CourseSource: Resources

Teaching Tools and Strategies

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Biology from Molecules to Embryos, Interactive Animated Lessons

Visualizing kinetic processes can be an impediment to student mastery of basic science coursework. To remedy this obstacle, I created an educational program called Biology from Molecules to Embryos© (BioME), which provides 28 animated lessons...

Courses: Developmental Biology Genetics Introductory Biology

geneticsBIOMEEmbryologycomputer assisted instructioneducational programeducational videosonline lessonsanimated lessonseducational website

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An Introduction to Eukaryotic Genome Analysis in Non-model Species for Undergraduates: A tutorial from the Genome Consortium for Active Teaching

Advances in Next Generation Sequencing (NGS) technology have led to development of many research methods for analyzing genomic data. Students studying biology at the undergraduate level must hone their skills at genomic analysis to participate in...

Courses: Bioinformatics Genetics Science Process Skills

Speciationgenome evolutiongenetic variation

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An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure

Gene structure, transcription, translation, and alternative splicing are challenging concepts for many undergraduates studying biology. These topics are typically covered in a traditional lecture environment, but students often fail to master and...

Courses: Biochemistry and Molecular Biology Bioinformatics Genetics

bioinformaticsGenome BrowsergenomicsRNAseqsplicingComputer ModelGene Structure

Teaching Tools and Strategies

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A Team-Based Approach to Course Development Involving Undergraduate Researchers

Development of an undergraduate laboratory course can be a challenge, because of the need to balance both logistical and pedagogical considerations. We piloted a team-based approach to developing this type of course and found it to be advantageous...

Courses: Biochemistry and Molecular Biology Bioinformatics Genetics Microbiology Science Process Skills

student researchcourse development

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Homologous chromosomes? Exploring human sex chromosomes, sex determination and sex reversal using bioinformatics approaches

Constructing a robust understanding of homologous chromosomes, sex chromosomes, and the particulate nature of genes is a notoriously difficult task for undergraduate biology students. In this lesson, students expand their knowledge of human...

Courses: Bioinformatics Genetics Introductory Biology Science Process Skills

bioinformaticsautosomehomologous chromosomeshomologous recombinationsex chromosomesex determinationsex reversal mutations

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The Great Petunia Carnage of 2017: A Clicker Case Study Using Petunias to Describe the Effect of Genetic Modification on the Biochemistry of Flower Color and Phenotype in Plants

In this single class period case study, students examine the difference between genotype and phenotype by studying the mechanisms by which commercially available petunias have been bred to have different phenotypes (flower colors). Students review...

Courses: Genetics Introductory Biology Plant Biology

case studyGenetic ModificationsBiochemistry of Flower ColorGMO regulationsGenotype-Phenotype Connections

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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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Learning Quantitative Genetics: Investigation of Genetic Control for Cold Stress Response in Plants

Course-embedded undergraduate research experiences (CUREs) for students have been shown to increase students’ understanding of the process of science, affirm their scientific identity, and improve retention in STEM fields. Despite many CUREs...

Courses: Genetics

data analysisrecombinationplantsquantitative geneticsabiotic stress responsegenetic control of complex traitsinheritance of complex traits

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Splicing it Together: Using Primary Data to Explore RNA Splicing and Gene Expression in Large-Lecture Introductory Biology

At the heart of scientific ways of knowing is the systematic collection and analysis of data, which is then used to propose an explanation of how the world works. In this two-day module, students in a large-lecture course are immersed in a...

Courses: Biochemistry and Molecular Biology Cell Biology Genetics Introductory Biology

gene regulationtranscriptiongene expressioncentral dogmarepressoralternative splicingmRNA processingActivatorTranscription factors

Essay

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Implementing active learning approaches into an upper-division biology course

In this essay, we present our strategy for implementing active learning strategies into an upper division course on Human Genetics. Our principal goal was to shift from a traditional didactic course design, to one that more clearly placed the...

Courses: Genetics Introductory Biology

human biologyPedigree analysisRare genetic diseases

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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 ubiquitous tools for hypothesis and...

Courses: Biochemistry and Molecular Biology Bioinformatics Cell Biology Genetics

bioinformaticsgene expressiongenetic basis of diseaseCRISPR/Cas9genetic engineeringin silico

Teaching Tools and Strategies

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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 virtual environment, instructors devised a variety of...

Courses: Biochemistry and Molecular Biology Bioinformatics Cell Biology Evolution Genetics Immunology Introductory Biology Microbiology Science Process Skills

geneticsImmunologyBiochemistrybioinformaticsmolecular evolutionpublic healthvirusCOVID19

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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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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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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 lesson is part of the BIOL/CS 370...

Courses: Bioinformatics Genetics Science Process Skills

transcriptionexonintronsplicing

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Does Organelle Shape Matter?: Exploring Patterns in Cell Shape and Structure with High-Throughput (HT) Imaging

Organelle structure has been studied and visualized for decades; however, publicly available databases that use improved high-throughput microscopy of gene-edited cell lines have recently revolutionized the amount and quality of information now...

Courses: Biochemistry and Molecular Biology Bioinformatics Cell Biology Genetics Science Process Skills

modelingcase studymicroscopystructureOrganellesHigh-throughput (HT)Endoplasmic Reticulum (ER)Fluorescent microscopyHuman Cell Biology

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Teaching the Central Dogma Using a Case Study of Genetic Variation in Cystic Fibrosis

The central dogma of biology is a foundational concept that is traditionally included in genetics curricula at all academic levels. Despite its ubiquitous presence throughout genetics education, students persistently struggle with both the...

Courses: Genetics

transcriptioncentral dogmatranslationsequence analysisDNA replicationgenetic variants

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Using Synthetic Biology and pClone Red for Authentic Research on Promoter Function: Introductory Biology (identifying new promoters)

Students often memorize the definition of a transcriptional promoter but fail to fully understand the critical role promoters play in gene expression. This laboratory lesson allows students to conduct original research by identifying and...

Courses: Genetics Introductory Biology Science Process Skills

bacteriasynthetic biologygene regulationtranscriptionstudent researchcentral dogmacloningpromoterreporter gene/protein

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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 challenge. Here, I describe a multi-week lesson plan...

Courses: Biochemistry and Molecular Biology Bioinformatics Genetics Microbiology Science Process Skills

bioinformaticsPCRphenotypingCRISPR/Cas9gene editingcloningGenotypingRestriction enzyme

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Learning R for Biologists: A Mini Course Grab-Bag for Instructors

As biology becomes more data driven, teaching students data literacy skills has become central to biology curriculum. Despite a wealth of online resources that teach researchers how to use R, there are few that offer practical laboratory-based...

Courses: Anatomy-Physiology Bioinformatics Ecology Ecology Genetics

Rdata analysisRStudio

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Biology from Molecules to Embryos, Interactive Animated Lessons

An Introduction to Eukaryotic Genome Analysis in Non-model Species for Undergraduates: A tutorial from the Genome Consortium for Active Teaching

An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure

A Team-Based Approach to Course Development Involving Undergraduate Researchers

Homologous chromosomes? Exploring human sex chromosomes, sex determination and sex reversal using bioinformatics approaches

The Great Petunia Carnage of 2017: A Clicker Case Study Using Petunias to Describe the Effect of Genetic Modification on the Biochemistry of Flower Color and Phenotype in Plants

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

Learning Quantitative Genetics: Investigation of Genetic Control for Cold Stress Response in Plants

Splicing it Together: Using Primary Data to Explore RNA Splicing and Gene Expression in Large-Lecture Introductory Biology

Implementing active learning approaches into an upper-division biology course

A CRISPR/Cas Guide RNA Design In Silico Activity

A 360˚ View of COVID-19

Using Raw Sequence Data to Analyze Tumor Suppressor Mutations

The ACTN3 Polymorphism: Applications in Genetics and Physiology Teaching Laboratories

A Hands-on Introduction to Hidden Markov Models

Does Organelle Shape Matter?: Exploring Patterns in Cell Shape and Structure with High-Throughput (HT) Imaging

Teaching the Central Dogma Using a Case Study of Genetic Variation in Cystic Fibrosis

Using Synthetic Biology and pClone Red for Authentic Research on Promoter Function: Introductory Biology (identifying new promoters)

CRISPR/Cas9 in yeast: a multi-week laboratory exercise for undergraduate students

Learning R for Biologists: A Mini Course Grab-Bag for Instructors

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