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Author: Richard A Neher

Rankings

  • All-time downloads: 145,466 (rank: 612 )
  • Categories:
    • bioinformatics: 304 (rank: 34,979 (tie) )
    • epidemiology: 114,381 (rank: 129 )
    • evolutionary biology: 10,964 (rank: 169 )
    • genomics: 510 (rank: 36,908 (tie) )
    • infectious diseases: 3,902 (rank: 10,838 )
    • microbiology: 7,306 (rank: 2,210 )
    • public and global health: 8,099 (rank: 647 (tie) )

Downloads per author, site-wide

Preprints

Emergence and spread of a SARS-CoV-2 variant through Europe in the summer of 2020

epidemiology more details view paper
  • Downloaded 81,832 times
  • Download rankings, all-time:
    • Site-wide: 67
    • In epidemiology: 14
  • Year to date:
    • Site-wide: 157
  • Since beginning of last month:
    • Site-wide: 1,107

Impact of seasonal forcing on a potential SARS-CoV-2 pandemic

epidemiology more details view paper
  • Downloaded 17,131 times
  • Download rankings, all-time:
    • Site-wide: 461
    • In epidemiology: 75
  • Year to date:
    • Site-wide: 7,641
  • Since beginning of last month:
    • Site-wide: 26,111

Cryptic transmission of SARS-CoV-2 in Washington State

epidemiology more details view paper
  • Downloaded 9,523 times
  • Download rankings, all-time:
    • Site-wide: 1,006
    • In epidemiology: 132
  • Year to date:
    • Site-wide: 8,240
  • Since beginning of last month:
    • Site-wide: 42,115

Coast-to-coast spread of SARS-CoV-2 in the United States revealed by genomic epidemiology

public and global health more details view paper
  • Downloaded 8,099 times
  • Download rankings, all-time:
    • Site-wide: 1,238
    • In public and global health: 50
  • Year to date:
    • Site-wide: 6,372
  • Since beginning of last month:
    • Site-wide: 46,770

PCR assay to enhance global surveillance for SARS-CoV-2 variants of concern

infectious diseases more details view paper
  • Downloaded 2,929 times
  • Download rankings, all-time:
    • Site-wide: 4,988
    • In infectious diseases: 904
  • Year to date:
    • Site-wide: 748
  • Since beginning of last month:
    • Site-wide: 10,858

Estimation and worldwide monitoring of the effective reproductive number of SARS-CoV-2

epidemiology more details view paper
  • Downloaded 2,701 times
  • Download rankings, all-time:
    • Site-wide: 5,604
    • In epidemiology: 498
  • Year to date:
    • Site-wide: 1,471
  • Since beginning of last month:
    • Site-wide: 9,855

panX: pan-genome analysis and exploration

evolutionary biology more details view paper
  • Downloaded 1,824 times
  • Download rankings, all-time:
    • Site-wide: 10,011
    • In evolutionary biology: 284
  • Year to date:
    • Site-wide: 81,957
  • Since beginning of last month:
    • Site-wide: 30,517

COVID-19 Scenarios: an interactive tool to explore the spread and associated morbidity and mortality of SARS-CoV-2

epidemiology more details view paper
  • Downloaded 1,589 times
  • Download rankings, all-time:
    • Site-wide: 12,262
    • In epidemiology: 878
  • Year to date:
    • Site-wide: 16,612
  • Since beginning of last month:
    • Site-wide: 5,869

TreeTime: maximum likelihood phylodynamic analysis

evolutionary biology more details view paper
  • Downloaded 1,464 times
  • Download rankings, all-time:
    • Site-wide: 13,842
    • In evolutionary biology: 458
  • Year to date:
    • Site-wide: 67,346
  • Since beginning of last month:
    • Site-wide: 23,684

Seasonal influenza circulation patterns and projections for 2016-2017

evolutionary biology more details view paper
  • Downloaded 1,459 times
  • Download rankings, all-time:
    • Site-wide: 13,922
    • In evolutionary biology: 462
  • Year to date:
    • Site-wide: 141,045
  • Since beginning of last month:
    • Site-wide: None

Stability of association between Arabidopsis thaliana and Pseudomonas pathogens over evolutionary time scales

microbiology more details view paper
  • Downloaded 1,342 times
  • Download rankings, all-time:
    • Site-wide: 15,797
    • In microbiology: 926
  • Year to date:
    • Site-wide: 93,250
  • Since beginning of last month:
    • Site-wide: None

Resolving structural diversity of Carbapenemase-producing gram-negative bacteria using single molecule sequencing

microbiology more details view paper
  • Downloaded 1,099 times
  • Download rankings, all-time:
    • Site-wide: 21,234
    • In microbiology: 1,248
  • Year to date:
    • Site-wide: 79,271
  • Since beginning of last month:
    • Site-wide: 5,559

Rapid and consistent evolution of colistin resistance in Pseudomonas aeruginosa during morbidostat culture

microbiology more details view paper
  • Downloaded 1,005 times
  • Download rankings, all-time:
    • Site-wide: 24,216
    • In microbiology: 1,447
  • Year to date:
    • Site-wide: 93,817
  • Since beginning of last month:
    • Site-wide: 72,274

Quantifying SARS-CoV-2 spread in Switzerland based on genomic sequencing data

epidemiology more details view paper
  • Downloaded 977 times
  • Download rankings, all-time:
    • Site-wide: 25,242
    • In epidemiology: 1,453
  • Year to date:
    • Site-wide: 20,704
  • Since beginning of last month:
    • Site-wide: 28,420

Interactions between seasonal human coronaviruses and implications for the SARS-CoV-2 pandemic: A retrospective study in Stockholm, Sweden, 2009-2020

infectious diseases more details view paper
  • Downloaded 973 times
  • Download rankings, all-time:
    • Site-wide: 25,406
    • In infectious diseases: 2,132
  • Year to date:
    • Site-wide: 18,198
  • Since beginning of last month:
    • Site-wide: 49,157

Real-time analysis and visualization of pathogen sequence data

microbiology more details view paper
  • Downloaded 921 times
  • Download rankings, all-time:
    • Site-wide: 27,467
    • In microbiology: 1,639
  • Year to date:
    • Site-wide: 127,071
  • Since beginning of last month:
    • Site-wide: 70,821

In-vivo mutation rates and fitness landscape of HIV-1

evolutionary biology more details view paper
  • Downloaded 905 times
  • Download rankings, all-time:
    • Site-wide: 28,169
    • In evolutionary biology: 1,209
  • Year to date:
    • Site-wide: 125,243
  • Since beginning of last month:
    • Site-wide: None

High-resolution influenza mapping of a city reveals socioeconomic determinants of transmission within and between urban quarters

microbiology more details view paper
  • Downloaded 814 times
  • Download rankings, all-time:
    • Site-wide: 32,681
    • In microbiology: 1,971
  • Year to date:
    • Site-wide: 90,915
  • Since beginning of last month:
    • Site-wide: 30,420

Intra- and interpatient evolution of enterovirus D68 analyzed by whole-genome deep sequencing

microbiology more details view paper
  • Downloaded 766 times
  • Download rankings, all-time:
    • Site-wide: 35,565
    • In microbiology: 2,169
  • Year to date:
    • Site-wide: 136,839
  • Since beginning of last month:
    • Site-wide: 80,915

Establishment and stability of the latent HIV-1 DNA reservoir

microbiology more details view paper
  • Downloaded 725 times
  • Download rankings, all-time:
    • Site-wide: 38,405
    • In microbiology: 2,338
  • Year to date:
    • Site-wide: 140,834
  • Since beginning of last month:
    • Site-wide: 56,648

Evolution, geographic spreading, and demographic distribution of Enterovirus D68

microbiology more details view paper
  • Downloaded 634 times
  • Download rankings, all-time:
    • Site-wide: 45,782
    • In microbiology: 2,829
  • Year to date:
    • Site-wide: 42,238
  • Since beginning of last month:
    • Site-wide: 62,745

Estimating Time Of HIV-1 Infection From Next-Generation Sequence Diversity

epidemiology more details view paper
  • Downloaded 628 times
  • Download rankings, all-time:
    • Site-wide: 46,306
    • In epidemiology: 2,209
  • Year to date:
    • Site-wide: 123,401
  • Since beginning of last month:
    • Site-wide: 75,370

Asynchrony between virus diversity and antibody selection limits influenza virus evolution

evolutionary biology more details view paper
  • Downloaded 582 times
  • Download rankings, all-time:
    • Site-wide: 50,921
    • In evolutionary biology: 2,564
  • Year to date:
    • Site-wide: 87,757
  • Since beginning of last month:
    • Site-wide: 68,725

Nextstrain: real-time tracking of pathogen evolution

evolutionary biology more details view paper
  • Downloaded 579 times
  • Download rankings, all-time:
    • Site-wide: 51,322
    • In evolutionary biology: 2,592
  • Year to date:
    • Site-wide: 91,801
  • Since beginning of last month:
    • Site-wide: 78,428

Limited predictability of amino acid substitutions in seasonal influenza viruses

evolutionary biology more details view paper
  • Downloaded 577 times
  • Download rankings, all-time:
    • Site-wide: 51,565
    • In evolutionary biology: 2,603
  • Year to date:
    • Site-wide: 57,411
  • Since beginning of last month:
    • Site-wide: 100,638

Seasonal influenza circulation patterns and projections for September 2019 to September 2020

evolutionary biology more details view paper
  • Downloaded 555 times
  • Download rankings, all-time:
    • Site-wide: 54,007
    • In evolutionary biology: 2,768
  • Year to date:
    • Site-wide: 91,994
  • Since beginning of last month:
    • Site-wide: None

Evolution and rapid spread of a reassortant A(H3N2) virus that predominated the 2017-2018 influenza season

genomics more details view paper
  • Downloaded 510 times
  • Download rankings, all-time:
    • Site-wide: 59,707
    • In genomics: 4,369
  • Year to date:
    • Site-wide: 147,392
  • Since beginning of last month:
    • Site-wide: 83,655

Efficient estimation of evolutionary rates by covariance aware regression

evolutionary biology more details view paper
  • Downloaded 488 times
  • Download rankings, all-time:
    • Site-wide: 62,724
    • In evolutionary biology: 3,266
  • Year to date:
    • Site-wide: 124,190
  • Since beginning of last month:
    • Site-wide: 80,456

Seasonal influenza circulation patterns and projections for Feb 2018 to Feb 2019

evolutionary biology more details view paper
  • Downloaded 482 times
  • Download rankings, all-time:
    • Site-wide: 63,576
    • In evolutionary biology: 3,309
  • Year to date:
    • Site-wide: 131,627
  • Since beginning of last month:
    • Site-wide: 67,059

Phylodynamics of rapidly adapting pathogens: extinction and speciation of a Red Queen

evolutionary biology more details view paper
  • Downloaded 397 times
  • Download rankings, all-time:
    • Site-wide: 77,406
    • In evolutionary biology: 4,037
  • Year to date:
    • Site-wide: 124,241
  • Since beginning of last month:
    • Site-wide: None

Seasonal influenza circulation patterns and projections for Sep 2017 to Sep 2018

evolutionary biology more details view paper
  • Downloaded 383 times
  • Download rankings, all-time:
    • Site-wide: 80,107
    • In evolutionary biology: 4,184
  • Year to date:
    • Site-wide: 149,078
  • Since beginning of last month:
    • Site-wide: None

Efficient inference, potential, and limitations of site-specific substitution model

evolutionary biology more details view paper
  • Downloaded 342 times
  • Download rankings, all-time:
    • Site-wide: 88,216
    • In evolutionary biology: 4,596
  • Year to date:
    • Site-wide: 135,003
  • Since beginning of last month:
    • Site-wide: 94,552

Seasonal influenza circulation patterns and projections for 2017-2018

evolutionary biology more details view paper
  • Downloaded 314 times
  • Download rankings, all-time:
    • Site-wide: 94,474
    • In evolutionary biology: 4,875
  • Year to date:
    • Site-wide: 134,610
  • Since beginning of last month:
    • Site-wide: None

Incomplete inhibition of HIV infection results in more HIV infected lymph node cells by reducing cell death

bioinformatics more details view paper
  • Downloaded 304 times
  • Download rankings, all-time:
    • Site-wide: 96,646
    • In bioinformatics: 8,425
  • Year to date:
    • Site-wide: 147,787
  • Since beginning of last month:
    • Site-wide: None

Characterising the epidemic spread of Influenza A/H3N2 within a city through phylogenetics

evolutionary biology more details view paper
  • Downloaded 266 times
  • Download rankings, all-time:
    • Site-wide: 105,520
    • In evolutionary biology: 5,376
  • Year to date:
    • Site-wide: 143,939
  • Since beginning of last month:
    • Site-wide: 68,740

Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution

evolutionary biology more details view paper
  • Downloaded 211 times
  • Download rankings, all-time:
    • Site-wide: 119,295
    • In evolutionary biology: 5,992
  • Year to date:
    • Site-wide: 122,617
  • Since beginning of last month:
    • Site-wide: None

Complementation can maintain a quasispecies of drug sensitive and resistant HIV

evolutionary biology more details view paper
  • Downloaded 136 times
  • Download rankings, all-time:
    • Site-wide: 136,767
    • In evolutionary biology: 6,718
  • Year to date:
    • Site-wide: 124,914
  • Since beginning of last month:
    • Site-wide: None

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