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    A Hands-on Introduction to Hidden Markov Models
    In this Lesson, we describe a classroom activity that demonstrates how a Hidden Markov Model (HMM) is applied to predict a eukaryotic gene, focusing on predicting one exon-intron boundary. This HMM...

    Keywords: transcriptionexonintronsplicing

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    An Active Textbook Converts "Vision and Tweak" to Vision and Change
    Multiple reports over more than a century have documented the problems with the way introductory biology has been taught in most colleges and universities. An influential recent report, Vision and...

    Keywords: Vision and Changeactive learningintroductory biologyFlipped classroomUndergraduatecore competenciescore conceptsactive textbookcurriculum reform

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    Lights, Camera, Acting Transport! Using role-play to teach membrane transport
    Lights, Camera, Acting Transport! is an active and unique role-play exercise designed to teach introductory biology students basic concepts of passive and active membrane transport. The activity...

    Keywords: ATPcarrierschannelsco-transportelectrogenic pumpfacilitated diffusionmembrane transportpassive transportprimary active transportsimple diffusion

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    Teaching RNAseq at Undergraduate Institutions: A tutorial and R package from the Genome Consortium for Active Teaching
    Next-generation sequencing is radically changing the study of biology, but there are currently few resources aimed at teaching the required laboratory and data-analysis skills to undergraduate...

    Keywords: statisticsbioinformaticsRNAseqgene expressioncomputer programming

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    Using Pathway Maps to Link Concepts, Peer Review, Primary Literature Searches and Data Assessment in Large Enrollment Classes: An example from teaching ecosystem ecology
    As with many other complex topics, teaching ecosystem ecology can be particularly difficult in terms of helping students understand the relationships between the various component parts. We...

    Keywords: energyecosystemNutrientsPathway

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    Modeling the Research Process: Authentic human physiology research in a large non-majors course
    Laboratory experiences in large-enrollment introductory science courses often utilize “cookie-cutter style” laboratory experiences due to the relative simplicity of setting up the lab...

    Keywords: data analysishypothesis testingexperimental designphysiology

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    Climate change and Strawberries: A real-life problem-based activity for teaching ANOVA
    This is a real-life lab activity for teaching ANOVA using Problem-Based Learning and formatted for one-day (JMP or R) or two-day (JMP) implementations.

    Keywords: climate changeProblem based learningANOVAplant sciencetwo-way ANOVA

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    Grassy Narrows and Muskrat Falls Dam: Hypothesis Testing and t-Tests
    Students are introduced to concepts of hypothesis testing using elementary hypothesis tests, t-tests, and p-values as they compare a given fish population for methylmercury levels (using real and...

    Keywords: statisticsmathematicsbiostatisticsecologybiologygraphingp-valuest-testshypothesis testingin-class activityZoologymercury biogeochemistrybiostatistics - generalfish populationqbccBiogeochemical cyclesInterpret graphsSolving Equations and InequalitiesConcepts in StatisticsElementary Hypothesis TestingMethylmercurydamsBioaccumulationtraditional dietsmercurymercury poisoningnative peopleindigenous populationCanadahydroelectricexplaining statisticsusing statisticsMake probability calculations

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    Using Nanoparticles to Treat Cancer Scientist Spotlight
    Students use published scientific data to determine which types of nanoparticles would be best to use to deliver cytotoxic drugs directly to cancer cells. Then they learn about the scientist who...

    Keywords: cancer biologyscientist spotlightsnanoparticles

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    RNAseq data analysis using Galaxy
    This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

    Keywords: LabbioinformaticsNCBImappingUndergraduateworkflowNIBLSEGalaxyRNAseqgene expressionAdvancedExtended ProjectArabidopsisC1. Role of bioinformaticsC2. Computational conceptsC3. Statistical conceptsC5. Data retrievalIncubated at NIBLSEdifferentially expressed genes

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    Choosing healthy data for healthy relationships: how to use 5-point summaries, box and whisker plots, and correlation to understand global health trends.
    This module utilizes a user-friendly database exploring data selection, box-and-whisker plot, and correlation analysis. It also guides students on how to make a poster of their data and conclusions.

    Keywords: Querying databasesgraphingRatiosdata typesstatistical learningcorrelationBox Plotsqbcchealth sciences education researchnutrition & food scienceUnderstanding ratesCreate graphsInterpret graphsinterpret tablesHealth ScienceConcepts in Statisticsexplaining statisticsusing statistics

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    Statistics with epidemiology of COVID-19
    Introduction into heat maps, non-parametric t-test and GIF (optional) in R using an original dataset on COVID-19 infections from different counties of New Jersey, USA. Suitable for students who...

    Keywords: Rundergraduate educationheat mapsCOVID19coronavirusSARS-CoV-2GIF

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    Happy Blue Baby
    This case, about a specific mutant of hemoglobin, focuses on visualizing and understanding the molecular basis of why an infant turned blue soon after birth and how the cyanosis resolved on its own...

    Keywords: mutationHemoglobinmolecular visualization and analysisgenetic basisPDBMolecular Case StudyMol*

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    The Perfect Brew: An Activity Demonstrating Cell Counting and Hemocytometer Use
    In this activity, students will explore the use of a hemocytometer for counting cells, demonstrate the relationship between the grid seen in the microscope with volume of liquid in suspension and...

    Keywords: RatiosmicrobiologyqbccCellular and Molecular BiologyUnderstanding fractionsconverting unitschanging scalesmeasurements

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    Sequence Similarity: A Quick Introduction to Bioconductor
    Following the Sequence Similarity exercises by Kleinschmit, et al., this tutorial will guide students in using the Bioconductor suite of R packages to likewise compute sequence similarity.

    Keywords: bioinformaticssequencingNIBLSEmultiple sequence alignmentsequence similarityBLOSUM scoring matrixBioconductor

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    An Introduction to the R Programming Environment
    An online module introducing students and biologists to R, published in American Phytopathological Society

    Keywords: epidemiologyRecologyR programming languagebioinformaticsprogrammingplant biologyNIBLSEplant pathology

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    Single Factor Analysis of Variance (ANOVA)
    This swirl lesson introduces students to theoretical and practical concepts about single-factor ANOVA analysis and an approach to conduct this type of analysis using R.

    Keywords: ANOVATukey HSD

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    Remote Sensing of Plants and Topography in R (Project EDDIE) for Advanced GIS class
    Students will explore different possible abiotic drivers of plant growth, defined as greenness and height. In the final step, students will analyze data from around the United States and consider...
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    Comparative Landscape Ecology Project using RStudio Cloud (Project EDDIE)
    This modified version incorporates the use of RStudio Cloud for easier remote instruction, and culminates in an exploratory project comparing the influence of patch metrics on vegetation health for...
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    Lichen Niches and Distributions Lab Activity
    This is a 2-part lab activity based on the EREN-NEON Flexible Learning Project: Lichens in Diverse Landscapes. Students conduct field surveys of lichen abundance near their homes and explore...

    Keywords: linear regressionGISNEONair qualityNational Ecological Observatory NetworkLichenfield based methodsEREN lichenairpollution

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