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Inquiry-based hypothesis testing using phylogenetic trees in MEGA
17 Jun 2021 | Teaching Materials | Contributor(s):
By Kristin Hultgren
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...
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...
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.
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
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.
Developing a phylogram from computational resources.
By Melanie Lenahan1, Shea Cinquemani1
Raritan Valley Community College
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...
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.
BSL-4: Authorized Personnel Only
17 Aug 2020 | Teaching Materials | Contributor(s):
By Nicole Anthony
Biological Sciences, Toronto District School Board
National Center for Case Study Teaching in Science resource on the 2014 Ebola epidemic. This resource is also included in the NIBLSE Learning Resource Collection
Module 2: Transcription Part I: From DNA Sequence to Transcription Unit
25 Jul 2020 | Teaching Materials | Contributor(s):
By Maria Santisteban1, Alexa Sawa2
1. University of North Carolina - Pembroke 2. College of the Desert
This module illustrates how a primary transcript (pre-mRNA) is synthesized using a DNA molecule as the template. Students will learn about the importance of the 5' and 3' regions of the gene for...
Module 1: Introduction to the Genome Browser: What is a Gene?
By Joyce Stamm1, Jennifer Kennell2, Wilson Leung3, Leocadia Paliulis4, Srebrenka Robic5, Anne Rosenwald6
1. University of Evansville 2. Vassar College 3. Washington University in St. Louis 4. Bucknell University 5. Agnes Scott College 6. Georgetown University
This lesson introduces the University of California Santa Cruz genome browser to students, walking them through some of the key features so that it can be used for analysis of gene structure.
GEA Introductory lesson on RNA-Seq
By Jason Williams1, Judy Brusslan2, Ray Enke3, Matthew Escobar4, Vince Buonaccorsi5
1. Cold Spring Harbor Laboratory 2. California State University Long Beach 3. James Madison University 4. California State University San Marcos 5. Juniata College
This RNA-Seq lesson uses the CyVerse VICE Platform and Jupyter notebooks to examine the expression of the leptin gene in samples from a mouse experimental design evaluating diet (high-fat vs....
GEA Introductory lesson on BLAST
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...
Genome Solver: Building faculty skills in bioinformatics
23 Jul 2020 | Teaching Materials | Contributor(s):
By Vinayak Mathur1, Gaurav Arora2, Vinodh Ganesan3, Hita Gupta4, Mariana Kazarian5, Anne Rosenwald6
1. Cabrini University 2. Gallaudet University 3. Temple University 4. Conestoga High School 5. Horace Mann School 6. Georgetown University
Genome Solver (GS) began in 2011 as an NSF-funded project for faculty training in basic web-based bioinformatics skills.
Integration of Bioinformatics into Life Science Curricula: Community Development, Dissemination, and Assessment of a NIBLSE Learning Resource
By Adam Kleinschmit1, Rachel Cook2, Barbara Murdoch3, Elizabeth F Ryder4, William Tapprich5
1. University of Dubuque 2. Fairmont State University 3. Eastern Connecticut State University 4. Worcester Polytechnic Institute 5. University of Nebraska-Omaha
Big data and computational tools have transformed the way we address biological questions. To prepare undergraduates for tomorrow’s challenges, life science curricula should integrate the...
The Network for Integrating Bioinformatics into Life Sciences Education (NIBLSE): Barriers to Integration
By Anne Rosenwald1, Elizabeth Dinsdale2, William Morgan3, Mark A. Pauley4, William Tapprich5, Eric Triplett6, Jason Williams7
1. Georgetown University 2. San Diego State University 3. The College of Wooster 4. University of Nebraska at Omaha 5. University of Nebraska-Omaha 6. University of Florida 7. Cold Spring Harbor Laboratory
The Network for Integrating Bioinformatics into Life Sciences Education (NIBLSE) seeks to promote the use of bioinformatics and data science as a way to teach biology.
Incubators: Building community networks and developing open educational resources to integrate bioinformatics into life sciences education
By William Morgan1, Sam S Donovan2, Hayley Orndorf2, Sabrina Robertson3, Elizabeth F Ryder4, Michael Sierk5, Anne Rosenwald6, Elizabeth Dinsdale7, Eric Triplett8, Mark Pauley9, William Tapprich10
1. The College of Wooster 2. University of Pittsburgh 3. NC State 4. Worcester Polytechnic Institute 5. Saint Vincent College 6. Georgetown University 7. San Diego State University 8. University of Florida 9. National Science Foundation 10. University of Nebraska-Omaha
To efficiently and effectively integrate bioinformatics instruction into undergraduate life science curricula, educators would benefit from open access, high-quality learning resources (LRs) for...
Making bioinformatics tools classroom-friendly
By Jason Williams, Wilson Leung1, Cornel Ghiban2
1. Washington University in St. Louis 2. Cold Spring Harbor Laboratory
Poster on using Cyverse resources to make classroom that make using bioinformatics in the classroom a more manageable experience presented at the 2020 BIOME Institute: Cultivating Scientific Curiosity
Introduction to nucleotide sequence analysis and protein modeling in MEGA and PyMol using coronavirus SARS-CoV-2
18 Jul 2020 | Teaching Materials | Contributor(s):
By Maria Shumskaya1, Nicholas Lorusso2
1. Kean University 2. Kean Univeristy
Introduction into computational approaches in phylogeny and protein modeling based on coronavirus SARS-CoV-2 (caused COVID-19 pandemic). Two self-guided tutorials for standard lab classes of 2.5...
14 May 2020 | Teaching Materials | Contributor(s):
By Keith Johnson
Through this 2-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.