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1. Introduction to UNIX command line

   22 Jan 2020 | Teaching Materials | Contributor(s):

   By Serghei Mangul¹, Kristen Butela², Michael Sierk³, Lihua Stefan

   1. University of California - Los Angeles 2. University of Pittsburgh 3. Saint Vincent College

   A laboratory module for an upper-level undergraduate biology course in which students will be able to carry out simple tasks using the Unix command-line environment.

   https://qubeshub.org/qubesresources/publications/731/?v=2

2. Following the Data - PowerPoint Addition to Module

   10 Jan 2020 | Teaching Materials | Contributor(s):

   By Darlene Panvini

   Belmont University

   This PowerPoint presentation guides instructors and students through the key background information for the module.

   https://qubeshub.org/qubesresources/publications/1736/?v=1

3. Data is the New Science - Modified and combined with Following the Data Module

   10 Jan 2020 | Teaching Materials | Contributor(s):

   By Darlene Panvini

   Belmont University

   In this module, students will be introduced to some emerging biodiversity data resources. They will be asked to think critically about the strengths and utility of these data resources and apply...

   https://qubeshub.org/qubesresources/publications/1735/?v=1

4. BLAST Exercises for Analyzing Cloning Results

   09 Jan 2020 | Teaching Materials | Contributor(s):

   By Erin R. Morris

   Baker University

   Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. These activities have modified Lesson 1: Introduction to Genome...

   https://qubeshub.org/qubesresources/publications/1734/?v=1

5. Databases: A Study of Influenza

   09 Jan 2020 | Teaching Materials | Contributor(s):

   By Selene Nikaido

   University of Central Missouri

   This lesson introduces the student to the Influenza Research Database. Students will select Influenza genome sequences to see how they are related. Students tests hypotheses about evolutionary...

   https://qubeshub.org/qubesresources/publications/1642/?v=1

6. Introduction to Genome Annotation

   09 Jan 2020 | Teaching Materials | Contributor(s):

   By Selene Nikaido

   University of Central Missouri

   This exercise is an adaptation of the Annotation Lesson by Rosenwald et al. It introduces the use of bioinformatics tools to extract information from genome databases. It is a basic lesson on...

   https://qubeshub.org/qubesresources/publications/1560/?v=1

7. BLAST-HGT PROJECT

   07 Jan 2020 | Teaching Materials | Contributor(s):

   By Shawna Reed

   Quinnipiac University

   Genome Solver modules were combined to make one project for students using tools within NCBI BLAST to explore phylogenetics and horizontal gene transfer from phage to Chlamydia.

   https://qubeshub.org/qubesresources/publications/1688/?v=1

8. Developing Quantitative Skills Using HHMI BioInteractive Resources

   03 Jan 2020 | Teaching Materials | Contributor(s):

   By Robin Bulleri¹, Kristine Grayson², Melissa Csikari³

   1. Carrboro High School 2. University of Richmond 3. Howard Hughes Medical Institute

   A workshop on using HHMI BioInteractive data activities to teach science content and quantitative skills

   https://qubeshub.org/qubesresources/publications/1090/?v=3

9. Testing hypotheses about the role of wildfire in structuring avian communities

   19 Dec 2019 | Teaching Materials | Contributor(s):

   By Lesley Bulluck

   Virginia Commonwealth University, Center for Environmental Studies

   This module assesses the role of wildfire in the eastern US and its impact on bird communities using NEON bird survey data from pre- and post- a major wildfire in the Great Smoky Mountains National...

   https://qubeshub.org/qubesresources/publications/957/?v=2

10. Biodiversity research using digitized, internet-based natural history collections

    17 Dec 2019 | Teaching Materials | Contributor(s):

    By Kaitlin Stack Whitney

    Rochester Institute of Technology

    Collections based research is a critical tool for organismal biology and biodiversity research. Yet natural history collections have a complicated past. This multi-class module examines the...

    https://qubeshub.org/qubesresources/publications/1553/?v=1

11. An Introduction to Biodiversity Databases and Specimen Images

    04 Dec 2019 | Teaching Materials | Contributor(s):

    By Amanda Fisher

    Long Beach State University

    In this module, students will be introduced to some biodiversity data resources and how to search for and download herbarium specimen images. They will be asked to think critically about the...

    https://qubeshub.org/qubesresources/publications/1493/?v=1

12. Neochromosomes: Creating transcriptional units with yeast Golden Gate assembly

    29 Oct 2019 | Teaching Materials | Contributor(s):

    By Eric Cooper

    Hartwick College

    This resource is a series of protocols using the yeast Golden Gate (yGG) method as developed by Neta Agmon and Leslie Mitchell in Jef Boeke’s lab to assemble a functional yeast gene with...

    https://qubeshub.org/qubesresources/publications/1453/?v=2

13. Neochromosomes: Creating transcriptional units with yeast Golden Gate assembly

    28 Oct 2019 | Teaching Materials | Contributor(s):

    By Eric Cooper

    Hartwick College

    This resource is a series of protocols using the yeast Golden Gate (yGG) method as developed by Neta Agmon and Leslie Mitchell in Jef Boeke’s lab to assemble a functional yeast gene with...

    https://qubeshub.org/qubesresources/publications/1453/?v=1

14. A Curious Display

    28 Oct 2019 | Teaching Materials | Contributor(s):

    By Margaret Waterman¹, Brandon Call, Sandi Connelly², Kristin Jenkins³, Sam Catherine Johnston⁴, Vedham Karpakakunjaram⁵, Viet Le⁶, Hayley Orndorf⁷, Melissa Skyer⁸, Barbara Spiecker⁹

    1. Southeast Missouri State University 2. Rochester Institute Of Technology 3. BioQUEST 4. CAST Inc. 5. Montgomery College 6. Rochester Institute of Technology 7. University of Pittsburgh 8. National Technical Institute for the Deaf at Rochester Institute of Technology 9. Oregon State University

    Case study on genetically modified organisms

    https://qubeshub.org/qubesresources/publications/1452/?v=1

15. Introduction to Data Management and Metadata using NEON aquatic macroinvertebrate data

    30 Sep 2019 | Teaching Materials | Contributor(s):

    By Kaitlin Stack Whitney

    Rochester Institute of Technology

    This lesson focuses on understanding metadata, the data about the data, using aquatic macroinvertebrate abundance and species information from a variety of NEON sampling locations.

    https://qubeshub.org/qubesresources/publications/1429/?v=1

16. REMNet Tutorial, R Part 5: Normalizing Microbiome Data in R 5.2.19

    28 Aug 2019 | Teaching Materials | Contributor(s):

    By Jessica Joyner

    CUNY Brooklyn College

    Video on normalizing microbiome data from the Research Experiences in Microbiomes Network

    https://qubeshub.org/qubesresources/publications/1314/?v=1

17. REMNet Tutorial, R Part 4: Creating Taxa Plots in R 5.2.19

    28 Aug 2019 | Teaching Materials | Contributor(s):

    By Jessica Joyner

    CUNY Brooklyn College

    Video on making taxa bar plots in R from the Research Experiences in Microbiomes Network

    https://qubeshub.org/qubesresources/publications/1313/?v=1

18. Using Synthetic Biology to Teach Data Science

    30 Jul 2019 | Teaching Materials | Contributor(s):

    By Margaret S Saha¹, Beteel Abu-Ageel¹, Sanjana Challa¹, Xiangyi Fang¹, Chai Hibbert¹, Anna Isler¹, Elias Nafziger¹, Adam Oliver¹, Hanqiu Peng¹, Julia Urban¹, Vivian Zhu¹

    College of William and Mary

    Poster and supplemental materials on using synthetic biology to introduce students to meaningful data mining, analysis, and application to engineering novel biological constructs.

    https://qubeshub.org/qubesresources/publications/1326/?v=2

19. Examining human impacts on tusk evolution in elephants using authentic research data using Serenity

    13 Jul 2019 | Teaching Materials | Contributor(s):

    By Kaitlin Bonner

    St. John Fisher College

    In this activity students explore and analyze real, authentic research data paired with HHMI’s “Selection for Tuskless Elephants” video in a hands-on investigation of human impacts on elephant...

    https://qubeshub.org/qubesresources/publications/1350/?v=1

20. Using Synthetic Biology to Teach Data Science

    26 Jun 2019 | Teaching Materials | Contributor(s):

    By Margaret S Saha¹, Beteel Abu-Ageel¹, Sanjana Challa¹, Xiangyi Fang¹, Chai Hibbert¹, Anna Isler¹, Elias Nafziger¹, Adam Oliver¹, Hanqiu Peng¹, Julia Urban¹, Vivian Zhu¹

    College of William and Mary

    Abstract for poster on using synthetic biology to introduce students to meaningful data mining, analysis, and application to engineering novel biological constructs.

    https://qubeshub.org/qubesresources/publications/1326/?v=1