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An Introduction to Biodiversity Databases and Specimen Images
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2019-12-04 19:33:58 | Teaching Materials | Contributor(s): Amanda Fisher | doi:10.25334/1NCG-T718
In this module, students will be introduced to some biodiversity data resources and how to search for and download herbarium specimen images. They will be asked to think critically about the strengths and utility of these data resources.
Neochromosomes: Creating transcriptional units with yeast Golden Gate assembly
2019-10-29 14:18:59 | Teaching Materials | Contributor(s): Eric Cooper | doi:10.25334/3J95-S075
This resource is a series of protocols using the yeast Golden Gate (yGG) method as developed by Neta Agmon and Leslie Mitchell in Jef Boeke’s lab to assemble a functional yeast gene with protein-coding and regulatory sequences.
A Curious Display
2019-10-28 16:56:17 | Teaching Materials | Contributor(s): Margaret Waterman, Brandon Call, Sandi Connelly, Kristin Jenkins, Sam Catherine Johnston, Vedham Karpakakunjaram, Viet Le, Hayley Orndorf, Melissa Skyer, Barbara Spiecker | doi:10.25334/979W-CY69
Case study on genetically modified organisms
Introduction to Data Management and Metadata using NEON aquatic macroinvertebrate data
2019-09-30 14:46:25 | Teaching Materials | Contributor(s): Kaitlin Stack Whitney | doi:10.25334/SJX1-F373
This lesson focuses on understanding metadata, the data about the data, using aquatic macroinvertebrate abundance and species information from a variety of NEON sampling locations.
REMNet Tutorial, R Part 5: Normalizing Microbiome Data in R 5.2.19
2019-08-28 17:54:52 | Teaching Materials | Contributor(s): Jessica Joyner | doi:10.25334/M13H-XT81
Video on normalizing microbiome data from the Research Experiences in Microbiomes Network
REMNet Tutorial, R Part 4: Creating Taxa Plots in R 5.2.19
2019-08-28 17:51:38 | Teaching Materials | Contributor(s): Jessica Joyner | doi:10.25334/X2ZY-P855
Video on making taxa bar plots in R from the Research Experiences in Microbiomes Network
Examining human impacts on tusk evolution in elephants using authentic research data using Serenity
2019-07-13 18:23:55 | Teaching Materials | Contributor(s): Kaitlin Bonner | doi:10.25334/D87T-FS18
In this activity students explore and analyze real, authentic research data paired with HHMI’s “Selection for Tuskless Elephants” video in a hands-on investigation of human impacts on elephant evolution using the R-Shiny App, Serenity.
Does Organelle Shape Matter? Exploring Cell Shape through the Allen Cell Explorer and High-content Microscopy Datasets
2019-06-12 18:36:07 | Teaching Materials | Contributor(s): Carlos Christopher Goller, Kaitlyn Casimo | doi:10.25334/Q4RB3R
The morphology and localization of structures inside the cell are often assumed to fit the ideal images found in biology textbooks. This interrupted case study using high-throughput microscopy data from the Allen Institute addresses this...
2019-06-11 18:02:00 | Teaching Materials | Contributor(s): James Burton Deemy | doi:10.25334/Q4W462
In this exercise students work in groups to design an agroecosystem to feed a Mars Colony while accounting for space and energy transfer limitations.
2019-06-11 17:09:07 | Teaching Materials | Contributor(s): James Burton Deemy | doi:10.25334/Q40T8N
This is an exercise in island biogeography that allows students to reconstruct splits in the evolutionary history of several hypothetical frog species.
A Fun Introductory Command Line Exercise: Next Generation Sequencing Quality Analysis with Emoji!
2019-06-07 20:09:22 | Teaching Materials | Contributor(s): Rachael St. Jacques, Max Maza, Sabrina Robertson, Guoqing Lu, Andrew Lonsdale, Ray A Enke | doi:10.25334/Q4D172
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.
Exploring how climate will impact plant-insect distributions and interactions using open data and informatics
2019-06-06 19:44:39 | Teaching Materials | Contributor(s): Wendy Clement, Kathleen Prudic, Jeffrey Oliver | doi:10.25334/Q41T9B
This teaching module provides an entry point for students to learn about data science, open data repositories (e.g., citizen science data), and species distribution modeling to study the effects of climate change on butterfly-host plant interactions.
Figure of the Day - Teaching Notes - Boersma
2019-06-01 23:03:59 | Teaching Materials | Contributor(s): Kate S Boersma | doi:10.25334/Q48F3F
Teaching notes from my application of Figure of the Day in my BIOL305 Ecology lecture course for biology majors.
Introduction to Growth Mindset - Teaching Notes - Boersma
2019-06-01 22:52:23 | Teaching Materials | Contributor(s): Kate S Boersma | doi:10.25334/Q4HX8B
Teaching notes from my use of BIOMAAP Growth Mindset teaching materials in my 300 level Ecology class for majors.
Modification of "Exploring the population dynamics of wintering bald eagles through long-term data" module
2019-05-30 19:43:52 | Teaching Materials | Contributor(s): Kaitlin Stack Whitney | doi:10.25334/Q4RF2D
This module is a modification of the Beckstead et al. module in TIEE Volume 7. It includes a meta-cognition based model and self reflection, no statistics, and is organized to be done in 1-2 lab/in-class periods (no advance reading, no homework).
Processes that Regulate Patterns of Species and Genetic Diversity
2019-05-29 18:31:40 | Teaching Materials | Contributor(s): Jillian K. Decker | doi:10.25334/Q47M94
This activity was developed for an undergraduate upper level ecology course for Environmental or Biological Science majors. Classes of ~20 students work best for the activity.
Bioinformatics: Investigating Sequence Similarity - A Plant Biology Approach
2019-05-29 18:10:28 | Teaching Materials | Contributor(s): Ami Erickson | doi:10.25334/Q4H458
This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein sequences between Arabidopsis, moss and yeast.
Exam Reflective Writing Activities (4 different prompts)
2019-05-28 21:42:48 | Teaching Materials | Contributor(s): Polly Parks | doi:10.25334/Q4SN01
This is an extended version of Reflective Writing activities to use before 4 different exams.
Plant Defenses and Bioprospecting Mini-case Study
2019-05-27 18:40:30 | Teaching Materials | Contributor(s): John Anthony Barone | doi:10.25334/Q4PT7G
This narrative mini-case study for use in undergraduate ecology courses reviews plant defense theory within the context of bioprospecting. Students learn about factors affecting plant defenses and how to search for bioactive compounds.
Competition under the Sea: Exploring the competitive interaction between native and non-native seagrasses in the Caribbean
2019-05-27 01:55:45 | Teaching Materials | Contributor(s): Demian Alexander Willette | doi:10.25334/Q4TM9D
A mini-case study that uses real-world data to explore the competitive interaction among seagrasses.
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