COVID-19 RESOURCES

This page provides a selection of COVID-19 links related to epitope prediction and analysis. We perform regular checks for broken links, but please let us know if any links are broken or in need of updating. Likewise, we would love to hear of any additions that you feel should be included in our list of selected links.

ANTIBODIES & VACCINES

LITERATURE

PORTALS

SEQUENCES

  • Coronapp - A web app to discover and annotate and monitor mutations present in SARS-CoV-2 genomes, including partial sequences (Department of Pharmacy and Biotechnology, University of Bologna).
  • CoV-GLUE - Web application for the analysis of SARS-CoV-2 genome sequences (MRC-University of Glasgow Centre for Virus Research).
  • CoVsurver - Mutation analysis of hCoV-19 at the GISAID.
  • GISAID - Global initiative promoting rapid data sharing from the coronavirus causing COVID-19 and all influenza viruses. A global standard whole genome sequence database.
  • NCBI SARS-CoV-2 Sequence Resources - Curated gene and protein sequence databases (NIH-NLM).
  • Nextstrain - SARS-CoV-2 sequence resources.
  • SARS-CoV-2 Database - A curated knowledge database for SARS-CoV-2 virus research (Center for Bioinformatics, UiT The Arctic University of Norway).
  • SARS-CoV-2 variants in the EU/EEA - (European Centre for Disease Prevention and Control (ECDC)).

STRUCTURES

  • AlphaFold computational predictions of COVID-19 protein structures - Open source resource of AlphaFold protein structure predictions (DeepMind).
  • Coronavirus3D - 3D visualization and analysis of the SARS-CoV-2 (COVID-19) protein structures with respect to mutational patterns.
  • Coronavirus 3D Structure Database (CoV3D) - A weekly updated resource for structures of coronavirus proteins and their recognition by antibodies and other molecules.
  • CoVal - A repository of amino acid replacement mutations identified in the SARS-CoV-2 genome sequences, mapped onto their cryo-EM derived protein structures.
  • COVID-19 Docking Server - A web server for docking small molecule, peptide or antibody to COVID-19 protein targets (Institute of Bioinformatics and Medical Engineering, Jiangsu University of Technology).
  • DINC-COVID - A web server to incrementally dock ligands to COVID-19 related proteins (Physical and Biological Computing Group, Rice University, Texas).
  • DockThor - Web server for protein-ligand docking providing covid-19 therapeutic target proteins and variants ready prepared for docking (GMMSB research group, National Laboratory for Scientific Computing - LNCC, PetrĂ³polis, RJ, Brazil).
  • I-TASSER modelling of SARS-CoV-2 structures (Zhang Lab, University of Michigan).
  • PDB COVID-19/SARS-CoV-2 Resources (RCSB PDB).
  • PDBe-KB COVID-19 Data Portal - Brings together all available PDB data from SARS-CoV-2 structures (EMBL-EBI).
  • SWISS-MODEL SARS-CoV-2 Repository - database of annotated 3D protein structure homology models generated by the SWISS-MODEL homology-modelling pipeline (Swiss Institute of Bioinformatics (SIB).