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Public Data & Analysis

We are committed to open science, and sharing all data that we can as rapidly as possible

COG-UK sits at the interface of public health action and academic research. We are committed to open science, and sharing all data that we can as rapidly as possible. This includes sharing data for use by Public Health authorities internationally, to support the COVID-19 response, and sharing data in such a way that the academic community can access and use the data and analysis according to FAIR data principles.

Please note that the data that is being shared is the work of hundreds of people and should be treated as unpublished data. If you wish to publish research using the data, please get in contact with COG-UK first to ensure that those who have generated the data can be involved in its analysis.

The Lineages in Space and Time website provides a real-time update to our previous model on the incidence and growth of different lineages of SARS-CoV-2 in England.

The COG-UK Mutation Explorer (COG-UK-ME) is an interface that provides access to data on SARS-CoV-2 mutations and variants of interest in the COG-UK genome sequence data set. Data are drawn from the MRC-CLIMB database. The COG-UK-ME largely focuses on spike gene mutations of potential or known importance based on epidemiological, clinical and/or experimental observations. Read the publication here.

Watch our COG-UK Mutation Explorer demo video below

CoVal is a repository of amino acid replacement mutations identified in the SARS-CoV-2 genome sequences, mapped onto the cryo-EM derived protein structures. CoVal provides information on the demographic distribution of these mutations, and report co-occuring mutations.

The Global Report Investigating Novel Coronavirus Haplotypes (GRINCH), on the PANGO lineages database, details lineages that are being tracked due to their mutations of interest and evidence of international spread.

Microreact

COG-UK partner The Centre for Genomic Pathogen Surveillance maintain a Microreact website which permits continuous evaluation of the lineages circulating in the UK.

CoV-GLUE

The MRC-University of Glasgow Centre for Virus Research have developed a web application for the analysis of SARS-CoV-2 genome sequences: CoV-GLUE.

GISAID

We regularly deposit datasets into public databases such as GISAID for consensus sequence. The Global Initiative on Sharing All Influenza Data (GISAID) database has emerged as the standard database for sharing of SARS-CoV-2 data internationally.

Nextstrain

The COG-UK consortium regularly deposits sequences into this database, which can be viewed in international context via Nextstrain.

ENA

We regularly deposit datasets into public databases such as ENA for raw data. We are in the process of transferring and uploading raw sequencing reads through the European Nucleotide Archive’s Sequence Read Archive service (BioProject PRJEB37886), with consensus sequences also to follow into ENA/Genbank.