The Salmonella In Silico Typing Resource (SISTR): An Open Web-Accessible Tool for Rapidly Typing and Subtyping Draft Salmonella Genome Assemblies
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Eduardo N. Taboada | Victor P. J. Gannon | John H. E. Nash | Peter Kruczkiewicz | Chad R. Laing | V. Gannon | E. Lingohr | Peter Kruczkiewicz | E. Taboada | C. Laing | Catherine Yoshida | Catherine E. Yoshida | Erika J. Lingohr | C. Yoshida
[1] B. Korczak,et al. Fast DNA Serotyping of Escherichia coli by Use of an Oligonucleotide Microarray , 2006, Journal of Clinical Microbiology.
[2] E. Lingohr,et al. Multi-laboratory evaluation of the rapid genoserotyping array (SGSA) for the identification of Salmonella serovars. , 2014, Diagnostic microbiology and infectious disease.
[3] Zhengwei Zhu,et al. CD-HIT: accelerated for clustering the next-generation sequencing data , 2012, Bioinform..
[4] R. Parreñas,et al. Sequencing and Comparative Analysis of Flagellin Genes fliC, fljB, and flpA from Salmonella , 2004, Journal of Clinical Microbiology.
[5] M. Bissell. Multiplex, Bead-Based Suspension Array for Molecular Determination of Common Salmonella Serogroups , 2009 .
[6] R. Kaas,et al. Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms , 2014, PloS one.
[7] Martin C. J. Maiden,et al. mlstdbNet – distributed multi-locus sequence typing (MLST) databases , 2004, BMC Bioinformatics.
[8] James H. Jorgensen,et al. Manual of Clinical Microbiology, 11th Edition , 2015 .
[9] Miriam L. Land,et al. Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .
[10] Victor P J Gannon,et al. Everything at once: comparative analysis of the genomes of bacterial pathogens. , 2011, Veterinary microbiology.
[11] B. Swaminathan,et al. PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States. , 2001, Emerging infectious diseases.
[12] G. Dougan,et al. Routine Use of Microbial Whole Genome Sequencing in Diagnostic and Public Health Microbiology , 2012, PLoS pathogens.
[13] Sergey I. Nikolenko,et al. SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing , 2012, J. Comput. Biol..
[14] S. Gharbia,et al. Flagellin gene sequence evolution in Salmonella. , 2007, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.
[15] Zhemin Zhou,et al. Multilocus Sequence Typing as a Replacement for Serotyping in Salmonella enterica , 2012, PLoS pathogens.
[16] W. M. Dunne,et al. Next-generation and whole-genome sequencing in the diagnostic clinical microbiology laboratory , 2012, European Journal of Clinical Microbiology & Infectious Diseases.
[17] Keith A. Jolley,et al. Ribosomal multilocus sequence typing: universal characterization of bacteria from domain to strain , 2012, Microbiology.
[18] M. Gilmour,et al. Public Health Genomics and the New Molecular Epidemiology of Bacterial Pathogens , 2013, Public Health Genomics.
[19] K. Balakrishna,et al. Detection of Salmonella enterica serovar Typhi (S. Typhi) by selective amplification of invA, viaB, fliC‐d and prt genes by polymerase chain reaction in mutiplex format , 2006, Letters in applied microbiology.
[20] M. Sánchez-Jiménez,et al. Development and evaluation of a multiplex real-time polymerase chain reaction procedure to clinically type prevalent Salmonella enterica serovars. , 2010, The Journal of molecular diagnostics : JMD.
[21] E. J. Threlfall,et al. Development of a Multiplex Primer Extension Assay for Rapid Detection of Salmonella Isolates of Diverse Serotypes , 2010, Journal of Clinical Microbiology.
[22] Roy Fielding,et al. Architectural Styles and the Design of Network-based Software Architectures"; Doctoral dissertation , 2000 .
[23] M. Anjum,et al. Rapid Genoserotyping Tool for Classification of Salmonella Serovars , 2011, Journal of Clinical Microbiology.
[24] J. Bray,et al. MLST revisited: the gene-by-gene approach to bacterial genomics , 2013, Nature Reviews Microbiology.
[25] Ning Ma,et al. BLAST+: architecture and applications , 2009, BMC Bioinformatics.
[26] M. Struelens,et al. From molecular to genomic epidemiology: transforming surveillance and control of infectious diseases. , 2013, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.
[27] J. Fierer,et al. Diverse virulence traits underlying different clinical outcomes of Salmonella infection. , 2001, The Journal of clinical investigation.
[28] P. Fields,et al. Multiplex, Bead-Based Suspension Array for Molecular Determination of Common Salmonella Serogroups , 2007, Journal of Clinical Microbiology.
[29] T. Joys,et al. Molecular analyses of the Salmonella g. . . flagellar antigen complex , 1993, Journal of bacteriology.
[30] Alexey A. Gurevich,et al. QUAST: quality assessment tool for genome assemblies , 2013, Bioinform..
[31] Eduardo N. Taboada,et al. MIST: A Tool for Rapid in silico Generation of Molecular Data from Bacterial Genome Sequences , 2013, BIOINFORMATICS.
[32] P. Wattiau,et al. Evaluation of the Premi Test Salmonella, a commercial low-density DNA microarray system intended for routine identification and typing of Salmonella enterica. , 2008, International journal of food microbiology.
[33] Daniel Müllner,et al. fastcluster: Fast Hierarchical, Agglomerative Clustering Routines for R and Python , 2013 .
[34] F. Weill,et al. WHO Collaborating Centre for Reference and Research on Salmonella ANTIGENIC FORMULAE OF THE SALMONELLA SEROVARS , 2007 .
[35] P. Fields,et al. Methodologies towards the development of an oligonucleotide microarray for determination of Salmonella serotypes. , 2007, Journal of microbiological methods.
[36] Keith A. Jolley,et al. A Gene-By-Gene Approach to Bacterial Population Genomics: Whole Genome MLST of Campylobacter , 2012, Genes.
[37] N. Stralis-Pavese,et al. Development of an oligonucleotide microarray method for Salmonella serotyping , 2008, Microbial biotechnology.
[38] K. Katoh,et al. MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability , 2013, Molecular biology and evolution.
[39] Frank M. Aarestrup,et al. Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data , 2015, Journal of Clinical Microbiology.
[40] M. Achtman,et al. Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[41] Yanlong Yin,et al. Salmonella Serotype Determination Utilizing High-Throughput Genome Sequencing Data , 2015, Journal of Clinical Microbiology.
[42] Justin Zobel,et al. SRST2: Rapid genomic surveillance for public health and hospital microbiology labs , 2014, bioRxiv.
[43] Adam Godzik,et al. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences , 2006, Bioinform..
[44] R. Wollin. A study of invasiveness of different Salmonella serovars based on analysis of the Enter-net database. , 2007, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.
[45] P. Fields,et al. Molecular Determination of H Antigens of Salmonella by Use of a Microsphere-Based Liquid Array , 2010, Journal of Clinical Microbiology.