ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
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 n...
| Main Authors: | , , , , , , |
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| Format: | Journal article |
| Jezik: | English |
| Izdano: |
Microbiology Society
2017
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| _version_ | 1826284802279473152 |
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| author | Hunt, M Mather, AE Sánchez-Busó, L Page, AJ Parkhill, J Keane, JA Harris, SR |
| author_facet | Hunt, M Mather, AE Sánchez-Busó, L Page, AJ Parkhill, J Keane, JA Harris, SR |
| author_sort | Hunt, M |
| collection | OXFORD |
| description | 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-positive and Gram-negative bacteria, with ARIBA outperforming existing methods. |
| first_indexed | 2024-03-07T01:19:19Z |
| format | Journal article |
| id | oxford-uuid:8fcd9d9a-ef0c-40d8-8d2f-f428eaef995f |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T01:19:19Z |
| publishDate | 2017 |
| publisher | Microbiology Society |
| record_format | dspace |
| spelling | oxford-uuid:8fcd9d9a-ef0c-40d8-8d2f-f428eaef995f2022-03-26T23:06:57ZARIBA: rapid antimicrobial resistance genotyping directly from sequencing readsJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:8fcd9d9a-ef0c-40d8-8d2f-f428eaef995fEnglishSymplectic Elements at OxfordMicrobiology Society2017Hunt, MMather, AESánchez-Busó, LPage, AJParkhill, JKeane, JAHarris, SRAntimicrobial 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-positive and Gram-negative bacteria, with ARIBA outperforming existing methods. |
| spellingShingle | Hunt, M Mather, AE Sánchez-Busó, L Page, AJ Parkhill, J Keane, JA Harris, SR ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title | ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title_full | ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title_fullStr | ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title_full_unstemmed | ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title_short | ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads |
| title_sort | ariba rapid antimicrobial resistance genotyping directly from sequencing reads |
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