CourseSource: Resources

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Training future faculty in 30 minutes a week: A modular framework to provide just-in-time professional development to graduate teaching assistants

Despite increasing recognition of the need to train the teaching assistants (TAs) teaching the majority of STEM lab sections, very few programs report offering sustained teaching professional development opportunities. Here we present a year-long,...

Courses: Anatomy-Physiology Bioinformatics Cell Biology Developmental Biology Ecology Ecology Genetics Introductory Biology Microbiology Neurobiology Plant Biology Professional Development and Career Planning

professional developmentTA TrainingTeaching Assistants

Teaching Tools and Strategies

868

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134

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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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6614

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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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1281

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169

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Central Dogma, Dictionaries, and Functions: Using Programming Concepts to Simulate Biological Processes

Technologies like next-generation sequencing, proteomics, and high-throughput phenotyping have transformed the way we do biology. There is a continued need for scientists with computational skills to analyze biological data while understanding the...

Courses: Bioinformatics

computationpythonJupyter notebookFunctionscentral dogmaDictionaries

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1235

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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 for students with hands-on experience with...

Courses: Biochemistry and Molecular Biology Bioinformatics Ecology Ecology Microbiology

epidemiologyresearchbioinformaticsgenomicspublic healthAntibiotic Resistant BacteriaSalmonellaDNA sequencingpathogenic bacteria

Teaching Tools and Strategies

3637

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1719

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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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3790

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1247

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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)

Essay

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Structuring Courses for Equity

As instructors, we continually look for new ways to create equitable learning environments and support learning for all students in our courses. Recently, we have explored ways that we can increase structure to better support students. We have...

Courses: Anatomy-Physiology Bioinformatics Cell Biology Developmental Biology Ecology Ecology Genetics Introductory Biology Microbiology Neurobiology Plant Biology Science Process Skills

Equitymetacognitioninclusivitycourse structure

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7669

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1462

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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

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549

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A Fun Introductory Command Line Lesson: Next Generation Sequencing Quality Analysis with Emoji!

Radical innovations in DNA sequencing technology over the past decade have created an increased need for computational bioinformatics analyses in the 21st century STEM workforce. Recent evidence however demonstrates that there are significant...

Courses: Bioinformatics

bioinformaticsgenomicscodingJupyter notebookcommand lineCyVersescriptingnext generation sequencing analysis

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1956

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280

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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

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627

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Using Bioinformatics and Molecular Visualization to Develop Student Hypotheses in a Malate Dehydrogenase Oriented CURE

Developing student creativity and ability to develop a testable hypothesis represents a significant challenge in most laboratory courses. This lesson demonstrates how students use facets of molecular evolution and bioinformatics approaches...

Courses: Biochemistry and Molecular Biology Bioinformatics Science Process Skills

bioinformaticsNoncovalent InteractionsEnzyme CatalysisProtein Structure/function

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432

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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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183

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Tying it All Together: An Activity to Help Students Connect Course Experiences to Posted Learning Outcomes

Instructors of undergraduate courses in Biology and other Science, Technology, Engineering, and Mathematics (STEM) disciplines face an ongoing challenge to foster higher-order thinking and learning skills while also developing a sound conceptual...

Courses: Anatomy-Physiology Bioinformatics Cell Biology Developmental Biology Ecology Ecology Genetics Introductory Biology Microbiology Neurobiology Plant Biology Science Process Skills

metacognitionreflectiongoalsOutcomes

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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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Tackling "Big Data" with Biology Undergrads: A Simple RNA-seq Data Analysis Tutorial Using Galaxy

Analyzing high-throughput DNA sequence data is a fundamental skill in modern biology. However, real and perceived barriers such as massive file sizes, substantial computational requirements, and lack of instructor background knowledge can...

Courses: Biochemistry and Molecular Biology Bioinformatics

bioinformaticsDNA sequenceRNAseqgene expression

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2013

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573

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Using Undergraduate Molecular Biology Labs to Discover Targets of miRNAs in Humans

Incorporating authentic research experiences into undergraduate labs, while shown to be particularly effective at engaging and retaining students in STEM majors, can be difficult to accomplish within the constraints of resource availability or...

Courses: Bioinformatics Genetics Science Process Skills

gene regulationmicroRNAsgene expression

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Teaching RNAseq at Undergraduate Institutions: A tutorial and R package from the Genome Consortium for Active Teaching

Next-generation sequencing is radically changing the study of biology, but there are currently few resources aimed at teaching the required laboratory and data-analysis skills to undergraduate students. This gap is especially true at primarily...

Courses: Bioinformatics Introductory Biology

statisticsbioinformaticsRNAseqgene expressioncomputer programming

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453

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0

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Moths and Frogs and E. coli, Oh My!: Agent-based Modeling of Evolutionary Systems

In evolution classrooms, introducing and reinforcing the idea of genetic drift and random selection can be challenging, as can be reinforcing appropriate mental models of evolution. Agent-based models offer students the opportunity to conduct a...

Courses: Bioinformatics Ecology Ecology Evolution Science Process Skills

modelingEvolutionecologyagent-based modelingGenetic Driftenvironmental scienceNatural Selectioncompetitive coevolutionsimulation modelingevolutionary reasoning

Teaching Tools and Strategies

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201

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Making toast: Using analogies to explore concepts in bioinformatics

Contemporary biology is moving towards heavy reliance on computational methods to manage, find patterns, and derive meaning from large-scale data, such as genomic sequences. Biology teachers are increasingly compelled to prepare students with...

Courses: Bioinformatics

bioinformaticsworkflowgenome

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Training future faculty in 30 minutes a week: A modular framework to provide just-in-time professional development to graduate teaching assistants

A Team-Based Approach to Course Development Involving Undergraduate Researchers

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

Central Dogma, Dictionaries, and Functions: Using Programming Concepts to Simulate Biological Processes

A CURE for Salmonella: A Laboratory Course in Pathogen Microbiology and Genomics

A 360˚ View of COVID-19

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

Structuring Courses for Equity

An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure

A Fun Introductory Command Line Lesson: Next Generation Sequencing Quality Analysis with Emoji!

A CURE-based approach to teaching genomics using mitochondrial genomes

Using Bioinformatics and Molecular Visualization to Develop Student Hypotheses in a Malate Dehydrogenase Oriented CURE

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

Tying it All Together: An Activity to Help Students Connect Course Experiences to Posted Learning Outcomes

Using Raw Sequence Data to Analyze Tumor Suppressor Mutations

Tackling "Big Data" with Biology Undergrads: A Simple RNA-seq Data Analysis Tutorial Using Galaxy

Using Undergraduate Molecular Biology Labs to Discover Targets of miRNAs in Humans

Teaching RNAseq at Undergraduate Institutions: A tutorial and R package from the Genome Consortium for Active Teaching

Moths and Frogs and E. coli, Oh My!: Agent-based Modeling of Evolutionary Systems

Making toast: Using analogies to explore concepts in bioinformatics

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