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Resources

These Open Educational Resources are free to use and can be modified for use in your classroom. For more information about publishing on QUBES visit our OER page.


Moleculare CaseNet Originals

Nicholas' Story

Shuchismita Dutta, Kimberly Linenberger Cortes, Henry Vincent Jakubowski, Melanie Lenahan, David Marcey, Pat Marsteller, Cassidy Terrell

Version: 1.0

This 3 part case on sickle cell disease focuses on visualizing and understanding the molecular basis of its cause, symptoms, complications, management, treatment, and possible cures.
Hemoglobin, molecular visualization and analysis, sickle cell disease, PDB, Molecular Case Study, Undergraduate, Audience Level
629
138
4
0
06.2020

Happy Blue Baby

Shuchismita Dutta

Version: 1.0

This case, about a specific mutant of hemoglobin, focuses on visualizing and understanding the molecular basis of why an infant turned blue soon after birth and how the cyanosis resolved on its own in a few months.
mutation, Hemoglobin, molecular visualization and analysis, PDB, Molecular Case Study, Undergraduate, Audience Level
624
148
3
0
06.2020

Waking up Anna

Kate K. O'Toole, Shuchismita Dutta

Version: 1.0

This case focuses on understanding the molecular basis of Anna's sleeping disorder and its treatment.
sleep, molecular visualization and analysis, PDB, Molecular Case Study, GABA, Undergraduate, Audience Level
578
140
1
0
06.2020

Piwi Matters

Laurel Lorenz, Shuchismita Dutta

Version: 1.0

This case focuses on understanding structure and function relationships in Piwi, a protein that is critical for germline stem cell function and development of eggs in the fruit fly ovary.
Stem cells, molecular visualization and analysis, 3D protein structure /function analysis, Piwi, PDB, Molecular Case Study, Undergraduate, Audience Level
530
137
1
0
06.2020

Evolution of Caffeine Biosynthesis Enzymes

Brian Sullivan, Shuchismita Dutta

Version: 1.0

This case focuses on exploring why plants make secondary metabolites like caffeine and how the enzymes required for making caffeine evolved.
Evolution, caffeine, molecular visualization and analysis, enzymes, PDB, Molecular Case Study, Undergraduate, Audience Level
535
146
0
0
06.2020

A Case of Severe Insulin Resistance

Melanie Lenahan, Shuchismita Dutta

Version: 1.0

This case focuses on understanding how a mutation in a cell signalling protein (a kinase) can prevent insulin function and lead to diabetes.
molecular visualization and analysis, PDB, Molecular Case Study, insulin resistance, Undergraduate, Audience Level
533
124
1
0
06.2020

COVID-19: Molecular Basis of Infection

Didem Vardar-Ulu, Shuchismita Dutta

Version: 1.0

This case was written in Spring 2020 during the COVID-19 pandemic. It focuses on understanding the structure and interaction of the SARS-Cov-2 viral spike protein that facilitates infection in human cells.
infection, vaccine, molecular visualization and analysis, COVID19, PDB, SARS-CoV, Molecular Case Study, Undergraduate, Audience Level
707
173
2
0
06.2020

Understanding COVID-19 Biology to Design a Vaccine

Keith Johnson, Didem Vardar-Ulu, Shuchismita Dutta

Version: 1.0

This multi-part case study introduces the reader to the SARS-CoV-2 virus, replication, and treatment. Additional worksheets introduce students to bioinformatics tools of 3-D protein visualization and BLAST searches.
BLAST, protein structure modeling, molecular visualization and analysis, COVID19, PDB, Introductory, Lab, Online course, High School, Undergraduate, Homework, Instructional Setting, Audience Level, Advanced, Majors, Activity Length, Extended Project
945
878
2
0
06.2020

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Faculty Mentoring Network Adaptations

Happy Blue Baby

Didem Vardar-Ulu

Version: 1.0 Adapted From: Happy Blue Baby v1.0

This case, about a specific mutant of hemoglobin, focuses on visualizing and understanding the molecular basis of why an infant turned blue soon after birth and how the cyanosis resolved on its own in a few months.
mutation, Hemoglobin, molecular visualization and analysis, genetic basis, PDB, Molecular Case Study, Mol*, Online course, Lecture, Undergraduate, Instructional Setting, Audience Level, Activity Length, More than 1 hour, Classroom Climate, Fostering a Sense of Belonging, Promoting Engagement and Self-Efficacy
341
202
0
0
06.2021
This adaptation was written in Spring 2021 exactly one year after the original case and includes explorations of the emerging mutations within the spike protein
infection, vaccine, molecular visualization and analysis, COVID19, PDB, SARS-CoV, Molecular Case Study, variants, antibody, Undergraduate, Audience Level, Promoting Engagement and Self-Efficacy
332
209
0
0
06.2021
Instructions, assignment prompts, and a rubric for assessing advanced undergraduate authorship of molecular case studies
Lab, Online course, Undergraduate, Homework, Instructional Setting, Audience Level, Advanced, Activity Length, Extended Project, Promoting Engagement and Self-Efficacy, Universal Design for Learning (UDL)
257
116
0
0
05.2021

Happy Blue Baby: MCQs for large classes

"KP" Kristen Procko

Version: 1.0 Adapted From: Happy Blue Baby v1.0

Multiple choice questions for the Happy Blue Baby case study pre-work
mutation, Hemoglobin, molecular visualization and analysis, PDB, Molecular Case Study, Undergraduate, Audience Level
295
110
0
0
05.2021

CRISPR Gene Editing: Designing the gRNA and Donor Template

Laurel Lorenz

Version: 1.0 Adapted From: Piwi Matters v1.0

In this adaptation, students learn how CRISPR/Cas9 is used in bacterial immunity and gene editing. Students create both a gRNA target and a donor template to edit a gene. Mutations can be from the case study, Piwi Matter, or designed by the instructor.
genetics, education, cell biology, molecular biology, mutation, Stem cells, structure-function, molecular visualization and analysis, 3D protein structure /function analysis, CRISPR/Cas9, crispr, DNA mutation, Piwi, PDB, Molecular Case Study, Piwi Matters, Introductory, Lab, Online course, Lecture, Undergraduate, Homework, Instructional Setting, Audience Level, Advanced, Majors, Activity Length, More than 1 hour, Extended Project, Developing Self-awareness
724
306
0
0
07.2020
The adaptation to Understanding COVID-19 Biology to Design a Vaccine entails two ethics supplements. The first supplement addresses the use of off-label drugs in the pandemic (or other situation). The second supplement addresses wet markets.
bioethics, BLAST, protein structure modeling, molecular visualization and analysis, ethics, COVID19, PDB, Introductory, Lab, Online course, High School, Undergraduate, Homework, Instructional Setting, Audience Level, Graduate, Advanced, Majors, Activity Length, More than 1 hour, Developing Self-awareness
2.4K
233
0
0
07.2020

Sickle Cell Anemia using Nicholas’ Story

Sharon Cisneros

Version: 1.0 Adapted From: Nicholas' Story v1.0

The goal of this exercise is to introduce students to 3-D structures of biological molecules, visualize and manipulate them to understand their functions. The exercise also helps them see the effect of changing an amino acid.
Hemoglobin, sickle cell disease, Molecular Case Study, Introductory, Undergraduate, Audience Level, Majors, Non-majors, Classroom Climate
541
188
0
0
06.2020
This case was written in Spring 2020 during the COVID-19 pandemic. It focuses on understanding the structure and interaction of the SARS-Cov-2 viral spike protein that facilitates infection in human cells.
infection, vaccine, molecular visualization and analysis, COVID19, PDB, SARS-CoV, Molecular Case Study, Undergraduate, Audience Level, Advanced, Activity Length, More than 1 hour
613
894
0
0
06.2020

Drugging SARS-CoV-2

Mallory Bliss, Alexzandria Khan, Nandni Verma, Kasandra Jean-Louise Riley

Version: 1.0

This case study leads students through the process of proposing a drug for a novel protein. The Mpro protease of SARS-CoV-2 is explored in detail within the PDB. Aligns with first semester biochemistry objectives.
virus, coronavirus, PDB, SARS-CoV-2, protease, drug design, Lab, Online course, Undergraduate, Homework, Instructional Setting, Audience Level, Advanced, Activity Length, More than 1 hour, Promoting Engagement and Self-Efficacy
717
160
0
0
06.2020

Molecular Basis of Sickle Cell Disease

Didem Vardar-Ulu

Version: 1.0 Adapted From: Nicholas' Story v1.0

This multi part case on hemoglobin structure as it relates to oxygen binding and sickle cell disease focuses on utilizing bioinformatics and molecular visualization tools to learn about the sickle cell disease, its cause, symptoms and possible cures.
Hemoglobin, molecular visualization and analysis, introductory bioinformatics, sickle cell disease, PDB, Molecular Case Study, oxygen binding, myoglobin, molecular literacy, 3D protein structures, structural representations, Tutorial, Lab, Online course, Lecture, Undergraduate, Instructional Setting, Audience Level, Advanced, Activity Length, More than 1 hour, Extended Project, Workshop material, Classroom Climate, Promoting Engagement and Self-Efficacy
718
759
0
0
06.2020

The Happy Blue Baby Hemoglobin

Kasandra Jean-Louise Riley, Shuchismita Dutta

Version: 1.0 Adapted From: Happy Blue Baby v1.0

This case, about a specific mutant of hemoglobin, focuses on visualizing and understanding the molecular basis of why an infant turned blue soon after birth and how the cyanosis resolved.
mutation, Hemoglobin, molecular visualization and analysis, PDB, Molecular Case Study, Undergraduate, Audience Level, Advanced, Promoting Engagement and Self-Efficacy
537
280
0
0
06.2020

Nicholas' Story

Nik Tsotakos

Version: 1.0 Adapted From: Nicholas' Story v1.0

This 3 part case on sickle cell disease focuses on visualizing and understanding the molecular basis of its cause, symptoms, complications, management, treatment, and possible cures.
Hemoglobin, molecular visualization and analysis, sickle cell disease, PDB, Molecular Case Study, Undergraduate, Audience Level
461
215
0
0
06.2020
This multi-part case study introduces the reader to the SARS-CoV-2 virus origins, the molecular basis of the infection, the development and severity of symptoms, and treatment.
BLAST, protein structure modeling, molecular visualization and analysis, COVID19, PDB, Introductory, Lab, Online course, Undergraduate, Homework, Instructional Setting, Audience Level, Advanced, Majors, Activity Length, Extended Project
513
1.4K
0
0
06.2020

[Subset of Resources 3]