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  1. Tackling "Big Data" with Biology Undergrads: A Simple RNA-seq Data Analysis Tutorial Using Galaxy

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

    By Matthew Anthony Escobar*1, William Morgan2, Irina Makarevitch3, Sabrina Robertson4

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

    Analyzing high-throughput DNA sequence data is a fundamental skill in modern biology. However, real and perceived barriers such as massive file sizes, substantial computational requirements, and...

    https://qubeshub.org/publications/2626/?v=1

  2. CURE-all: Large Scale Implementation of Authentic DNA Barcoding Research into First-Year Biology Curriculum

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

    By Oliver Hyman*1, Elizabeth Doyle1, Joseph Harsh1, Joanna Mott2, Andrea Pesce1, Bejan Rasoul1, Kyle Seifert1, Ray Enke1

    1. James Madison University 2. California State University

    Growing calls in science education reform have emphasized wide-scale engagement of first-year undergraduate students in authentic research experiences; however, large course enrollments, inadequate...

    https://qubeshub.org/publications/2625/?v=1

  3. Making toast: Using analogies to explore concepts in bioinformatics

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

    By Kate L. Hertweck

    University of Texas at Tyler

    Contemporary biology is moving towards heavy reliance on computational methods to manage, find patterns, and derive meaning from large-scale data, such as genomic sequences. Biology teachers are...

    https://qubeshub.org/publications/2559/?v=1

  4. Teaching RNAseq at Undergraduate Institutions: A tutorial and R package from the Genome Consortium for Active Teaching

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

    By Mark Phillip Peterson1, Jacob T Malloy2, Vincent P Buonaccorsi2, James H Marden3

    1. Viterbo University 2. Juniata College 3. Pennsylvania State University

    Next-generation sequencing is radically changing the study of biology, but there are currently few resources aimed at teaching the required laboratory and data-analysis skills to undergraduate...

    https://qubeshub.org/publications/2538/?v=1

  5. Homologous chromosomes? Exploring human sex chromosomes, sex determination and sex reversal using bioinformatics approaches

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

    By Kelsey Metzger

    University of Minnesota, Rochester

    Constructing a robust understanding of homologous chromosomes, sex chromosomes, and the particulate nature of genes is a notoriously difficult task for undergraduate biology students. In this...

    https://qubeshub.org/publications/2521/?v=1

  6. 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

  7. 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

  8. Hemoglobin bioinformatics

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

    By Keith A. Johnson

    Bradley University College of Liberal Arts and Sciences

    This is an introduction to bioinformatics using hemoglobin as an example. The worksheets introduce students to resources to explore the DNA, RNA and polypeptide linear structure with a brief...

    https://qubeshub.org/publications/2416/?v=1

  9. Sequence Similarity: A Quick Introduction to Bioconductor

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

    By Derek Edward Sollberger

    UC Merced School of Natural Sciences

    Following the Sequence Similarity exercises by Kleinschmit, et al., this tutorial will guide students in using the Bioconductor suite of R packages to likewise compute sequence similarity.

    https://qubeshub.org/publications/2410/?v=1

  10. An Introduction to the R Programming Environment

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

    By K. A. Garrett1, P. D. Esker1, A. H. Sparks1

    Kansas State University

    An online module introducing students and biologists to R, published in American Phytopathological Society

    https://qubeshub.org/publications/1002/?v=2

  11. 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

  12. 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

  13. 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

  14. Joy Buongiorno

    Environmental microbiologist, geobiologist, and educator.See website for more details: https://jbuongio.github.io/

    https://qubeshub.org/community/members/21487

  15. Lauren E Yaich

    https://qubeshub.org/community/members/19692

  16. Deborah Eastman

    https://qubeshub.org/community/members/19672

  17. 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

  18. Tiffany Geistkemper

    https://qubeshub.org/community/members/19505

  19. Jeffrey McLean

    https://qubeshub.org/community/members/19337

  20. Amanda Stahlke

    https://qubeshub.org/community/members/19077

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