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Nasopharyngeal metagenomic deep sequencing data, Lancaster, UK, 2014-2015.

Atkinson, Kate V.; Bishop, Lisa A.; Rhodes, Glenn; Salez, Nicolas; McEwan, Neil R.; Hegarty, Matthew J.; Robey, Julie; Harding, Nicola; Wetherell, Simon; Lauder, Robert M.; Pickup, Roger W.; Wilkinson, Mark; Gatherer, Derek


Kate V. Atkinson

Lisa A. Bishop

Glenn Rhodes

Nicolas Salez

Neil R. McEwan

Matthew J. Hegarty

Julie Robey

Nicola Harding

Simon Wetherell

Robert M. Lauder

Roger W. Pickup

Mark Wilkinson

Derek Gatherer


Nasopharyngeal swabs were taken from volunteers attending a general medical practice and a general hospital in Lancaster, UK, and at Lancaster University, in the winter of 2014-2015. 51 swabs were selected based on high RNA yield and allocated to deep sequencing pools as follows: patients with chronic obstructive pulmonary disease; asthmatics; adults with no respiratory symptoms; adults with feverish respiratory symptoms; adults with respiratory symptoms and presence of antibodies against influenza C; paediatric patients with respiratory symptoms (2 pools); adults with influenza C infection (2 pools), giving a total of 9 pools. Illumina sequencing was performed, with data yields per pool in the range of 345.6 megabases to 14 gigabases after removal of reads aligning to the human genome. The data were deposited in the Sequence Read Archive at NCBI, and constitute a resource for study of the viral, bacterial and fungal metagenome of the human nasopharynx in healthy and diseased states and comparison with other metagenomic studies on the human respiratory tract.


ATKINSON, K.V., BISHOP, L.A., RHODES, G., SALEZ, N., MCEWAN, N.R., HEGARTY, M.J., ROBEY, J., HARDING, N., WETHERELL, S., LAUDER, R.M., PICKUP, R.W., WILKINSON, M. and GATHERER, D. 2017. Nasopharyngeal metagenomic deep sequencing data, Lancaster, UK, 2014-2015. Scientific data [online], 4, article No. 170161. Available from:

Journal Article Type Article
Acceptance Date Sep 6, 2017
Online Publication Date Oct 24, 2017
Publication Date Nov 30, 2017
Deposit Date Nov 16, 2017
Publicly Available Date Nov 16, 2017
Journal Scientific data
Print ISSN 2052-4463
Electronic ISSN 2052-4463
Publisher Springer
Peer Reviewed Peer Reviewed
Volume 4
Article Number 170161
Keywords Clinical microbiology; Infectious diseases; Metagenomics; RNA sequencing; Virology
Public URL


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