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    Using DNA Subway to Analyze Sequence Relationships
    This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.

    Keywords: phylogeneticsNIBLSEDNA BarcodingDNA sequenceBLASTmultiple sequence alignmentC1. Role of bioinformaticsC2. Computational conceptsC4. Bioinformatics toolsC5. Data retrievalC8. Data typesIncubated at NIBLSE

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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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    Using genomic data and machine learning to predict antibiotic resistance: a tutorial paper
    Antibiotic resistance is a global public health concern. Bacteria have evolved resistance to most antibiotics, which means that for any given bacterial infection, the bacteria may be resistant to...

    Keywords: Tutorialmachine learningantibiotic-resistanceArtificial Intelligence

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    Investigating Evidence for Climate Change (Project EDDIE) with CO2 and 13CO2 data: adapted for R
    This is an adaptation to work in R of Investigating Evidence for Climate Change (Project) by Hage, M. 2020. Students will investigate geologic and modern evidence for global temperature and...

    Keywords: climate changeGlobal Temperature Changeco2ice core datastable isotopesR software

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    Data management and introduction to QGIS and RStudio for spatial analysis
    Students learn about the importance of good data management and begin to explore QGIS and RStudio for spatial analysis purposes. Students will explore National Land Cover Database raster data and...

    Keywords: tool:rstudioGISdata managementlandscape ecologyGeospatial ScienceNational Ecological Observatory Networkquantitative inquiryQGIS

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    Investigating the Drivers of Western Monarch Decline Using Partial Least Squares Regression
    In this lesson, students will explore the drivers of the western monarch butterfly decline. Students will compare the effects of climate factors and land use factors on the western monarch...

    Keywords: RStudiomultivariate analysisMonarch butterfliesPartial Least Squares Regression

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    1-081-TumorGrowth-ModelingScenario
    Students will transform, solve, and interpret a tumor growth scenario using non-linear differential equation models. Two population growth models (Gompertz and logistic) are applied to model tumor...

    Keywords: logisticpopulationtumorGompertz

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    6-067-LotkaVolterra-ModelingScenario
    This modeling scenario guides students through the process of fitting the Lotka-Volterra model of two differential equations to a real time series observational data. Students use the capabilities...

    Keywords: time seriesdatacompetitionLotka-Volterramodel fittingpredictiongauseRexperimental

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    Investigating human impacts on Southeastern US stream ecology using R
    Adaptation of the "Investigating human impacts on stream ecology: Scaling up from Local to National with a focus on the Southeast" specifically to focus on self-paced R code instruction
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    Sampling Distributions and Null Distributions: two swirl lessons in R
    There are two complementary lessons. The first covers how sampling distributions are made and ID's their key properties. The second covers how null distributions and how the test statistic of a...

    Keywords: The Analysis of Biological Datateaching with technologySwirl

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    Working with plant phenology data and fitting a nonlinear model using least squares in R
    A participatory live-coding lesson on working with NEON phenology data and fitting a sine-wave model to determine when different species get and lose their leaves.

    Keywords: modelingRphenologyNEONRstatscodeparticipatory live-coding

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    Working with spreadsheet-style data in Python with pandas and seaborn
    This 4-hour participatory live-coding workshop takes learners through the basics of programming in Python via the Jupyter Lab interface and culminates with exploration and visualization of...

    Keywords: datapythonopenSpreadsheetbicylepandasseabornmatplotlib

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    An Introduction to Statistical Learning: with Applications in R
    This book provides an introduction to statistical learning methods and is aimed for upper level undergraduate students, masters students and Ph.D. students in the non-mathematical sciences.

    Keywords: linear regressiontextbookclassificationcourseclustering coefficientR programming languagestatistical learningmachine learninglogistic regressionresamplingmodel selectionGeneralized additive modelsdecision treesprincipal components analysisMOOCResources @ QUBES - Teaching & Reference

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    Advancing population ecology with integral projection models: a practical guide
    Integral projection models (IPMs) use information on how an individual's state influences its vital rates – survival, growth and reproduction – to make population projections using regression...

    Keywords: IPMintegral projection modelspopulation growthreviewsdemographyelasticitylife historymatrix projection modelpopulation growth ratesensitivitystage structurevital ratesregressionResources @ QUBES - Teaching & Referencecovariatesanalytics

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    Passion-Driven Statistics as a Course-Based Undergraduate Research Experience (CURE)
    Session presentation on passion-driven, project-based experience in statistics at the 2018 QUBES/BioQUEST Summer Workshop

    Keywords: statisticsproject based learningCURE

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    Painting turtles: an introduction to species distribution modeling in R
    This module uses R software to introduce students to the process of accessing databases and building species distribution models based on occurrence records.

    Keywords: RResources @ ESA - TIEEfmnDIGspecies distributionshabitat suitabilitycooperative learningjigsaw

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    Climate Change’s Impact on Sea Level Rise in a Coastal Marsh Over 20 Years
    In this lesson, students will learn about increasing sea level rise and the direct impacts coastal marshes are facing as a result. Students will learn the importance of coastal marshes, tidal...

    Keywords: climate changewetlandsSea level rise and coastal resilienceCoastal wetlandssalt marshneap tidesspring tides

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    2009-Su-EtAl-Fitting Compartmental Models to Multiple Dose Pharmacokinetic Data using SAS
    In the case of a multiple dose study where subjects experience different dosing times, a superposition principle can be used to recursively account for each additional dose.

    Keywords: SASsuperpositionpharmacokineticscompartmental modelsmultiple dose

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    2009-Munz-EtAl-When Zombies Attack-Mathematical modelling of an Outbreak of Zombie Infection
    We introduce a basic model for zombie infection, determine equilibria and their stability, and illustrate the outcome with numerical solutions.

    Keywords: zombiesinfectionepidemicwater treatmentlatent infectionquarantineimpulsive eradication

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    The Tactile Clade Race
    This adaptation of the Vertebrate Clade Race provides a tactile approach to introduce basic tree reading skills for evolutionary phylogenies. Using a Universal Design for Learning informed...

    Keywords: phylogeneticsevolutionary biologytree readingvertebratesaccessibility for students with disabilities or impairmentsvisual impairment

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