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All Categories (1-20 of 41)

1. Following the Data

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

   By Anna Monfils¹, Debra Linton¹, Molly Phillips², Libby Ellwood³

   1. Central Michigan University 2. iDigBio, Florida Museum of Natural History, University of Florida 3. iDigBio

   The video and exercise provides insight into how researchers are using digital data resources to investigate biodiversity in prairie fen wetlands.

   https://qubeshub.org/qubesresources/publications/1137/?v=1

2. Species Range Over Space and Time

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

   By Debra Linton¹, Anna Monfils¹, Libby Ellwood², Molly Phillips³

   1. Central Michigan University 2. iDigBio 3. iDigBio, Florida Museum of Natural History, University of Florida

   In this module, students use data from natural history collections to look at range shifts related to climate variables over different time periods.

   https://qubeshub.org/qubesresources/publications/1106/?v=1

3. Amylase Copy Number and Diet

   10 Mar 2019 | Teaching Materials | Contributor(s):

   By Rebecca Orr¹, Ruth Buskirk², Kristin Harvey²

   1. Collin College 2. University of Texas at Austin

   An adapted module from HHMI Spreadsheet Tutorials using amylase data for students to gain data analysis and excel skills

   https://qubeshub.org/qubesresources/publications/308/?v=2

4. Intro to Command Line Coding Genomics Analysis

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

   By Rachael St. Jacques¹, Max Maza¹, Ray A Enke¹

   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/qubesresources/publications/1092/?v=1

5. Cell Aggregation and Sphere Packing

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

   By Lou Gross¹, Monica Beals¹, Susan Harrell¹

   University of Tennessee Knoxville

   This module introduces the calculation of packing density in the context of understanding cell aggregation and arrangement. It is intended for an introductory biology audience.

   https://qubeshub.org/qubesresources/publications/1039/?v=1

6. Exploring the functionality of R

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

   By Austin Happel

   Colorado State University

   Students work with example data to generate a length-weight plot and use lm() to obtain regression coefficients. Base plot functions are used to plot both the data and the regression line.

   https://qubeshub.org/qubesresources/publications/1024/?v=1

7. Evolutionary Ecophysiology swirl lesson

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

   By Nadia Aubin-Horth

   Université Laval

   Uses swirl to walk students through how to use R and analyze their own data.

   https://qubeshub.org/qubesresources/publications/1023/?v=1

8. Two-Way ANOVA

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

   By Didem Ikis

   Towson University

   In this lesson, students will learn the necessary statistical terms to understand two-way ANOVA, how to visualize their data, how to perform two-way ANOVA and interpret their results, and how to...

   https://qubeshub.org/qubesresources/publications/1020/?v=1

9. Histograms and Boxplots

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

   By Suann Yang

   SUNY Geneseo

   This lesson, created for an introductory ecology course, focuses on helping novice R users to import a data file, apply base R plotting functions, and use R Markdown to generate a reproducible report.

   https://qubeshub.org/qubesresources/publications/1019/?v=1

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

    04 Jan 2019 | 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

    This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to...

    https://qubeshub.org/qubesresources/publications/1005/?v=1

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

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

    By Kelsey Metzger

    University of Minnesota, Rochester

    In this four- part guided activity, students will learn about the structure and function of human autosomal and sex chromosomes, view and interpret gene maps, and gain familiarity with basic...

    https://qubeshub.org/qubesresources/publications/1000/?v=1

12. 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/qubesresources/publications/999/?v=1

13. Regulation Across Scales: Data Points Icebreaker Jigsaw

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

    By Kristine Grayson

    University of Richmond

    Students examine regulation at cellular, physiological, and ecological scales in a data-based jigsaw to explore how double-negative logic operates across biological systems. This was used as a...

    https://qubeshub.org/qubesresources/publications/985/?v=1

14. MathBench: Evolved Immunity for Introductory Environmental Science

    19 Dec 2018 | Teaching Materials | Contributor(s):

    By James Burton Deemy

    College of Coastal Georgia

    The Evolved Immunity module was the focal module for this lesson. Evolved Immunity was chosen because this module includes content and quantitative elements from a range of lab and lecture topics...

    https://qubeshub.org/qubesresources/publications/960/?v=1

15. Data Management Adaptation: Correlating Forest Community Dynamics to Climate

    19 Dec 2018 | Datasets | Contributor(s):

    By Sarah McCarthy-Neumann

    Alma College

    Students use vegetation structure data from the National Ecological Observatory Network to understand necessary steps of data management from data collection to data analysis by correlating...

    https://qubeshub.org/qubesresources/publications/959/?v=1

16. NEON Data in the Classroom: Implementing and Adapting an Open Education NEON Resource “Quantifying the Drivers and Impacts of Natural Disturbance Events-The 2013 Colorado Floods” for the Southern California Classroom.

    11 Dec 2018 | Teaching Materials | Contributor(s):

    By Adriane Clark Jones

    Mount Saint Mary's University

    Natural disasters and subsequent ecological disturbance events illustrate the complexity of problems in ecology and environmental science, and can be used as effective teaching tools. Unpacking the...

    https://qubeshub.org/qubesresources/publications/954/?v=1

17. Lesson V - Phylogenetics

    31 Oct 2018 | Teaching Materials | Contributor(s):

    By Anne Rosenwald¹, Gaurav Arora², Vinayak Mathur³

    1. Georgetown University 2. Gallaudet University 3. Cabrini University

    Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Lesson V is an introduction to Phylogenetics.

    https://qubeshub.org/qubesresources/publications/858/?v=1

18. Lesson IV - Comparative Genomics

    31 Oct 2018 | Teaching Materials | Contributor(s):

    By Anne Rosenwald¹, Gaurav Arora², Vinayak Mathur³

    1. Georgetown University 2. Gallaudet University 3. Cabrini University

    Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Lesson IV, Comparative Genomics, discusses some of the tools...

    https://qubeshub.org/qubesresources/publications/857/?v=1

19. Lesson III - Annotation

    31 Oct 2018 | Teaching Materials | Contributor(s):

    By Anne Rosenwald¹, Gaurav Arora², Vinayak Mathur³

    1. Georgetown University 2. Gallaudet University 3. Cabrini University

    Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Lesson III introduces Annotation, or assigning meaning to all...

    https://qubeshub.org/qubesresources/publications/856/?v=1

20. Lesson II - Databases

    31 Oct 2018 | Teaching Materials | Contributor(s):

    By Anne Rosenwald¹, Gaurav Arora², Vinayak Mathur³

    1. Georgetown University 2. Gallaudet University 3. Cabrini University

    Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Lesson II introduces the principal databases for microbial...

    https://qubeshub.org/qubesresources/publications/855/?v=1