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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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    The nose knows: How tri-trophic interactions and natural history shape bird foraging behavior. An introduction to statistical analysis in animal behavior research
    Students investigate the role of olfaction and infochemicals on bird foraging behavior through two different quantitative activities where they generate hypotheses, create figures, conduct data...

    Keywords: Resources @ ESA - TIEEforagingfmnanimal behaviorbehavioral ecologyDIGtrophic cascades

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    Introduction to Genome Browser: What is a Gene?
    In this module, we will use a web-based visualization tool called a Genome Browser to explore the structure of a eukaryotic gene, and obtain a basic understanding of how this information is...
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    Dendroclimatology
    Dendroclimatologists can reconstruct climate records further into the past than written records, by examining tree rings. Students "reverse-engineer" this process by considering growth rates of a...

    Keywords: linear regressiongraphingdata visualizationstandardizationclimatetree ringsdendrochronology

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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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    Biogeography of plant-associated fungi: who lives where and why?
    This dataset of fungal communities associated with the leaves an endemic Hawaiian tree provides students opportunities to explore relationships between environmental variables and microbial...

    Keywords: small group activityinquiry-based learningbiogeographymicrobial ecology

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    A Pipeline in Paradise
    I incorporated fracking into the case study instead of just focusing on building a pipeline, which allowed us to discuss fracking with this case study.
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    What do trees know about Rain? Adapted for an online, non-majors botany course
    Minor modifications were made to this Data Nugget in order to use it in a fully online version of the introductory, non-majors botany course, Plants and People.
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    E. coli Citrate Use
    EvoEd module on citrate use in E.coli

    Keywords: modulephylogeneticsecologycell biologymolecular genetics

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    The Effect of Instructor Communication on Student Perceptions of Mathematics in Biology
    Undergraduate research poster presented at the Undergraduate Research Symposium at the University of Pittsburgh in 2015.

    Keywords: biology teachingundergraduate researchPresentation

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    Navigating Bacterial Changes in Aging Organisms: Graphs, Patterns, and Models
    Aging is an incredibly important area of research, and recent biological advances implicate the intestines in aging pathologies. Given that the gut harbors an immense amount of an organism’s...

    Keywords: statisticsgraphingmathematics for life sciencesmathexponential growthPrecalculus

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    2017-Andrew_Lewis-Introduction_to_Differential_Equations_for_Smart_Kids
    The author addresses the question, "If I do not teach all of the usual techniques and tricks for solving differential equations, what do I replace it with?" in a number of wonderful ways.

    Keywords: differential equationsmodelingtextbook

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    1-012-Sublimation-Modeling Scenario
    We offer data on the sublimation of dry ice (carbon dioxide) collected in a classroom setting so that students can model the rate of change in the mass of a small solid carbon dioxide block with a...

    Keywords: sublimationdry ice

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    Introduction to nucleotide sequence analysis and protein modeling in MEGA and PyMol using coronavirus SARS-CoV-2
    Introduction into computational approaches in phylogeny and protein modeling based on coronavirus SARS-CoV-2 (caused COVID-19 pandemic). Two self-guided tutorials for standard lab classes of 2.5...

    Keywords: phylogeneticsundergraduate educationbioinformaticsNCBICOVID19coronavirusMEGAPyMolvirtual labPDBprotein modelingSARSSARS-CoV

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    Investigating human impacts on stream ecology: locally and nationally
    This is a modification of an original TIEE Module, investigating these questions: How does nutrient pollution impact stream ecosystems locally and nationally? How does land cover change impact...

    Keywords: tool:rstudiolandscape ecologyStream ecologyBox Plotsland usespatial analysisEutrophication

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    The ml4bio Workshop: Machine Learning Literacy for Biologists
    Presentation on machine learning literacy for biologists at the 2019 Great Lakes Bioinformatics Conference

    Keywords: bioinformaticsmachine learning

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    Data Nugget- City Parks and Texas A&M University-Kingsville Camera Trap Assignment
    The Data Nugget- City Parks module was used in a sophomore-junior level undergraduate wildlife management techniques course (with lab) in Fall 2017. Modifications were made to the original Data...

    Keywords: species richnessspecies diversityResource Typecamera trap

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    2016-Langtangen-Pedersen - Scaling of Differential Equations
    Nowadays, the greatest practical benefit of scaling is related to running numerical simulations, since scaling greatly simplifies the choice of values for the input data and makes the simulations...

    Keywords: scalingdimensionlesscontinuum mechanics

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    2012-Brian_Ingalls-Mathematical Modelling in Systems Biology An Introduction
    This is a comprehensive text with much biology background to motivate the mathematical modeling, exercises and answers, and many rich examples.

    Keywords: spatialsensitivity analysisgene regulatory networksstochasticbifurcationmetabolic networkselectrophysiologytransductionrate lawsbiochemical reactions

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    2018-Eduardo-Sontag-Lecture_Notes_on_Mathematical_Systems_Biology
    I am often asked if it is OK to use these notes in courses at other universities. The answer is “of course!” though I strongly suggest that a link to my website be provided, so that students can...

    Keywords: biologytextbooksystemsdyanmical system

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