All Categories (21-37 of 37)

1. Inquiry-based hypothesis testing using phylogenetic trees in MEGA

   17 Jun 2021 | Teaching Materials | Contributor(s):

   By Kristin Hultgren

   Seattle University

   A key learning objective in biology is applying bioinformatics tools to test a real-life question. These inquiry-based modules have students assemble and align data, and construct simple...

   https://qubeshub.org/publications/2379/?v=1

2. Intro to DNA Barcoding

   28 May 2018 | Teaching Materials | Contributor(s):

   By Oliver Hyman¹, Andrea Pesce², Elizabeth Doyle², Ray A Enke¹

   1. The Department of Biology, James Madison University; The Center for Genome & Metagenome Studies, James Madison University 2. James Madison University

   This is a classroom tested introductory lesson & activity to introduce DNA Barcoding and DNA Subway Blue Line. It is for novices and will fit into a 30-45 min lecture or lab class period.

   https://qubeshub.org/publications/600/?v=1

3. Intro to DNA Subway Blue Line

   28 May 2018 | Teaching Materials | Contributor(s):

   By Oliver Hyman¹, Andrea Pesce², Elizabeth Doyle², Ray A Enke¹

   1. The Department of Biology, James Madison University; The Center for Genome & Metagenome Studies, James Madison University 2. James Madison University

   This is a classroom tested introductory lesson & activity to introduce DNA Barcoding and DNA Subway Blue Line. It is for novices and will fit into a 1 hr 50 min lecture or lab class period.

   https://qubeshub.org/publications/599/?v=1

4. Introductory Video and worksheets on Module 1 and 2 on "Sequence Similarity: An inquiry based and under the hood..."

   31 May 2021 | Teaching Materials | Contributor(s):

   By Alice Tarun

   St. Lawrence University

   The video walks the students to complete Module 1 and 2 on Sequence Similarly and Alignment adapted from Tapprich (2019) and Hudson Alpha that teaches these modules within the context of the...

   https://qubeshub.org/publications/2394/?v=1

5. Making bioinformatics tools classroom-friendly

   23 Jul 2020 | Teaching Materials | Contributor(s):

   By Jason Williams, Wilson Leung¹, Cornel Ghiban²

   1. Washington University in St. Louis 2. Cold Spring Harbor Laboratory

   Poster on using Cyverse resources to make classroom that make using bioinformatics in the classroom a more manageable experience presented at the 2020 BIOME Institute: Cultivating Scientific Curiosity

   https://qubeshub.org/publications/2000/?v=1

6. 

   Olivia Wilkins

   https://qubeshub.org/community/members/16095

7. Sequence Similarity Resource Adaptation: Exploring Ebola Virus

   16 May 2019 | Teaching Materials | Contributor(s):

   By William Tapprich

   University of Nebraska-Omaha

   This adaptation of the sequence similarity resource provides biology students with a basic set of bioinformatics concepts and tools. These concepts and tools are used to explore relationships...

   https://qubeshub.org/publications/1219/?v=1

8. Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses

   28 Aug 2021 | Teaching Materials | Contributor(s):

   By Adam J. Kleinschmit*¹, Benita Brink¹, Steven Roof², Carlos Christopher Goller³, Sabrina Robertson³

   1. Adams State University 2. Fairmont State University 3. North Carolina State University

   Introductory bioinformatics exercises often walk students through the use of computational tools, but often provide little understanding of what a computational tool does "under the...

   https://qubeshub.org/publications/2622/?v=1

9. Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses

   02 May 2019 | Teaching Materials | Contributor(s):

   By Adam Kleinschmit¹, Benita Brink¹, Steven Roof², Carlos Christopher Goller³, Sabrina Robertson³

   1. Adams State University 2. Fairmont State University 3. North Carolina State University

   This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

   https://qubeshub.org/publications/56/?v=5

10. Sequence Similarity: Introducing Biological Databases to Community College Biology Students

    01 Jun 2021 | Teaching Materials | Contributor(s):

    By Jennifer Katcher

    This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

    https://qubeshub.org/publications/2407/?v=1

11. Understanding COVID-19 Biology to Design a Vaccine

    12 Jun 2020 | Teaching Materials | Contributor(s):

    By Keith Johnson¹, Didem Vardar-Ulu², Shuchismita Dutta³

    1. Bradley University College of Liberal Arts and Sciences 2. Boston University 3. RCSB Protein Data Bank, Rutgers University

    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...

    https://qubeshub.org/publications/1904/?v=1

12. Understanding COVID-19 Biology to Design a Vaccine - Ethics supplement

    08 Jul 2020 | Teaching Materials | Contributor(s):

    By Keith A. Johnson

    Bradley University College of Liberal Arts and Sciences

    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)....

    https://qubeshub.org/publications/1955/?v=1

13. Using DNA Subway to Analyze Sequence Relationships

    18 Oct 2017 | Teaching Materials | Contributor(s):

    By Jason Williams

    DNA Learning Center

    This is a bioinformatics exercise using DNA Subway

    https://qubeshub.org/publications/165/?v=1

14. Using DNA Subway to Analyze Sequence Relationships

    28 May 2018 | Teaching Materials | Contributor(s):

    By Jason Williams¹, Ray A. Enke², Oliver Hyman², Emily Lescak³, Sam S Donovan⁴, William Tapprich⁵, Elizabeth F Ryder⁶

    1. DNA Learning Center 2. The Department of Biology, James Madison University; The Center for Genome & Metagenome Studies, James Madison University 3. University of Alaska 4. University of Pittsburgh 5. University of Nebraska-Omaha 6. Worcester Polytechnic Institute

    This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.

    https://qubeshub.org/publications/165/?v=2

15. Yeti or not: Do they exist?

    14 May 2020 | Teaching Materials | Contributor(s):

    By Keith Johnson

    Bradley University College of Liberal Arts and Sciences

    Through this 2-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.

    https://qubeshub.org/publications/1832/?v=1

16. Yeti or not: Do they exist?

    31 Dec 2020 | Teaching Materials | Contributor(s):

    By Keith Johnson¹, Adam Kleinschmit², Jill Rulfs³, William (Bill) Morgan⁴

    1. Bradley University College of Liberal Arts and Sciences 2. University of Dubuque 3. Worcester Polytechnic Institute 4. The College of Wooster

    Through this 4-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.

    https://qubeshub.org/publications/1832/?v=3

17. You and Your Oral Microflora: Introducing non-biology majors to their “forgotten organ”

    22 Aug 2021 | Teaching Materials | Contributor(s):

    By Anna K. Strain¹, Kieng B. Vang¹

    University of Minnesota

    With limited time available for laboratory activities, introductory science courses for non-science majors typically use the laboratory period to reinforce material that was previously presented...

    https://qubeshub.org/publications/2514/?v=1