- Course overview
- Search within this course
- What is antimicrobial resistance?
- How do we study pathogens?
- Public pathogen data
- Analysing genomic data from pathogens
- Identification and investigation of antimicrobial resistance genes
- Looking for antimicrobial resistance genes in different environments
- Data sharing
- The future of AMR
- Crossword: Test your knowledge
- Your feedback
- Further resources
- Help and support
- Glossary
- References
All materials are free cultural works licensed under a Creative Commons Attribution 4.0 International (CC BY 4.0) license, except where further licensing details are provided.
A guide to the Pathogens Portal
What is the Pathogens Portal?
The Pathogens Portal serves as a comprehensive resource for researchers, clinicians, and public health professionals seeking access to biomolecular data related to a diverse range of pathogens. It aims to facilitate rapid knowledge discovery, accelerate disease prevention and treatment strategies, and foster collaboration across the scientific and policy-making communities.
Where does the data come from?
The data in Pathogens Portal is provided from the following biodata resources:
- European Nucleotide Archive (ENA) – A repository of the world’s nucleotide sequencing information and related metadata
- BioSamples archive – A database that stores and supplies description and metadata about biological samples
- EuropePMC – A database of life science journal articles and preprints
- European Genome Phenome Archive (EGA) – A repository for the permanent archiving and distribution of personally identifiable genetic and phenotypic data generated from biomedical research projects
How are pathogens selected for the portal?
The organisms present in the Pathogens Portal are selected based on the UK HSE (Health and Safety Executive) approved list of biological agents, and the WHO priority list of pathogens. Additionally all viruses are included as pathogens, even though not all cause disease, because they are obligate intracellular parasites.