10 Aug 2017
Introductory Course in Applied Public Health Microbial Genomics
20 Nov 2017
Genomics is revolutionising the practice of public health microbiology and epidemiology globally, however, capacity in genomic data analysis is a key limiting factor in implementation of the technology. This course, designed specifically for public health microbiologists and epidemiologists will introduce the concepts and provide practical experience in the analysis and interpretation of microbial genome data for public health action. The course will be coordinated by staff from the Microbiological Diagnostic Unit Public Health Laboratory (MDU PHL), Doherty Applied Microbial Genomics (DAMG), and Melbourne Bioinformatics who are leaders in the application of genomics to public health.
Organising committee and course faculty:
Professor Tim Stinear
Professor Benjamin Howden
Dr Andre Mu
Dr Deborah Williamson
Dr Dieter Bulach
Prof. Dick Strugnell, A/Prof. Torsten Seemann, Dr Anders Gonçalves da Silva, Dr Susan Ballard, Dr Danielle Ingle, Dr Jason Kwong, Dr Mark Schultz, Dr Claire Gorrie, Courtney Lane, Dr Mark Davies.
Course summary: The course will consist of five morning sessions of interactive lectures and four afternoon sessions of practical, computer-based data analysis and interpretation based in the teaching laboratories at the Doherty Institute. The course begins with training in the generation and quality control of genome sequence data, followed by the use of genome analysis software such as Artemis (Sanger Institute), and Nullarbor (MDU PHL) for genome exploration and comparative genomics. The course also covers mapping of Illumina sequence data, SNP calling, genome assembly, and annotation, and the basics of defining phylogenetic relationships between microbes. In all cases, the course will focus on the skills required to answer questions relevant to public health.
Major themes covered will include AMR, health-care infections, environmental infectious diseases, enteric diseases, STIs, TB, viral diseases and clinical metagenomics.
Learning Outcomes: Understand and apply basic principles/processing of genomic datasets, understand basic principles in phylogenomics as used in public health microbiology for source tracking, detection of virulence and antibiotic resistance genes.
Prerequisites: Applicants should be working in public health microbiology or epidemiology and have an understanding of basic molecular biology.
Venue: The Peter Doherty Institute for Infection and Immunity
792 Elizabeth Street
Date: 20th to 24th November 2017.
(Start: 9.30 am Monday, 20th November; End: 1 pm Friday, 24th November)
Course Fee: AUD $1500 ($950 without accommodation)
- Accommodation: (University College: https://www.unicol.unimelb.edu.au/)
- Private Room with ensuite, Check in: Sunday --> Check out: Friday)
- Meals: Breakfast and Dinner (at University College), Lunch (at the Doherty Institute)
- WiFi: free at both the Workshop venue and at the accommodation
- Workshop Dinner (Tuesday night)
Participants: There is a limit of 20 participants. Applications from people with active roles and knowledge in public health microbiology will be given preference. Accepted applicants will be expected to pay the Registration Fee by October 30th 2017.
Applications Open: Wednesday, 10th August 2017
Applications Close: Friday, 8th September 2017
Successful Applicants Notified - Friday, 15th September 2017
Payment of Registration Fees - by Friday, 29th October 2017