当前位置： SCI文献检索 > Nature Communications期刊下所有文献 > FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science.

FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science.

Abstract：

: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 quality-controlled reference genomes as a public database for diagnostic purposes and demonstrate its utility on the example of two use cases. We provide quality control metrics for the FDA-ARGOS genomic database resource and outline the need for genome quality gap filling in the public domain. In the first use case, we show more accurate microbial identification of Enterococcus avium from metagenomic samples with FDA-ARGOS reference genomes compared to non-curated GenBank genomes. In the second use case, we demonstrate the utility of FDA-ARGOS reference genomes for Ebola virus target sequence comparison as part of a composite validation strategy for ID-NGS diagnostic tests. The use of FDA-ARGOS as an in silico target sequence comparator tool combined with representative clinical testing could reduce the burden for completing ID-NGS clinical trials.

journal_name

Nat Commun

journal_title

Nature communications

authors

Sichtig H,Minogue T,Yan Y,Stefan C,Hall A,Tallon L,Sadzewicz L,Nadendla S,Klimke W,Hatcher E,Shumway M,Aldea DL,Allen J,Koehler J,Slezak T,Lovell S,Schoepp R,Scherf U

doi

10.1038/s41467-019-11306-6

subject

Has Abstract

pub_date

2019-07-25 00:00:00

pages

3313

issue

1

issn

2041-1723

pii

10.1038/s41467-019-11306-6

journal_volume

10

pub_type

杂志文章

相关文献

Nature Communications文献大全
  • Transcriptional bursting is intrinsically caused by interplay between RNA polymerases on DNA.

    abstract：:Cell-to-cell variability plays a critical role in cellular responses and decision-making in a population, and transcriptional bursting has been broadly studied by experimental and theoretical approaches as the potential source of cell-to-cell variability. Although molecular mechanisms of transcriptional bursting have ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms13788

    authors： Fujita K,Iwaki M,Yanagida T

    更新日期：2016-12-07 00:00:00

  • Ultraflexible organic amplifier with biocompatible gel electrodes.

    abstract：:In vivo electronic monitoring systems are promising technology to obtain biosignals with high spatiotemporal resolution and sensitivity. Here we demonstrate the fabrication of a biocompatible highly conductive gel composite comprising multi-walled carbon nanotube-dispersed sheet with an aqueous hydrogel. This gel comp...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms11425

    authors： Sekitani T,Yokota T,Kuribara K,Kaltenbrunner M,Fukushima T,Inoue Y,Sekino M,Isoyama T,Abe Y,Onodera H,Someya T

    更新日期：2016-04-29 00:00:00

  • A novel mechanism of generating extracellular vesicles during apoptosis via a beads-on-a-string membrane structure.

    abstract：:Disassembly of apoptotic cells into smaller fragments (a form of extracellular vesicle called apoptotic bodies) can facilitate removal of apoptotic debris and intercellular communication. However, the mechanism underpinning this process is unclear. While observing monocytes undergoing apoptosis by time-lapse microscop...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms8439

    authors： Atkin-Smith GK,Tixeira R,Paone S,Mathivanan S,Collins C,Liem M,Goodall KJ,Ravichandran KS,Hulett MD,Poon IK

    更新日期：2015-06-15 00:00:00

  • Massive yet grossly underestimated global costs of invasive insects.

    abstract：:Insects have presented human society with some of its greatest development challenges by spreading diseases, consuming crops and damaging infrastructure. Despite the massive human and financial toll of invasive insects, cost estimates of their impacts remain sporadic, spatially incomplete and of questionable quality. ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms12986

    authors： Bradshaw CJ,Leroy B,Bellard C,Roiz D,Albert C,Fournier A,Barbet-Massin M,Salles JM,Simard F,Courchamp F

    更新日期：2016-10-04 00:00:00

  • Minimal biomass deposition in banded iron formations inferred from organic matter and clay relationships.

    abstract：:The cycling of iron and organic matter (OM) is thought to have been a major biogeochemical cycle in the early ferruginous oceans which contributed to the deposition of banded iron formations (BIF). However, BIF are deficient in OM, which is postulated to be the result of near-complete oxidation of OM during iron reduc...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-12975-z

    authors： Dodd MS,Papineau D,Pirajno F,Wan Y,Karhu JA

    更新日期：2019-11-04 00:00:00

  • An artificial primitive mimic of the Gramicidin-A channel.

    abstract：:Gramicidin A (gA) is the simplest known natural channel, and important progress in improving conduction activity has previously been obtained with modified natural gAs. However, simple artificial systems mimicking the gA functions are unknown. Here we show that gA can be mimicked using a simple synthetic triazole or '...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms5142

    authors： Barboiu M,Le Duc Y,Gilles A,Cazade PA,Michau M,Marie Legrand Y,van der Lee A,Coasne B,Parvizi P,Post J,Fyles T

    更新日期：2014-06-26 00:00:00

  • Persistent super-diffusive motion of Escherichia coli chromosomal loci.

    abstract：:The physical nature of the bacterial chromosome has important implications for its function. Using high-resolution dynamic tracking, we observe the existence of rare but ubiquitous 'rapid movements' of chromosomal loci exhibiting near-ballistic dynamics. This suggests that these movements are either driven by an activ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4854

    authors： Javer A,Kuwada NJ,Long Z,Benza VG,Dorfman KD,Wiggins PA,Cicuta P,Lagomarsino MC

    更新日期：2014-05-30 00:00:00

  • Quantum nuclear dynamics in the photophysics of diamondoids.

    abstract：:The unusual electronic properties of diamondoids, the nanoscale relatives of diamond, make them attractive for applications ranging from drug delivery to field emission displays. Identifying the fundamental origin of these properties has proven highly challenging, with even the most advanced quantum many-body calculat...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms3006

    authors： Patrick CE,Giustino F

    更新日期：2013-01-01 00:00:00

  • YAP and TAZ protect against white adipocyte cell death during obesity.

    abstract：:The expansion of the white adipose tissue (WAT) in obesity goes along with increased mechanical, metabolic and inflammatory stress. How adipocytes resist this stress is still poorly understood. Both in human and mouse adipocytes, the transcriptional co-activators YAP/TAZ and YAP/TAZ target genes become activated durin...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-19229-3

    authors： Wang L,Wang S,Shi Y,Li R,Günther S,Ong YT,Potente M,Yuan Z,Liu E,Offermanns S

    更新日期：2020-10-28 00:00:00

  • Bypassing stroke-damaged neural pathways via a neural interface induces targeted cortical adaptation.

    abstract：:Regaining the function of an impaired limb is highly desirable in paralyzed individuals. One possible avenue to achieve this goal is to bridge the interrupted pathway between preserved neural structures and muscles using a brain-computer interface. Here, we demonstrate that monkeys with subcortical stroke were able to...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-12647-y

    authors： Kato K,Sawada M,Nishimura Y

    更新日期：2019-10-16 00:00:00

  • Characterizing rare and low-frequency height-associated variants in the Japanese population.

    abstract：:Human height is a representative phenotype to elucidate genetic architecture. However, the majority of large studies have been performed in European population. To investigate the rare and low-frequency variants associated with height, we construct a reference panel (N = 3,541) for genotype imputation by integrating t...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-12276-5

    authors： Akiyama M,Ishigaki K,Sakaue S,Momozawa Y,Horikoshi M,Hirata M,Matsuda K,Ikegawa S,Takahashi A,Kanai M,Suzuki S,Matsui D,Naito M,Yamaji T,Iwasaki M,Sawada N,Tanno K,Sasaki M,Hozawa A,Minegishi N,Wakai K,Tsugane S

    更新日期：2019-09-27 00:00:00

  • Direct observation of coordinated DNA movements on the nucleosome during chromatin remodelling.

    abstract：:ATP-dependent chromatin remodelling enzymes (remodellers) regulate DNA accessibility in eukaryotic genomes. Many remodellers reposition (slide) nucleosomes, however, how DNA is propagated around the histone octamer during this process is unclear. Here we examine the real-time coordination of remodeller-induced DNA mov...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-09657-1

    authors： Sabantsev A,Levendosky RF,Zhuang X,Bowman GD,Deindl S

    更新日期：2019-04-12 00:00:00

  • Direction-specific interaction forces underlying zinc oxide crystal growth by oriented attachment.

    abstract：:Crystallization by particle attachment is impacting our understanding of natural mineralization processes and holds promise for novel materials design. When particles assemble in crystallographic alignment, expulsion of the intervening solvent and particle coalescence are enabled by near-perfect co-alignment via inter...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-00844-6

    authors： Zhang X,Shen Z,Liu J,Kerisit SN,Bowden ME,Sushko ML,De Yoreo JJ,Rosso KM

    更新日期：2017-10-10 00:00:00

  • Demographic histories and genetic diversity across pinnipeds are shaped by human exploitation, ecology and life-history.

    abstract：:A central paradigm in conservation biology is that population bottlenecks reduce genetic diversity and population viability. In an era of biodiversity loss and climate change, understanding the determinants and consequences of bottlenecks is therefore an important challenge. However, as most studies focus on single sp...

    journal_title：Nature communications

    pub_type： 历史文章,杂志文章

    doi：10.1038/s41467-018-06695-z

    authors： Stoffel MA,Humble E,Paijmans AJ,Acevedo-Whitehouse K,Chilvers BL,Dickerson B,Galimberti F,Gemmell NJ,Goldsworthy SD,Nichols HJ,Krüger O,Negro S,Osborne A,Pastor T,Robertson BC,Sanvito S,Schultz JK,Shafer ABA,Wolf JBW

    更新日期：2018-11-16 00:00:00

  • Cytomembrane nanovaccines show therapeutic effects by mimicking tumor cells and antigen presenting cells.

    abstract：:Most cancer vaccines are unsuccessful in eliciting clinically relevant effects. Without using exogenous antigens and adoptive cells, we show a concept of utilizing biologically reprogrammed cytomembranes of the fused cells (FCs) derived from dendritic cells (DCs) and cancer cells as tumor vaccines. The fusion of immun...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-11157-1

    authors： Liu WL,Zou MZ,Liu T,Zeng JY,Li X,Yu WY,Li CX,Ye JJ,Song W,Feng J,Zhang XZ

    更新日期：2019-07-19 00:00:00

  • Tornado outbreak variability follows Taylor's power law of fluctuation scaling and increases dramatically with severity.

    abstract：:Tornadoes cause loss of life and damage to property each year in the United States and around the world. The largest impacts come from 'outbreaks' consisting of multiple tornadoes closely spaced in time. Here we find an upward trend in the annual mean number of tornadoes per US tornado outbreak for the period 1954-201...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms10668

    authors： Tippett MK,Cohen JE

    更新日期：2016-02-29 00:00:00

  • Protein kinase C-alpha suppresses autophagy and induces neural tube defects via miR-129-2 in diabetic pregnancy.

    abstract：:Gene deletion-induced autophagy deficiency leads to neural tube defects (NTDs), similar to those in diabetic pregnancy. Here we report the key autophagy regulators modulated by diabetes in the murine developing neuroepithelium. Diabetes predominantly leads to exencephaly, induces neuroepithelial cell apoptosis and sup...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms15182

    authors： Wang F,Xu C,Reece EA,Li X,Wu Y,Harman C,Yu J,Dong D,Wang C,Yang P,Zhong J,Yang P

    更新日期：2017-05-05 00:00:00

  • Atomic scale dynamics of ultrasmall germanium clusters.

    abstract：:Starting from the gas phase, small clusters can be produced and deposited with huge flexibility with regard to composition, materials choice and cluster size. Despite many advances in experimental characterization, a detailed morphology of such clusters is still lacking. Here we present an atomic scale observation as ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms1887

    authors： Bals S,Van Aert S,Romero CP,Lauwaet K,Van Bael MJ,Schoeters B,Partoens B,Yücelen E,Lievens P,Van Tendeloo G

    更新日期：2012-06-12 00:00:00

  • Interfacial Fe5C2-Cu catalysts toward low-pressure syngas conversion to long-chain alcohols.

    abstract：:Long-chain alcohols synthesis (LAS, C5+OH) from syngas provides a promising route for the conversion of coal/biomass/natural gas into high-value chemicals. Cu-Fe binary catalysts, with the merits of cost effectiveness and high CO conversion, have attracted considerable attention. Here we report a nano-construct of a F...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13691-4

    authors： Li Y,Gao W,Peng M,Zhang J,Sun J,Xu Y,Hong S,Liu X,Liu X,Wei M,Zhang B,Ma D

    更新日期：2020-01-03 00:00:00

  • The increasing likelihood of temperatures above 30 to 40 °C in the United Kingdom.

    abstract：:As European heatwaves become more severe, summers in the United Kingdom (UK) are also getting warmer. The UK record temperature of 38.7 °C set in Cambridge in July 2019 prompts the question of whether exceeding 40 °C is now within reach. Here, we show how human influence is increasing the likelihood of exceeding 30, 3...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-16834-0

    authors： Christidis N,McCarthy M,Stott PA

    更新日期：2020-06-30 00:00:00

  • Author Correction: P53 and mTOR signalling determine fitness selection through cell competition during early mouse embryonic development.

    abstract：:The original version of this article contained an error in the spelling of Juan Pedro Martinez-Barbera, which was incorrectly given as Juan Pedro Martinez Barbera. This error has now been corrected in both the PDF and HTML versions of the Article. ...

    journal_title：Nature communications

    pub_type： 杂志文章,已发布勘误

    doi：10.1038/s41467-018-05718-z

    authors： Bowling S,Di Gregorio A,Sancho M,Pozzi S,Aarts M,Signore M,Schneider MD,Martinez-Barbera JP,Gil J,Rodríguez TA

    更新日期：2018-08-02 00:00:00

  • Titania supported synergistic palladium single atoms and nanoparticles for room temperature ketone and aldehydes hydrogenation.

    abstract：:Selective reduction of ketone/aldehydes to alcohols is of great importance in green chemistry and chemical engineering. Highly efficient catalysts are still demanded to work under mild conditions, especially at room temperature. Here we present a synergistic function of single-atom palladium (Pd1) and nanoparticles (P...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13941-5

    authors： Kuai L,Chen Z,Liu S,Kan E,Yu N,Ren Y,Fang C,Li X,Li Y,Geng B

    更新日期：2020-01-07 00:00:00

  • Astrocytes modulate brainstem respiratory rhythm-generating circuits and determine exercise capacity.

    abstract：:Astrocytes are implicated in modulation of neuronal excitability and synaptic function, but it remains unknown if these glial cells can directly control activities of motor circuits to influence complex behaviors in vivo. This study focused on the vital respiratory rhythm-generating circuits of the preBötzinger comple...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-02723-6

    authors： Sheikhbahaei S,Turovsky EA,Hosford PS,Hadjihambi A,Theparambil SM,Liu B,Marina N,Teschemacher AG,Kasparov S,Smith JC,Gourine AV

    更新日期：2018-01-25 00:00:00

  • Control of early seedling development by BES1/TPL/HDA19-mediated epigenetic regulation of ABI3.

    abstract：:Seed germination and young seedling establishment should be tightly regulated to maximize plant survival and thereby enable successful propagation. Plants have evolved developmental signalling networks to integrate environmental cues for proper control of these critical processes, in which brassinosteroids are known t...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms5138

    authors： Ryu H,Cho H,Bae W,Hwang I

    更新日期：2014-06-18 00:00:00

  • Arabidopsis seed germination speed is controlled by SNL histone deacetylase-binding factor-mediated regulation of AUX1.

    abstract：:Histone acetylation is known to affect the speed of seed germination, but the molecular regulatory basis of this remains ambiguous. Here we report that loss of function of two histone deacetylase-binding factors, SWI-INDEPENDENT3 (SIN3)-LIKE1 (SNL1) and SNL2, results in accelerated radicle protrusion and growth during...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms13412

    authors： Wang Z,Chen F,Li X,Cao H,Ding M,Zhang C,Zuo J,Xu C,Xu J,Deng X,Xiang Y,Soppe WJ,Liu Y

    更新日期：2016-11-11 00:00:00

  • RC3H1 post-transcriptionally regulates A20 mRNA and modulates the activity of the IKK/NF-κB pathway.

    abstract：:The RNA-binding protein RC3H1 (also known as ROQUIN) promotes TNFα mRNA decay via a 3'UTR constitutive decay element (CDE). Here we applied PAR-CLIP to human RC3H1 to identify ∼ 3,800 mRNA targets with >16,000 binding sites. A large number of sites are distinct from the consensus CDE and revealed a structure-sequence ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms8367

    authors： Murakawa Y,Hinz M,Mothes J,Schuetz A,Uhl M,Wyler E,Yasuda T,Mastrobuoni G,Friedel CC,Dölken L,Kempa S,Schmidt-Supprian M,Blüthgen N,Backofen R,Heinemann U,Wolf J,Scheidereit C,Landthaler M

    更新日期：2015-07-14 00:00:00

  • Embedding laser generated nanocrystals in BiVO4 photoanode for efficient photoelectrochemical water splitting.

    abstract：:Addressing the intrinsic charge transport limitation of metal oxides has been of significance for pursuing viable PEC water splitting photoelectrodes. Growing a photoelectrode with conductive nanoobjects embedded in the matrix is promising for enhanced charge transport but remains a challenge technically. We herein sh...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-10543-z

    authors： Jian J,Xu Y,Yang X,Liu W,Fu M,Yu H,Xu F,Feng F,Jia L,Friedrich D,van de Krol R,Wang H

    更新日期：2019-06-13 00:00:00

  • Imaging of fluorescence anisotropy during photoswitching provides a simple readout for protein self-association.

    abstract：:Monitoring of protein oligomerization has benefited greatly from Förster Resonance Energy Transfer (FRET) measurements. Although donors and acceptors are typically fluorescent molecules with different spectra, homo-FRET can occur between fluorescent molecules of the same type if the emission spectrum overlaps with the...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13843-6

    authors： Ojha N,Rainey KH,Patterson GH

    更新日期：2020-01-07 00:00:00

  • Spectroscopy of bulk and few-layer superconducting NbSe2 with van der Waals tunnel junctions.

    abstract：:Tunnel junctions, an established platform for high resolution spectroscopy of superconductors, require defect-free insulating barriers; however, oxides, the most common barrier, can only grow on a limited selection of materials. We show that van der Waals tunnel barriers, fabricated by exfoliation and transfer of laye...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-03000-w

    authors： Dvir T,Massee F,Attias L,Khodas M,Aprili M,Quay CHL,Steinberg H

    更新日期：2018-02-09 00:00:00

  • Nanoparticles suppress fluid instabilities in the thermal drawing of ultralong nanowires.

    abstract：:Ultra-long metal nanowires and their facile fabrication have been long sought after as they promise to offer substantial improvements of performance in numerous applications. However, ultra-long metal ultrafine/nanowires are beyond the capability of current manufacturing techniques, which impose limitations on their s...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-19796-5

    authors： Hwang I,Guan Z,Cao C,Tang W,Chui CO,Li X

    更新日期：2020-11-23 00:00:00