WORKSHOPS

As a team we have travelled the world teaching students the wonders of genomics.

Take a look below by clicking a place on the map!

Genomic Epidemiology in Infectious Diseases – Pathogen Genomics - Capacity Building Workshop in Southeast Asia

2015

National University Singapore, Feb. 2-6 2015 with YY Teo

International Workshop in Epidemiology in Infectious Diseases

2016

Under the Researcher Links scheme offered within the Newton Fund, the British Council and the Thailand Research Fund will be holding a workshop on “Genomic Epidemiology in Infectious Diseases (GEID2016)” in the Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand on March 7 – 11, 2016. The workshop is being coordinated by Prof. Taane Gregory Clark (London School of Hygiene and Tropical Medicine, LSHTM) and Dr. Prapat Suriyaphol (Mahidol University), and will have contributions from other leading researchers including Prof Chris Drakeley (LSHTM), Prof Martin Hibberd (LSHTM), Assoc Prof Teo Yik Ying (National University of Singapore, NUS) and Dr Ong Twee Hee (NUS).

International Workshop in Epidemiology in Infectious Diseases

2017

To take full advantage of new ‘omic technologies requires the ability to analyse large amounts of data using methods from bioinformatics, population genetics and statistics – the focus of this Workshop. Specifically, the Workshop offers hands-on experience of processing sequencing data to construct genomes, identifying genomic variants and applying downstream methods, such as phylogenetics. Further, the course covers transcriptomic and proteomic analysis in human and pathogen settings. High profile examples, including malaria, TB and MRSA, will be used to illustrate the concepts, and there is a strong emphasis on how to implement the methods in practice, with the majority of sessions computer-based.

International Workshop in Epidemiology in Infectious Diseases

2018

This five-day Workshop will be held in October, aimed at early career researchers from the UK and Malaysia. This Workshop will bring together global experts on the study of genomic epidemiology of infectious diseases, particularly those affecting Malaysia. The Workshops aims to promote collaborations that will enhance the use of tools in bioinformatics, population genetics and statistics in infectious disease research. Day one and five of the Workshop, will focus on presentations and discussions relating to the role of genomics in the prevention and control of infectious diseases, with a focus on Malaysia. The other days, which will be held at the Computational Science and Research Centre, will focus on genomic analyses. By the end of the Workshop, participants will be able to: (a) process raw sequence into a set of informative variants, through mapping to a reference genome or using de novo or reference-free assembly approaches, (b) conduct transcriptomic and proteomic analysis, in an integrated systems biology approach, and (c) perform downstream population genetic and association analysis.

Workshop on the Genomic Epidemiology of Infectious Diseases

2011

Brazilian Biometrics Society, Maringa, Brazil, July 2011 with Nuno Sepulveda

Genomics and the Other Omics

2023

The team organised a workshop regarding the basics of multiple omics including genomics and transcriptomics in Medan Indonesia. The team taught up to 60 individuals involving them with practical examples in the real world and including multiple lectures across 4 days.

Genomics of Infectious Disease workshop and symposium

2017

The “Genomics of Infectious Disease Meeting” in July 2017, held at Philippines Genome Center, attracted over 150 attendees. Funded by the British Council and Philippine DOST with Eva Maria Cutiongco-de la Paz

Genomics of Infectious Diseases workshop

2016

Siriraj Hospital / Mahidol University, Feb. 2016. Funded by British Council Newton Researcher Links Workshop grants with Angkana Chaiprasert

Workshop on genomics in Dhaka

2023

November 2023; International Centre for Diarrhoeal Disease Research, Bangladesh (icddr,b). Funded by Royal Society. Co-organised with Dr Dinesh Mondal

Genomics of Complex diseases

2018

Universiti Sains Malaysia, October 2018. Funded by British Council Newton Researcher Links Workshop grants with Zafarina Zainuddin

One health 'Omics workshop

2021

To take full advantage of new ‘omic technologies requires the ability to analyse large amounts of data using methods from bioinformatics, population genetics and statistics – the focus of this course. Specifically, this course offers hands-on experience of processing sequencing data to construct genomes, identifying genomic variants and applying downstream methods, such as phylogenetics. Further, the course covers transcriptomic and proteomic analysis in human and pathogen settings. High profile examples, including malaria, TB and MRSA, will be used to illustrate the concepts, and there is a strong emphasis on how to implement the methods in practice, with the majority of sessions computer-based.

International Scientific Talks of Partners from LSHTM

2022

Working in partnership is central to achieving our mission to improve health and health equity in the UK and worldwide. By collaborating with global partners we can bring the best people and knowledge together to achieve excellence in research, education, policy and practice. We have longstanding and extensive partnerships, especially in low and middle-income countries, and are continually looking to build on our relationships and activities to both learn from and empower our colleagues and partners throughout the world.

Bioinformatics Short course

2014

In February and March of 2014, the Pathogen Seq Lab hosted an internal bi-weekly workshop titled “Bioinformatics Short Course”. This intensive course was tailored specifically for the lab’s internal staff members, aiming to enhance their skills and knowledge in the field of bioinformatics. The course provided a comprehensive introduction to bioinformatics, highlighting its role and importance in the modern research landscape. It covered various key topics, including sequence analysis, genomics, proteomics, structural bioinformatics, and more.The course’s bi-weekly structure allowed for a focused and in-depth exploration of each topic. Staff members were given hands-on training on data analysis and interpretation, enabling them to apply bioinformatics concepts and tools to their research effectively.

Infectious Disease ‘omics

2017-now

Beginning in 2017 and ongoing, the Pathogen Seq Lab team in London has been providing a pioneering and comprehensive workshop called “Infectious Disease ‘omics”. Held every December, this workshop aims to educate and foster an understanding of the role and potential of ‘omics technologies in the field of infectious diseases. To take full advantage of new ‘omic technologies requires the ability to analyse large amounts of data using methods from bioinformatics, population genetics and statistics – the focus of this course. Specifically, this course offers hands-on experience of processing sequencing data to construct genomes, identifying genomic variants and applying downstream methods, such as phylogenetics. Further, the course covers transcriptomic and proteomic analysis in human and pathogen settings. High profile examples, including malaria, TB and MRSA, will be used to illustrate the concepts, and there is a strong emphasis on how to implement the methods in practice, with the majority of sessions computer-based.

Pathogen genomics & genetic epidemiology of infectious diseases Short course

2011-2016

The Pathogen Seq Lab team delivered an innovative and dynamic short course at the renowned London School of Hygiene and Tropical Medicine every September from 2010 to 2016. The course, titled “Pathogen Genomics & Genetic Epidemiology of Infectious Diseases”, was a comprehensive exploration into the genetic aspects of infectious diseases and the role of pathogen genomics in public health.

High throughput sequencing analysis

2010-2015

The Pathogen Seq Lab team, known for their expertise and innovation in sequencing technologies, conducted an enriching short course spanning five years at the esteemed London School of Hygiene and Tropical Medicine. Taking place each September from 2010 to 2015, the course was designed to shed light on the application and interpretation of high-throughput sequencing data in the field of public health. Focusing primarily on epidemiological investigations and outbreak response, this course offered practical knowledge in the rapidly advancing field of pathogen genomics. The attendees learned the essential tools and methodologies required for analyzing sequencing data, including assembly, annotation, and comparative genomics. Besides, the course facilitated an understanding of the challenges associated with high-throughput sequencing and how to overcome them.

TB Genomics Asia Network

2019

TB Genomics Asia Network (UKRI GCRF funded) inaugural meeting (The Philippines, February 2019)

Pathogen Genomics workshop in Research Institute for Tropical Medicine, Philippines

2017

Research Institute for Tropical Medicine, November 2017. Funded by the British Council and Philippine DOST with Dodge Lim

Pathogen MultiOmics and Bioinformatics

2023

June 23- July 3 2021; July 3-7 2023 with Joao Perdigao

Pathogen genomic & Infectious disease epidemiology

2015

Univ. Sao Paolo, March 2015, 5 days taught by Dr. Jody Phelan

TB Whole genome sequencing analysis Principles and Applictions

2020

Thailand whole genome sequencing data analysis meeting

Infectious Disease ‘Omics workshop

2022

Alongside the unfinished agenda of tackling infectious diseases, malnutrition, and child and maternal mortality, South East Asia is on the front line of pandemic influenza, evolving drug-resistance in malaria and other pathogens, public health impacts of earthquakes and floods, and above all, the growing threat of non-communicable diseases such as cancers, cardiovascular disease and diabetes

Workshop on Genetic Epidemiology

2011-2013

Nov. 2011-2013, 1 week, Gulbenkian Institute, Lisbon with Nuno Sepulveda

Bioinformatics and genomics data analysis clinic.

2023

Members of our team (Jody, Linfeng, Matt) ran a bioinformatic analysis clinic at the Research Institute for tropical Medicine, Department of Health in the Philippines, with whom we have collaborated since 2016 on infectious disease genomics and had continuous joint (UKRI) funding. The aim of the clinic was to provide training to biomedical researchers and technicians in the use of bioinformatic tools and techniques for the analysis of genomic data, as well as directly assist them with analysis. Over two days, the team assisted with AMR, COVID-19, malaria, TB, and Schistosoma genomic, transcriptomics and serological data analysis.