Genome Solver is using the QUBES Resource System to share open educational resources. Click on the resource title to view the full record where you can download the materials. Follow this link for more information about QUBES resources.

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
1.1K Views
848 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
943 Views
653 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
610 Views
358 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 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
673 Views
1.2K 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
393 Views
100 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
384 Views
93 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
997 Views
117 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
655 Views
412 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, Extended Project

Lesson III - Annotation

Anne Rosenwald, Gaurav Arora, Vinayak Mathur

Version: 3.0

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 08.2020
315 Views
146 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: 3.0

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 08.2020
305 Views
288 Downloads
0 Adaptations
Bioinformatics Education, introductory, Lab, Online course, Teaching material, High School, Undergraduate, Faculty, Homework, Majors, Non-majors, 1 Hour

Pre-lesson: Introduction to BLAST

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. This pre-lesson introduces the BLAST tool.
Published on 08.2020
313 Views
197 Downloads
1 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Teaching material, High School, Undergraduate, Majors, Non-majors

Mini-Workshop August 14, 2020

Vinayak Mathur, Anne Rosenwald, Gaurav Arora

Version: 1.0

We reviewed the materials available on Genome Solver (other lessons here) and described our new python pipeline for examining horizontal gene transfer and a new synteny lesson in detail.
Published on 08.2020
271 Views
275 Downloads
0 Adaptations
Bioinformatics Education, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Majors, Non-majors, More than 1 hour, Fostering a Sense of Belonging, Promoting Engagement and Self-Efficacy

MiniWorkshop Follow-Up October 2, 2020

Gaurav Arora, Vinayak Mathur

Version: 1.0

A follow up to our mini workshop of August 14, 2020. Further information about the python pipeline for HGT and the new cytoscape lesson.
Published on 10.2020
303 Views
269 Downloads
0 Adaptations
Bioinformatics Education, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Majors, Non-majors, 1 Hour, Promoting Engagement and Self-Efficacy

Using Bioinformatics Activities to understand the Past and Present of SARS-CoV2

Gaurav Arora

Version: 1.0

We have designed a Bioinformatics activity that uses tools to identify the origins and mutations in the novel SARS-CoV2 strains.
Published on 06.2021
322 Views
12 Downloads
0 Adaptations
introductory, Teaching material, Undergraduate, Majors, Non-majors, Promoting Engagement and Self-Efficacy, Accessibility

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
343 Views
275 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
935 Views
204 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
473 Views
199 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
420 Views
119 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
798 Views
152 Downloads
0 Adaptations
Bioinformatics Education, Bioinformatics and Genomics, introductory, Lab, Online course, Teaching material, Lecture, High School, Undergraduate, Homework, Majors, Non-majors, 1 Hour