Skip to main content
All data types Biochemistry data Drug discovery data Genomics & transcriptomics data Health data Imaging data Other data Protein data Public health data Serology data Social science and humanities data
Data Highlights
Antibody tests for SARS-CoV-2 at SciLifeLab COVID Symptom Study Sweden (Partner) COVID-19 publication overview CRUSH Covid Uppsala (Partner) National Pandemic Centre (Historic) Post COVID-19 condition Register-based vaccination (RECOVAC) SARS-CoV-2 whole genome sequencing (Region Uppsala) Vaccine administration: COVID-19 Wastewater-based epidemiology
Pandemic Preparedness Ongoing research projects Register-based research Funding opportunities Swedish COVID-19 Publications
Emerging Pathogens
Research Data Management
Sample Collection Database
Antibiotic resistance COVID-19 Enteric viruses Infectious diseases Influenza Mpox
Editorials
Events & Training

Pandemic Preparedness Resources

Rapid establishment of comprehensive laboratory pandemic preparedness – RAPID-SEQ


Funding given for project project entitled:

Rapid establishment of comprehensive laboratory pandemic preparedness – RAPID-SEQ

PI(s)/Head responsible for the resource:

Jan Albert

Host organisation(s):

Karolinska Institutet

Resource description:

The emergence of SARS-CoV-2 VOCs has shown the need for continuous large- scale surveillance to monitor for future pandemic threats. This project builds on established collaboration between SciLifeLab and the Karolinska University Laboratory, and provide samples, data and expertise from Sweden’s largest microbiology laboratory. In addition, the structure is part of Genomic Medicine Sweden (GMS) which is ensuring the coordination with other national efforts.

The laboratory has established large-scale WGS of SARS-CoV-2 (to-date 2000+ samples sequenced and reported to SMInet. Current capacity: 500 WGS/ week). The project also aims to establish high-throughput, long-read sequencing of the SARS- CoV-2 spike gene, as well as capacity for neutralization assays of vaccine escape variants.

This project involves two subprojects; taxprofiler and GMS Arctic. Please see the taxprofiler and GMS Arctic pages for more information (including information on access and usage).

Specific project aims:

  1. An infrastructure for sample handling and sequencing, with access to BSL-2/3 labs, metadata, automation, etc.
  2. High-capacity, short-read and long-read sequencing for rapid continuous surveillance of emerging SARS-CoV-2 variants linked with capacity for functional tests.
  3. Establishment of a metagenomic assay for molecular surveillance of respiratory viruses
Contact information:

Jan Albert
Professor
Email: jan.albert@ki.se