2014
DOI: 10.1186/1756-0500-7-314
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Implementation of Cloud based Next Generation Sequencing data analysis in a clinical laboratory

Abstract: BackgroundThe introduction of next generation sequencing (NGS) has revolutionized molecular diagnostics, though several challenges remain limiting the widespread adoption of NGS testing into clinical practice. One such difficulty includes the development of a robust bioinformatics pipeline that can handle the volume of data generated by high-throughput sequencing in a cost-effective manner. Analysis of sequencing data typically requires a substantial level of computing power that is often cost-prohibitive to m… Show more

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Cited by 23 publications
(10 citation statements)
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“…Investigators at Baylor University and the University of Minnesota have implemented cloudbased bioinformatics workflows, demonstrating increased efficiency and scalability (Onsongo et al, 2014;Reid et al, 2014).…”
Section: (Iv) Bioinformaticsmentioning
confidence: 99%
“…Investigators at Baylor University and the University of Minnesota have implemented cloudbased bioinformatics workflows, demonstrating increased efficiency and scalability (Onsongo et al, 2014;Reid et al, 2014).…”
Section: (Iv) Bioinformaticsmentioning
confidence: 99%
“…Therefore, the quantitative and qualitative metrics to evaluate a baseline bacterial and fungal profile in normal individuals and UTI patients have to be introduced and validated in multiinstitutional trials to collect more robust data [28]. Assay validation will be a critical step in assessing performance, and it is imperative that standard operating procedures are constructed in order to produce accurate results [29]. Laboratories will need to provide independent verifications of test performance set side by side with other laboratories in order to ensure proficiency.…”
Section: Limitations Of Ngsmentioning
confidence: 99%
“…This type of tool could take the form of a diagnostic index based on specific objective routine parameters, like FIB-4 or NIKEI in non-alcoholic fatty liver disease (Demir et al, 2013 ), or prognostically relevant clinical judgment questions (Ganna and Ingelsson, 2015 ), or as a blood-sample based biomarker panel (Mesko et al, 2010 ; Etheridge et al, 2011 ; Hu et al, 2014 ), or as a combination of all mentioned options. With next-generation sequencing costs falling rapidly, some solutions are already being tested for use in the clinical laboratory (Onsongo et al, 2014 ). Some studies indicate that next-generation sequencing solutions may become cost effective (Gallego et al, 2015 ; Li et al, 2015 ).…”
Section: Key Principles Of the Brsm Approachmentioning
confidence: 99%