomicspublic healthAntibiotic Resistant BacteriaSalmonellaDNA sequencingpathogenic bacteria

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    Single Cell Insights Into Cancer Transcriptomes: A Five-Part Single-Cell RNAseq Case Study Lesson
    There is a growing need for integration of “Big Data” into undergraduate biology curricula. Transcriptomics is one venue to examine biology from an informatics perspective. RNA sequencing has...

    Keywords: bioinformaticscancertranscriptomicshigh-throughputData wranglingSingle cell RNA sequencingq

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    Bioimage Informatics Activity
    Students use basic bioimage informatics techniques to acquire quantitative data from images of cultured cells and test a hypothesis about the effect of a genetic mutation on cellular phenotypes

    Keywords: geneticsResources @ HHMI - BioInteractivegenomicscancergenetic basis of diseasebiology of cells

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    1994-JM_McDill-Bjorn_Felsager-The Lighter Side of Differential Equations
    Although differential equations have many serious applications to the modeling of real-world problems, a few lighthearted problems can serve to motivate students and brighten their attitudes toward...

    Keywords: cooperationharvestingRomeo and Julietlovecannibalismovercrowding

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    Overview of the Genomics Education Partnership
    Poster exhibited at the National Association of Biology Teachers (NABT) 2022 conference providing an overview of the Genomics Education Partnership including its benefits to faculty, students, and...

    Keywords: course-based undergraduate research experienceGenomics Education PartnershipNABT 2022

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    9-020-HeatDiffusion-ModelingScenario
    This project guides students through experimental, analytical, and numerical techniques for understanding the heat (diffusion) equation with nonhomogeneous boundary conditions. In particular,...

    Keywords: laboratoryDiffusionheat

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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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    NSITE - Networking STEM Initiatives to Enhance Adoption of Evidence-Based Practices (RCN-UBE Introduction)
    NSITE is a network of national STEM transformation organizations. The goal of NSITE is to provide a venue for these organizations, that have typically operated in parallel on projects related to...

    Keywords: RCN-UBE Introduction

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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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    2012-Rusinko-Swan-Agent-Based Fabric Modeling Using Differential Equations
    We use an agent-based modeling software, NetLogo, to simulate fabric drape by applying a modified mass spring system.

    Keywords: NetLogospring massagent-baseddrapingyarnfabric

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    2015-Eric_Sullivan-Numerical Methods_An_Inquiry-Based_Approach_with_Python
    This is an OER effort on the part of Eric Sullivan to explore the joy of numerical methods. He has provided several versions.

    Keywords: pythonnumerical analysisNumerical Methods

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    1-097-SwimmingPool-ModelingScenario
    This project involves the dynamics of chlorine concentration during regular swimming pool maintenance cycles. Students will have the opportunity to use both analytic and numerical methods.

    Keywords: concentrationcchlorinenumerical errorswimming poolhorineerreor

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    1-001d-HotelPopulationDecay-ModelingScenario
    You will be modeling the following situation: 100 people are in a hotel. Each day, each person has a random chance of 50% of leaving the hotel. No new people enter the hotel. Before you run the...

    Keywords: simulationlogisticexponential decayfitting

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    1-001a-MMDeathImmigration-Variation-ModelingScenario
    We model exponential death with m&m's as well as death with immigration.

    Keywords: simulationdatam&mimmigrationdeath

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    6-024-DronePackageDelivery-ModelingScenario
    Students will derive a system of first order differential equations which describe the flight path of a drone delivering a package.

    Keywords: VectorsTrigonometryFlightdronesparametric curveImproved Euler MethodRunge-Kutta

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    The RIOS Institute Strategic Plan
    The Institute for a Racially Just, Inclusive, and Open STEM Education (RIOS Institute) is a virtual synthesis center led by a diverse set of individuals at the interface of open education, STEM...
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    Case Study — World records as measures of senescence or randomness
    This is a project meant to accompany the Case Study that Carl Bergstrom, which uses R to explore whether declining track and field world record performance could be an artifact of sample size (less...

    Keywords: RRStudioprogrammingsampling distributionProbability & Statisticsrandomnesscontinuous probability distribution

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    Hardy-Weinberg Equilibrium: a swirl resource
    Students will use swirl to understand Hardy-Weinberg equilibrium. The lesson starts with observed numbers of individuals for each genotype, and students will work through a number of steps to...

    Keywords: Hardy-Weinbergpopulation geneticsEvolutionevolutionary ecologyR programming languageSwirl

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    Analyzing Nutrient Simulation Experiments with a one-way ANOVA
    We discuss what tests are appropriate to analyze the data from nutrient simulation experiments. They will conduct one-way ANOVAs and a post hoc test using a dummy dataset and interpret the results.

    Keywords: biostatisticsInterdisciplinary STEMR programming languageaquatic ecologylimnologySwirl

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    3D breast cancer tissue reconstruction
    This module allows students to follow a researcher as she discovers new features of breast cancer tissue architecture, using 3D reconstructions of histological specimens.

    Keywords: graphingdata visualizationbreast cancerDCIShistogramscentroidsums of squares

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