An optimized genomic VCF workflow for precise identification of Mycobacterium tuberculosis cluster from cross-platform whole genome sequencing data

• Main Authors: Areeya Disratthakit, Licht Toyo-oka, Penpitcha Thawong, Pundharika Paiboonsiri, Nuanjun Wichukjinda, Pravech Ajawatanawong, Natthakan Thipkrua, Krairerk Suthum, Prasit Palittapongarnpim, Katsushi Tokunaga, Surakameth Mahasirimongkol
• Other Authors: University of Tokyo
• Format: Article
• Published: 2020
• Subjects: Agricultural and Biological Sciences; Biochemistry, Genetics and Molecular Biology; Immunology and Microbiology; Medicine
• Online Access: https://repository.li.mahidol.ac.th/handle/123456789/49503
• Institution: Mahidol University

© 2019 Elsevier B.V. Whole-genome sequencing (WGS) data allow for an inference of Mycobacterium tuberculosis (Mtb) clusters by using a pairwise genetic distance of ≤12 single nucleotide polymorphisms (SNPs) as a threshold. However, a problem of discrepancies in numbers of SNPs and genetic distance m...