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Resources (1-20 of 51)

  1. A CURE for Salmonella: A Laboratory Course in Pathogen Microbiology and Genomics

    15 Sep 2021 | Teaching Materials | Contributor(s):

    By Sophie K. Jurgensen1, Joseph Harsh2, James B. Herrick*2

    1. James Madison University, Louisiana State University 2. James Madison University

    Rapid advances in genomics and bioinformatics, the vast amount of data generated by next-generation sequencing, and the penetration of the ‘-omics’ into many areas of biology have created a need...

    https://qubeshub.org/publications/2749/?v=1

  2. A Fun Introductory Command Line Exercise: Next Generation Sequencing Quality Analysis with Emoji!

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

    By Rachael St. Jacques1, Max Maza1, Sabrina Robertson2, Guoqing Lu3, Andrew Lonsdale4, Ray A Enke5

    1. Department of Biology, James Madison University 2. Department of Psychology & Neuroscience, University of North Carolina at Chapel Hill 3. Department of Biology and School of Interdisciplinary Informatics, University of Nebraska Omaha 4. ARC Centre of Excellence in Plant Cell Walls, Melbourne University 5. James Madison University

    This resource is a fun computer-based intro to command line programming. The activity takes FASTQ NGS data files and runs a fun program called FASTQE.

    https://qubeshub.org/publications/1092/?v=2

  3. A Fun Introductory Command Line Exercise: Next Generation Sequencing Quality Analysis with Emoji!

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

    By Rachael St. Jacques1, Max Maza1, Sabrina Robertson2, Guoqing Lu3, Andrew Lonsdale4, Ray A Enke5

    1. Department of Biology, James Madison University 2. Department of Psychology & Neuroscience, University of North Carolina at Chapel Hill 3. Department of Biology and School of Interdisciplinary Informatics, University of Nebraska Omaha 4. ARC Centre of Excellence in Plant Cell Walls, Melbourne University 5. James Madison University

    This resource is a fun computer-based intro to command line programming. The activity takes FASTQ NGS data files and runs a fun program called FASTQE.

    https://qubeshub.org/publications/1092/?v=1

  4. A Fun Introductory Command Line Lesson: Next Generation Sequencing Quality Analysis with Emoji!

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

    By Rachael M. St. Jacques †1, William M. Maza †1, Sabrina D. Robertson2, Andrew Lonsdale3, Caylin S. Murray1, Jason J. Williams4, Ray A. Enke*1

    1. James Madison University 2. University of North Carolina Chapel Hill 3. University of Melbourne 4. Cold Spring Harbor Laboratory, DNA Learning Center

    Radical innovations in DNA sequencing technology over the past decade have created an increased need for computational bioinformatics analyses in the 21st century STEM workforce. Recent...

    https://qubeshub.org/publications/2727/?v=1

  5. A Hands-on Introduction to Hidden Markov Models

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

    By Tony Weisstein1, Elena Gracheva2, Zane Goodwin2, Zongtai Qi2, Wilson Leung2, Christopher D. Shaffer2, Sarah C.R. Elgin2

    1. Truman State University 2. Washington University in St. Louis

    A lesson in which students will understand the basic structure of an HMM, the types of data used in ab initio gene prediction, and its consequent limitations.

    https://qubeshub.org/publications/999/?v=1

  6. Aging and Circular RNAs

    13 Apr 2018 | Teaching Materials | Contributor(s):

    By Pedro Miura

    University of Nevada, Reno

    A science FIT seminar presented to incoming freshmen at UNR

    https://qubeshub.org/publications/480/?v=1

  7. An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure

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

    By Meg M. Laakso1, Leocadia V. Paliulis2, Paula Croonquist3, Brianna Derr2, Elena Gracheva4, Charles Hauser5, Carina Howell6, Christopher Jones7, Jacob D. Kagey8, Jennifer Kennell9, S. Catherine Silver Key10, Hemlata Mistry11, Srebrenka Robic12, Jamie Sanford13, Marisol Santisteban14, Chiyedza Small15, Rebecca Spokony16, Joyce Stamm17, Melanie Van Stry18, Wilson Leung4, Sarah C.R. Elgin4

    1. Eastern University 2. Bucknell University 3. Anoka-Ramsey Community College 4. Washington University in St. Louis 5. St. Edward’s University 6. Lock Haven University 7. Moravian College 8. University of Detroit Mercy 9. Vassar College 10. North Carolina Central University 11. Widener University 12. Agnes Scott College 13. Ohio Northern University 14. The University of North Carolina at Pembroke 15. Medgar Evers College, The City University of New York 16. Baruch College, The City University of New York 17. University of Evansville 18. Lane College

    Gene structure, transcription, translation, and alternative splicing are challenging concepts for many undergraduates studying biology. These topics are typically covered in a traditional lecture...

    https://qubeshub.org/publications/2592/?v=1

  8. Bioimage Informatics Activity

    26 Jul 2018 | Teaching Materials | Contributor(s):

    By David Julian

    Univ of Florida

    Students use basic bioimage informatics techniques to acquire quantitative data from images of cultured cells and test a hypothesis about the effect of a genetic mutation on cellular phenotypes

    https://qubeshub.org/publications/729/?v=1

  9. Cancer Discovery Activities

    17 Jan 2018 | Teaching Materials | Contributor(s):

    By HHMI BioInteractive

    These two hands-on activities are based on a Howard Hughes Medical Institute 2013 Holiday Lectures on Science video (http://www.hhmi.org/biointeractive/cancer-genetic-disease-video-highlights)...

    https://qubeshub.org/publications/294/?v=1

  10. Declare and intialize arrays in Java

    16 Apr 2018 | Teaching Materials | Contributor(s):

    By Hong Qin

    Spelman College

    UTC, CPSC1100

    https://qubeshub.org/publications/496/?v=1

  11. Drug screening and cancer resistance: EGFR Activity

    25 Jul 2018 | Teaching Materials | Contributor(s):

    By Holly Basta

    Rock Mountain College

    This activity explores a specific gene (egfr) and its role in cancer. EGFR was introduced with the Gene Card Activities, researched throughout the semester, and then authentic image data of...

    https://qubeshub.org/publications/720/?v=1

  12. Foundations of Bioinformatics (BGGN-213)

    13 Apr 2018 | Teaching Materials | Contributor(s):

    By Barry Grant

    University of California - San Diego

    This first short screen-cast introduces “Foundations of Bioinformatics” (BGGN-213) course at UCSD and covers some pre-course logistics.

    https://qubeshub.org/publications/475/?v=1

  13. GEA Introductory lesson on BLAST

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

    By Justin DiAngelo1, Alexis Nagengast2, Wilson Leung3, Douglas L Chalker3

    1. Penn State Berks 2. Widener University 3. Washington University in St. Louis

    The "Introduction to BLAST using Human Leptin" exercise aims to introduce students to the use of the Basic Local Alignment Search Tool (BLAST) to identify related sequences and compare similarity...

    https://qubeshub.org/publications/1987/?v=1

  14. Genomics Education Alliance: A Collection of Posters for the 2020 BIOME Institute.

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

    By Vince Buonaccorsi1, Marcella Denise Cervantes2, Douglas L Chalker3, Anne Rosenwald4, Emily Wiley5, Jason Williams

    1. Juniata College 2. Albion College 3. Washington University in St. Louis 4. Georgetown University 5. Claremont McKenna College

    This is a collection of posters from members of the Genomics Education Alliance (GEA) that will be presented at the 2020 BIOME Institute.

    https://qubeshub.org/publications/1973/?v=1

  15. Genomics Education Alliance: Towards Genomics CURE templates

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

    By Vince Buonaccorsi1, Arthur Hunt2, Emily Wiley3, Sandesh Subramanya4, Wilson Leung5, Sally Elgin6

    1. Juniata College 2. University of Kentucky Lexington 3. Claremont McKenna College 4. Austin Community College 5. Washington University in St. Louis 6. Washington University - St. Louis

    Here we present major findings of a national survey of faculty teaching genomics CUREs conducted by the GEA, and our work on presenting relevant resources on the QUBES web portal.

    https://qubeshub.org/publications/1982/?v=1

  16. Geoscience Methods and Resources for K-5 Pre-Education Majors

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

    By James Burton Deemy

    College of Coastal Georgia

    : Exploring Geoscience Methods was an excellent capstone experience for Elementary Education Majors. The class I used this module with was 24 students of various backgrounds and academic...

    https://qubeshub.org/publications/572/?v=1

  17. GSEAtheory

    10 Apr 2018 | Teaching Materials | Contributor(s):

    By Laura Harris

    Davenport University

    Brief introduction to how gene set enrichment analysis works.

    https://qubeshub.org/publications/462/?v=1

  18. How do we do Bioinformatics?

    13 Apr 2018 | Teaching Materials | Contributor(s):

    By Barry Grant

    University of California - San Diego

    A description of the computational setup for “Foundations of Bioinformatics” (BGGN-213) See: http://thegrantlab.org/bggn213/

    https://qubeshub.org/publications/477/?v=1

  19. How to create "funny symbols" (aka math / statistical notation) in Microsoft Word / Office

    10 Apr 2018 | Teaching Materials | Contributor(s):

    By Laura Harris

    Davenport University

    YouTube video on using statistical notation in Microsoft Word.

    https://qubeshub.org/publications/459/?v=1

  20. Investigating Cell Signaling with Gene Expression Datasets

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

    By James M. Wachira1, Cleo A. Hughes-Darden1, Asamoah Nkwanta1

    Morgan State University

    Modern molecular biology is a data- and computationally-intensive field with few instructional resources for introducing undergraduate students to the requisite skills and techniques for analyzing...

    https://qubeshub.org/publications/2618/?v=1

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