scholarly article | Q13442814 |
P50 | author | Steven Davis | Q85835451 |
P2093 | author name string | Heather A Carleton | |
Richa Agarwala | |||
Martin Shumway | |||
Ruth E Timme | |||
Lee S Katz | |||
Mustafa Simmons | |||
Hugh Rand | |||
Glenn E Tillman | |||
William A Klimke | |||
Stephanie Defibaugh-Chavez | |||
Eija K Trees | |||
P2860 | cites work | When whole-genome alignments just won't work: kSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds of microbial genomes | Q21559496 |
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The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes | Q34676711 | ||
Assessing the genome level diversity of Listeria monocytogenes from contaminated ice cream and environmental samples linked to a listeriosis outbreak in the United States | Q36271801 | ||
TreeToReads - a pipeline for simulating raw reads from phylogenies | Q36315196 | ||
PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States | Q37074851 | ||
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Listeria monocytogenes in Stone Fruits Linked to a Multistate Outbreak: Enumeration of Cells and Whole-Genome Sequencing | Q37428445 | ||
A Comparative Analysis of the Lyve-SET Phylogenomics Pipeline for Genomic Epidemiology of Foodborne Pathogens | Q37694453 | ||
Automated reconstruction of whole-genome phylogenies from short-sequence reads | Q37716144 | ||
Whole genome and core genome multilocus sequence typing and single nucleotide polymorphism analyses of Listeria monocytogenes associated with an outbreak linked to cheese, United States, 2013. | Q38760765 | ||
NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats. | Q38872283 | ||
Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes | Q39275369 | ||
Implementation of Nationwide Real-time Whole-genome Sequencing to Enhance Listeriosis Outbreak Detection and Investigation | Q39841774 | ||
Tracing Origins of the Salmonella Bareilly Strain Causing a Food-borne Outbreak in the United States. | Q40917608 | ||
SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology | Q42277652 | ||
Guidelines for the validation and application of typing methods for use in bacterial epidemiology | Q44729793 | ||
CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data | Q110949957 | ||
P275 | copyright license | Creative Commons CC0 License | Q6938433 |
P6216 | copyright status | copyrighted, dedicated to the public domain by copyright holder | Q88088423 |
P921 | main subject | phylogenomics | Q3381973 |
P304 | page(s) | e3893 | |
P577 | publication date | 2017-10-06 | |
P1433 | published in | PeerJ | Q2000010 |
P1476 | title | Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance | |
P478 | volume | 5 |
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Q92538246 | Detailed Evaluation of Data Analysis Tools for Subtyping of Bacterial Isolates Based on Whole Genome Sequencing: Neisseria meningitidis as a Proof of Concept |
Q54968691 | Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study. |
Q90546825 | Large scale automated phylogenomic analysis of bacterial isolates and the Evergreen Online platform |
Q113307732 | Mashtree: a rapid comparison of whole genome sequence files |
Q90116664 | OutbreakFinder: a visualization tool for rapid detection of bacterial strain clusters based on optimized multidimensional scaling |
Q91198605 | Rapid, multiplexed, whole genome and plasmid sequencing of foodborne pathogens using long-read nanopore technology |
Q96302881 | Ten recommendations for supporting open pathogen genomic analysis in public health |
Q64125686 | The Cano-eMLST Program: An Approach for the Calculation of Canonical Extended Multi-Locus Sequence Typing, Making Comparison of Genetic Differences Among Bunches of Bacterial Strains |
Q64133058 | The use of next generation sequencing for improving food safety: Translation into practice |
Q64056630 | Validation of a Bioinformatics Workflow for Routine Analysis of Whole-Genome Sequencing Data and Related Challenges for Pathogen Typing in a European National Reference Center: as a Proof-of-Concept |
Q92511151 | cano-wgMLST_BacCompare: A Bacterial Genome Analysis Platform for Epidemiological Investigation and Comparative Genomic Analysis |
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