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    COVID-19: Molecular Basis of Infection-ADAPTATION
    This case was written in Spring 2020 during the COVID-19 pandemic. It focuses on understanding the structure and interaction of the SARS-Cov-2 viral spike protein that facilitates infection in...

    Keywords: infectionvaccinemolecular visualization and analysisCOVID19PDBSARS-CoVMolecular Case Study

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    Molecular Basis of Sickle Cell Disease
    This multi part case on hemoglobin structure as it relates to oxygen binding and sickle cell disease focuses on utilizing bioinformatics and molecular visualization tools to learn about the sickle...

    Keywords: Hemoglobinmolecular visualization and analysisintroductory bioinformaticssickle cell diseasePDBMolecular Case Studyoxygen bindingmyoglobinmolecular literacy3D protein structuresstructural representations

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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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    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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    Distances in the Universe: An Inquiry Lab Sequence Taught in West Africa and North America
    Astronomy evokes deep curiosity for many people, making it a beautiful topic for supporting students to learn scientific practices and develop as scientists. We present an inquiry-based lab...

    Keywords: InquiryAstronomy labParallaxInverse-square law for lightCosmic distance ladderAsking investigable questions

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    Exploration of the Human Genome by Investigation of Personalized SNPs
    Students often shy away from tedious bioinformatics approaches to exploring their genomes. However, in our expanding digital world these skills are some of the most relevant and valuable. To...

    Keywords: UCSC genome browsersingle nucleotide polymorphismGenome wide association studiesGenomic organization

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    Hands-On, Hands-Off: The Community College Genomics (ComGen) Course-Based Undergraduate Research Experience
    Science is a process of discovery where failure is inherent and iteration is necessary, yet instructors often teach the scientific process as if it is a controlled, highly supervised, confirmatory...

    Keywords: geneticssequencingDNAbacterium

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    Genetic Code
    This Excel workbook allows the user to recreate the steps in breaking the genetic code. The user enters the sequence of repetitive synthetic mRNA strands, which are translated in vitro to produce...

    Keywords: mRNAgenetic code

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    Creating Phylogenetic Trees from DNA Sequences
    This interactive module shows how DNA sequences can be used to infer evolutionary relationships among organisms and represent them as phylogenetic trees.

    Keywords: EvolutionHHMI BioInteractivephylogenetic tree

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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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    EvolSeq
    An Excel worksheet that simulates the molecular evolution of DNA sequences.

    Keywords: molecular evolutionDNA

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    Inquiry-based hypothesis testing using phylogenetic trees in MEGA
    A key learning objective in biology is applying bioinformatics tools to test a real-life question. These inquiry-based modules have students assemble and align data, and construct simple...

    Keywords: phylogeneticsbioinformaticsFASTANCBIBLASTmultiple sequence alignmentsequence similarityCourseSourceZika virusMEGAalcohol metabolism

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    You and Your Oral Microflora: Introducing non-biology majors to their “forgotten organ”
    With limited time available for laboratory activities, introductory science courses for non-science majors typically use the laboratory period to reinforce material that was previously presented...

    Keywords: bacteriamicrobiomeBLASTmicrobesDNA replicationPolymerase chain reaction (PCR)

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    Bioinformatics: Food Detective – a Practical Guide
    This Practical Guide in the Bringing Bioinformatics into the Classroom series introduces the idea of computers as tools to help understand aspects of biology.
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    Using DNA Subway to Analyze Sequence Relationships
    This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.

    Keywords: phylogeneticsNIBLSEDNA BarcodingDNA sequenceBLASTmultiple sequence alignmentC1. Role of bioinformaticsC2. Computational conceptsC4. Bioinformatics toolsC5. Data retrievalC8. Data typesIncubated at NIBLSE

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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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    CRISPR/Cas9 in yeast: a multi-week laboratory exercise for undergraduate students
    Providing undergraduate life-science students with a course-based research experience that utilizes cutting-edge technology, is tractable for students, and is manageable as an instructor is a...

    Keywords: bioinformaticsPCRphenotypingCRISPR/Cas9gene editingcloningGenotypingRestriction enzyme

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    Bioinformatics: Investigating Sequence Similarity - A Plant Biology Approach
    This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein...

    Keywords: phylogeneticsbioinformaticssequencingFASTANCBIplant biologyNIBLSEalgorithmsincubatorsPlant and Fungal EvolutionBLASTmultiple sequence alignmentsequence similarityBLOSUM scoring matrixneighbor-joining distance matrixCourseSourcephylogram

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    Investigating Cell Signaling with Gene Expression Datasets
    Modern molecular biology is a data- and computationally-intensive field with few instructional resources for introducing undergraduate students to the requisite skills and techniques for analyzing...

    Keywords: genomicstranscriptionsignaling

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    A CURE for Salmonella: A Laboratory Course in Pathogen Microbiology and Genomics
    Rapid advances in genomics and bioinformatics, the vast amount of data generated by next-generation sequencing, and the penetration of the ‘-omics’ into many areas of biology have created a need...

    Keywords: epidemiologyresearchbioinformaticsgenomicspublic healthAntibiotic Resistant BacteriaSalmonellaDNA sequencingpathogenic bacteria

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