Rxivist logo

Author: Tanja Stadler

Rankings

  • All-time downloads: 125,461 (rank: 794 )
  • Categories:
    • bioinformatics: 2,040 (rank: 7,515 (tie) )
    • epidemiology: 96,654 (rank: 143 )
    • evolutionary biology: 12,809 (rank: 124 )
    • genetics: 930 (rank: 17,027 (tie) )
    • genomics: 896 (rank: 25,147 (tie) )
    • immunology: 176 (rank: 32,034 (tie) )
    • infectious diseases: 9,333 (rank: 5,155 )
    • microbiology: 1,670 (rank: 9,075 )
    • paleontology: 592 (rank: 475 (tie) )
    • public and global health: 361 (rank: 7,484 (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: 65
    • In epidemiology: 14
  • Year to date:
    • Site-wide: 130
  • Since beginning of last month:
    • Site-wide: 290

Practical considerations for measuring the effective reproductive number, Rt

epidemiology more details view paper
  • Downloaded 7,757 times
  • Download rankings, all-time:
    • Site-wide: 1,223
    • In epidemiology: 152
  • Year to date:
    • Site-wide: 1,994
  • Since beginning of last month:
    • Site-wide: 4,092

Detection of SARS-CoV-2 variants in Switzerland by genomic analysis of wastewater samples

infectious diseases more details view paper
  • Downloaded 7,386 times
  • Download rankings, all-time:
    • Site-wide: 1,306
    • In infectious diseases: 364
  • Year to date:
    • Site-wide: 199
  • Since beginning of last month:
    • Site-wide: 1,086

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

epidemiology more details view paper
  • Downloaded 2,314 times
  • Download rankings, all-time:
    • Site-wide: 6,657
    • In epidemiology: 544
  • Year to date:
    • Site-wide: 1,490
  • Since beginning of last month:
    • Site-wide: None

The origin and early spread of SARS-CoV-2 in Europe

infectious diseases more details view paper
  • Downloaded 1,947 times
  • Download rankings, all-time:
    • Site-wide: 8,578
    • In infectious diseases: 1,195
  • Year to date:
    • Site-wide: 30,504
  • Since beginning of last month:
    • Site-wide: 54,349

Estimating epidemic incidence and prevalence from genomic data

epidemiology more details view paper
  • Downloaded 1,388 times
  • Download rankings, all-time:
    • Site-wide: 14,166
    • In epidemiology: 956
  • Year to date:
    • Site-wide: 61,784
  • Since beginning of last month:
    • Site-wide: 63,649

BEAST 2.5: An Advanced Software Platform for Bayesian Evolutionary Analysis

evolutionary biology more details view paper
  • Downloaded 1,336 times
  • Download rankings, all-time:
    • Site-wide: 14,997
    • In evolutionary biology: 530
  • Year to date:
    • Site-wide: 53,771
  • Since beginning of last month:
    • Site-wide: 58,324

Novel Integrative Modeling of Molecules and Morphology across Evolutionary Timescales

evolutionary biology more details view paper
  • Downloaded 1,335 times
  • Download rankings, all-time:
    • Site-wide: 15,011
    • In evolutionary biology: 533
  • Year to date:
    • Site-wide: 18,956
  • Since beginning of last month:
    • Site-wide: 25,440

Fast and Robust Inference of Phylogenetic Ornstein-Uhlenbeck Models Using Parallel Likelihood Calculation

evolutionary biology more details view paper
  • Downloaded 1,326 times
  • Download rankings, all-time:
    • Site-wide: 15,159
    • In evolutionary biology: 542
  • Year to date:
    • Site-wide: 26,612
  • Since beginning of last month:
    • Site-wide: 16,977

Joint inference of species histories and gene flow

evolutionary biology more details view paper
  • Downloaded 1,139 times
  • Download rankings, all-time:
    • Site-wide: 19,062
    • In evolutionary biology: 722
  • Year to date:
    • Site-wide: 14,858
  • Since beginning of last month:
    • Site-wide: 34,359

The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology

epidemiology more details view paper
  • Downloaded 1,046 times
  • Download rankings, all-time:
    • Site-wide: 21,554
    • In epidemiology: 1,284
  • Year to date:
    • Site-wide: 87,089
  • Since beginning of last month:
    • Site-wide: 67,086

The heritability of pathogen traits - definitions and estimators

genetics more details view paper
  • Downloaded 930 times
  • Download rankings, all-time:
    • Site-wide: 25,635
    • In genetics: 1,205
  • Year to date:
    • Site-wide: 89,481
  • Since beginning of last month:
    • Site-wide: 111,751

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

epidemiology more details view paper
  • Downloaded 929 times
  • Download rankings, all-time:
    • Site-wide: 25,666
    • In epidemiology: 1,447
  • Year to date:
    • Site-wide: 19,695
  • Since beginning of last month:
    • Site-wide: 18,602

Quantification of the spread of SARS-CoV-2 variant B.1.1.7 in Switzerland

epidemiology more details view paper
  • Downloaded 922 times
  • Download rankings, all-time:
    • Site-wide: 25,952
    • In epidemiology: 1,454
  • Year to date:
    • Site-wide: 2,579
  • Since beginning of last month:
    • Site-wide: 5,548

Bayesian Inference of Species Networks from Multilocus Sequence Data

evolutionary biology more details view paper
  • Downloaded 909 times
  • Download rankings, all-time:
    • Site-wide: 26,468
    • In evolutionary biology: 1,169
  • Year to date:
    • Site-wide: 104,064
  • Since beginning of last month:
    • Site-wide: 58,378

The Structured Coalescent and its Approximations

evolutionary biology more details view paper
  • Downloaded 897 times
  • Download rankings, all-time:
    • Site-wide: 26,950
    • In evolutionary biology: 1,191
  • Year to date:
    • Site-wide: 96,050
  • Since beginning of last month:
    • Site-wide: 100,629

Within-patient genetic diversity of SARS-CoV-2

genomics more details view paper
  • Downloaded 896 times
  • Download rankings, all-time:
    • Site-wide: 27,001
    • In genomics: 2,486
  • Year to date:
    • Site-wide: 9,451
  • Since beginning of last month:
    • Site-wide: 11,462

Clinical extended-spectrum beta-lactamase antibiotic resistance plasmids have diverse transfer rates and can spread in the absence of antibiotic selection

microbiology more details view paper
  • Downloaded 869 times
  • Download rankings, all-time:
    • Site-wide: 28,216
    • In microbiology: 1,675
  • Year to date:
    • Site-wide: 40,837
  • Since beginning of last month:
    • Site-wide: 35,583

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

microbiology more details view paper
  • Downloaded 801 times
  • Download rankings, all-time:
    • Site-wide: 31,570
    • In microbiology: 1,876
  • Year to date:
    • Site-wide: 84,520
  • Since beginning of last month:
    • Site-wide: 57,178

A Multi-State Birth-Death model for Bayesian inference of lineage-specific birth and death rates

evolutionary biology more details view paper
  • Downloaded 799 times
  • Download rankings, all-time:
    • Site-wide: 31,683
    • In evolutionary biology: 1,470
  • Year to date:
    • Site-wide: 87,911
  • Since beginning of last month:
    • Site-wide: 51,764

Bayesian Evaluation of Temporal Signal in Measurably Evolving Populations

bioinformatics more details view paper
  • Downloaded 765 times
  • Download rankings, all-time:
    • Site-wide: 33,642
    • In bioinformatics: 3,717
  • Year to date:
    • Site-wide: 56,934
  • Since beginning of last month:
    • Site-wide: 82,344

Ignoring stratigraphic age uncertainty leads to erroneous estimates of species divergence times under the fossilized birth-death process

paleontology more details view paper
  • Downloaded 592 times
  • Download rankings, all-time:
    • Site-wide: 47,160
    • In paleontology: 96
  • Year to date:
    • Site-wide: 142,249
  • Since beginning of last month:
    • Site-wide: 141,843

Improved multi-type birth-death phylodynamic inference in BEAST 2

evolutionary biology more details view paper
  • Downloaded 573 times
  • Download rankings, all-time:
    • Site-wide: 49,044
    • In evolutionary biology: 2,508
  • Year to date:
    • Site-wide: 41,457
  • Since beginning of last month:
    • Site-wide: 32,913

Coupling adaptive molecular evolution to phylodynamics using fitness-dependent birth-death models

evolutionary biology more details view paper
  • Downloaded 555 times
  • Download rankings, all-time:
    • Site-wide: 50,982
    • In evolutionary biology: 2,650
  • Year to date:
    • Site-wide: 135,060
  • Since beginning of last month:
    • Site-wide: 129,415

Bayesian inference of reassortment networks reveals fitness benefits of reassortment in human influenza viruses

evolutionary biology more details view paper
  • Downloaded 526 times
  • Download rankings, all-time:
    • Site-wide: 54,419
    • In evolutionary biology: 2,864
  • Year to date:
    • Site-wide: 115,453
  • Since beginning of last month:
    • Site-wide: 95,157

Swapping Birth and Death: Symmetries and Transformations in Phylodynamic Models

evolutionary biology more details view paper
  • Downloaded 498 times
  • Download rankings, all-time:
    • Site-wide: 57,889
    • In evolutionary biology: 3,053
  • Year to date:
    • Site-wide: 143,382
  • Since beginning of last month:
    • Site-wide: 142,251

MASCOT: Parameter and state inference under the marginal structured coalescent approximation

evolutionary biology more details view paper
  • Downloaded 485 times
  • Download rankings, all-time:
    • Site-wide: 59,640
    • In evolutionary biology: 3,156
  • Year to date:
    • Site-wide: 138,301
  • Since beginning of last month:
    • Site-wide: 125,176

Parallel Likelihood Calculation for Phylogenetic Comparative Models: the SPLITT C++ Library

evolutionary biology more details view paper
  • Downloaded 472 times
  • Download rankings, all-time:
    • Site-wide: 61,481
    • In evolutionary biology: 3,260
  • Year to date:
    • Site-wide: 106,665
  • Since beginning of last month:
    • Site-wide: 100,954

Phylodynamic model adequacy using posterior predictive simulations

bioinformatics more details view paper
  • Downloaded 466 times
  • Download rankings, all-time:
    • Site-wide: 62,269
    • In bioinformatics: 6,114
  • Year to date:
    • Site-wide: 134,387
  • Since beginning of last month:
    • Site-wide: 136,869

Inferring time-dependent migration and coalescence patterns from genetic sequence and predictor data in structured populations

evolutionary biology more details view paper
  • Downloaded 460 times
  • Download rankings, all-time:
    • Site-wide: 63,132
    • In evolutionary biology: 3,351
  • Year to date:
    • Site-wide: 124,529
  • Since beginning of last month:
    • Site-wide: 128,812

Phylodynamics on local sexual contact networks

epidemiology more details view paper
  • Downloaded 452 times
  • Download rankings, all-time:
    • Site-wide: 64,373
    • In epidemiology: 2,794
  • Year to date:
    • Site-wide: 136,642
  • Since beginning of last month:
    • Site-wide: 130,438

The probability distribution of the reconstructed phylogenetic tree with occurrence data

evolutionary biology more details view paper
  • Downloaded 442 times
  • Download rankings, all-time:
    • Site-wide: 65,906
    • In evolutionary biology: 3,516
  • Year to date:
    • Site-wide: 91,395
  • Since beginning of last month:
    • Site-wide: 109,360

Estimates of outbreak-specific SARS-CoV-2 epidemiological parameters from genomic data

epidemiology more details view paper
  • Downloaded 430 times
  • Download rankings, all-time:
    • Site-wide: 67,793
    • In epidemiology: 2,924
  • Year to date:
    • Site-wide: 32,167
  • Since beginning of last month:
    • Site-wide: 36,780

Accurate detection of HIV transmission clusters from phylogenetic trees using a multi-state birth-death model

bioinformatics more details view paper
  • Downloaded 418 times
  • Download rankings, all-time:
    • Site-wide: 69,776
    • In bioinformatics: 6,612
  • Year to date:
    • Site-wide: 140,726
  • Since beginning of last month:
    • Site-wide: 136,482

External introductions helped drive and sustain the high incidence of HIV-1 in rural KwaZulu-Natal, South Africa

epidemiology more details view paper
  • Downloaded 379 times
  • Download rankings, all-time:
    • Site-wide: 76,527
    • In epidemiology: 3,229
  • Year to date:
    • Site-wide: 112,358
  • Since beginning of last month:
    • Site-wide: 77,815

Tuberculosis outbreak investigation using phylodynamic analysis

epidemiology more details view paper
  • Downloaded 375 times
  • Download rankings, all-time:
    • Site-wide: 77,143
    • In epidemiology: 3,258
  • Year to date:
    • Site-wide: 136,262
  • Since beginning of last month:
    • Site-wide: 118,482

Ignoring fossil age uncertainty leads to inaccurate topology and divergence times in time calibrated tree inference

evolutionary biology more details view paper
  • Downloaded 361 times
  • Download rankings, all-time:
    • Site-wide: 79,866
    • In evolutionary biology: 4,250
  • Year to date:
    • Site-wide: 78,366
  • Since beginning of last month:
    • Site-wide: 84,405

Wastewater-based estimation of the effective reproductive number of SARS-CoV-2

public and global health more details view paper
  • Downloaded 361 times
  • Download rankings, all-time:
    • Site-wide: 79,886
    • In public and global health: 985
  • Year to date:
    • Site-wide: 9,937
  • Since beginning of last month:
    • Site-wide: 1,566

A skyline birth-death process for inferring the population size from a reconstructed tree with occurrences

evolutionary biology more details view paper
  • Downloaded 319 times
  • Download rankings, all-time:
    • Site-wide: 88,315
    • In evolutionary biology: 4,665
  • Year to date:
    • Site-wide: 30,787
  • Since beginning of last month:
    • Site-wide: 26,087

The influence of the phylogenetic inference pipeline on murine antibody repertoire sequencing data following viral infection

bioinformatics more details view paper
  • Downloaded 305 times
  • Download rankings, all-time:
    • Site-wide: 91,402
    • In bioinformatics: 8,042
  • Year to date:
    • Site-wide: 86,363
  • Since beginning of last month:
    • Site-wide: 104,718

The ancestral population size conditioned on the reconstructed phylogenetic tree with occurrence data

evolutionary biology more details view paper
  • Downloaded 259 times
  • Download rankings, all-time:
    • Site-wide: 101,642
    • In evolutionary biology: 5,271
  • Year to date:
    • Site-wide: 137,610
  • Since beginning of last month:
    • Site-wide: 139,324

Mouse-specific but infection-unspecific IgM repertoire fingerprint following viral infection

immunology more details view paper
  • Downloaded 176 times
  • Download rankings, all-time:
    • Site-wide: 121,437
    • In immunology: 3,527
  • Year to date:
    • Site-wide: 129,235
  • Since beginning of last month:
    • Site-wide: 88,714

Joint inference of migration and reassortment patterns for viruses with segment genomes

evolutionary biology more details view paper
  • Downloaded 118 times
  • Download rankings, all-time:
    • Site-wide: 133,862
    • In evolutionary biology: 6,658
  • Year to date:
    • Site-wide: 40,734
  • Since beginning of last month:
    • Site-wide: 7,746

Estimating disease spread using structured coalescent andbirth-death models: A quantitative comparison

bioinformatics more details view paper
  • Downloaded 86 times
  • Download rankings, all-time:
    • Site-wide: 139,436
    • In bioinformatics: 10,765
  • Year to date:
    • Site-wide: 80,848
  • Since beginning of last month:
    • Site-wide: 132,211

PanLingua

News