Skip to 0 minutes and 9 seconds Welcome to this course in bacterial comparative genomics. My name is Dr. Ulrike Boehme. And I’m Dr. Christine Boinett. Comparative genomics is used to compare genomic features between different or similar organisms. In this course, we’ll be using a freely available software, known as the Artemis Comparison Tool, to compare bacterial genomes. There will be plenty of articles, screencasts and interviews to guide you through the process. You’ll also have the opportunity to join in constructive discussions with other learners and share your findings. These discussions will be especially useful in week three, where you’ll need to tackle a real research problem. Join us in this new adventure, where we delve further into bacterial genomes.
Weekly study5 hours
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Bacterial Genomes III: Comparative Genomics using Artemis Comparison Tool (ACT)
Gain experience in using the Artemis Comparison Tool for comparative genomics
Disease outbreaks are still a big problem in our modern world. Comparison between two or more bacterial genomes can help improve understanding of the causes of pathogenicity and outbreaks of disease caused by bacteria.
On this course you will learn how to use the free Artemis Comparison Tool (ACT). Developed at the Wellcome Sanger Institute, ACT will help you to visualise the comparison of genomes and analyse the results.
* Introduction to comparative genomics
* Introduction to ACT
* Analyse available data
* Generate your own comparison files
* Make your own comparisons in ACT
* Identify pseudogenes in Mycobacterium leprae using ACT
* Peer review project: Comparative genomics on two clinically relevant plasmids from Shigella
What will you achieve?
By the end of the course, you‘ll be able to...
- Explain the advantages of comparative genomics
- Explore basic tools of the Artemis Comparison Tool (ACT)
- Interpret results from already generated comparison files
- Produce new comparisons and analyse results
- Develop hypothesis based on results observation
Who is the course for?
This course would benefit those interested in learning how to use tools to investigate and research bacterial genomes, and acquire bioinformatics skills to evaluate the role of microbial genes in disease. Learners will gain experience in comparative genomics, using the Artemis Comparison Tool to probe, visualise and compare genomes, and analyse the results.
This course will be of interest to anyone interested in microbiology, including undergraduates, post-graduates, biomedical researchers, microbiologists, bioinformaticians, teachers, and healthcare professionals.
The opportunity to gain experience in using the Artemis Comparison Tool, a computational tool designed for comparative genomics, will also be of interest to all those who have studied our recommended pre-requisite courses: those with an interest in genomics and disease outbreaks, teachers and their 16-18-year-old science and computing students.
Ideally, you will have completed Bacterial Genomes: From DNA to Protein Function Using Bioinformatics and Bacterial Genomes: Accessing and Analysing Microbial Genome Data before joining the course.
What software or tools do you need?
This course will give you an opportunity to learn about and use Artemis Comparison Tool (ACT), a free tool used to display pairwise comparisons between two DNA sequences. To run this software effectively, you will require a computer (Windows, Mac or Linux) with 2GB RAM. The current version of ACT requires version 11 of Java to run successfully. Java 11 can be downloaded from this link. Older versions of ACT require Java 8 to run successfully. Java 8 can be downloaded from this link.
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