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All Categories (1-20 of 234)

  1. Phage Comparative Genomics Lab Manual

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

    By Andrew Kapinos1, Canela Torres2, Amanda Freise2

    1. University of California, San Diego 2. University of California, Los Angeles

    A lab manual containing detailed instructions for several bioinformatics tools (dot plots, Phamerator maps, phylogenetic trees, and gene content similarity), all of which enable students to perform...

    https://qubeshub.org/publications/2745/?v=1

  2. Nextstrain adaptations for Understanding COVID-19

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

    By Keith A. Johnson

    Bradley University College of Liberal Arts and Sciences

    This resource introduces students to the use of Nextstrain and Nextclade to visualize the phylogeny of SARS-CoV-2 variants of concern and variants of interest. Terminology and an introduction to...

    https://qubeshub.org/publications/2545/?v=1

  3. Climate change and Strawberries: A real-life problem-based activity for teaching ANOVA

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

    By Nicole Hopkins1, Holly Felker1, Catharine Dickerson1, Terry O'Brien1, Dex Whittinghill1, Nathan Ruhl1

    Rowan University

    This is a real-life lab activity for teaching ANOVA using Problem-Based Learning and formatted for one-day (JMP or R) or two-day (JMP) implementations.

    https://qubeshub.org/publications/2503/?v=1

  4. Exploring Plant Phenology using Herbarium Specimens: Lab or Workshop

    29 Jul 2021 | Teaching Materials | Contributor(s):

    By Katie Pearson1, Tadeo Ramirez Parada2, Susan Mazer2, Natalie Rossington Love1, Jenn Yost1

    1. California Polytechnic State University 2. University of California, Santa Barbara

    In this workshop or lab exercise, participants will examine the effects of climate on the phenological events of a selected species using herbarium specimen data.

    https://qubeshub.org/publications/2476/?v=1

  5. Grassy Narrows and Muskrat Falls Dam: Hypothesis Testing and t-Tests

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

    By Alida Janmaat1, Pete Kaslik2, Randall LaRue Moser Jr, Kevin David Simpson, Heather Susanne Zimbler-DeLorenzo3

    1. University of the Fraser Valley 2. Pierce College 3. Alfred University

    Students are introduced to concepts of hypothesis testing using elementary hypothesis tests, t-tests, and p-values as they compare a given fish population for methylmercury levels (using real and...

    https://qubeshub.org/publications/2434/?v=1

  6. Digital Herbarium Lab with RStudio: Are shifting abundances of native species detectable over time?

    23 Jul 2021 | Teaching Materials | Contributor(s):

    By Rebecca Penny Humphrey

    Aquinas College

    This 2- to 3-hour lab activity introduces sophomore-level students to digitized herbarium collections, R-coding, and potential reasons for shifting abundances in native and non-native plant species...

    https://qubeshub.org/publications/2482/?v=1

  7. A Phenology-focused CURE using Herbarium Specimen Data

    09 Jul 2021 | Teaching Materials | Contributor(s):

    By Katie D. Pearson1, Susan J. Mazer2, Tadeo Ramirez Parada2, Natalie Love2, Jenn M. Yost1

    1. California Polytechnic State University, San Luis Obispo 2. UC Santa Barbara

    10-week course-based undergraduate research experience in which students conduct novel research on the effects of climate on phenological events (e.g., flowering) of a plant species using publicly...

    https://qubeshub.org/publications/1956/?v=3

  8. RNAseq data analysis using Galaxy

    02 Jul 2021 | Teaching Materials | Contributor(s):

    By Matthew Escobar1, Sam S Donovan2, Irina Makarevitch3, Bill Morgan4, Sabrina Robertson5

    1. California State University San Marcos 2. University of Pittsburgh 3. Hamline University 4. The College of Wooster 5. North Carolina State University

    This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

    https://qubeshub.org/publications/118/?v=4

  9. Human Dimensions in Amphibian Conservation: Addressing Threats

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

    By Jennifer Sevin1, Alexa Warwick2, M. Caitlin Fisher-Reid3, Sarah Raisch2

    1. University of Richmond 2. Michigan State University 3. Bridgewater State University

    This module introduces students to the theme of human dimensions in conservation and provides them with an opportunity to engage in practices related to social science research.

    https://qubeshub.org/publications/2461/?v=1

  10. Ecology of Infectious Disease: Data Mining the National Notifiable Diseases Surveillance System (NNDSS) for Ecological Patterns

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

    By M. Caitlin Fisher-Reid

    Bridgewater State University

    How to use publicly available infection case data to teach ecology and evolution of human infectious diseases.

    https://qubeshub.org/publications/2453/?v=1

  11. Teaching Data Viz and Communication as an Undergraduate Biology Course: Syllabus and Resources

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

    By Angie Hilliker1, Kristine Grayson1

    University of Richmond

    Teaching materials co-developed for a new upper-level undergraduate biology course to teach data exploration and communication without requiring previous coding experience.

    https://qubeshub.org/publications/2450/?v=1

  12. Teaching Data Viz and Communication as an Undergraduate Biology Course: Assignments and Projects

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

    By Kristine Grayson1, Angie Hilliker1

    University of Richmond

    Teaching materials co-developed for a new upper-level undergraduate biology course to teach data exploration and communication without requiring previous coding experience.

    https://qubeshub.org/publications/2452/?v=1

  13. A Phenology-focused CURE using Herbarium Specimen Data

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

    By Katie D. Pearson1, Susan J. Mazer2, Tadeo Parada2, Natalie Love2, Jenn M. Yost1

    1. California Polytechnic State University, San Luis Obispo 2. UC Santa Barbara

    10-week course-based undergraduate research experience in which students conduct novel research on the effects of climate on phenological events (e.g., flowering) of a plant species using publicly...

    https://qubeshub.org/publications/1956/?v=2

  14. 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

  15. Developing a phylogram from computational resources.

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

    By Melanie Lenahan1, Shea Cinquemani1

    Raritan Valley Community College

    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/2404/?v=1

  16. Single Factor Analysis of Variance (ANOVA)

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

    By Peter M. Smyntek

    Saint Vincent College

    This swirl lesson introduces students to theoretical and practical concepts about single-factor ANOVA analysis and an approach to conduct this type of analysis using R.

    https://qubeshub.org/publications/2390/?v=1

  17. 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

  18. Advanced Student Molecular Case Study Authorship Scaffolded Project and Rubric

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

    By Kasandra Riley (She/Her)

    Rollins College

    Instructions, assignment prompts, and a rubric for assessing advanced undergraduate authorship of molecular case studies

    https://qubeshub.org/publications/2382/?v=1

  19. Comparative Landscape Ecology Project using RStudio Cloud (Project EDDIE)

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

    By Elizabeth Ferguson

    This modified version incorporates the use of RStudio Cloud for easier remote instruction, and culminates in an exploratory project comparing the influence of patch metrics on vegetation health for...

    https://qubeshub.org/publications/2378/?v=1

  20. Lichen Niches and Distributions Lab Activity

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

    By Jessica Coyle

    This is a 2-part lab activity based on the EREN-NEON Flexible Learning Project: Lichens in Diverse Landscapes. Students conduct field surveys of lichen abundance near their homes and explore...

    https://qubeshub.org/publications/2374/?v=1