CourseSource: Resources

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Analysis of Microbiomes Using Free Web-Based Tools in Online and In-Person Undergraduate Science Courses

Our understanding of microbiomes, or the collection of microorganisms and their genes in a given environment, has been revolutionized by technological and computational advances. However, many undergraduate students do not get hands-on experiences...

Courses: Bioinformatics Ecology Ecology Microbiology

microbiomeDNA SubwayCyVerseCourse based undergraduate researchQIIME2ranacapa

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7969

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397

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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 large data sets. This Lesson helps students: (i)...

Courses: Biochemistry and Molecular Biology Cell Biology

genomicstranscriptionsignaling

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Integrating Community Ecology Into the Study of Parasites: Exploring the Effect of Host Behavior on Parasite Transmission Rates

Organismal life cycles are often presented as a set of facts to memorize in undergraduate biology courses. This approach is cognitively demanding for students and fails to convey how central life cycle diversity is in shaping ecological and...

Courses: Ecology Ecology Science Process Skills

statisticsspecies interactionsQuantitative reasoninggraphsCommunity EcologyParasitologyfood webs

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3885

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Isolation and Functional Analysis of a Pancreatic Enzyme in an Introductory Student Lab

Structure and function are correlated at all levels of biology. This topic is typically addressed early in an undergraduate class in general or molecular biology before students have gained much skill or knowledge in molecular biology. However, an...

Courses: Biochemistry and Molecular Biology Introductory Biology

Protein StructureproteaseEnzymechemical bondscatalysissolubility

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Assessing Urban Biodiversity With the eBird Citizen Science Project: A Course-Based Undergraduate Research Experience (CURE) Module

The eBird citizen science module takes advantage of technology tools and online resources developed by the Cornell Laboratory of Ornithology (http://ebird.org) to achieve several learning objectives embedded in a semester-long upper-level biology...

Courses: Ecology Ecology Science Process Skills

datacitizen sciencecommunityBiodiversitySpecieshypothesishabitat

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2713

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435

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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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5035

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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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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

Teaching Tools and Strategies

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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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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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344

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Investigating Gene Expression and Cell Specialization in Axolotl Embryos

The process of cell specialization is critical to the formation and function of tissues in animals and plants. Although gene expression, including the regulation of transcription, is taught in most introductory cell biology courses, the...

Courses: Biochemistry and Molecular Biology Cell Biology Developmental Biology Science Process Skills

developmenttranscriptiongene expressionmodel organismembryo

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814

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Breaking It Down: What Factors Control Microbial Decomposition Rates?

Demonstrating and modeling changes in ecosystem processes in the laboratory classroom can be logistically difficult and expensive. This complexity often leaves little time for students to generate and test hypotheses. Yet, we must foster student...

Courses: Ecology Ecology Microbiology Science Process Skills

data analysishypothesis testingdata visualizationdata managementMicrobial RespirationDecompostionAbiotic ConditionsResults Communication

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Assessing in vivo Antimicrobial Activity Through the Analysis of Galleria mellonella Kaplan-Meier Plots

Antimicrobials and their use in the treatment of bacterial infections are a fundamental lesson in all microbiology courses. Typically, cultivation-based methods are used to teach students about antimicrobial testing. A complementary approach...

Courses: Microbiology

Antimicrobial TestingAntimicrobialsInvertebrate animal models

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667

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Design Your Own Flow Cytometry Experiment: A Four-Week Inquiry Laboratory

Due to its importance to the field, flow cytometry should be one of the hallmark methods a student learns in the lab portion of an undergraduate immunology course. Flow cytometry is a classic lab technique utilized within immunology and molecular...

Courses: Immunology

Immunologyexperimental designFlow cytometryMice

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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 at undergraduate juniors and seniors and graduate...

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

microbiome

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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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Outside the Norm: Using Public Ecology Database Information to Teach Biostatistics

Biology students’ understanding of statistics is incomplete due to poor integration of these two disciplines. In some cases, students fail to learn statistics at the undergraduate level due to poor student interest and cursory teaching of...

Courses: Ecology Ecology Introductory Biology Science Process Skills

biostatisticshypothesis testingexperimental design

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Out of Your Seat and on Your Feet! An adaptable course-based research project in plant ecology for advanced students

University capstone projects can offer science students a rich research experience that illustrates the process of doing scientific research, and can also help students better choose future academic and career pathways. While capstone projects are...

Courses: Ecology Ecology Plant Biology Science Process Skills

statisticsactive learningecologyinterdisciplinaryplantscommunicating sciencegroup workfield workproces of science

Teaching Tools and Strategies

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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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A virtual laboratory on cell division using a publicly-available image database

Cell division is a key concept in cell biology. While there are many popular activities to teach students the stages of mitosis, most make use of simple schematics, cartoons, or textbook diagrams. Others engage students in acting out the stages,...

Courses: Cell Biology Science Process Skills

image analysismicroscopymitosisCellular Processes

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Analysis of Microbiomes Using Free Web-Based Tools in Online and In-Person Undergraduate Science Courses

Investigating Cell Signaling with Gene Expression Datasets

Integrating Community Ecology Into the Study of Parasites: Exploring the Effect of Host Behavior on Parasite Transmission Rates

Isolation and Functional Analysis of a Pancreatic Enzyme in an Introductory Student Lab

Assessing Urban Biodiversity With the eBird Citizen Science Project: A Course-Based Undergraduate Research Experience (CURE) Module

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

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

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

A 360˚ View of COVID-19

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

Investigating Gene Expression and Cell Specialization in Axolotl Embryos

Breaking It Down: What Factors Control Microbial Decomposition Rates?

Assessing in vivo Antimicrobial Activity Through the Analysis of Galleria mellonella Kaplan-Meier Plots

Design Your Own Flow Cytometry Experiment: A Four-Week Inquiry Laboratory

Using QIIME to Interpret Environmental Microbial Communities in an Upper Level Metagenomics Course

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

Outside the Norm: Using Public Ecology Database Information to Teach Biostatistics

Out of Your Seat and on Your Feet! An adaptable course-based research project in plant ecology for advanced students

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

A virtual laboratory on cell division using a publicly-available image database

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