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    An Interactive Protocol for In-Classroom DNA Extraction
    Using commonly available materials, this tool allows students to extract DNA, exploring DNA chemistry and the principles of experimental design and execution. We take a “Choose Your Own...

    Keywords: geneticsDNAbiochemical structure and function

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    The impact of diet and antibiotics on the gut microbiome
    The goal of this article is to describe an active learning exercise that can be used in a variety of advanced microbiology courses, including bacterial physiology, ecology, or systems biology. The...

    Keywords: microbiomeenvironmental controlhost responsemetabolites

    1995

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    2002-Patrick_Nelson-Alan_Perelson-Mathematical_analysis_of_delay_differential _equation_models_of_HIV-1_infection
    Models of HIV-1 infection that include intracellular delays are more accurate representations of the biology and change the estimated values of kinetic parameters when compared to models without...

    Keywords: delayHIV-1T cellscombination antiviral therapy

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    Fantastic Birds and Where to Find Them
    5E lesson plan for middle/high school aligned to NGSS standards.

    Keywords: conservationspecies interactionsidigbionatural historyBiodiversityendangered species

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    DNA Subway Learning Resources
    DNA Subway is a NIBLSE Recommended resource. This is a collection of learning resources associated with DNA Subway.

    Keywords: phylogeneticsIntroductoryLabbioinformaticsUndergraduateNIBLSEDNA BarcodingDNA sequenceBLASTmultiple sequence alignmentDNA SubwayInstructional SettingAudience LevelAdvancedActivity LengthExtended ProjectC1. Role of bioinformaticsC2. Computational conceptsC4. Bioinformatics toolsC5. Data retrievalC8. Data types

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    Circle Train Problem TCM 2018_Hernandez.pdf - Google Drive
    In this math modeling lesson, students build mathematical models for the horizontal and vertical position of a train moving along a circular track. The math topics includes transformations of...

    Keywords: mathematical modelTrigonometryPrecalculusdata collectionLoggerProtransformation of functionsparametric equations

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    How Do Kidneys Make Urine From Blood? Qualitative and Quantitative Approaches to Filtration, Secretion, Reabsorption, and Excretion
    The function of the kidneys is to help maintain a constant internal environment (homeostasis) by regulating the volume and chemical composition of the blood. This regulation occurs via three...

    Keywords: collecting ductexcretionglomerular filtration rate (GFR)nephron tubulereabsorptionrenal corpusclesection

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    2007-Exben_Friis-Jensen-Modeling and Simulation of Glucose-Insulin Metabolism
    In this thesis one of the models of diabetes, Bergman’s minimal model is described trough derivation and simulations.

    Keywords: Metabolisminsulin resistanceglucosePID controllerintolerance

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    2019-Radulescu-Lundgren-A_pharmacokinetic_model_of_lead_absorption_and_calcium_competitive_dynamics
    We build and analyze a compartmental model of lead pharmacokinetics, focused specifically on addressing neurotoxicity.

    Keywords: QUBES Leadership Teamparametersabsorptionbifurcationpharmacokineticscalciumcognitive decline

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    1-085-DrugBolus-ModelingScenario
    Given data on the concentration of a drug in the plasma of a human in mg/L at certain time intervals in hours can we determine the rate at which the drug leaves the plasma as well as the initial...

    Keywords: concentrationsum of square errorsbolusdrugrate constantadminister

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    1-160-HeartDeathRate-ModelingScenario
    Students simulate experience from a given data set which represents the heart death rate during the period 2000 - 2010 using several approaches to include exponential decay, difference equation,...

    Keywords: dataheart death rate

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    Meiosis: A Play in Three Acts, Starring DNA Sequence
    Meiosis is well known for being a sticky topic that appears repeatedly in biology curricula. We observe that a typical undergraduate biology major cannot correctly identify haploid and diploid...

    Keywords: recombinationmeiosisDNA sequenceCrossingoverchromosome structureHolliday junctionhomology

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    Workshop Report: Summer 2020 Virtual CRISPR in the Classroom
    As innovations and developments in genome editing technologies using CRISPR-Cas systems progress, the need to disseminate relevant knowledge and build skills among the next generation of young...

    Keywords: geneticscrisprGenome Analysisgene editingbacterial immunity

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    2018-Winkle-Igoshin-Bennett-Josic-Ott-Modeling_Mechanical_Interactions_in_Growing_Populations_of_Rod-Shaped_Bacteria
    Here, we present an agent-based model that allows growing cells to detect and respond to mechanical interactions.

    Keywords: bacteriaagent-basedpopulationbrod-shapedcellular growth

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    COVID-19: Molecular Basis of Infection
    This case was written in Spring 2020 during the COVID-19 pandemic. It focuses on understanding the structure and interaction of the SARS-Cov-2 viral spike protein that facilitates infection in...

    Keywords: infectionvaccinemolecular visualization and analysisCOVID19PDBSARS-CoVMolecular Case Study

    1972

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    Piwi Matters
    This case focuses on understanding structure and function relationships in Piwi, a protein that is critical for germline stem cell function and development of eggs in the fruit fly ovary.

    Keywords: Stem cellsmolecular visualization and analysis3D protein structure /function analysisPiwiPDBMolecular Case Study

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    Murder by HIV? Undergraduate edition
    Bioinformatics case study focusing on phylogenetic tree interpretation, published in the National Center for Case Study Teaching in Science

    Keywords: case studyResources @ NSF - NCCSTSbioinformaticsNIBLSEHIVnucleotide sequencingphylogenetic treeviral life cyclesmutation ratesreverse transcriptase sequences

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    Osmoregulation
    This module introduces the osmotic work equation in the context of understanding osmoregulation. It is intended for an introductory biology audience.

    Keywords: logarithmic equationsAnimal Physiology

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    Birthday Problem and Class Phenotypic Probabilities
    An Excel workbook exploring two related applications, the Birthday Problem and Class Phenotypic Probabilities. Students enter their own phenotypes into the workbook.

    Keywords: ExcelResources @ ESTEEMphenotypic probabilityallelic frequency

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    2015-Khan-EtAl-How differential equations influence the tumor growth via mathematical models
    This work demonstrates the importance of differential equations to develop mathematical model of tumor growth.

    Keywords: tumorcancdercancerous cellsimmunotherapymalignant

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