FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science
FDA proactively invests in tools to support innovation of emerging technologies, such as
infectious disease next generation sequencing (ID-NGS). Here, we introduce FDA-ARGOS …
infectious disease next generation sequencing (ID-NGS). Here, we introduce FDA-ARGOS …
Ten recommendations for supporting open pathogen genomic analysis in public health
Increasingly, public-health agencies are using pathogen genomic sequence data to support
surveillance and epidemiological investigations. As access to whole-genome sequencing …
surveillance and epidemiological investigations. As access to whole-genome sequencing …
GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians
J Gangiredla, H Rand, D Benisatto, J Payne… - BMC genomics, 2021 - Springer
Background Processing and analyzing whole genome sequencing (WGS) is
computationally intense: a single Illumina MiSeq WGS run produces~ 1 million 250-base …
computationally intense: a single Illumina MiSeq WGS run produces~ 1 million 250-base …
RefSeq microbial genomes database: new representation and annotation strategy
T Tatusova, S Ciufo, B Fedorov, K O'Neill… - Nucleic acids …, 2014 - academic.oup.com
The source of the microbial genomic sequences in the RefSeq collection is the set of primary
sequence records submitted to the International Nucleotide Sequence Database public …
sequence records submitted to the International Nucleotide Sequence Database public …
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design
HC Metsky, KJ Siddle, A Gladden-Young, J Qu… - Nature …, 2019 - nature.com
Metagenomic sequencing has the potential to transform microbial detection and
characterization, but new tools are needed to improve its sensitivity. Here we present …
characterization, but new tools are needed to improve its sensitivity. Here we present …
Updating benchtop sequencing performance comparison
S Jünemann, FJ Sedlazeck, K Prior… - Nature …, 2013 - nature.com
In April 2012, your journal published a study by Loman et al. 1 that systematically compared
desktop next-generation sequencers (NGS) from three instrument providers. Using the …
desktop next-generation sequencers (NGS) from three instrument providers. Using the …
Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package
Abstract Background The Public Health Alliance for Genomic Epidemiology
(PHA4GE)(https://pha4ge. org) is a global coalition that is actively working to establish …
(PHA4GE)(https://pha4ge. org) is a global coalition that is actively working to establish …
RESCRIPt: Reproducible sequence taxonomy reference database management
Nucleotide sequence and taxonomy reference databases are critical resources for
widespread applications including marker-gene and metagenome sequencing for …
widespread applications including marker-gene and metagenome sequencing for …
Medical countermeasures during the 2018 Ebola virus disease outbreak in the North Kivu and Ituri Provinces of the Democratic Republic of the Congo: a rapid …
P Mbala-Kingebeni, A Aziza, N Di Paola… - The Lancet infectious …, 2019 - thelancet.com
Background The real-time generation of information about pathogen genomes has become
a vital goal for transmission analysis and characterisation in rapid outbreak responses. In …
a vital goal for transmission analysis and characterisation in rapid outbreak responses. In …
Good laboratory practice for clinical next-generation sequencing informatics pipelines
AS Gargis, L Kalman, DP Bick, C Da Silva… - Nature …, 2015 - nature.com
We report principles and guidelines (Supplementary Note) that were developed by the Next-
Generation Sequencing: Standardization of Clinical Testing II (Nex-StoCT II) informatics …
Generation Sequencing: Standardization of Clinical Testing II (Nex-StoCT II) informatics …