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Barcode aware adaptive sampling for GridION and PromethION Oxford Nanopore sequencers

View ORCID ProfileAlexander Payne, View ORCID ProfileRory Munro, View ORCID ProfileNadine Holmes, Christopher Moore, Matt Carlile, View ORCID ProfileMatthew Loose
doi: https://doi.org/10.1101/2021.12.01.470722
Alexander Payne
1School of Life Sciences, University of Nottingham
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Rory Munro
1School of Life Sciences, University of Nottingham
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Nadine Holmes
2DeepSeq, School of Life Sciences, University of Nottingham
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Christopher Moore
2DeepSeq, School of Life Sciences, University of Nottingham
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Matt Carlile
2DeepSeq, School of Life Sciences, University of Nottingham
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Matthew Loose
3University of Nottingham
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  • For correspondence: matt.loose@nottingham.ac.uk
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Abstract

Adaptive sampling enables selection of individual DNA molecules from sequencing libraries, a unique property of nanopore sequencing. Here we develop our adaptive sampling tool readfish to become “barcode-aware” enabling selection of different targets within barcoded samples or filtering out individual barcodes. We show that multiple human genomes can be assessed for copy number and structural variation on a single sequencing flow cell using sample specific customised target panels on both GridION and PromethION devices.

Competing Interest Statement

ML was a member of the MinION access program and has received free flow cells and sequencing reagents in the past. ML has received reimbursement for travel, accommodation and conference fees to speak at events organised by Oxford Nanopore Technologies. Early access to MinKNOW software updates from Oxford Nanopore Technologies enabled this work.

Footnotes

  • This text has been revised to incorporate new data generated on the Oxford Nanopore PromethION platform.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted March 30, 2022.
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Barcode aware adaptive sampling for GridION and PromethION Oxford Nanopore sequencers
Alexander Payne, Rory Munro, Nadine Holmes, Christopher Moore, Matt Carlile, Matthew Loose
bioRxiv 2021.12.01.470722; doi: https://doi.org/10.1101/2021.12.01.470722
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Barcode aware adaptive sampling for GridION and PromethION Oxford Nanopore sequencers
Alexander Payne, Rory Munro, Nadine Holmes, Christopher Moore, Matt Carlile, Matthew Loose
bioRxiv 2021.12.01.470722; doi: https://doi.org/10.1101/2021.12.01.470722

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