CourseSource: Resources

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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 increase students' interest in their own genomes, I...

Courses: Bioinformatics Genetics Science Process Skills

UCSC genome browsersingle nucleotide polymorphismGenome wide association studiesGenomic organization

Science Behind the Lesson

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202

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The Science Behind the ACTN3 Polymorphism

A common polymorphism in the alpha-actinin-3 (ACTN3) gene results in the lack of ACTN3 protein expression in fast twitch muscle fibers in ~16% of the human population (1). This genetic change has been linked with muscle performance in humans (2)...

Courses: Anatomy-Physiology Genetics

protein structure and functionhuman genetic variationskeletal muscle physiology

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3785

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1245

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My Dog IS My Homework: Exploring Canine Genetics to Understand Genotype-Phenotype Relationships

To facilitate understanding of the fundamental genetic concept of the genotype-phenotype relationship in our introductory biology students, we designed an engaging multi-week series of related lessons about canine genetics in which students...

Courses: Bioinformatics Genetics Introductory Biology Science Process Skills

gel electrophoresissequence analysiscanine geneticsdeoxyribonucleic acid (DNA)dog coat morphologygenotype and phenotypemutationsPolymerase chain reaction (PCR)single nucleotide polymorphism (SNP)

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680

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The Case of the Missing Strawberries: RFLP analysis

While solving the fictional mystery of the missing strawberries, students are engaged in a guided-inquiry lesson featuring small-group and class discussions, hands-on activities, and laboratory exercises related to molecular genotyping by...

Courses: Genetics Science Process Skills

process of scienceDNAforensicsgel electrophoresisMolecular genotypingRestriction endonucleaseRestriction enzymeRestriction fragment length polymorphismRFLP

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1391

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394

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Where Does Elsie's Hair Color Come From? A "De-Simplified" Pedigree Lesson

Pedigree analysis is part of most Genetics curricula, but the examples traditionally used in genetics courses present phenotypes as if they were entirely and inexorably defined by genotype. This does not reflect the current state of understanding...

Courses: Genetics Introductory Biology

pedigreeMultifactorialphenotypic variationpenetranceexpressivityquantitative variation

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1232

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373

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The ACTN3 Polymorphism: Applications in Genetics and Physiology Teaching Laboratories

Inquiry-based undergraduate laboratories provide the opportunity to engage students in a research experience that improves scientific thinking, but such activities can be difficult to develop and implement due to limited time and resources. We...

Courses: Anatomy-Physiology Genetics

protein structure and functionhuman genetic variationmuscle physiology

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3343

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617

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Predicting and classifying effects of insertion and deletion mutations on protein coding regions

Mutations in genes can affect the encoded proteins in multiple ways, and some of these effects are counterintuitive. As for any other knowledge, students must create their own deep understanding of the Central Dogma. Students may not develop this...

Courses: Bioinformatics Genetics Science Process Skills

mutationcentral dogmatranslationframeshift

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3406

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284

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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, students in a large lecture class will work in groups...

Courses: Biochemistry and Molecular Biology Genetics Introductory Biology

mutationtranscriptiongene expressioncentral dogmatranslationgel electrophoresisGenotype/Phenotype

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1646

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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 largely replaced the use of microarrays for whole...

Courses: Biochemistry and Molecular Biology Bioinformatics Cell Biology Genetics Introductory Biology

bioinformaticscancertranscriptomicshigh-throughputData wranglingSingle cell RNA sequencingq

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540

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81

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Using Raw Sequence Data to Analyze Tumor Suppressor Mutations

Learning to identify DNA sequence variants from raw sequencing data (electropherograms) is a basic molecular biology skill with applications to basic research and clinical practice. Yet learning to map DNA sequence variants to functional regions...

Courses: Bioinformatics Genetics

bioinformaticsmutationDNAgenomic visualizationparts of a geneclinical consequencesraw data

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1728

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422

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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 there is a considerable gap between...

Courses: Biochemistry and Molecular Biology Bioinformatics Cell Biology Genetics Introductory Biology

NCBItranscriptiontranslationGene StructureGene databasesEnsembl

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5710

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978

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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 often poorly understand central dogma processes (DNA...

Courses: Genetics Introductory Biology

mutationtranscriptionphenotypecentral dogmatranslationDNA replication

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1168

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Meiosis: A Play in Three Acts, Starring DNA Sequence

Meiosis is well known for being a sticky topic that appears repeatedly in biology curricula. We observe that a typical undergraduate biology major cannot correctly identify haploid and diploid cells or explain how and why chromosomes pair before...

Courses: Cell Biology Genetics Introductory Biology

recombinationmeiosisDNA sequenceCrossingoverchromosome structureHolliday junctionhomology

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2126

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665

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1

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Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses

Introductory bioinformatics exercises often walk students through the use of computational tools, but often provide little understanding of what a computational tool does "under the hood." A solid understanding of how a bioinformatics...

Courses: Biochemistry and Molecular Biology Bioinformatics Introductory Biology

BLASTmultiple sequence alignmentsequence similarityphylogramZika virusAlgorithmScoring Matrix

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202

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A Laboratory Module That Explores RNA Interference and Codon Optimization Through Fluorescence Microscopy Using Caenorhabditis elegans

Scientific research experiences are beneficial to students allowing them to gain laboratory and problem-solving skills, as well as foundational research skills in a team-based setting. We designed a laboratory module to provide a guided research...

Courses: Bioinformatics Cell Biology Developmental Biology Genetics Science Process Skills

microscopyC. elegansquantitative analysisinquiry-based learninggene expressionRNA interferenceCodon UsageLaboratory Module

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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 bioinformaticians with biological expertise. For...

Courses: Bioinformatics Genetics

proteinsMitochondrial GenomesNuclear GenomesrRNAtRNA

Lesson

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445

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Metastatic Mastery: A Case and Game-Based Approach to Learning About Cancer Mechanisms

Mechanisms that contribute to the development of cancer are numerous and complicated, though most can be traced to a set of mutations in cell cycle regulatory genes that throw the process of cell division off balance. Communication of these...

Courses: Biochemistry and Molecular Biology Genetics Introductory Biology

mutationcancertranscriptioncell cycletranslationOncogenesTumor-suppressorp53Transcription factor

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Using CRISPR-Cas9 to teach the fundamentals of molecular biology and experimental design

One of the challenges of inquiry-based research experiences is balancing the instruction on skills and techniques with data generation and analysis. This is especially true in technique heavy disciplines such as molecular biology, where emphasis...

Courses: Biochemistry and Molecular Biology

experimental designcrisprmolecular technique

Teaching Tools and Strategies

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Sanger Sequencing by Hand: Using Paper Clips to Demonstrate Chain Termination

Sanger sequencing is commonly taught with a hands-on approach. Sanger sequencing involves chain termination by dideoxynucleotides, because they are missing the oxygen on the 3’ carbon atom, which is required for the addition of subsequent...

Courses: Genetics

nucleotidessequencingDNAgel electrophoresisChain Termination

Teaching Tools and Strategies

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356

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DNA Detective: Genotype to Phenotype. A Bioinformatics Workshop for Middle School to College.

Advances in high-throughput techniques have resulted in a rising demand for scientists with basic bioinformatics skills as well as workshops and curricula that teach students bioinformatics concepts. DNA Detective is a workshop we designed to...

Courses: Biochemistry and Molecular Biology Bioinformatics Genetics Plant Biology

geneticsbioinformaticsDNAgenotypephenotypegenegene annotation

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Exploration of the Human Genome by Investigation of Personalized SNPs

The Science Behind the ACTN3 Polymorphism

My Dog IS My Homework: Exploring Canine Genetics to Understand Genotype-Phenotype Relationships

The Case of the Missing Strawberries: RFLP analysis

Where Does Elsie's Hair Color Come From? A "De-Simplified" Pedigree Lesson

The ACTN3 Polymorphism: Applications in Genetics and Physiology Teaching Laboratories

Predicting and classifying effects of insertion and deletion mutations on protein coding regions

Garden Variety Mutations: Using Primary Data to Understand the Central Dogma in Large-Lecture Introductory Biology

Single Cell Insights Into Cancer Transcriptomes: A Five-Part Single-Cell RNAseq Case Study Lesson

Using Raw Sequence Data to Analyze Tumor Suppressor Mutations

How to Find a Gene: Retrieving Information From Gene Databases

A clicker-based case study that untangles student thinking about the processes in the central dogma

Meiosis: A Play in Three Acts, Starring DNA Sequence

Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses

A Laboratory Module That Explores RNA Interference and Codon Optimization Through Fluorescence Microscopy Using Caenorhabditis elegans

A CURE-based approach to teaching genomics using mitochondrial genomes

Metastatic Mastery: A Case and Game-Based Approach to Learning About Cancer Mechanisms

Using CRISPR-Cas9 to teach the fundamentals of molecular biology and experimental design

Sanger Sequencing by Hand: Using Paper Clips to Demonstrate Chain Termination

DNA Detective: Genotype to Phenotype. A Bioinformatics Workshop for Middle School to College.

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