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Updated: Jan 5, 2026

Sequencing of mRNA from Whole Blood using Nanopore Sequencing
Published on: June 3, 2019
Third-Generation Sequencing in the Clinical Laboratory: Exploring the Advantages and Challenges of Nanopore
Lauren M Petersen1, Isabella W Martin2, Wayne E Moschetti3
1Dartmouth-Hitchcock Medical Center, Department of Pathology and Laboratory Medicine, Lebanon, New Hampshire, USA lauren.m.petersen@hitchcock.org.
Abstract:
Metagenomic sequencing for infectious disease diagnostics is an important tool that holds promise for use in the clinical laboratory. Challenges for implementation so far include high cost, the length of time to results, and the need for technical and bioinformatics expertise. However, the recent technological innovation of nanopore sequencing from Oxford Nanopore Technologies (ONT) has the potential to address these challenges. ONT sequencing is an attractive platform for clinical laboratories to adopt due to its low cost, rapid turnaround time, and user-friendly bioinformatics pipelines. However, this method still faces the problem of base-calling accuracy compared to other platforms. This review highlights the general challenges of pathogen detection in clinical specimens by metagenomic sequencing, the advantages and disadvantages of the ONT platform, and how research to date supports the potential future use of nanopore sequencing in infectious disease diagnostics.
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