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    Single Cell Insights Into Cancer Transcriptomes: A Five-Part Single-Cell RNAseq Case Study Lesson
    There is a growing need for integration of “Big Data” into undergraduate biology curricula. Transcriptomics is one venue to examine biology from an informatics perspective. RNA sequencing has...

    Keywords: bioinformaticscancertranscriptomicshigh-throughputData wranglingSingle cell RNA sequencingq

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    2017-Sim-EtAl-Optimal control of a coupled tanks system with model-reality differences
    In this paper, an efficient computational approach is proposed to optimize and control a coupled tanks system.

    Keywords: optimal controlflowtankscoupled tanks

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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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    2016-Bonin-EtAl-Mathematical modeling based on ordinary differential equations-vaccinology
    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 available in the literature.

    Keywords: Immunologyimmune systemAntigenvaccinologyyellow fever

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    2010-Shianga-EtAl-Computational model of the human glucose-insulin regulatory system
    A computational model of insulin secretion and glucose metabolism for assisting the diagnosis of diabetes mellitus in clinical research is introduced. The

    Keywords: glucose tolerance testsum of squared residualsmultiple shooting methodcost function

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    2008-Ratneesh_Suri-Optimal harvesting strategies for fisheries-differential equations approach
    We develop and investigate the harvesting model in both deterministic and stochastic settings. We first employ the Expected Net Present Value approach and determine optimal harvesting policy using...

    Keywords: optimal controlsustainable yieldmaximum sustainable yieldharvestExpected Net Present Valuecalculus of variationsdynamic programmingmaximum economic yield

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    6-026-IsleRoyaleModeling-ModelingScenario
    The primary aim of this project is to draw a connection between differential equations and vector calculus, using population ecology modeling as a vehicle.

    Keywords: ecologyoptimizationpredator-preypopulationvector calculusLagrange multipliersleast squaresIslel Royale

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    Grappling with Graphs: New tools for improving graphing practices among biology students
    Poster on gathering information about undergraduate biology students' graphing practices and using this information to guide teaching of graph construction. Presented at the 2021 BIOME Institute.

    Keywords: educationbiologygraphinggraphsundergraduate biology education2021 BIOMEgraph

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    It's a bird! It's a plane! It's biomechanics!
    Biomechanics is a discipline that draws from physics and engineering principles to understand the movement and structure of living organisms. It is highly interdisciplinary in nature and can be...

    Keywords: EvolutionecologybatphysiologyAnatomybirdFlightforcesinsect

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    Meiosis Remodeled: Inclusion of New Parts to Poppit Bead Models Enhances Understanding of Meiosis
    A long-standing tradition uses strings of poppit beads of different colors to model meiosis, especially to show how segments of paired homologous chromosomes are recombined. Our use of orthodontic...

    Keywords: meiosischiasma formationchromosome recombination

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    Designing an Asynchronous, Self-Led Aquatic Ecology Field Trip
    Due to the COVID-19 pandemic and increasing need to teach students online, aquatic scientists are looking for ways to give students field experiences virtually. Asynchronous, self-led field trips...

    Keywords: observationecosystem structureexploration

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    Engaging Students in Pharmacogenetics: Patient Case Studies Using the PharmGKB Website
    Cytochrome P450 (CYP) enzymes are important regulators of drug efficacy and toxicity. Genetic variation in CYP isoforms can impact how well patients respond to medications or experience unwanted...

    Keywords: toxicologyPharmacologydrug metabolismpharmacodynamicspharmacogenetics

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    A virtual laboratory on cell division using a publicly-available image database
    Cell division is a key concept in cell biology. While there are many popular activities to teach students the stages of mitosis, most make use of simple schematics, cartoons, or textbook diagrams....

    Keywords: image analysismicroscopymitosisCellular Processes

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    Bioinformatics is a BLAST: Engaging First-Year Biology Students on Campus Biodiversity Using DNA Barcoding
    In order to introduce students to the concept of molecular diversity, we developed a short, engaging online lesson using basic bioinformatics techniques. Students were introduced to basic...

    Keywords: geneticsorganismal biologybioinformaticstaxonomyDNA Barcodingspecies concepts

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    Small Organisms with Big Consequences: Understanding the Microbial World Around Us
    Creating a hands-on lab that conveys important information while simultaneously allowing for student autonomy can be difficult. This is particularly true for the field of microbiology, in which...

    Keywords: disease transmissionmicrobiologymicrobiomeliterature reviewPeer reviewPathogensHealth and WellnessThe Scientific Method

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    The Avocado Lab: An Inquiry-Driven Exploration of an Enzymatic Browning Reaction
    Typical biochemistry labs exploring basic enzyme activity rely on costly, time-consuming protein purification and rarely explore enzyme function in situ. Further, complex purification procedures...

    Keywords: enzymescontrolsenzyme inhibition

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    Using a Primary Cell Culture Model to Study the Neural Extracellular Matrix
    The extracellular matrix (ECM) provides structural support to cells, but also has key roles in mediating cell adhesion, cell signaling, and differentiation. While this topic is discussed in the...

    Keywords: Neural extracellular matrixPerineuronal netPrimary neuronal culture

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    Transitioning Two-Stage Exams to an Online Class
    Students often find biology courses to be very difficult and isolating, particularly if they identify as part of a group that has been historically excluded from STEM. Some of this anxiety and...

    Keywords: lower division STEMupper division STEM

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    3-033-S-TimeUpTimeDown-ModelingScenario
    We seek to compare for the time a projectile takes to go vertically up with the time it takes to return to its starting position.

    Keywords: projectile motionapexvertical motion

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    TEE Network -Transforming Ecology Education to Four Dimensional Network (RCN-UBE Introduction)
    The TEE network explores the unique role of a disciplinary society in encouraging education innovation and motivating a network of core volunteer leaders and distributed faculty in multiple...

    Keywords: RCN-UBE Introduction

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