Ip, C. L., Loose, M., Tyson, J. R., de Cesare, M., Brown, B. L., Jain, M., Leggett, R. M., Eccles, D. A., Zalunin, V., Urban, J. M., Piazza, P., Bowden, R. J., Paten, B., Mwaigwisya, S., Batty, E. M., Simpson, J. T., Snutch, T. P., Birney, E., Buck, D., Goodwin, S., Jansen, H. J., O'Grady, J., Olsen, H. E. (October 2015) MinION Analysis and Reference Consortium: Phase 1 data release and analysis. F1000Res, 4. p. 1075. ISSN 2046-1402 (Electronic)2046-1402 (Linking)
Abstract
The advent of a miniaturized DNA sequencing device with a high-throughput contextual sequencing capability embodies the next generation of large scale sequencing tools. The MinION Access Programme (MAP) was initiated by Oxford Nanopore Technologies in April 2014, giving public access to their USB-attached miniature sequencing device. The MinION Analysis and Reference Consortium (MARC) was formed by a subset of MAP participants, with the aim of evaluating and providing standard protocols and reference data to the community. Envisaged as a multi-phased project, this study provides the global community with the Phase 1 data from MARC, where the reproducibility of the performance of the MinION was evaluated at multiple sites. Five laboratories on two continents generated data using a control strain of Escherichia coli K-12, preparing and sequencing samples according to a revised ONT protocol. Here, we provide the details of the protocol used, along with a preliminary analysis of the characteristics of typical runs including the consistency, rate, volume and quality of data produced. Further analysis of the Phase 1 data presented here, and additional experiments in Phase 2 of E. coli from MARC are already underway to identify ways to improve and enhance MinION performance.
| Item Type: | Paper |
|---|---|
| Uncontrolled Keywords: | MinION NanoOK data release long reads marginAlign minoTour nanopore sequencing third-generation sequencing |
| Subjects: | bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes Investigative techniques and equipment > assays > next generation sequencing Investigative techniques and equipment > assays > whole genome sequencing |
| CSHL Authors: | |
| Communities: | CSHL labs > McCombie lab |
| Depositing User: | Matt Covey |
| Date: | 15 October 2015 |
| Date Deposited: | 09 Feb 2016 20:17 |
| Last Modified: | 15 Jul 2021 19:23 |
| PMCID: | PMC4722697 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/32358 |
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