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Author: Richard A Neher

Rankings

  • All-time downloads: 143,018 (rank: 585 )
  • Categories:
    • bioinformatics: 302 (rank: 33,559 (tie) )
    • epidemiology: 112,537 (rank: 130 )
    • evolutionary biology: 10,803 (rank: 166 )
    • genomics: 508 (rank: 36,010 (tie) )
    • infectious diseases: 3,651 (rank: 10,424 )
    • microbiology: 7,177 (rank: 2,024 )
    • public and global health: 8,040 (rank: 624 (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 80,662 times
  • Download rankings, all-time:
    • Site-wide: 64
    • In epidemiology: 14
  • Year to date:
    • Site-wide: 127
  • Since beginning of last month:
    • Site-wide: 261

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

epidemiology more details view paper
  • Downloaded 17,037 times
  • Download rankings, all-time:
    • Site-wide: 436
    • In epidemiology: 70
  • Year to date:
    • Site-wide: 7,145
  • Since beginning of last month:
    • Site-wide: 8,943

Cryptic transmission of SARS-CoV-2 in Washington State

epidemiology more details view paper
  • Downloaded 9,428 times
  • Download rankings, all-time:
    • Site-wide: 948
    • In epidemiology: 127
  • Year to date:
    • Site-wide: 7,842
  • Since beginning of last month:
    • Site-wide: 9,185

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 8,040 times
  • Download rankings, all-time:
    • Site-wide: 1,164
    • In public and global health: 47
  • Year to date:
    • Site-wide: 5,254
  • Since beginning of last month:
    • Site-wide: 19,407

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

infectious diseases more details view paper
  • Downloaded 2,714 times
  • Download rankings, all-time:
    • Site-wide: 5,233
    • In infectious diseases: 902
  • Year to date:
    • Site-wide: 596
  • Since beginning of last month:
    • Site-wide: 939

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

epidemiology more details view paper
  • Downloaded 2,391 times
  • Download rankings, all-time:
    • Site-wide: 6,334
    • In epidemiology: 523
  • Year to date:
    • Site-wide: 1,351
  • Since beginning of last month:
    • Site-wide: 12,592

panX: pan-genome analysis and exploration

evolutionary biology more details view paper
  • Downloaded 1,809 times
  • Download rankings, all-time:
    • Site-wide: 9,543
    • In evolutionary biology: 282
  • Year to date:
    • Site-wide: 74,953
  • Since beginning of last month:
    • Site-wide: 61,092

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 1,475 times
  • Download rankings, all-time:
    • Site-wide: 12,853
    • In epidemiology: 883
  • Year to date:
    • Site-wide: 21,689
  • Since beginning of last month:
    • Site-wide: 18,695

TreeTime: maximum likelihood phylodynamic analysis

evolutionary biology more details view paper
  • Downloaded 1,452 times
  • Download rankings, all-time:
    • Site-wide: 13,183
    • In evolutionary biology: 444
  • Year to date:
    • Site-wide: 57,247
  • Since beginning of last month:
    • Site-wide: 75,984

Seasonal influenza circulation patterns and projections for 2016-2017

evolutionary biology more details view paper
  • Downloaded 1,447 times
  • Download rankings, all-time:
    • Site-wide: 13,253
    • In evolutionary biology: 449
  • Year to date:
    • Site-wide: 140,647
  • Since beginning of last month:
    • Site-wide: 120,012

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

microbiology more details view paper
  • Downloaded 1,334 times
  • Download rankings, all-time:
    • Site-wide: 14,968
    • In microbiology: 866
  • Year to date:
    • Site-wide: 79,630
  • Since beginning of last month:
    • Site-wide: 88,759

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

microbiology more details view paper
  • Downloaded 1,069 times
  • Download rankings, all-time:
    • Site-wide: 20,796
    • In microbiology: 1,185
  • Year to date:
    • Site-wide: 87,958
  • Since beginning of last month:
    • Site-wide: 69,546

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

microbiology more details view paper
  • Downloaded 982 times
  • Download rankings, all-time:
    • Site-wide: 23,520
    • In microbiology: 1,385
  • Year to date:
    • Site-wide: 100,895
  • Since beginning of last month:
    • Site-wide: 98,337

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 937 times
  • Download rankings, all-time:
    • Site-wide: 25,235
    • In infectious diseases: 2,030
  • Year to date:
    • Site-wide: 15,444
  • Since beginning of last month:
    • Site-wide: 36,428

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

epidemiology more details view paper
  • Downloaded 919 times
  • Download rankings, all-time:
    • Site-wide: 25,943
    • In epidemiology: 1,452
  • Year to date:
    • Site-wide: 20,436
  • Since beginning of last month:
    • Site-wide: 21,005

Real-time analysis and visualization of pathogen sequence data

microbiology more details view paper
  • Downloaded 912 times
  • Download rankings, all-time:
    • Site-wide: 26,210
    • In microbiology: 1,538
  • Year to date:
    • Site-wide: 121,166
  • Since beginning of last month:
    • Site-wide: 127,963

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

evolutionary biology more details view paper
  • Downloaded 903 times
  • Download rankings, all-time:
    • Site-wide: 26,569
    • In evolutionary biology: 1,173
  • Year to date:
    • Site-wide: 106,615
  • Since beginning of last month:
    • Site-wide: 108,287

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

microbiology more details view paper
  • Downloaded 795 times
  • Download rankings, all-time:
    • Site-wide: 31,773
    • In microbiology: 1,894
  • Year to date:
    • Site-wide: 90,210
  • Since beginning of last month:
    • Site-wide: 72,106

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

microbiology more details view paper
  • Downloaded 763 times
  • Download rankings, all-time:
    • Site-wide: 33,633
    • In microbiology: 2,020
  • Year to date:
    • Site-wide: 122,297
  • Since beginning of last month:
    • Site-wide: 120,549

Establishment and stability of the latent HIV-1 DNA reservoir

microbiology more details view paper
  • Downloaded 716 times
  • Download rankings, all-time:
    • Site-wide: 36,691
    • In microbiology: 2,216
  • Year to date:
    • Site-wide: 137,189
  • Since beginning of last month:
    • Site-wide: 141,010

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

epidemiology more details view paper
  • Downloaded 625 times
  • Download rankings, all-time:
    • Site-wide: 43,872
    • In epidemiology: 2,102
  • Year to date:
    • Site-wide: 105,930
  • Since beginning of last month:
    • Site-wide: 84,647

Evolution, geographic spreading, and demographic distribution of Enterovirus D68

microbiology more details view paper
  • Downloaded 606 times
  • Download rankings, all-time:
    • Site-wide: 45,585
    • In microbiology: 2,819
  • Year to date:
    • Site-wide: 38,514
  • Since beginning of last month:
    • Site-wide: 65,289

Asynchrony between virus diversity and antibody selection limits influenza virus evolution

evolutionary biology more details view paper
  • Downloaded 577 times
  • Download rankings, all-time:
    • Site-wide: 48,396
    • In evolutionary biology: 2,484
  • Year to date:
    • Site-wide: 71,290
  • Since beginning of last month:
    • Site-wide: 79,682

Nextstrain: real-time tracking of pathogen evolution

evolutionary biology more details view paper
  • Downloaded 571 times
  • Download rankings, all-time:
    • Site-wide: 49,082
    • In evolutionary biology: 2,518
  • Year to date:
    • Site-wide: 77,909
  • Since beginning of last month:
    • Site-wide: 83,576

Limited predictability of amino acid substitutions in seasonal influenza viruses

evolutionary biology more details view paper
  • Downloaded 565 times
  • Download rankings, all-time:
    • Site-wide: 49,669
    • In evolutionary biology: 2,559
  • Year to date:
    • Site-wide: 47,371
  • Since beginning of last month:
    • Site-wide: 104,537

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

evolutionary biology more details view paper
  • Downloaded 542 times
  • Download rankings, all-time:
    • Site-wide: 52,288
    • In evolutionary biology: 2,742
  • Year to date:
    • Site-wide: 83,571
  • Since beginning of last month:
    • Site-wide: 65,892

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

genomics more details view paper
  • Downloaded 508 times
  • Download rankings, all-time:
    • Site-wide: 56,456
    • In genomics: 4,238
  • Year to date:
    • Site-wide: 135,362
  • Since beginning of last month:
    • Site-wide: 99,049

Efficient estimation of evolutionary rates by covariance aware regression

evolutionary biology more details view paper
  • Downloaded 477 times
  • Download rankings, all-time:
    • Site-wide: 60,483
    • In evolutionary biology: 3,216
  • Year to date:
    • Site-wide: 121,809
  • Since beginning of last month:
    • Site-wide: 133,702

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

evolutionary biology more details view paper
  • Downloaded 471 times
  • Download rankings, all-time:
    • Site-wide: 61,283
    • In evolutionary biology: 3,261
  • Year to date:
    • Site-wide: 130,628
  • Since beginning of last month:
    • Site-wide: 106,166

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

evolutionary biology more details view paper
  • Downloaded 390 times
  • Download rankings, all-time:
    • Site-wide: 74,222
    • In evolutionary biology: 3,966
  • Year to date:
    • Site-wide: 114,517
  • Since beginning of last month:
    • Site-wide: 108,201

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

evolutionary biology more details view paper
  • Downloaded 377 times
  • Download rankings, all-time:
    • Site-wide: 76,562
    • In evolutionary biology: 4,093
  • Year to date:
    • Site-wide: 142,213
  • Since beginning of last month:
    • Site-wide: 141,892

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

evolutionary biology more details view paper
  • Downloaded 338 times
  • Download rankings, all-time:
    • Site-wide: 84,094
    • In evolutionary biology: 4,485
  • Year to date:
    • Site-wide: 120,557
  • Since beginning of last month:
    • Site-wide: 57,999

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

bioinformatics more details view paper
  • Downloaded 302 times
  • Download rankings, all-time:
    • Site-wide: 91,641
    • In bioinformatics: 8,074
  • Year to date:
    • Site-wide: 136,318
  • Since beginning of last month:
    • Site-wide: 127,830

Seasonal influenza circulation patterns and projections for 2017-2018

evolutionary biology more details view paper
  • Downloaded 300 times
  • Download rankings, all-time:
    • Site-wide: 92,050
    • In evolutionary biology: 4,847
  • Year to date:
    • Site-wide: 138,719
  • Since beginning of last month:
    • Site-wide: 137,389

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

evolutionary biology more details view paper
  • Downloaded 263 times
  • Download rankings, all-time:
    • Site-wide: 100,518
    • In evolutionary biology: 5,230
  • Year to date:
    • Site-wide: 131,823
  • Since beginning of last month:
    • Site-wide: 130,157

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

evolutionary biology more details view paper
  • Downloaded 203 times
  • Download rankings, all-time:
    • Site-wide: 114,777
    • In evolutionary biology: 5,884
  • Year to date:
    • Site-wide: 113,582
  • Since beginning of last month:
    • Site-wide: 111,847

Complementation can maintain a quasispecies of drug sensitive and resistant HIV

evolutionary biology more details view paper
  • Downloaded 118 times
  • Download rankings, all-time:
    • Site-wide: 133,235
    • In evolutionary biology: 6,638
  • Year to date:
    • Site-wide: 134,928
  • Since beginning of last month:
    • Site-wide: 142,592

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