Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella - Test2 - elhamkhani - TriplyDB

Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella

Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella

http://www.wikidata.org/entity/Q24286921

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Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis.Use of Unamplified RNA/cDNA-Hybrid Nanopore Sequencing for Rapid Detection and Characterization of RNA Viruses Real-time, portable genome sequencing for Ebola surveillance Outbreak Breakthrough: Using Whole-Genome Sequencing to Control Hospital Infection Moving pathogen genomics out of the lab and into the clinic: what will it take?Ultra-rare Disease and Genomics-Driven Precision Medicine Tracking Strains in the Microbiome: Insights from Metagenomics and Models The implications of whole-genome sequencing in the control of tuberculosis Analysis of single nucleic acid molecules in micro- and nano-fluidics Advances in the Microbiome: Applications to Clostridium difficile Infection Oxford Nanopore MinION Sequencing and Genome Assembly Role of Clinicogenomics in Infectious Disease Diagnostics and Public Health Microbiology Nanopore Sequencing as a Rapidly Deployable Ebola Outbreak Tool Real-time selective sequencing using nanopore technology.HPG pore: an efficient and scalable framework for nanopore sequencing data.Whole genome sequencing improved case ascertainment in an outbreak of Shiga toxin-producing Escherichia coli O157 associated with raw drinking milk.Species-level resolution of 16S rRNA gene amplicons sequenced through the MinION™ portable nanopore sequencer.Bacterial colonization and succession in a newly opened hospital.A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota.Pathosphere.org: pathogen detection and characterization through a web-based, open source informatics platform.Development of an Analysis Pipeline Characterizing Multiple Hypervariable Regions of 16S rRNA Using Mock Samples.Real-time digital pathogen surveillance - the time is now.SuperPhy: predictive genomics for the bacterial pathogen Escherichia coli Analysis of the mouse gut microbiome using full-length 16S rRNA amplicon sequencing On the study of microbial transcriptomes using second- and third-generation sequencing technologies.Support vector machine applied to predict the zoonotic potential of E. coli O157 cattle isolates MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach Assessing the utility of the Oxford Nanopore MinION for snake venom gland cDNA sequencing.BusyBee Web: metagenomic data analysis by bootstrapped supervised binning and annotation.DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads.Nanopore sequencing data analysis: state of the art, applications and challenges.Streaming algorithms for identification of pathogens and antibiotic resistance potential from real-time MinION(TM) sequencing Microbial bioinformatics 2020.Characterization of Two Multidrug-Resistant IncA/C Plasmids from the 1960s by Using the MinION Sequencer Device.Real-Time Genome Sequencing of Resistant Bacteria Provides Precision Infection Control in an Institutional Setting.The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community.Metagenomic Sequencing for Surveillance of Food- and Waterborne Viral Diseases.Phylogenetic structure of European Salmonella Enteritidis outbreak correlates with national and international egg distribution network.Short-term evolution of Shiga toxin-producing Escherichia coli O157:H7 between two food-borne outbreaks.Bacterial genome sequencing in clinical microbiology: a pathogen-oriented review.

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P2860

Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella

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Culture-independent detection and characterisation of Mycobacterium tuberculosis and M. africanum in sputum samples using shotgun metagenomics on a benchtop sequencer

Metagenomic microbial community profiling using unique clade-specific marker genes

Foodborne illness acquired in the United States--major pathogens

VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing

Poretools: a toolkit for analyzing nanopore sequence data.

The Sequence Alignment/Map format and SAMtools

A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance

FastTree 2--approximately maximum-likelihood trees for large alignments

Fast and accurate long-read alignment with Burrows-Wheeler transform

A framework for variation discovery and genotyping using next-generation DNA sequencing data

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