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  1. 1999-T_Chen-HL_He-GM_Church-S_Shafer-Modeling Gene Expression with Differential Equations

    26 Mar 2023 | Teaching Materials | Contributor(s):

    By Ting Chen

    NA

    The paper proposes and give great detail for a differential equation model for gene expression with two methods for constructing the model from a set of temporal data.

    https://qubeshub.org/publications/3884/?v=1

  2. Garden Variety Mutations: Using Primary Data to Understand the Central Dogma in Large-Lecture Introductory Biology

    22 Nov 2022 | Teaching Materials | Contributor(s):

    By Jacob Woodbury†1, Jessie B. Arneson†2, Jacey Anderson1, Larry Collins3, Andy Cavagnetto1, William Davis1, Erika G. Offerdahl*1

    1. Washington State University 2. University of Jamestown 3. Delta State University

    The ability to interpret and create an argument from data is a crucial skill for budding scientists, yet one that is seldom practiced in introductory courses. During this argumentation module,...

    https://qubeshub.org/publications/3559/?v=1

  3. A Laboratory Module That Explores RNA Interference and Codon Optimization Through Fluorescence Microscopy Using Caenorhabditis elegans

    11 Jul 2022 | Teaching Materials | Contributor(s):

    By Nicholas J. Palmisano1, Maryam A. Azmi1, Taylor N. Medwig-Kinney1, Frances E. Q. Moore1, Rumana Rahman1, Wan Zhang1, Rebecca C. Adikes1, David Q. Matus*1

    Stony Brook University

    Scientific research experiences are beneficial to students allowing them to gain laboratory and problem-solving skills, as well as foundational research skills in a team-based setting. We designed...

    https://qubeshub.org/publications/2949/?v=1

  4. Splicing it Together: Using Primary Data to Explore RNA Splicing and Gene Expression in Large-Lecture Introductory Biology

    28 Apr 2022 | Teaching Materials | Contributor(s):

    By Jessie B. Arneson1, Jacob Woodbury1, Jacey Anderson1, Larry B. Collins2, Andy Cavagnetto1, William B. Davis1, Erika G. Offerdahl*1

    1. Washington State University 2. Washington State University, Delta State University

    At the heart of scientific ways of knowing is the systematic collection and analysis of data, which is then used to propose an explanation of how the world works. In this two-day module, students...

    https://qubeshub.org/publications/2863/?v=1

  5. A CRISPR/Cas Guide RNA Design In Silico Activity

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

    By Leigh Ann Samsa*1, Linnea Andersen1, Adam Groth1, Carlos Goller1

    North Carolina State University

    CRISPR biotechnologies inspired by the Clustered Regularly Interspaced Short Palindromic Repeat RNA-guided nuclease adaptive bacterial immune system have revolutionized biology research and become...

    https://qubeshub.org/publications/2701/?v=1

  6. Investigating Gene Expression and Cell Specialization in Axolotl Embryos

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

    By Deborah Eastman*

    Connecticut College

    The process of cell specialization is critical to the formation and function of tissues in animals and plants. Although gene expression, including the regulation of transcription, is taught in most...

    https://qubeshub.org/publications/2671/?v=1

  7. Differential Gene Expression during Xenopus laevis Development

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

    By Emily T. Shifley*

    Northern Kentucky University

    In Developmental Biology classes, students are challenged with understanding how differential gene expression guides embryonic development. It can be difficult for students to realize that genes...

    https://qubeshub.org/publications/2649/?v=1

  8. A Short Laboratory Module to Help Infuse Metacognition during an Introductory Course-based Research Experience

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

    By Suzanne R. Lee*1, Caroline (Lina) L. Dahlberg1, Benjamin L. Wiggins2

    1. Western Washington University 2. University of Washington

    A core competency identified in Vision and Change for undergraduate biology students is the Ability to Apply the Process of Science. Here, we describe a three-week laboratory module for students in...

    https://qubeshub.org/publications/2636/?v=1

  9. 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

  10. Cell Signaling Pathways - a Case Study Approach

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

    By Lesley Emtage1, Louis Bradbury1, Natalia Coleman2, Danelle Devenport3, Amanda Nietzel4, John Grew2

    1. York College, CUNY 2. New Jersey City University 3. Princeton University 4. Macmillan Learning

    Signaling and gene expression are fundamental to cell biology and developmental biology. Although these topics are highly interrelated, they typically appear in separate units in a course. We use a...

    https://qubeshub.org/publications/2573/?v=1

  11. Using Undergraduate Molecular Biology Labs to Discover Targets of miRNAs in Humans

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

    By Adam Idica1, Jordan Thompson1, Irene Munk Pedersen1, Pavan Kadandale1

    University of California, Irvine

    Incorporating authentic research experiences into undergraduate labs, while shown to be particularly effective at engaging and retaining students in STEM majors, can be difficult to accomplish...

    https://qubeshub.org/publications/2534/?v=1

  12. 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

  13. 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

  14. Population Demography in Swirl

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

    By Emily Weigel

    Georgia Institute of Technology

    The students will learn to generate, test, and graphically represent basic hypotheses on data distributions using large datasets.

    https://qubeshub.org/publications/1214/?v=4

  15. Population Demography in Swirl

    06 Nov 2019 | Teaching Materials | Contributor(s):

    By Emily Weigel

    Georgia Institute of Technology

    The students will learn to generate, test, and graphically represent basic hypotheses on data distributions using large datasets.

    https://qubeshub.org/publications/1214/?v=3

  16. Population Demography in Swirl

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

    By Emily Weigel

    Georgia Institute of Technology

    The students will learn to generate, test, and graphically represent basic hypotheses on data distributions using large datasets.

    https://qubeshub.org/publications/1214/?v=2

  17. 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/publications/1326/?v=2

  18. Regulación de expresión génica y adipogénesis por PPAR-γ

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

    By Juan Sebastián Ramírez-Lugo

    University of Puerto Rico-Río Piedras

    En ésta actividad de dibujo / coloreado los estudiantes aprenderán sobre los diferentes componentes involucrados en la regulación de la activación de PPAR-γ, un factor de transcripción que juega un...

    https://qubeshub.org/publications/1343/?v=1

  19. The Biology of Skin Color

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

    By HHMI BioInteractive

    This film explores the hypothesis that different tones of skin color in humans arose as adaptations to the intensity of ultraviolet radiation in different parts of the world.

    https://qubeshub.org/publications/1335/?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/publications/1326/?v=1

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