Centre for Genomic Pathogen Surveillance
The Centre for Genomic Pathogen Surveillance (CGPS) is dedicated to tracking pathogen dynamics, data flow, and the use of genome sequencing for microbial pathogen surveillance. It collaborates with global partners, supports capacity building in genomics, and develops software tools for public health and research. CGPS is involved in various initiatives including genomic surveillance of antimicrobial resistance, outbreak investigation, and pathogen classification, with a focus on global health security and scientific collaboration. It actively partners with international health organizations and research institutions to enhance genomic epidemiology and response to infectious diseases.
Industries
Nr. of Employees
small (1-50)
Centre for Genomic Pathogen Surveillance
Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK
Products
Metadata uploader web application
Authenticated web application for sequencing sites to upload, validate and synchronise sample metadata with central repository APIs, with embedded field documentation.
Lineage and variant assignment web application
Web-accessible application to assign phylogenetic lineage or variant labels to genome sequences and display placement, temporal trends and geographic distribution for interpretation.
Curated protocols and resource collections
Collections of standardised laboratory protocols, training materials and guidance documents for implementation of genomic surveillance and for supporting grant and operational practices.
Metadata uploader web application
Authenticated web application for sequencing sites to upload, validate and synchronise sample metadata with central repository APIs, with embedded field documentation.
Lineage and variant assignment web application
Web-accessible application to assign phylogenetic lineage or variant labels to genome sequences and display placement, temporal trends and geographic distribution for interpretation.
Curated protocols and resource collections
Collections of standardised laboratory protocols, training materials and guidance documents for implementation of genomic surveillance and for supporting grant and operational practices.
Services
Technical collaboration with sequencing centres and public-health agencies to deliver genomic surveillance workflows, data integration, analysis and interpretation for outbreak response; includes coordination between local and large-scale sequencing facilities.
Non-laboratory courses and workshops on designing and delivering pathogen genomics training, genomic data analysis, and capacity building for sequencing and bioinformatics.
Design and distribution of blinded bacterial strain panels and assessment frameworks to evaluate laboratory ability to report phenotypic species/AST and genomic AMR-prediction results.
Installation, configuration and post-installation support for genomic data platforms including private/local instances and integration with local authentication services.
Interactive events and materials that use real datasets and web tools to communicate concepts around antimicrobial resistance and pathogen spread to general audiences.
Technical collaboration with sequencing centres and public-health agencies to deliver genomic surveillance workflows, data integration, analysis and interpretation for outbreak response; includes coordination between local and large-scale sequencing facilities.
Non-laboratory courses and workshops on designing and delivering pathogen genomics training, genomic data analysis, and capacity building for sequencing and bioinformatics.
Design and distribution of blinded bacterial strain panels and assessment frameworks to evaluate laboratory ability to report phenotypic species/AST and genomic AMR-prediction results.
Installation, configuration and post-installation support for genomic data platforms including private/local instances and integration with local authentication services.
Interactive events and materials that use real datasets and web tools to communicate concepts around antimicrobial resistance and pathogen spread to general audiences.
Expertise Areas
- Genomic surveillance
- Outbreak genomics and phylogenetic analysis
- Bioinformatics and genomic data visualisation
- Antimicrobial resistance (AMR) surveillance and genomic prediction
Key Technologies
- Whole-genome sequencing (WGS)
- Phylogenetic analysis
- Genomic data visualization platforms
- Metadata validation and ingestion pipelines
News & Updates
The WHO has designated the Centre for Genomic Pathogen Surveillance as a Collaborating Centre to support global efforts in genomic surveillance of antimicrobial resistance.
Research on the population structure of microbial pathogens using genome sequencing.
A training course on pathogen genomics analysis and training methods, scheduled for October 2022 at Wellcome Genome Campus, UK.
A pilot External Quality Assessment (EQA) for antimicrobial resistance prediction using phenotypic and genomic data, in collaboration with NCT and Public Health England.
An article discussing the role of public engagement in understanding and combating antibiotic resistance, including activities and lessons learned.
The Kempegowda Institute of Medical Sciences in Bangalore received the first certification for Good Financial Grant Practice (GFGP).
The WHO has designated the Centre for Genomic Pathogen Surveillance as a Collaborating Centre to support global efforts in genomic surveillance of antimicrobial resistance.
Research on the population structure of microbial pathogens using genome sequencing.
A training course on pathogen genomics analysis and training methods, scheduled for October 2022 at Wellcome Genome Campus, UK.
A pilot External Quality Assessment (EQA) for antimicrobial resistance prediction using phenotypic and genomic data, in collaboration with NCT and Public Health England.
An article discussing the role of public engagement in understanding and combating antibiotic resistance, including activities and lessons learned.
The Kempegowda Institute of Medical Sciences in Bangalore received the first certification for Good Financial Grant Practice (GFGP).