Predict antimicrobial resistance, master data-sharing, and enhance your expertise in AMR genomics using cutting-edge databases.
The MEEP Lab runs workshops on methods for evolutionary analysis. Our annual Sydney Phylogenetics Workshop is held in July each year and is free to attend. We have also run workshops at other venues, including the National Herbarium of NSW, Australian National University, University of Melbourne, University of New South Wales, and University of Gothenburg (Sweden). Some of our workshops have been offered in conjunction with COMBINE or with the annual conference of the Genetics Society of Australasia.
The 10th Applied Bioinformatics and Public Health Microbiology conference serves as a multidisciplinary forum to demonstrate how advances in microbial and viral genomics, bioinformatics, data science, and sequencing technology are being used to meet the growing needs of public health.
This year’s meeting will focus on the transformative impact of these advances on global public health, featuring sessions that exploring public health genomics, equity in public health, and infection control in healthcare. Attendees can expect to gain insights from a “State of the Union” session, which will provide nationwide perspectives from laboratories and industry.
New methods and algorithms will also be highlighted, with a session dedicated to scaling bioinformatics, focusing on infrastructure and industry. There will also be an opportunity to demonstrate new tools in the popular bioinformatics and data resources showcase. A significant portion of the programme will consist of talks derived from submitted abstracts.
This conference attracts clinical microbiologists and bioinformaticians, and researchers involved in public health, including professionals from reference laboratories and hospital settings.
The conference has been awarded 12 CPD credits by the The Royal College of Pathologists.
Are you a clinical scientist, medical microbiologist, infectious diseases physician, or work in clinical and public health laboratories and want to learn about considerations for quality and accreditation for microbial genomics?
This is the final of a three-part panel discussion series hosted by the Communicable Diseases Genomics Network (CDGN).
Metagenomics is a powerful approach for unraveling the complexity of microbial communities across diverse environments. Its broad applications in ecology, medicine, agriculture, and biotechnology make it an indispensable tool for advancing science and paves the way for groundbreaking discoveries in microbiology and beyond.
By leveraging advanced sequencing technologies and bioinformatics tools, metagenomics enables the analysis of the collective genomes of microorganisms within a given sample.
This webinar provides a valuable platform for researchers, students, and industry professionals to explore metagenomic sequencing, covering an introduction to the concept, beginner-friendly resources, library preparation techniques, various sequencing approaches, workflow considerations, and a high level overview of Illumina data analysis solutions.
Are you considering or currently undertaking the NPAAC Microbial Genomics Certification? Join this panel discussion to hear first-hand experiences from those who have completed the training and assessment pathway.
Are you a clinical scientist, medical microbiologist, infectious diseases physician, or work in clinical and public health laboratories and want to learn about considerations for sequencing viruses?
Are you a clinical scientist, medical microbiologist, infectious diseases physician, or work in clinical and public health laboratories and are wanting to gain expertise in whole genome sequencing?
Are you a clinical scientist, medical microbiologist, infectious diseases physician, or work in clinical and public health laboratories and are wanting to deal with bacterial secually transmitted infections in the future?
Are you a clinical scientist, medical microbiologist or genomic epidemiologist wanting to gain an understanding of the considerations when issuing microbial genomics reports? Epidemiologists at public health units, infectious diseases physicians and other recipients of genomic reports may also find this webinar informative.
Are you a clinical scientist, medical microbiologist or infectious diseases physician wanting to gain an understanding of the application of bioinformatics for pathogen genomics in public health?
Are you a clinical scientist, medical microbiologist or infectious diseases physician wanting to gain expertise in whole genome sequencing?
This Melbourne MicroCert is ideal for health professionals seeking a fundamental understanding of the science behind DNA sequencing, best-practice approaches to generating it, and how it can help address the public health challenges of our times.
Join ACTnet (Australasian Clinical Tuberculosis Network) in learning about the role of Whole Genome Sequencing of M. tb for antimicrobial resistance prediction and transmission surveillance
Dates: 13 - 17 February 2023
Venue: University of Sydney, Camperdown and Centre for Infectious Diseases and Microbiology-Public Health, Westmead Hospital, Westmead
EOI Submission Link (EOI close date 2nd December 2022):https://redcap.sydney.edu.au/surveys/?s=NRAWRX4LD8MKKFL9
Registration Fees:
AU$800.00: General registration fee (Australian & International participants)
AU$400.00: University of Sydney students and academics (current)
AU$250.00: International participants from low and middle-income countries
The Centre for Infectious Diseases and Microbiology – Public Health (CIDM-PH) WSLHD, and Sydney Infectious Diseases Institute (Sydney ID) University of Sydney, with the support of the Sydney Informatics Hub, University of Sydney invite EOI’s for the Sydney Summer School in Pathogen Genomics and Global Health 2023.
This Summer School aims at recent graduates as well as researchers, clinicians and public health professionals that are interested in the field of translational pathogen genomics and communicable disease control. The program includes a mix of inspiring keynotes and master classes from international experts, practical hands-on demonstrations, and laboratory visits. Our team of experienced postdoctoral level tutors will teach the basics of genomics of bacteria, viruses, and fungi with epidemic potential and critically examine the approaches to the analysis of genomes in global health context. Hands-on exercises will be organised to illustrate the power of genomics, functional genomics, and metagenomics in answering important questions on the assessment of evolution, virulence, transmissibility, and drug resistance as well as on detection of outbreaks and deciphering of transmission pathways. The School will also offer opportunities for exchange of ideas and discussions with presenters and fellow participants.
The number of places in the School is limited. Organisers will select participants based on information provided in the EOI about motivation, prior knowledge, and interests.
Participants are encouraged to submit or bring fastQ files from their own experiments if they prefer to use them as their training exercises.
Please note that this event requires in-person attendance, and will not be offered online.
Topics to be covered:
• Main concepts of translational microbial genomics. What can the analysis of microbial genomes tell translational researchers’ clinicians? How to select sequencing and bioinformatics solutions for specific research questions? Genome-wide association studies and patient outcomes
• Genomics data analytics and visualization. Integrated data models, data analytics for knowledge discovery and data visualization (we will employ phylogenetics and phylodynamics as case studies)
• Clinical microbial genomics and metagenomics. Implementation of microbial genomics in clinical laboratories. Genomics of drug resistance. Tools for responsible genomic data sharing and mobilisation
• Pathogen Genomics for Precision Public Health and Global Health. Methods of genomic surveillance. Integration of genomic and epidemiological data: global and local perspectives and solutions. Genomics- guided interventions in hospital and community settings
Enquiries: WSLHD-CIDM-PH@health.nsw.gov.au
Are you a clinical scientist, medical microbiologist or genomic epidemiologist wanting to gain an understanding of the considerations when issuing microbial genomics reports? Epidemiologists at public health units, infectious diseases physicians and other recipients of genomic reports may also find this webinar informative.
This beginners tutorial will introduce Galaxy's interface, tool use, histories and workflows.
A hands-on workshop covering the basics of the Unix/Linux command line interface.
Are you a clinical scientist, medical microbiologist or infectious diseases physician wanting to gain an understanding of the application of bioinformatics for pathogen genomics in public health?
COMBINE is planning to hold a workshop and are collecting expressions of interest for a free python workshop in the first half of September.
At the end of the workshop you will be able to:
- Use basic python functions
- Edit csv files with python
- Make static figures
This workshop has no requirements.
Please fill out the Expression of Interest (EOI) form here.
This webinar is intended for life scientists who are using and building whole genome sequencing mapping and variant calling pipelines. Some familiarity with the concepts of whole genome sequencing is recommended.
This workshop will be a gentle introduction to the basics of R wherein every concept will be thoroughly explained and ample time will be allocated for attendees to explore the course content. The first day will involve familiarising with the R studio interface, data structures and data manipulation through dplyr and tidyverse packages. The second day will be introducing basic principles of data visualisation for scientific interpretation primarily through the ggplot2 suite.
At the end of the workshop you will be able to:
Use basic R functions
Be familiar with data wrangling packages like dplyr and tidyverse
Edit .csv files with R
Make static figures
Make interactive figures
Requirements:
Zoom
Slack
Web browser
Create an account in RStudio Cloud
If there are any issues, we will troubleshoot them during the workshop.
When:
Day 1: 17/08/2022 – 10:00-15:00 AEST
Day 2: 18/08/2022 – 10:00-15:00 AEST
Where: Online via Zoom (link provided upon registration)
Cost: $20 registration – Attendees who attend at least 50% of the workshop will be refunded the full amount.
Register here (registration closes on 16/08/2022 at 12:00 AEST)
At this webinar hosted by Wiley, learn how high-throughput genomic surveillance has emerged as a critical tool for infectious disease monitoring and outbreak response.
This session reviews the impact of emerging technologies, such as pathogen genomics and metagenomics, on the historical uses of molecular epidemiology for clinical and public health laboratories.
Drs. Carleton, Chow, and MacCannell discuss their new chapter for the ASM’s Manual of Clinical Microbiology, which was just published in ClinMicroNow and includes several crucial updates for your laboratory.
In this webinar, you will:
Receive an overview of the applications and strategies for molecular epidemiology and the impact of high-throughput genomics
Appreciate laboratory, bioinformatic, and epidemiologic challenges
Learn specific examples of molecular epidemiology in routine public health use, including PulseNet for enteric bacterial pathogens, the multidrug-resistant fungal pathogen Candida auris, and large-scale viral surveillance programs, including the SARS-CoV-2 pandemic response.
Are you a clinical scientist, medical microbiologist or infectious diseases physician wanting to gain expertise in whole genome sequencing?
The Communicable Diseases Immunisation Conference 2022 will focus on communicable disease control issues and immunisation in Aboriginal and Torres Strait Islander populations and other vulnerable groups attracting professionals engaged in infectious disease epidemiology, microbiology and control from laboratory bench, to clinic, from academia to the public policy setting.
Please join the Australian Infectious Diseases Research Centre, the Herston Infectious Diseases Institute and The Genomic Institute for a scientific forum addressing contemporary ideas in genomics, including current capabilities, future opportunities, and research collaborations.
Learn how to analyse your data and use sophisticated computational workflows without the need for programming experience.
Training in molecular and genomic techniques for microbiological diagnostics and infection epidemiology.
Application deadline: Thursday, 14 October 2021
Suitable for early stage trainees and Fellows from pathology sub-disciplines. It is assumed participants will have little or no prior knowledge.
This meeting will provide a multidisciplinary forum for scientists interested in the genomics and evolutionary analysis of viruses and will address the fundamental questions of viral origins, transmission and pathogenesis.
