Oxford Screening of CSF and Respiratory Samples ('OSCAR'): Supplementary resources for a project using Next Generation Sequencing (NGS) for identification of viruses from clinical laboratory samples

<p>This is a file set that describes the methods used in a small pilot study to investigate 'next generation sequencing' (NGS) derived from an Illumina platform, applied to clinical diagnostic samples following routine testing in a UK microbiology laboratory.</p><p>We briefly summarise the benefits and challenges of an NGS approach to diagnostics, and conclude with some potential methodological improvements.</p><p>The file set includes anonymised metadata for the samples tested (10 respiratory and 10 CSF).</p><p>Results have been made available through a separate DOI: 10.6084/m9.figshare.5712091 and the entire genomic metadata have been submitted to European Nucleotide Archive (ENA); (primary accession PRJEB22949). </p><p>This study was approved through the UK integrated research application system (REC reference 14/LO/1077).</p

Oxford Screening of CSF and Respiratory Samples ('OSCAR'): interactive data visualisation using Krona to display results from a pilot project using Next Generation Sequencing (NGS) for identification of viruses from clinical laboratory samples

This is an html file that allows visualisation of metagenomic dataset from a pilot project to screen CSF and respiratory samples using Illumina HiSeq after completion of routine diagnostic testing in a UK microbiology laboratory.<div><br></div><div>Methods and underlying metadata are available through a separate DOI (<a rel="noreferrer noopener" target="_blank">10.6084/m9.figshare.5670007). The entire metagenomic dataset has been uploaded to the European Nucleotide Archive (</a>primary accession PRJEB22949). <a rel="noreferrer noopener" target="_blank">A subset of these data have been used for a project to identify human herpesvirus 6 (HHV-6) in clinical samples; this manuscript is available on BioRxiv (</a>https://doi.org/10.1101/236083).</div><div><div><div><div><br></div></div><div>This study was approved through the UK integrated research application system (REC reference 14/LO/1077).</div></div></div