COVID-19 resources
ELIXIR Norway has now launched the Norwegian COVID-19 Data Portal to enable Norwegian scientists to share and access research data on the coronavirus disease (COVID-19). Please visit the portal to learn more:
Below you will find a collection of bioinformatics resources that may be useful in the joint efforts against the SARS-CoV-2. The list includes data bases and analytics tools from ELIXIR Europe, from ELIXIR nodes, including the Norwegian, and other resources and initiatives identified throughout the world. The list will be updated as the pandemic evolves and our knowledge expands.
ELIXIR support for SARS-CoV-2 research
ELIXIR Europe provides an excellent starting point by collecting a of relevant data resources and tools provided by EBI and ELIXIR nodes, and also directs us towards services from other infrastructures.
This manually curated database and portal currently includes 865 SARS-CoV-2 genomes, each with 44 metadata fields. The portal is provided by ELIXIR Norway, and also contains links to visualization and bioinformatics tools and data resources provided freely by ELIXIR Norway and ELIXIR members.
Crowdfight COVID-19
An initiative from the scientific community to put all available resources at the service of the fight against COVID-19
The EBI Pathogens database
Lists data held at EMBL-EBI relating to the COVID-19 outbreak.
NCBI Virus
has set up a Severe acute respiratory syndrome coronavirus 2 data hub.
Galaxy
has made available the following resources:
and workflows:
- Initial analysis of COVID-19 data using Galaxy, BioConda and public research infrastructure (XSEDE, de.NBI-cloud, ARDC cloud)
- Virtual screening of the SARS-CoV-2 main protease (de.NBI-cloud, STFC)
In addition, ELIXIR Norway has made available at the NTNU Galaxy workflows for:
- COVID-19: Pre-process multiple PE samples
- COVID-19: Pre-process single PE samples
- COVID-19: Single nucleotide variation analysis
For help or questions regarding the analysis workflows, please send an email to the national ELIXIR helpdesk: support@elxir.no
The Clinical Bioinformatics Area of Andalucia, Spain
has collected a number of bioinformatics resources useful to track the evolution and progression of the SARS-CoV-2 virus as well as to manage genomics data of the virus.
Guidelines for Data Sharing of SARS-CoV2/Covid-19 related data
The Research Council of Norway has signed, together with a large number of other funders, institutions and journals the Statement on Data Sharing in Public Health Emergency.
The RDA Covid-19 work group has formulated recommendations and guidelines for sharing of Covid-19 related data including data format and repository recommendations.
The European commission has published their H2020 SARS-CoV2 Data Management Guidelines and refer to the RDA guidelines.
Ethical and Legal Considerations in addition to the European Data Protection Board (EDPB) Guidelines are provided by the Global Alliance for Genomics and Health (GA4GH)
The current best practice for SARS-CoV-2 genomic data deposition
is to deposit the consensus and/or assembled sequence and the raw sequencing data to ENA and in addition the consensus sequence also to gisaid.org (optional).
The ELIXIR-Norway Helpdesk provides assistance to prepare data for submission.
Other Data resources are collected in the FAIRsharing COVID-19 collection.
The Dutch GoFAIR initiative
has established a Virus Outbreak Data Network (VODAN) to promote FAIR data management and data reuse in the current and future outbreaks.