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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379

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60

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Environmental Injustice: When the Grass is Greener on the Other Side

Environmental pollution is a global threat that is especially prevalent in heavily industrialized and urbanized areas. Pollution can be found in many forms, such as natural and synthetic pollutants from natural and anthropogenic processes. These...

Courses: Ecology Ecology Introductory Biology Science Process Skills Toxicology

human healthenvironmental injusticeEnvironmental PollutionSystemic BiasesIdeological AwarenessUrban Ecology and Development

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3027

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405

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It's a Substrate... It's a Protein...No - It's an Enzyme! Teaching Using 3D Serine Protease Physical Modeling Activities to Confront Misconceptions.

Reported misconceptions of enzyme-substrate interactions highlight the necessity for better, targeted instructional tools and assessments. A series of active learning activities with corresponding three-dimensional (3D) physical models were...

Courses: Biochemistry and Molecular Biology

Protein StructureEnzymes-Substrate InteractionsNoncovalent InteractionsGeometric ComplementaryElectronicsStereochemistrySerine Proteases

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453

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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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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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925

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275

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Population Ecology of the Northern Spotted Owl

The mathematical modeling of populations utilizing field-collected demographic data is an important component of lab curricula in a variety of undergraduate biology lab courses. During the global pandemic brought about by the SARS-CoV-2 virus in...

Courses: Ecology Ecology Introductory Biology

demographyCommunity Ecologypopulation ecologyconservation biologylife tables

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448

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Teaching Advanced Concepts in Regulation of the Lac Operon With Modeling and Simulation

Success in biochemistry and other life science courses requires that students understand important biological concepts. One of these concepts is how gene regulation ensures that homeostasis is maintained in an organism. The lac operon is a...

Courses: Biochemistry and Molecular Biology

gene regulationinducible operonProkaryotic cellPhosphoenolpyruvate transferase system (PTS)

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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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489

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A Modeling Exercise in Sexual Selection using a Student-Created Bird Species

Evolution-centered lessons at the undergraduate level can often be jargon-heavy, propagate misconceptions if taught ineffectively, and be uninteresting to students who may not see the relevancy of such concepts. This activity provides a fun and...

Courses: Ecology Ecology Evolution Introductory Biology

Evolutionfitnesssexual selectionNatural Selectionintersexual selectionmate choice

Lesson

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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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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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Using the Cell Engineer/Detective Approach to Explore Cell Structure and Function

As instructors of introductory biology courses for majors and non-majors, we have struggled with teaching the concept of cell structure and function in an engaging way. However, this is a foundational concept that most biology instructors...

Courses: Cell Biology Introductory Biology Science Process Skills

cell functionCell StructureCellular diversityDynamic cellular functionOrganelle function

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Using Open-Source Bioinformatics and Visualization Tools to Explore the Structure and Function of SARS-CoV-2 Spike Protein

The relationship between protein structure and function is a foundational concept in undergraduate biochemistry. We find this theme is best presented with assignments that encourage exploration and analysis. Here, we share a series of four...

Courses: Biochemistry and Molecular Biology Bioinformatics Science Process Skills

bioinformaticsmolecular modelingCOVID19protein structure and functionUCSF ChimeraSARS-CoV-2 spike proteinACE2 receptor

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475

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A Lesson on Matter and Energy at the Organismal Scale: Linking Patterns and Processes Across Diverse Taxa

Pathways and transformations of energy and matter (PTEM) are a conceptually challenging but essential component of biological literacy. Curricular gaps about PTEM nevertheless remain; although lessons targeting PTEM at small scales (chemical,...

Courses: Ecology Ecology Introductory Biology

plantsenergyAnimalsfungimatterorganismal scale

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2396

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Escape Zoom!: Reviewing Introductory Evolution Content Using an Escape Room Format

Reviewing and integrating key concepts and learning goals at the end of a biology course can be overwhelming to students and instructors alike. Often end-of-term review sessions in preparation for final exams are heavily based on memorization, and...

Courses: Ecology Ecology Evolution Genetics

Evolutionartificial selectionSpeciationextinctionsexual selectionphylogenetic treesmechanisms of evolution

Teaching Tools and Strategies

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The Flight Physics Concept Inventory: Reliably Evaluating Aerodynamic Lift, Drag and Associated (Naïve) Concepts of Flight in Class and In-Game

Students often struggle to transfer conceptual understanding from isolated instruction to a coherent mental model. This is especially true for the context of flight physics, fluid dynamics, or the concepts of aerodynamic lift, drag, stall, center...

Courses: Introductory Physics: Calculus-Based

active learninggamificationmisconceptionsaerodynamicsfluid dynamicsResearch-based assessment instrumentConceptual SurveyPRE-/POST-test

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Discovering Prokaryotic Gene Regulation by Building and Investigating a Computational Model of the lac Operon

The ability to construct and reason through a biological system is an important skill to develop in science education. This level of understanding forces students to recognize the interrelatedness of components within a biological process and...

Courses: Introductory Biology

prokaryotesgene regulationLac Operoninducible operon

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Integrating Manipulatives and Animations to Visualize Holliday Junctions

The complex molecular architecture of Holliday junctions is often challenging for undergraduate biochemistry students to conceptualize. In particular, they have difficulty translating from two-dimensional, linear representations shown in textbooks...

Courses: Biochemistry and Molecular Biology Genetics

dna structureDNA damageDNA recombinationGene crossoverHolliday junction

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Quantifying and Visualizing Campus Tree Phenology

Large enrollment courses present a challenge for instructors who want to engage students in authentic science practices that fit the recommendations of Vision & Change. Our lesson provides a meaningful science experience for undergraduates in...

Courses: Introductory Biology

ecologyBiodiversityphenologyplant biology

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Discovering Prokaryotic Gene Regulation with Simulations of the trp Operon

The trp operon exemplifies important biological concepts, including the central dogma of molecular biology, feedback inhibition, and gene regulation. For this reason, regulation of the trp operon is a common theme in introductory biology,...

Courses: Genetics Introductory Biology Microbiology

prokaryotesgene regulationattenuationfeedback inhibitionrepressible operontrp operon

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Biology from Molecules to Embryos, Interactive Animated Lessons

Environmental Injustice: When the Grass is Greener on the Other Side

It's a Substrate... It's a Protein...No - It's an Enzyme! Teaching Using 3D Serine Protease Physical Modeling Activities to Confront Misconceptions.

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

A 360˚ View of COVID-19

Population Ecology of the Northern Spotted Owl

Teaching Advanced Concepts in Regulation of the Lac Operon With Modeling and Simulation

Using Raw Sequence Data to Analyze Tumor Suppressor Mutations

A Modeling Exercise in Sexual Selection using a Student-Created Bird Species

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

An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure

Using the Cell Engineer/Detective Approach to Explore Cell Structure and Function

Using Open-Source Bioinformatics and Visualization Tools to Explore the Structure and Function of SARS-CoV-2 Spike Protein

A Lesson on Matter and Energy at the Organismal Scale: Linking Patterns and Processes Across Diverse Taxa

Escape Zoom!: Reviewing Introductory Evolution Content Using an Escape Room Format

The Flight Physics Concept Inventory: Reliably Evaluating Aerodynamic Lift, Drag and Associated (Naïve) Concepts of Flight in Class and In-Game

Discovering Prokaryotic Gene Regulation by Building and Investigating a Computational Model of the lac Operon

Integrating Manipulatives and Animations to Visualize Holliday Junctions

Quantifying and Visualizing Campus Tree Phenology

Discovering Prokaryotic Gene Regulation with Simulations of the trp Operon

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