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  • Bacterial Genomes: Disease Outbreaks and Antimicrobial Resistance

    1 January - 31 December 2021

    Bacterial Genomes: Disease Outbreaks and Antimicrobial Resistance https://tess.elixir-europe.org/events/bacterial-genomes-disease-outbreaks-and-antimicrobial-resistance-b178602b-e29f-4ac7-afbf-5deafd52f8dd # Overview * **Duration**: There is no longer a live period for this course, and there will be no live monitoring of the forums, but you can still join and complete the course throughout 2021. * Free * Certificate of achievement available on satisfactory completion * **CPD Approval**: Royal College of Pathologists (9 credits), Royal College of Nursing (9 credits)** ** ### Why join the course? The increase in resistance of harmful bacteria to antibiotics is a major global threat to health. Here we explore bacterial genomes and the use of genome sequencing to identify and track these drug resistant bacteria. Join us to discover how genome research is helping scientists and healthcare professionals track disease outbreaks and prevent the rise of antibiotic resistant ‘superbugs’. ### Who is the course for? This course will be of interest to scientists, healthcare professionals, biomedical researchers and bioinformaticians. The course offers all learners an opportunity to learn about genomes, disease, and antimicrobial resistance. You require no previous knowledge of genome science to complete the course. ### What do people say about this course? "_I would definitely point students to this resource. Text, videos, and figures were all very well done._" Pablo Tsukayama, Assistant Professor of Microbiology "_A highlight of the course was the introduction to whole genome sequencing – new information for me._" Christine Laws, Medical Doctor “_Exchanging genetic information quickly throughout the world is clearly going to revolutionise the ability to combat disease._” Prue van der Hoorn, Artist # Programme and start dates ### What topics will you cover? * Diseases caused by bacteria * What bacterial genomes look like * Genome sequencing technology * Mechanisms of transmission and resistance * Genomic epidemiology – tracking the spread of bacterial pathogens * Antimicrobial resistance ### What will you achieve? By the end of the course, you'll be able to... * Explain why some bacteria are pathogenic * Explore the structure of bacterial genomes * Describe the uses of different genome sequencing technologies * Investigate how genome data are used to track the spread of bacterial disease * Discuss the role of genome sequencing in stopping the spread of antimicrobial resistance # Educators ## **Lead Educators** **[Dr Adam Reid][1]** I am a senior staff scientist at the Wellcome Sanger Institute near Cambridge in the United Kingdom. I'm interested in using genomics and bioinformatics to better understand infectious diseases. **[Dr Josie Bryant][2]** I am a Henry Wellcome Postdoctoral Fellow in the University of Cambridge, Department of Medicine. I am working on bacterial genomics and evolution with a focus on within-patient microbial diversity ### Dr Francesca Short I am a scientist at the Wellcome Sanger Institute. I am interested in using functional genomics techniques to understand infections caused by the bacterium _Klebsiella pneumoniae_. ## **Programme Lead Educator** **[Professor Nicholas Thomson][3]** I am a Group Leader at the Wellcome Sanger Institute. I provide scientific oversight for this course. I am interested in bacterial evolution and the spread of infectious disease. ### The course also features interviews with distinguished scientists, including: * **[Mathew Beale][4]** - Wellcome Sanger Institute * **[Daryl Domman][5]** - Wellcome Sanger Institute * **[Gal Horesh][6]** - Wellcome Sanger Institute * **[Catherine Ludden][7]** - London School of Hygiene and Tropical Medicine * **[Tapoka Mkandawire][8]** - Wellcome Sanger Institute * **[Julian Parkhill][9]** - Wellcome Sanger Institute * **Lindsay Pike** - Wellcome Sanger Institute * **[Michael Quail][10]** - Wellcome Sanger Institute * **[Susannah J. Salter][11]** - Wellcome Sanger Institute * **[Estee Torok][12]** - Addenbrooke’s Hospital and University of Cambridge [1]: http://www.sanger.ac.uk/people/directory/reid-adam-james [2]: https://www.infectiousdisease.cam.ac.uk/directory/josie-bryant [3]: http://www.sanger.ac.uk/people/directory/thomson-nicholas-robert [4]: http://www.sanger.ac.uk/people/directory/beale-mathew [5]: http://www.sanger.ac.uk/people/directory/domman-daryl [6]: http://www.sanger.ac.uk/people/directory/horesh-gal [7]: https://www.lshtm.ac.uk/aboutus/people/ludden.catherine [8]: http://www.sanger.ac.uk/people/directory/mkandawire-tapoka-t [9]: http://www.sanger.ac.uk/people/directory/parkhill-julian [10]: http://www.sanger.ac.uk/people/directory/quail-michael-andrew [11]: http://www.sanger.ac.uk/people/directory/salter-susannah-j [12]: https://www.infectiousdisease.cam.ac.uk/directory/et317@medschl.cam.ac.uk # What's Included Wellcome Genome Campus Advanced Courses and Scientific Conferences are offering everyone who joins this course a free digital upgrade, so that you can experience the full benefits of studying online for free. This means that you get: * Unlimited access to this course * Includes any articles, videos, peer reviews and quizzes * Tests to validate your learning * A PDF Certificate of Achievement to prove your success when you’re eligible # CDP Approval 2021-01-01 09:00:00 UTC 2021-12-31 23:59:59 UTC Wellcome Genome Campus - Advanced Courses [] advancedcourses@wellcomegenomecampus.org [] [] workshops_and_courses [] bacterialgenomesAMRHDRUK
  • WEBINAR: Where to go when your bioinformatics outgrows your compute

    19 August 2021

    Australia

    WEBINAR: Where to go when your bioinformatics outgrows your compute https://tess.elixir-europe.org/events/webinar-where-to-go-when-your-bioinformatics-outgrows-your-compute Bioinformatics analyses are often complex, requiring multiple software tools and specialised compute resources. “I don’t know what compute resources I will need”, “My analysis won’t run and I don’t know why” and "Just getting it to work" are common pain points for researchers. In this webinar, you will learn how to understand the compute requirements for your bioinformatics workflows. You will also hear about ways of accessing compute that suits your needs, including Galaxy Australia, cloud and high-performance computing services offered by the Australian Research Data Commons, the National Compute Infrastructure (NCI) and Pawsey. We also describe bioinformatics and computing support services available to Australian researchers. **Who the webinar is for** This webinar is intended for biological researchers who wish to understand what computational infrastructure is available outside their institution’s compute facilities. Some familiarity with the concepts of high performance computing is recommended. We think you will enjoy this webinar if you have experienced one of the following: • Your high performance computing jobs fail because of walltime limits • Not having enough disk to process your data • Feeling intimidated by the compute resources and time required to process large datasets If you’re considering applying for access to compute through the NCMAS allocation scheme you can find out more about tailoring your application to bioinformatics projects in our next webinar [High performance bioinformatics: submitting your best NCMAS application](https://www.biocommons.org.au/events/ncmas). **Presenters:** Georgina Samaha and Dr Tracy Chew, Sydney Informatics Hub, University of Sydney **Date/time:** 19 August 2021 - 12:00-13:00 AEST / 11:30 - 12:30 ACST / 10:00-11:00 AWST **How to join:** This webinar is free to join but you must register for a place in advance. **[Register here](https://unimelb.zoom.us/webinar/register/WN_hJ2bJLlBQC2kJ0tCUOP9SQ)** 2021-08-19 12:00:00 UTC 2021-08-19 13:00:00 UTC Australian BioCommons Australia Australia Workflows Bioinformatics Australian Biocommons Melissa Burke melissa@biocommons.org.au [] Biologistsbioinformaticians 500 workshops_and_courses first_come_first_served HPCHigh performance computingComputeBioinformaticsWorkflowsNCMAS
  • WEBINAR: High performance bioinformatics: submitting your best NCMAS application

    20 August 2021

    Australia

    WEBINAR: High performance bioinformatics: submitting your best NCMAS application https://tess.elixir-europe.org/events/webinar-high-performance-bioinformatics-submitting-your-best-ncmas-application Bioinformaticians are increasingly turning to specialised compute infrastructure and efficient, scalable workflows as their research becomes more data intensive. Australian researchers that require extensive compute resources to process large datasets can apply for access to national high performance computing facilities (e.g. Pawsey and NCI) to power their research through the National Computational Merit Allocation Scheme (NCMAS). NCMAS is a competitive, merit-based scheme and requires applicants to carefully consider how the compute infrastructure and workflows will be applied. This webinar provides life science researchers with insights into what makes a strong NCMAS application, with a focus on the technical assessment, and how to design and present effective and efficient bioinformatic workflows for the various national compute facilities. It will be followed by a short Q&A session. **Who the webinar is for** This webinar is intended for biologists and bioinformaticians who wish to apply for the NCMAS 2022 allocation. Familiarity with HPC is recommended. For an overview of compute options available to Australian researchers and advice on how to match your bioinformatics needs to compute join our other webinar on[ Where to go when your bioinformatics outgrows your compute](https://www.biocommons.org.au/events/compute-resources). **Presenters:** Georgina Samaha and Dr Tracy Chew, Sydney Informatics Hub, University of Sydney **Date/time:** 20 August 2021 - 12:00-13:00 AEST / 11:30 - 12:30 ACST / 10:00-11:00 AWST **How to join:** This webinar is free to join but you must register for a place in advance. **[Register here](https://unimelb.zoom.us/meeting/register/tZYscuigrDMjEtbGTLGmc3LZooB6zn16vKWv)** 2021-08-20 12:00:00 UTC 2021-08-20 13:00:00 UTC Australian BioCommons Online, Australia Online Australia Workflows Bioinformatics Australian Biocommons Melissa Burke melissa@biocommons.org.au [] Biologistsbioinformaticians 500 [] first_come_first_served HPCHigh performance computingWorkflowsNCMASBioinformatics

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