NGS in the clinical microbiology settings

This dataset contains bam files from 16s rRNA targeted NGS sequencing from a variety of clinical specimens. The study included 55 specimens from 51 patients. We compared targeted NGS to Sanger sequencing in clinical samples submitted for Sanger sequencing. 

NGS: We sequenced the amplified V1-2 or V4 regions of 16s rRNA gene with Ion S5™ System (Thermo Fisher Scientific).  Data were analyzed using the Ion Reporter bioinformatics Software pipeline (Thermo Fisher Scientific), using a threshold of 1000 mapped reads for designating significant pathogens. BAM files uploaded to the Ion Reporter were mapped to the Silva 138 SSU database.