Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella
暂无分享,去创建一个
Joshua Quick | Jeremy Hawker | Philip Ashton | Mark Webber | Satheesh Nair | P. Ashton | S. Nair | T. Dallman | N. Loman | J. Quick | J. Hawker | M. Webber | E. Robinson | K. Neal | P. Hawkey | S. Calus | C. Chatt | S. Gossain | K. Nye | T. Peters | E. D. de Pinna | K. Struthers | A. Catto | Savita Gossain | Esther Robinson | Tansy Peters | Szymon Calus | Carole Chatt | Keith Neal | Kathy Nye | Elizabeth De Pinna | Keith Struthers | Andrew Catto | Timothy J. Dallman | Peter Hawkey | Nicholas J. Loman | M. Webber | E. Robinson | Satheesh Nair | Keith Neal
[1] P. Ashton,et al. MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island , 2014, Nature Biotechnology.
[2] Benedict Paten,et al. Improved data analysis for the MinION nanopore sequencer , 2015, Nature Methods.
[3] N. Loman,et al. Seeking the source of Pseudomonas aeruginosa infections in a recently opened hospital: an observational study using whole-genome sequencing , 2014, BMJ Open.
[4] M. Pallen,et al. Culture-independent detection and characterisation of Mycobacterium tuberculosis and M. africanum in sputum samples using shotgun metagenomics on a benchtop sequencer , 2014, PeerJ.
[5] Z. Iqbal,et al. Rapid Whole-Genome Sequencing for Surveillance of Salmonella enterica Serovar Enteritidis , 2014, Emerging infectious diseases.
[6] Aaron R. Quinlan,et al. Poretools: a toolkit for analyzing nanopore sequence data , 2014, bioRxiv.
[7] Mark J. Pallen,et al. Recovery of a Medieval Brucella melitensis Genome Using Shotgun Metagenomics , 2014, mBio.
[8] Björn Usadel,et al. Trimmomatic: a flexible trimmer for Illumina sequence data , 2014, Bioinform..
[9] R. Evans. European Centre for Disease Prevention and Control. , 2014, Nursing standard (Royal College of Nursing (Great Britain) : 1987).
[10] H. Schmid,et al. Epidemiology of infections with enteric salmonellae in Switzerland with particular consideration of travelling activities. , 2013, Swiss medical weekly.
[11] G. Smith,et al. Rapid bacterial whole-genome sequencing to enhance diagnostic and public health microbiology. , 2013, JAMA internal medicine.
[12] J. Chan,et al. Metagenomic analysis of tuberculosis in a mummy. , 2013, The New England journal of medicine.
[13] N. Loman,et al. A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4. , 2013, JAMA.
[14] S. O'Brien. The “Decline and Fall” of Nontyphoidal Salmonella in the United Kingdom , 2012, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
[15] Evan S Snitkin,et al. Tracking a Hospital Outbreak of Carbapenem-Resistant Klebsiella pneumoniae with Whole-Genome Sequencing , 2012, Science Translational Medicine.
[16] C. Huttenhower,et al. Metagenomic microbial community profiling using unique clade-specific marker genes , 2012, Nature Methods.
[17] Daniel J. Wilson,et al. A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance , 2012, BMJ Open.
[18] T. Dallman,et al. Performance comparison of benchtop high-throughput sequencing platforms , 2012, Nature Biotechnology.
[19] Pablo Cingolani,et al. © 2012 Landes Bioscience. Do not distribute. , 2022 .
[20] Christopher A. Miller,et al. VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing. , 2012, Genome research.
[21] Alexandre P. Francisco,et al. PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods , 2012, BMC Bioinformatics.
[22] A Charlett,et al. National outbreak of Salmonella Enteritidis phage type 14b in England, September to December 2009: case-control study. , 2011, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.
[23] M. DePristo,et al. A framework for variation discovery and genotyping using next-generation DNA sequencing data , 2011, Nature Genetics.
[24] Errol Strain,et al. Identification of a salmonellosis outbreak by means of molecular sequencing. , 2011, The New England journal of medicine.
[25] M. Widdowson,et al. Foodborne Illness Acquired in the United States—Major Pathogens , 2011, Emerging infectious diseases.
[26] E. Virginia Armbrust,et al. pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree , 2010, BMC Bioinformatics.
[27] Paramvir S. Dehal,et al. FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments , 2010, PloS one.
[28] Richard Durbin,et al. Fast and accurate long-read alignment with Burrows–Wheeler transform , 2010, Bioinform..
[29] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[30] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[31] N. Williams,et al. Outbreak of Salmonella indiana associated with egg mayonnaise sandwiches at an acute NHS hospital. , 2001, Communicable disease and public health.
[32] L. Budnick,et al. A nosocomial outbreak of Salmonella enteritidis infection due to the consumption of raw eggs. , 1990, The New England journal of medicine.
[33] B. Rowe,et al. Investigation of outbreaks of salmonella in hospitals. , 1983, British medical journal.
[34] Evelyn Waugh. Decline and Fall , 1928 .