COVID-19 resources

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.

The SARS-COV-2 portal

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:

In addition, ELIXIR Norway has made available at the NTNU Galaxy workflows for:

For help or questions regarding the analysis workflows, please send an email to the national ELIXIR helpdesk: contact@bioinfo.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.