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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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    Breaking Bricks: A Hands-On Model of Enzyme Kinetics and Inhibition
    Enzyme kinetics and the impacts of inhibitors on the enzyme's maximal velocity and ability to bind substrates are important topics in cell biology and biochemistry. However, these topics can be...

    Keywords: kineticsEnzymecompetitive inhibition

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    Biomes lecture with active learning activities and a worksheet set
    Learning Objectives: *Identify the characteristics of each biome *Know the major drivers of global climate patterns *Discern how 2 factors largely determine terrestrial biomes *Evaluate the...

    Keywords: lecture slidesgraphsglobal warmingclimatebiomesConvergent Evolution

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    Biogeography of Hantavirus Hosts
    Using QGIS, this module introduces students to zoonotic pathogens, host biogeography, the "One Health" concept, forming hypothesis, and natural history museums within the Hantavirus system.

    Keywords: human-environmental interactionsmammalsbiogeographyhypothesis formulationdigitized natural history collectionshuman healthQGISzoonotic diseasesone healthrodentsPathogens

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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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    Needleman - Wunsch Algorithm Exercise
    This exercise is used in a sophomore-junior level bioinformatics course. The algorithm is introduced to the students who then complete the exercise.

    Keywords: bioinformaticsUndergraduateNIBLSEalgorithmsincubatorsAudience LevelAdvancedActivity Length1 HourNeedleman-WunschC2. Computational conceptsIncubated at NIBLSE

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    Furry with a chance of evolution: Exploring genetic drift with tuco-tucos
    Genetic drift is an important mechanism of evolution, yet undergraduates often fail to understand how it leads to evolutionary change due in part to its random nature. This lesson plan describes a...

    Keywords: EvolutionGenetic DriftBottle neckFounder effectRandom evolutionary processes

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    Pennies to The Moon Data Byte Series
    This series of Rbyte activities explores the concept of debunking using Fermi Estimation, R, and ChatGPT.

    Keywords: RprogrammingOpen SourceOpen Sciencedata literacycalling bullProgramming practiceFermi EstimationChatGPTGoogle CoLab

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    1-030-RandomPerturbation-TechniqueNarrative
    After a brief historical view of this problem, we will demonstrate the derivation of first order linear differential equations with random perturbations.

    Keywords: random perturbationBrownian motionLangevin equationRiemann-Steiltjes integralWiener processIto's calculus

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    Climate Change Connections
    This module is composed of three related activities that introduce students to climate change's complexity from a conceptual standpoint. In the first activity, students work in small groups to...

    Keywords: interdisciplinaryclimate changeconcept mapping

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    Genomics Education Alliance: A Collection of Posters for the 2020 BIOME Institute.
    This is a collection of posters from members of the Genomics Education Alliance (GEA) that will be presented at the 2020 BIOME Institute.

    Keywords: undergraduate researchgenomicsNIBLSEGEPgenomics educationGenomics Education AllianceGenomics Education PartnershipGEA

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    Understanding Gastric Acid Secretion: An Active Learning Approach
    The human digestive system is a diverse network of cells, tissues, and organs that is regulated by systemic (e.g., nervous and endocrine systems) and local factors (e.g., secretions, pH, and the...

    Keywords: diseasesignal transductionAcid SecretionAutonomic Nervous SystemEndocrineGastric PhysiologyGPCRHistology of Gastric Pit

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    Integrating Primary Literature in a Lecture Course Using a Modified Version of the C.R.E.A.T.E. Approach
    Reforms in undergraduate science education place an increasing emphasis on teaching the skills of practicing scientists, such as reading and interpreting the primary research literature. Many...

    Keywords: primary literatureDiscussionModified JigsawPeer-based Learning

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    2017-Bonin-EtAl-Mathematical modeling based on ordinary differential equations - promising approach to vaccinology
    As a proof of concept, we developed a model of the immune response to vaccination against the yellow fever. Our simulations have shown consistent results when compared with experimental data...

    Keywords: immune systemyellow fevercomputational immunologycomputational vaccinology

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    2013-Deboeck-Bergeman-The reservoir model-DE model of psychological regulation
    The following article describes a differential equation model based on the concept of a reservoir for psychological regulation.

    Keywords: adaptive copingReservoirsNotre Dame Longitudinal Study on Agingoutputinput distributionstressorscoping resources

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    2009-James_May-Nonlinear vibration control of long flexible structures
    An automated, non-linear control scheme was developed to transfer energy from the fundamental vibration mode, where most vibration energy of the structures of interest resides, to higher order...

    Keywords: vibrationdampingtuned mass damperviscousnodalmodel dampingflexible structureenergy transfer

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    Engaging non-science students in Citizen Science projects
    I created this project for students in my non-majors biology class in 2016 with the following objectives: 1) to show them some of the sorts of projects scientists conduct 2) to introduce them to...
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    Species Conservation Management Plan Report and Class Exercise
    In this project, students work in pairs to become an expert in their assigned IUCN Red List endangered species. They are charged to create a well-researched, written conservation management plan....

    Keywords: ecologyconservation4DEE Frameworkmanagement planspeed dating exercise

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    Cell ploidy made simple: Resources for students and instructors
    The concept of cell ploidy can be challenging for students to grasp. This resource includes a short, informal instructional video and a worksheet/set of clicker questions combo that allows students...

    Keywords: meiosismitosis1n2nploidyhaploiddiploid

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    Pesticide-Driven Bee Mortality: An Introduction to Survival Analysis in R
    In this lesson, students will receive an introduction to survival analysis in R utilizing data on bee mortality caused by pesticide exposure. In their code, students will assess survivability,...

    Keywords: chi-squaredsurvivalbeespesticidesRoundupsurvival analysissurvival plotsherbicides

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