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ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads

Abstract:

Antimicrobial resistance (AMR) is one of the major threats to human and animal health worldwide, yet few high-throughput tools exist to analyse and predict the resistance of a bacterial isolate from sequencing data. Here we present a new tool, ARIBA, that identifies AMR-associated genes and single nucleotide polymorphisms directly from short reads, and generates detailed and customizable output. The accuracy and advantages of ARIBA over other tools are demonstrated on three datasets from Gram...

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Publication status:
Published
Peer review status:
Peer reviewed
Version:
Publisher's Version

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Publisher copy:
10.1099/mgen.0.000131

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Institution:
University of Oxford
Division:
Medical Sciences Division
Department:
NDM
Subgroup:
BDI
Role:
Author
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Publisher:
Microbiology Society Publisher's website
Journal:
Microbial Genomics Journal website
Volume:
3
Issue:
10
Pages:
Article: e000131
Publication date:
2017-09-04
Acceptance date:
2017-08-01
DOI:
ISSN:
2057-5858
Pubs id:
pubs:1020258
URN:
uri:8fcd9d9a-ef0c-40d8-8d2f-f428eaef995f
UUID:
uuid:8fcd9d9a-ef0c-40d8-8d2f-f428eaef995f
Local pid:
pubs:1020258

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