Rxivist logo

Author: Nicole Stoesser

Rankings

  • All-time downloads: 120,168 (rank: 1,023 )
  • Categories:
    • bioinformatics: 13,884 (rank: 541 )
    • epidemiology: 24,464 (rank: 768 )
    • evolutionary biology: 313 (rank: 20,780 (tie) )
    • genomics: 1,843 (rank: 14,297 (tie) )
    • infectious diseases: 71,448 (rank: 785 )
    • microbiology: 8,216 (rank: 2,111 )

Downloads per author, site-wide

Preprints

Changes in paediatric respiratory infections at a UK teaching hospital 2016-2021; impact of the SARS-CoV-2 pandemic.

infectious diseases more details view paper

No download data for this paper yet.

Impact of Delta on viral burden and vaccine effectiveness against new SARS-CoV-2 infections in the UK

epidemiology more details view paper
  • Downloaded 23,170 times
  • Download rankings, all-time:
    • Site-wide: 378
    • In epidemiology: 69
  • Year to date:
    • Site-wide: 109
  • Since beginning of last month:
    • Site-wide: 16

Impact of vaccination on new SARS-CoV-2 infections in the United Kingdom

infectious diseases more details view paper
  • Downloaded 18,947 times
  • Download rankings, all-time:
    • Site-wide: 466
    • In infectious diseases: 165
  • Year to date:
    • Site-wide: 131
  • Since beginning of last month:
    • Site-wide: 425

The impact of SARS-CoV-2 vaccines on antibody responses in the general population in the United Kingdom

infectious diseases more details view paper
  • Downloaded 14,935 times
  • Download rankings, all-time:
    • Site-wide: 616
    • In infectious diseases: 223
  • Year to date:
    • Site-wide: 176
  • Since beginning of last month:
    • Site-wide: 3,021

Virus detection and identification in minutes using single-particle imaging and deep learning

infectious diseases more details view paper
  • Downloaded 11,037 times
  • Download rankings, all-time:
    • Site-wide: 923
    • In infectious diseases: 296
  • Year to date:
    • Site-wide: 3,107
  • Since beginning of last month:
    • Site-wide: 9,139

Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes

bioinformatics more details view paper
  • Downloaded 8,558 times
  • Download rankings, all-time:
    • Site-wide: 1,272
    • In bioinformatics: 68
  • Year to date:
    • Site-wide: 25,168
  • Since beginning of last month:
    • Site-wide: 20,126

Increased infections, but not viral burden, with a new SARS-CoV-2 variant

infectious diseases more details view paper
  • Downloaded 8,376 times
  • Download rankings, all-time:
    • Site-wide: 1,310
    • In infectious diseases: 389
  • Year to date:
    • Site-wide: 332
  • Since beginning of last month:
    • Site-wide: 7,703

Ct threshold values, a proxy for viral load in community SARS-CoV-2 cases, demonstrate wide variation across populations and over time

infectious diseases more details view paper
  • Downloaded 5,955 times
  • Download rankings, all-time:
    • Site-wide: 2,020
    • In infectious diseases: 536
  • Year to date:
    • Site-wide: 676
  • Since beginning of last month:
    • Site-wide: 1,748

Diagnosis of SARS-CoV-2 infection with LamPORE, a high-throughput platform combining loop-mediated isothermal amplification and nanopore sequencing

infectious diseases more details view paper
  • Downloaded 3,173 times
  • Download rankings, all-time:
    • Site-wide: 4,825
    • In infectious diseases: 926
  • Year to date:
    • Site-wide: 5,416
  • Since beginning of last month:
    • Site-wide: 4,561

SARS-CoV-2 RNA detected in blood samples from patients with COVID-19 is not associated with infectious virus

infectious diseases more details view paper
  • Downloaded 2,629 times
  • Download rankings, all-time:
    • Site-wide: 6,344
    • In infectious diseases: 1,099
  • Year to date:
    • Site-wide: 8,113
  • Since beginning of last month:
    • Site-wide: 28,581

Genomic diversity affects the accuracy of bacterial SNP calling pipelines

bioinformatics more details view paper
  • Downloaded 2,282 times
  • Download rankings, all-time:
    • Site-wide: 7,819
    • In bioinformatics: 860
  • Year to date:
    • Site-wide: 28,461
  • Since beginning of last month:
    • Site-wide: 57,562

The duration, dynamics and determinants of SARS-CoV-2 antibody responses in individual healthcare workers

infectious diseases more details view paper
  • Downloaded 1,678 times
  • Download rankings, all-time:
    • Site-wide: 12,251
    • In infectious diseases: 1,581
  • Year to date:
    • Site-wide: 12,450
  • Since beginning of last month:
    • Site-wide: 60,198

Stringent thresholds for SARS-CoV-2 IgG assays result in under-detection of cases reporting loss of taste/smell

infectious diseases more details view paper
  • Downloaded 1,401 times
  • Download rankings, all-time:
    • Site-wide: 16,111
    • In infectious diseases: 1,810
  • Year to date:
    • Site-wide: 21,762
  • Since beginning of last month:
    • Site-wide: 54,864

The impact of sequencing depth on the inferred taxonomic composition and AMR gene content of metagenomic samples

microbiology more details view paper
  • Downloaded 1,333 times
  • Download rankings, all-time:
    • Site-wide: 17,359
    • In microbiology: 1,013
  • Year to date:
    • Site-wide: 82,576
  • Since beginning of last month:
    • Site-wide: 128,613

A haemagglutination test for rapid detection of antibodies to SARS-CoV-2

infectious diseases more details view paper
  • Downloaded 1,301 times
  • Download rankings, all-time:
    • Site-wide: 17,970
    • In infectious diseases: 1,905
  • Year to date:
    • Site-wide: 7,134
  • Since beginning of last month:
    • Site-wide: 10,170

Optimised use of Oxford Nanopore Flowcells for Hybrid Assemblies

bioinformatics more details view paper
  • Downloaded 1,279 times
  • Download rankings, all-time:
    • Site-wide: 18,410
    • In bioinformatics: 2,087
  • Year to date:
    • Site-wide: 11,004
  • Since beginning of last month:
    • Site-wide: 40,960

Genomic epidemiology of global Klebsiella pneumoniae carbapenemase (KPC)-producing E. coli

microbiology more details view paper
  • Downloaded 1,246 times
  • Download rankings, all-time:
    • Site-wide: 19,159
    • In microbiology: 1,117
  • Year to date:
    • Site-wide: 103,477
  • Since beginning of last month:
    • Site-wide: 156,512

Evolutionary history of the global emergence of the Escherichia coli epidemic clone ST131

genomics more details view paper
  • Downloaded 917 times
  • Download rankings, all-time:
    • Site-wide: 30,136
    • In genomics: 2,622
  • Year to date:
    • Site-wide: 118,856
  • Since beginning of last month:
    • Site-wide: 140,977

High rates of human faecal carriage of mcr-1-positive multi-drug resistant isolates emerge in China in association with successful plasmid families

microbiology more details view paper
  • Downloaded 836 times
  • Download rankings, all-time:
    • Site-wide: 34,301
    • In microbiology: 2,034
  • Year to date:
    • Site-wide: 137,913
  • Since beginning of last month:
    • Site-wide: 141,273

Niche and local geography shape the pangenome of wastewater- and livestock-associated Enterobacteriaceae

microbiology more details view paper
  • Downloaded 809 times
  • Download rankings, all-time:
    • Site-wide: 35,926
    • In microbiology: 2,151
  • Year to date:
    • Site-wide: 45,776
  • Since beginning of last month:
    • Site-wide: 129,122

TETyper: a bioinformatic pipeline for classifying variation and genetic contexts of transposable elements from short-read whole-genome sequencing data

bioinformatics more details view paper
  • Downloaded 767 times
  • Download rankings, all-time:
    • Site-wide: 38,811
    • In bioinformatics: 4,146
  • Year to date:
    • Site-wide: 94,933
  • Since beginning of last month:
    • Site-wide: 92,760

Anti-spike antibody response to natural SARS-CoV-2 infection in the general population

infectious diseases more details view paper
  • Downloaded 713 times
  • Download rankings, all-time:
    • Site-wide: 42,937
    • In infectious diseases: 2,988
  • Year to date:
    • Site-wide: 7,322
  • Since beginning of last month:
    • Site-wide: 6,833

Flanker: a tool for comparative genomics of gene flanking regions

bioinformatics more details view paper
  • Downloaded 657 times
  • Download rankings, all-time:
    • Site-wide: 47,839
    • In bioinformatics: 4,928
  • Year to date:
    • Site-wide: 8,273
  • Since beginning of last month:
    • Site-wide: 22,503

Transmission dynamics and between-species interactions of multidrug-resistant Enterobacteriaceae

epidemiology more details view paper
  • Downloaded 623 times
  • Download rankings, all-time:
    • Site-wide: 51,316
    • In epidemiology: 2,451
  • Year to date:
    • Site-wide: 135,708
  • Since beginning of last month:
    • Site-wide: 139,110

Dynamics of mcr-1 prevalence and mcr-1-positive Escherichia coli after the cessation of colistin use as a feed additive for animals in China: a prospective cross-sectional and whole genome sequencing based molecular epidemiological study

microbiology more details view paper
  • Downloaded 565 times
  • Download rankings, all-time:
    • Site-wide: 57,989
    • In microbiology: 3,641
  • Year to date:
    • Site-wide: 132,421
  • Since beginning of last month:
    • Site-wide: 158,482

Novel blaKPC-carrying species identified in the hospital environment

microbiology more details view paper
  • Downloaded 561 times
  • Download rankings, all-time:
    • Site-wide: 58,423
    • In microbiology: 3,671
  • Year to date:
    • Site-wide: 130,925
  • Since beginning of last month:
    • Site-wide: 122,759

Multi-omic surveillance of Escherichia coli and Klebsiella spp. in hospital sink drains and patients

microbiology more details view paper
  • Downloaded 560 times
  • Download rankings, all-time:
    • Site-wide: 58,560
    • In microbiology: 3,682
  • Year to date:
    • Site-wide: 87,440
  • Since beginning of last month:
    • Site-wide: 80,450

Reconciling the potentially irreconcilable? Genotypic and phenotypic amoxicillin-clavulanate resistance in Escherichia coli

microbiology more details view paper
  • Downloaded 519 times
  • Download rankings, all-time:
    • Site-wide: 64,053
    • In microbiology: 4,104
  • Year to date:
    • Site-wide: 103,611
  • Since beginning of last month:
    • Site-wide: 128,455

Genomic epidemiology of a complex, multi-species plasmid-borne blaKPC carbapenemase outbreak in Enterobacterales in the UK, 2009-2014

genomics more details view paper
  • Downloaded 513 times
  • Download rankings, all-time:
    • Site-wide: 65,024
    • In genomics: 4,608
  • Year to date:
    • Site-wide: 100,499
  • Since beginning of last month:
    • Site-wide: 103,874

The sensitivity improved two-test algorithm "SIT2": a universal optimization strategy for SARS-CoV-2 serology

infectious diseases more details view paper
  • Downloaded 503 times
  • Download rankings, all-time:
    • Site-wide: 66,443
    • In infectious diseases: 3,695
  • Year to date:
    • Site-wide: 33,137
  • Since beginning of last month:
    • Site-wide: 61,764

Panton-Valentine leukocidin is the key determinant of Staphylococcus aureus pyomyositis in a bacterial genome-wide association study

microbiology more details view paper
  • Downloaded 500 times
  • Download rankings, all-time:
    • Site-wide: 66,826
    • In microbiology: 4,305
  • Year to date:
    • Site-wide: 117,849
  • Since beginning of last month:
    • Site-wide: 105,929

Trends in Escherichia coli bloodstream infection, urinary tract infections and antibiotic susceptibilities in Oxfordshire, 1998-2016: an observational study

epidemiology more details view paper
  • Downloaded 442 times
  • Download rankings, all-time:
    • Site-wide: 76,507
    • In epidemiology: 3,342
  • Year to date:
    • Site-wide: 151,117
  • Since beginning of last month:
    • Site-wide: 134,660

Metrics for Public Health Perspective Surveillance of Bacterial Antibiotic Resistance in Low- and Middle-Income Countries

genomics more details view paper
  • Downloaded 413 times
  • Download rankings, all-time:
    • Site-wide: 81,824
    • In genomics: 5,360
  • Year to date:
    • Site-wide: 86,338
  • Since beginning of last month:
    • Site-wide: 102,122

The Role of fosA in Challenges with Fosfomycin Susceptibility Testing of Multispecies Klebsiella pneumoniae Carbapenemase-Producing Clinical Isolates

microbiology more details view paper
  • Downloaded 352 times
  • Download rankings, all-time:
    • Site-wide: 94,706
    • In microbiology: 6,564
  • Year to date:
    • Site-wide: 133,655
  • Since beginning of last month:
    • Site-wide: 91,080

Molecular epidemiology of Escherichia coli and Klebsiella species bloodstream infections in Oxfordshire (UK) 2008-2018

infectious diseases more details view paper
  • Downloaded 342 times
  • Download rankings, all-time:
    • Site-wide: 96,908
    • In infectious diseases: 4,492
  • Year to date:
    • Site-wide: 21,881
  • Since beginning of last month:
    • Site-wide: 31,060

Genomic network analysis of an environmental and livestock IncF plasmid population

bioinformatics more details view paper
  • Downloaded 341 times
  • Download rankings, all-time:
    • Site-wide: 97,079
    • In bioinformatics: 8,437
  • Year to date:
    • Site-wide: 110,093
  • Since beginning of last month:
    • Site-wide: 93,776

The unintended consequences of a surge in antibiotic resistance when removing wastewater drain biofilm

microbiology more details view paper
  • Downloaded 338 times
  • Download rankings, all-time:
    • Site-wide: 97,786
    • In microbiology: 6,807
  • Year to date:
    • Site-wide: 52,388
  • Since beginning of last month:
    • Site-wide: 63,354

Klebsiella quasipneumonaiae provides a window into carbapenemase gene transfer, plasmid rearrangements and nosocomial acquisition from the hospital environment

microbiology more details view paper
  • Downloaded 314 times
  • Download rankings, all-time:
    • Site-wide: 103,665
    • In microbiology: 7,253
  • Year to date:
    • Site-wide: 126,907
  • Since beginning of last month:
    • Site-wide: 139,571

Hospital outbreak of carbapenem-resistant Enterobacteriales associated with an OXA-48 plasmid carried mostly by Escherichia coli ST399

evolutionary biology more details view paper
  • Downloaded 313 times
  • Download rankings, all-time:
    • Site-wide: 103,792
    • In evolutionary biology: 5,218
  • Year to date:
    • Site-wide: 82,297
  • Since beginning of last month:
    • Site-wide: 37,165

Epidemiology of paediatric gastrointestinal colonisation by extended spectrum cephalosporin-resistant Escherichia coli and Klebsiella pneumoniae isolates in north-west Cambodia

microbiology more details view paper
  • Downloaded 283 times
  • Download rankings, all-time:
    • Site-wide: 111,339
    • In microbiology: 7,894
  • Year to date:
    • Site-wide: 154,227
  • Since beginning of last month:
    • Site-wide: 134,534

Transmission patterns of hyper-endemic multi-drug resistant Klebsiella pneumoniae in a Cambodian neonatal unit: a longitudinal study with whole genome sequencing

epidemiology more details view paper
  • Downloaded 229 times
  • Download rankings, all-time:
    • Site-wide: 125,492
    • In epidemiology: 5,288
  • Year to date:
    • Site-wide: 152,302
  • Since beginning of last month:
    • Site-wide: 134,671

Ten years of population-level genomic Escherichia coli and Klebsiella pneumoniae serotype surveillance informs vaccine development for invasive infections

infectious diseases more details view paper
  • Downloaded 189 times
  • Download rankings, all-time:
    • Site-wide: 135,479
    • In infectious diseases: 5,555
  • Year to date:
    • Site-wide: 102,277
  • Since beginning of last month:
    • Site-wide: 104,082

Antimicrobial resistance surveillance: can we estimate resistance in bloodstream infections from other types of specimen?

infectious diseases more details view paper
  • Downloaded 167 times
  • Download rankings, all-time:
    • Site-wide: 140,794
    • In infectious diseases: 5,729
  • Year to date:
    • Site-wide: 100,160
  • Since beginning of last month:
    • Site-wide: 104,201

Molecular epidemiology of paediatric bloodstream infections caused by Gram-negative bacteria in Oxfordshire, UK

infectious diseases more details view paper
  • Downloaded 102 times
  • Download rankings, all-time:
    • Site-wide: 153,427
    • In infectious diseases: 6,134
  • Year to date:
    • Site-wide: 86,118
  • Since beginning of last month:
    • Site-wide: 113,456

PanLingua

News