Article
Variant site strain typer (VaST): efficient strain typing using a minimal number of variant genomic sites.
BMC bioinformatics - 11 Jun 2018
Furstenau Tara N, Cocking Jill H, Sahl Jason W, Fofanov Viacheslav Y
Abstract excerpt
BACKGROUND: Targeted PCR amplicon sequencing (TAS) techniques provide a sensitive, scalable, and cost-effective way to query and identify closely related bacterial species and strains. Typically, this is accomplished by targeting housekeeping genes that provide resolution down to the family, genera, and sometimes species level. Unfortunately, this level of resolution is not sufficient in many applications where...
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