London School of Hygiene & Tropical Medicine - Department of Infection Biology, University of Cambridge - Department of Medicine, University of Cambridge - Department of Medicine, University of Cambridge - Department of Medicine, Genomics England, University of Cambridge - Department of Veterinary Medicine, University of Cambridge - Department of Veterinary Medicine, European Bioinformatics Institute (EMBL-EBI) - Wellcome Genome Campus, Wellcome Sanger Institute, British Society for Antimicrobial Chemotherapy, National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, NHS Foundation Trust - Cambridge University Hospitals, University of Cambridge - Department of Veterinary Medicine, University of Cambridge - Department of Veterinary Medicine, University of Cambridge - Department of Medicine and NHS Foundation Trust - Cambridge University Hospitals

European Bioinformatics Institute (EMBL-EBI) - Wellcome Genome Campus, National Hospital for Tropical Diseases, University of Cambridge - Cambridge Institute of Therapeutic Immunology & Infectious Disease (CITIID), National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, Bach Mai Hospital, National Hospital for Tropical Diseases, Bach Mai Hospital, Bach Mai Hospital, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, Hanoi Medical University, University of Cambridge, University of Cambridge, University of Cambridge, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, University of Cambridge - Department of Veterinary Medicine, National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, European Bioinformatics Institute (EMBL-EBI) and University of Cambridge - Department of Medicine

Wellcome Sanger Institute, National Hospital for Tropical Diseases, Wellcome Sanger Institute, University of Cambridge - Cambridge Institute of Therapeutic Immunology & Infectious Disease (CITIID), National Hospital for Tropical Diseases, University of Malawi - Malawi-Liverpool-Wellcome Trust Clinical Research Programme, Wellcome Sanger Institute, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, Hanoi Medical University, Bach Mai Hospital, Bach Mai Hospital, affiliation not provided to SSRN, Bach Mai Hospital, National Hospital for Tropical Diseases, University of Cambridge - Department of Medicine, University of Cambridge, University of Cambridge, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, University of Cambridge - Department of Veterinary Medicine, Hospital of Tropical Diseases - Oxford University Clinical Research Unit, National Hospital for Tropical Diseases, National Hospital for Tropical Diseases, University of Cambridge - Department of Medicine and Wellcome Sanger Institute