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    Understanding COVID-19 Biology to Design a Vaccine
    This multi-part case study introduces the reader to the SARS-CoV-2 virus, replication, and treatment. Additional worksheets introduce students to bioinformatics tools of 3-D protein visualization...

    Keywords: BLASTprotein structure modelingmolecular visualization and analysisCOVID19PDB

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    A CURE-based approach to teaching genomics using mitochondrial genomes
    There is an abundance (currently over 1016 DNA bases) of publicly available genetic sequence data and a dearth of trained genomicists to process and interpret it, necessitating more trained...

    Keywords: proteinsMitochondrial GenomesNuclear GenomesrRNAtRNA

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    A Muscular Dystrophy Case Study Illustrating the Phenotypic Effects of Mutation
    Mutations in genes can lead to a variety of phenotypes, including various human diseases. Students often understand that a particular mutation in a single gene causes a disease phenotype, but it is...

    Keywords: mutationProtein Structureethicscentral dogmahuman disease

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    Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses
    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBINIBLSEalgorithmsincubatorsBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixneighbor-joining distance matrixCourseSourcephylogramZika virus

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    A 360˚ View of COVID-19
    In March 2020, institutions underwent a massive transition to distance learning as a result of the COVID-19 pandemic. With so little time to devise new materials to maximize learning in the new...

    Keywords: geneticsImmunologyBiochemistrybioinformaticsmolecular evolutionpublic healthvirusCOVID19

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    Garden Variety Mutations: Using Primary Data to Understand the Central Dogma in Large-Lecture Introductory Biology
    The ability to interpret and create an argument from data is a crucial skill for budding scientists, yet one that is seldom practiced in introductory courses. During this argumentation module,...

    Keywords: mutationtranscriptiongene expressioncentral dogmatranslationgel electrophoresisGenotype/Phenotype

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    Introductory Video and worksheets on Module 1 and 2 on "Sequence Similarity: An inquiry based and under the hood..."
    The video walks the students to complete Module 1 and 2 on Sequence Similarly and Alignment adapted from Tapprich (2019) and Hudson Alpha that teaches these modules within the context of the...

    Keywords: bioinformaticssequencingFASTANCBINIBLSEalgorithmsBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixCourseSource

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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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    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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    Sequence Similarity: Introducing Biological Databases to Community College Biology Students
    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBINIBLSEalgorithmsincubatorsBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixneighbor-joining distance matrixCourseSourcephylogramZika virus

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    How to Find a Gene: Retrieving Information From Gene Databases
    A strong understanding of distinct gene components and the ability to retrieve relevant information from gene databases are necessary to answer a diverse set of biological questions. However, often...

    Keywords: NCBItranscriptiontranslationGene StructureGene databasesEnsembl

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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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    Using QIIME to Interpret Environmental Microbial Communities in an Upper Level Metagenomics Course
    Metagenomics is rapidly evolving due to advances in sequencing technologies and bioinformatics, but without proper training to interpret these datasets, student understanding remains limited. Aimed...

    Keywords: microbiome

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    Piwi Matters
    This case focuses on understanding structure and function relationships in Piwi, a protein that is critical for germline stem cell function and development of eggs in the fruit fly ovary.

    Keywords: Stem cellsmolecular visualization and analysis3D protein structure /function analysisPiwiPDBMolecular Case Study

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    A clicker-based case study that untangles student thinking about the processes in the central dogma
    The central dogma of biology is a foundational concept that provides a scaffold to understand how genetic information flows in biological systems. Despite its importance, undergraduate students...

    Keywords: mutationtranscriptionphenotypecentral dogmatranslationDNA replication

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    Bioinformatics: the Power of Computers in Biology – a Practical Guide
    This Practical Guide in the Bringing Bioinformatics into the Classroom series introduces simple bioinformatics approaches for database searching and sequence analysis.

    Keywords: NIBLSEGOBLET

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    Exploring the Lytic and Lysogenic Life Cycles of Bacteriophages
    The goal of this lesson is to introduce students to the lytic and lysogenic cycles of T4 and lambda bacteriophages, respectively, using student-centered pedagogies. Bacteriophages are viruses that...

    Keywords: bacteriophagesLysogenic cycleLysogenyLytic cycle

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    COVID-19: Molecular Basis Infection Revisited One Year into the Pandemic
    This adaptation was written in Spring 2021 exactly one year after the original case and includes explorations of the emerging mutations within the spike protein

    Keywords: infectionvaccinemolecular visualization and analysisCOVID19PDBSARS-CoVMolecular Case Studyvariantsantibody

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    A flexible, multi-week approach to plant biology - How will plants respond to higher levels of CO2?
    To help introductory biology students understand how plants will respond to higher levels of CO2, we have created a multi-week module consisting of a series of four related laboratory lessons....

    Keywords: statisticsplantsphotosynthesiscarbon dioxidecommunicating sciencegroup workResource AllocationRespirationStomata

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    A CRISPR/Cas Guide RNA Design In Silico Activity
    CRISPR biotechnologies inspired by the Clustered Regularly Interspaced Short Palindromic Repeat RNA-guided nuclease adaptive bacterial immune system have revolutionized biology research and become...

    Keywords: bioinformaticsgene expressiongenetic basis of diseaseCRISPR/Cas9genetic engineeringin silico

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