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Swedish Pathogens Portal SciLifeLab

Swedish Pathogens Portal

Supporting pandemic preparedness research in Sweden by providing access to datasets, resources, and tools.

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Dashboards

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Interactive visualisations of pathogen surveillance and research data. Explore trends, compare datasets, and access up-to-date summaries from Swedish and international sources.

SLU-SEEC Wastewater Surveillance
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SLU-SEEC Wastewater Surveillance
Explore pathogens levels in wastewater across Sweden. Weekly data from SLU-SEEC tracks pathogens trends, covering a significant portion of the population, and assists in predicting potential outbreaks.
COVID-19 Infectious diseases Influenza Respiratory Syncytial Virus (RSV)
Register-based COVID-19 vaccination study (RECOVAC)
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Register-based COVID-19 vaccination study (RECOVAC)
Dedicated to the work of the register-based large-scale national population study to monitor COVID-19 vaccination effectiveness and safety (RECOVAC) project.
COVID-19 Infectious diseases
SARS-CoV-2 Variant Competition
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SARS-CoV-2 Variant Competition
Estimates of SARS-CoV-2 variant frequencies and growth rate advantages from global SARS-CoV-2 genotype sequencing data.
COVID-19 Infectious diseases

Data Highlights and Editorials

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Curated data highlights and editorials from the pathogen research community. Stay informed about new findings, methods, and perspectives in pandemic preparedness.

Investigating growth interactions in the human gut microbiome
Data Highlight
Investigating growth interactions in the human gut microbiome
Systematic profiling of human gut bacteria reveals predominantly inhibitory growth interactions, although some factors did promote growth.
Infectious diseases
From fragmented data to preparedness: why Sweden needs a stronger research infrastructure for infection data
Editorial
From fragmented data to preparedness: why Sweden needs a stronger research infrastructure for infection data
CRITICAL MICROBES aims to develop a national research infrastructure that brings together clinical microbiology results and links them with patient characteristics and health outcomes.
Infectious diseases
A new MLST scheme for tracking Giardia duodenalis assemblage B outbreaks
Data Highlight
A new MLST scheme for tracking Giardia duodenalis assemblage B outbreaks
A novel seven-marker MLST scheme enhances molecular typing of Giardia duodenalis assemblage B, improving outbreak detection and epidemiological surveillance.
Infectious diseases

Explore Topics

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Browse research areas and pathogen themes. Each topic brings together datasets, guidance, and resources to support your work in surveillance, identification, and investigation.

Antibiotic resistance
Antibiotic resistance
Antibiotic resistance is a global health threat where microorganisms become resistant to antibiotics. It threatens healthcare and food security, making surveillance, research, and effective policies vital to prevent resistance and improve treatments.
COVID-19
COVID-19
COVID-19, caused by SARS-CoV-2, triggered a global pandemic. Vaccines remain crucial, while research focuses on early detection, new variants, effective treatments, and strengthening preparedness for future outbreaks.
Enteric viruses
Enteric viruses
Enteric viruses spread primarily through faecal-oral route, causing enteric disease (e.g. nausea, diarrhea, vomiting, abdominal pain). They include calicivirus, adenoviruses, astroviruses, rotaviruses, hepatitis viruses, and enteroviruses.

News & Updates

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Oct 13, 2026

Latest version of the portal goes live

The latest version of the Swedish Pathogens Portal is going live today, enabling multiple features requested by users.

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Sep 24, 2026

New data highlight on investigating growth interactions in the human gut microbiome

Systematic profiling of human gut bacteria reveals predominantly inhibitory growth interactions, although some factors did promote growth.

Read more
Sep 10, 2026

Connecting Sweden’s microbiology data for research and preparedness

CRITICAL MICROBES aims to develop a national research infrastructure that brings together clinical microbiology results and links them with patient characteristics and health outcomes.

Read more