ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads

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...

पूर्ण विवरण

ग्रंथसूची विवरण
मुख्य लेखकों:	Hunt, M, Mather, AE, Sánchez-Busó, L, Page, AJ, Parkhill, J, Keane, JA, Harris, SR
स्वरूप:	Journal article
भाषा:	English
प्रकाशित:	Microbiology Society 2017

समान संसाधन

Rapid multi-locus sequence typing direct from uncorrected long reads using Krocus
द्वारा: Andrew J. Page, और अन्य
प्रकाशित: (2018-07-01)

Using genomics to understand antimicrobial resistance and transmission in Neisseria gonorrhoeae
द्वारा: Sanchez-Buso, L, और अन्य
प्रकाशित: (2019)

ReadItAndKeep: rapid decontamination of SARS-CoV-2 sequencing reads
द्वारा: Hunt, M, और अन्य
प्रकाशित: (2022)

ReadItAndKeep: rapid decontamination of SARS-CoV-2 sequencing reads
द्वारा: Hunt, M, और अन्य
प्रकाशित: (2022)

Identification of highly variable sequence fragments in unmapped reads for rapid bacterial genotyping
द्वारा: Marketa Nykrynova, और अन्य
प्रकाशित: (2022-12-01)

Retours sur le colloque de printemps de l'association francophone des professionnels de la Basse-Vision (ARIBa) de mai 2015 à Paris
द्वारा: Emeline Marie Kientz
प्रकाशित: (2015-10-01)

Rapid genotyping of targeted viral samples using Illumina short-read sequencing data.
द्वारा: Alex Váradi, और अन्य
प्रकाशित: (2022-01-01)

Genetic variation regulates the activation and specificity of restriction-modification systems in Neisseria gonorrhoeae
द्वारा: Sánchez-Busó, L, और अन्य
प्रकाशित: (2019)

Contributions of Long-Read Sequencing for the Detection of Antimicrobial Resistance
द्वारा: Roberto Sierra, और अन्य
प्रकाशित: (2024-08-01)

Integrative genotyping of cancer and immune phenotypes by long-read sequencing
द्वारा: Livius Penter, और अन्य
प्रकाशित: (2024-01-01)

Rapid genotype imputation from sequence with reference panels
द्वारा: Davies, RW, और अन्य
प्रकाशित: (2021)

A global resource for genomic predictions of antimicrobial resistance and surveillance of Salmonella Typhi at pathogenwatch
द्वारा: Argimón, S, और अन्य
प्रकाशित: (2021)

Population-scale genotyping of structural variation in the era of long-read sequencing
द्वारा: Cheng Quan, और अन्य
प्रकाशित: (2022-01-01)

Antimicrobial resistance prediction and phylogenetic analysis of Neisseria gonorrhoeae isolates using the Oxford Nanopore MinION sequencer
द्वारा: Golparian, D, और अन्य
प्रकाशित: (2018)

Rapid genotype imputation from sequence without reference panels
द्वारा: Myers, S, और अन्य
प्रकाशित: (2016)

Rapid genotyping of soybean cultivars using high throughput sequencing.
द्वारा: Kranthi Varala, और अन्य
प्रकाशित: (2011-01-01)

Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei
द्वारा: Chewapreecha, C, और अन्य
प्रकाशित: (2019)

Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei
द्वारा: Chewapreecha, C, और अन्य
प्रकाशित: (2019)

Evaluation of DNA extraction kits for long-read shotgun metagenomics using Oxford Nanopore sequencing for rapid taxonomic and antimicrobial resistance detection
द्वारा: Srinithi Purushothaman, और अन्य
प्रकाशित: (2024-11-01)

Rapid Phenotypic and Genotypic Antimicrobial Susceptibility Testing Approaches for Use in the Clinical Laboratory
द्वारा: Siham Hattab, और अन्य
प्रकाशित: (2024-08-01)

Dynamics and impact of homologous recombination on the evolution of Legionella pneumophila
द्वारा: David, S, और अन्य
प्रकाशित: (2017)

LD-based SNP and genotype calling from next-generation sequencing reads.
द्वारा: Menelaou, A
प्रकाशित: (2012)

Molecular epidemiology and whole genome sequencing analysis of clinical mycobacterium bovis from Ghana
द्वारा: Otchere, ID, और अन्य
प्रकाशित: (2019)

Evaluation of parameters affecting performance and reliability of machine learning-based antibiotic susceptibility testing from whole genome sequencing data
द्वारा: Hicks, AL, और अन्य
प्रकाशित: (2019)

SeroBA: rapid high-throughput serotyping of Streptococcus pneumoniae from whole genome sequence data
द्वारा: Epping, L, और अन्य
प्रकाशित: (2018)

Genotype calling and phasing using next-generation sequencing reads and a haplotype scaffold.
द्वारा: Menelaou, A, और अन्य
प्रकाशित: (2013)

Comprehensive evaluation of structural variant genotyping methods based on long-read sequencing data
द्वारा: Xiaoke Duan, और अन्य
प्रकाशित: (2022-04-01)

Detecting Large Chromosomal Modifications Using Short Read Data From Genotyping-by-Sequencing
द्वारा: Jens Keilwagen, और अन्य
प्रकाशित: (2019-09-01)

Linkage disequilibrium based genotype calling from low-coverage shotgun sequencing reads
द्वारा: Wu Yufeng, और अन्य
प्रकाशित: (2011-02-01)

Paragraph: a graph-based structural variant genotyper for short-read sequence data
द्वारा: Sai Chen, और अन्य
प्रकाशित: (2019-12-01)

Rapid and simple analysis of short and long sequencing reads using DuesselporeTM
द्वारा: Christian Vogeley, और अन्य
प्रकाशित: (2022-08-01)

RapidRat: Development, validation and application of a genotyping-by-sequencing panel for rapid biosecurity and invasive species management.
द्वारा: Bryson M F Sjodin, और अन्य
प्रकाशित: (2020-01-01)

Long‐read genotyping with SLANG (Simple Long‐read loci Assembly of Nanopore data for Genotyping)
द्वारा: Marco Dorfner, और अन्य
प्रकाशित: (2022-05-01)

Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences
द्वारा: Readman Chiu, और अन्य
प्रकाशित: (2021-08-01)

GINDEL: accurate genotype calling of insertions and deletions from low coverage population sequence reads.
द्वारा: Chong Chu, और अन्य
प्रकाशित: (2014-01-01)

Target-enriched long-read sequencing (TELSeq) contextualizes antimicrobial resistance genes in metagenomes
द्वारा: Ilya B. Slizovskiy, और अन्य
प्रकाशित: (2022-11-01)

Genotyping by Sequencing in Almond: SNP Discovery, Linkage Mapping, and Marker Design
द्वारा: Shashi N. Goonetilleke, और अन्य
प्रकाशित: (2018-01-01)

Rapid detection of myeloid neoplasm fusions using single-molecule long-read sequencing.
द्वारा: Olga Sala-Torra, और अन्य
प्रकाशित: (2023-01-01)

Long read sequencing reveals poxvirus evolution through rapid homogenization of gene arrays
द्वारा: Thomas A Sasani, और अन्य
प्रकाशित: (2018-08-01)

Bazam: a rapid method for read extraction and realignment of high-throughput sequencing data
द्वारा: Simon P. Sadedin, और अन्य
प्रकाशित: (2019-04-01)