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Core Resources                           FMN Adaptations

Core Resources

Lesson I - Introduction to Genome Solver

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 1.0

Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Part I is the Introduction to the Genome Solver Project.
Published on 10.2018
627 Views
441 Downloads
1 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour

Lesson II - Databases

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 1.0

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 genomics.
Published on 10.2018
532 Views
364 Downloads
1 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour

Pre-lesson: Introduction to BLAST

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 1.0

Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. This pre-lesson introduces the BLAST tool.
Published on 02.2019
402 Views
259 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Teaching material, High School, Undergraduate, Majors, Non-majors

Lesson III - Annotation

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 2.0

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 the A's, C's, T's, and G's.
Published on 10.2019
271 Views
167 Downloads
1 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour

Lesson IV - Comparative Genomics

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 2.0

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 available for looking at genes across different genomes.
Published on 10.2019
280 Views
136 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour

Lesson VII - Synteny

Gaurav Arora, Anne Rosenwald, Vinayak Mathur

Version: 2.0

The lesson teaches about synteny or the order of genes along a chromosome, which is useful for looking at orthologous genes between two species or strains.
Published on 10.2019
228 Views
215 Downloads
0 Adaptations
Bioinformatics Education, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Faculty, Homework, Majors, Non-majors, Less than 1 hour

Lesson V - Phylogenetics

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 2.0

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.
Published on 10.2019
290 Views
187 Downloads
2 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour

Lesson III - Annotation

Gaurav Arora

Version: 1.0 Adapted From: Lesson III - Annotation v1.0

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 the A's, C's, T's, and G's.
Published on 10.2019
184 Views
35 Downloads
0 Adaptations

Lesson III - Annotation

Gaurav Arora

Version: 1.0 Adapted From: Lesson III - Annotation v1.0

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 the A's, C's, T's, and G's.
Published on 10.2019
189 Views
34 Downloads
0 Adaptations

Genome Solver: Complete Set of Lessons

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 2.0

The Genome Solver Project began as a way to teach faculty some basic skills in bioinformatics - no coding or scripting. These Lessons also work well in the undergraduate classroom, culminating with an authentic community research project.
Published on 10.2019
396 Views
46 Downloads
0 Adaptations
bioinformatics, NIBLSE, Bioinformatics Education, Bioinformatics and Genomics, C4. Bioinformatics tools, C5. Data retrieval, C6. Models, C8. Data types, C9. Implications, Recommended by NIBLSE, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, Extended Project

Lesson VI - The Community Science Project

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 1.1

Genome Solver's Community Science Project was developed as a way to use the skills taught in the previous lessons. We're asking members of the community to provide instances of potential phage genes embedded in bacterial genomes.
Published on 11.2019
331 Views
153 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, Extended Project

FMN Adaptations

BLAST-HGT PROJECT

Shawna Reed

Version: 1.0 Adapted From: Lesson V - Phylogenetics v2.0

Genome Solver modules were combined to make one project for students using tools within NCBI BLAST to explore phylogenetics and horizontal gene transfer from phage to Chlamydia.
Published on 01.2020
126 Views
75 Downloads
0 Adaptations

Introduction to Genome Annotation

Selene Nikaido

Version: 1.0 Adapted From: Lesson III - Annotation v2.0

This exercise is an adaptation of the Annotation Lesson by Rosenwald et al. It introduces the use of bioinformatics tools to extract information from genome databases. It is a basic lesson on genome annotation databases.
Published on 01.2020
692 Views
59 Downloads
0 Adaptations
microbiology, Genome annotation, Bioinformatics Education, Bioinformatics and Genomics, Lab, Online course, Teaching material, Lecture, Undergraduate, Homework, Advanced, More than 1 hour, Promoting Engagement and Self-Efficacy

Databases: A Study of Influenza

Selene Nikaido

Version: 1.0 Adapted From: Lesson II - Databases v1.0

This lesson introduces the student to the Influenza Research Database. Students will select Influenza genome sequences to see how they are related. Students tests hypotheses about evolutionary ideas involving reassortment in Influenza.
Published on 01.2020
199 Views
67 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, molecular evolution, Influenza, Lab, Online course, Teaching material, Lecture, Undergraduate, Homework, Advanced, More than 1 hour, Promoting Engagement and Self-Efficacy

BLAST Exercises for Analyzing Cloning Results

Erin R. Morris

Version: 1.0 Adapted From: Lesson I - Introduction to Genome Solver v1.0

Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. These activities have modified Lesson 1: Introduction to Genome Solver.
Published on 01.2020
169 Views
40 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, Lab, Teaching material, Lecture, Undergraduate, Homework, Advanced, 1 Hour, More than 1 hour

Exploring the evolution of caffeine biosynthesis enzymes

Shuchismita Dutta

Version: 1.0 Adapted From: Lesson V - Phylogenetics v2.0

Caffeine is a very common stimulant consume worldwide as tea, coffee, mate, cocoa, and chocolate. Ever wondered why plants make caffeine? Do all caffeine producing plants have the same enzymes for caffeine biosynthesis?
Published on 01.2020
532 Views
68 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour