Sergei L. Kosakovsky Pond

Immunology and MicrobiologyBiochemistry, Genetics and Molecular BiologyMedicine

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

4.8Author DataRank

Indexed papers

2in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 2 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

Coronavirus Resistance Database (CoV-RDB): SARS-CoV-2 susceptibility to monoclonal antibodies, convalescent plasma, and plasma from vaccinated persons

PLoS ONE(2022)10.1371/journal.pone.0261045

Top 5%

4.4DataRank

Top 5%122 citations

Kaiming Tao, Sergei L. Kosakovsky Pond, Robert W. Shafer, Philip L. Tzou

Papers

Driven by 79 papers — median percentile 71. Top paper: “Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa”.

Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa

Nature Medicine(2022)10.1038/s41591-022-01911-2

N/A

14.5DataRank · unranked

697 citations

Monika Moir, Josie Everatt, Marta Giovanetti, Cathrine Scheepers, Eduan Wilkinson +90 more

Coronavirus Resistance Database (CoV-RDB): SARS-CoV-2 susceptibility to monoclonal antibodies, convalescent plasma, and plasma from vaccinated persons

PLoS ONE(2022)10.1371/journal.pone.0261045

Top 5%

4.4DataRank

Top 5%122 citations

Kaiming Tao, Sergei L. Kosakovsky Pond, Robert W. Shafer, Philip L. Tzou

Detection of SARS-CoV-2 intra-host recombination during superinfection with Alpha and Epsilon variants in New York City

Nature Communications(2022)10.1038/s41467-022-31247-x

N/A

2.1DataRank · unranked

46 citations

Jade Wang, Mindy Leelawong, Darren P. Martin, Jennifer L. Havens, Moinuddin A. Chowdhury +19 more

Synonymous Site-to-Site Substitution Rate Variation Dramatically Inflates False Positive Rates of Selection Analyses: Ignore at Your Own Peril

Molecular Biology and Evolution(2020)10.1093/molbev/msaa037

N/A

1.9DataRank · unranked

105 citations

Sergei L. Kosakovsky Pond, Stephen D. Shank, Spencer V. Muse, Sadie R Wisotsky

No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics

PLoS Pathogens(2020)10.1371/journal.ppat.1008643

N/A

1.5DataRank · unranked

34 citations

Marius van den Beek, Daniel Blankenberg, Dave Bouvier, John Chilton, Nate Coraor +13 more

Ready-to-use public infrastructure for global SARS-CoV-2 monitoring

Nature Biotechnology(2021)10.1038/s41587-021-01069-1

N/A

1.4DataRank · unranked

30 citations

Simon Bray, Marius van den Beek, Dave Bouvier, Nathan Coraor, Milad Miladi +12 more

The emergence and ongoing convergent evolution of the SARS-CoV-2 N501Y lineages

Cell(2021)10.1016/j.cell.2021.09.003

N/A

0.844DataRank · unranked

276 citations

Steven Weaver, Houriiyah Tegally, James Emmanuel San, Stephen D. Shank, Eduan Wilkinson +17 more

Characterization of changes in the hemagglutinin that accompanied the emergence of H3N2/1968 pandemic influenza viruses

PLoS Pathogens(2021)10.1371/journal.ppat.1009566

N/A

0.774DataRank · unranked

19 citations

Juliane Röder, Tatyana Matrosovich, Jana Beicht, Jan Baumann, Nancy Mounogou Kouassi +13 more

Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function

Molecular Biology and Evolution(2022)10.1093/molbev/msac061

N/A

0.723DataRank · unranked

123 citations

Spyros Lytras, Alexander G. Lucaci, Wolfgang Maier, Björn Grüning, Stephen D. Shank +33 more

Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable

Proceedings of the National Academy of Sciences(2020)10.1073/pnas.2007295117

N/A

0.665DataRank · unranked

83 citations

Sergei L. Kosakovsky Pond, Simone Marini, Brittany Rife Magalis, Anne–Mieke Vandamme, Simon Dellicour +31 more

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa

Nature(2022)10.1038/d41586-021-03832-5

N/A

0.646DataRank · unranked

73 citations

Sikhulile Moyo, Daniel G. Amoako, Houriiyah Tegally, Cathrine Scheepers, Christian L. Althaus +94 more

Contrast-FEL—A Test for Differences in Selective Pressures at Individual Sites among Clades and Sets of Branches

Molecular Biology and Evolution(2020)10.1093/molbev/msaa263

N/A

0.639DataRank · unranked

70 citations

Sadie R Wisotsky, Ananías A. Escalante, Brittany Rife Magalis, Steven Weaver, Sergei L. Kosakovsky Pond

Analysis of unusual and signature APOBEC-mutations in HIV-1 pol next-generation sequences

PLoS ONE(2020)10.1371/journal.pone.0225352

N/A

0.550DataRank · unranked

38 citations

Sergei L. Kosakovsky Pond, Santiago Ávila‐Ríos, Susan Holmes, Rami Kantor, Robert W. Shafer +1 more

Vocal learning–associated convergent evolution in mammalian proteins and regulatory elements

Science(2024)10.1126/science.abn3263

N/A

0.542DataRank · unranked

36 citations

Tobias A. Schmid, Julie E. Elie, Xiaomeng Zhang, Amanda Kowalczyk, Ruby Redlich +89 more

An evolutionary portrait of the progenitor SARS-CoV-2 and its dominant offshoots in COVID-19 pandemic

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.24.311845

N/A

0.470DataRank · unranked

22 citations

Qiqing Tao, Steven Weaver, Maxwell Sanderford, Marcos A. Caraballo‐Ortiz, Sudip Sharma +3 more

RASCL: Rapid Assessment of Selection in CLades through molecular sequence analysis

PLoS ONE(2022)10.1371/journal.pone.0275623

N/A

0.402DataRank · unranked

10 citations

Jordan D. Zehr, Stephen D. Shank, Dave Bouvier, Alexander Ostrovsky, Mei Han +4 more

Minus the Error: Testing for Positive Selection in the Presence of Residual Alignment Errors

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.11.13.620707

N/A

0.366DataRank · unranked

9 citations

Nathan L Clark, Timothy B. Sackton, Spencer V. Muse, Alexander G. Lucaci, Steven Weaver +4 more

Phyloanatomic characterization of the distinct T cell and monocyte contributions to the peripheral blood HIV population within the host

Virus Evolution(2020)10.1093/ve/veaa005

N/A

0.360DataRank · unranked

9 citations

Samantha L. Strickland, Stephen D. Shank, Patrick Autissier, Alexandra Schuetz, Pasiri Sithinamsuwan +11 more

Recommendations on data sharing in HIV drug resistance research

PLOS Medicine(2023)10.1371/journal.pmed.1004293

N/A

0.360DataRank · unranked

10 citations

Mark J. Siedner, Susan J. Little, Santiago Ávila‐Ríos, Alisen Ayitewala, Ronald J. Bosch +50 more

Diversity of Functionally Distinct Clonal Sets of Human Conventional Memory B Cells That Bind Staphylococcal Protein A

Frontiers in Immunology(2021)10.3389/fimmu.2021.662782

N/A

0.360DataRank · unranked

10 citations

Li Zhi, David N. Hernandez, Hanane El Bannoudi, Sergei L. Kosakovsky Pond, Bo Shopsin +4 more

Contrast-FEL – a test for differences in selective pressures at individual sites among clades and sets of branches

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.13.091363

N/A

0.345DataRank · unranked

9 citations

Sadie R Wisotsky, Ananías A. Escalante, Brittany Rife Magalis, Steven Weaver, Sergei L. Kosakovsky Pond

Ecological diversification of sea catfishes is accompanied by genome-wide signatures of positive selection

Nature Communications(2024)10.1038/s41467-024-54184-3

Top 53%

0.324DataRank

Top 53%7 citations

Rishi De‐Kayne, Stephen D. Shank, Stacy Pirro, Alfred Ko’ou, Linelle Abueg +12 more

AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters

Frontiers in Bioinformatics(2024)10.3389/fbinf.2024.1400003

N/A

0.269DataRank · unranked

5 citations

Vanessa M. Dávila Conn, Daniel Ji, Hannah Verdonk, Santiago Ávila‐Ríos, Andrew Brown +3 more

Somatic genome architecture and molecular evolution are decoupled in “young” linage-specific gene families in ciliates

PLoS ONE(2024)10.1371/journal.pone.0291688

N/A

0.241DataRank · unranked

4 citations

Auden Cote‐L’Heureux, Sergei L. Kosakovsky Pond, Laura A. Katz, Xyrus X. Maurer‐Alcalá

Recent zoonotic spillover and tropism shift of a Canine Coronavirus is associated with relaxed selection and putative loss of function in NTD subdomain of spike protein

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.15.468709

N/A

0.208DataRank · unranked

3 citations

Sergei L. Kosakovsky Pond, Darren P. Martin, Kristina Ceres, Gary R. Whittaker, Laura B. Goodman +2 more

RASCL: Rapid Assessment Of SARS-CoV-2 Clades Through Molecular Sequence Analysis

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.01.15.476448

N/A

0.208DataRank · unranked

3 citations

Jordan D. Zehr, Stephen D. Shank, Dave Bouvier, Mei Han, Anton Nekrutenko +3 more

The persistent pool of HIV-1-infected cells is formed episodically during untreated infection

Journal of Virology(2024)10.1128/jvi.00979-24

N/A

0.165DataRank · unranked

2 citations

Matthew Moeser, Amy Sondgeroth, E. Spielvogel, Brian Richardson, Deelan Doolabh +13 more

Dynamics of natural selection preceding human viral epidemics and pandemics

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.02.26.640439

N/A

0.165DataRank · unranked

2 citations

Sergei L. Kosakovsky Pond, Jordan D. Zehr, Jonathan E. Pekar, Edyth Parker, Michael Worobey +3 more

From data to publication in a browser with BRC-Analytics: Evolutionary dynamics of coding overlaps in measles virus

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.13.682095

N/A

0.165DataRank · unranked

2 citations

Danielle Callan, Marius van den Beek, Dannon Baker, David J. Rogers, Wolfgang Maier +8 more

Susceptibility of SARS-CoV-2 Omicron Variants to Therapeutic Monoclonal Antibodies: Systematic Review and Meta-Analysis

Preprints.org(2022)10.20944/preprints202203.0155.v1

N/A

0DataRank · unranked

9 citations

Philip L. Tzou, Sergei L. Kosakovsky Pond, John P. A. Ioannidis, Robert W. Shafer, Kaiming Tao

Evolutionary shortcuts via multi-nucleotide substitutions and their impact on natural selection analyses

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.02.518889

N/A

0DataRank · unranked

7 citations

Jordan D. Zehr, David Enard, Joseph W. Thornton, Sergei L. Kosakovsky Pond, Alexander G. Lucaci

Viral genome sequence datasets display pervasive evidence of strand-specific substitution biases that are best described using non-reversible nucleotide substitution models

Research Square(2022)10.21203/rs.3.rs-2407778/v1

N/A

0DataRank · unranked

2 citations

Penelope Hartnady, Wimbai Caroline Mandikumba, Kayleigh D. Rutherford, Christopher Brian Currin, Florence Phelanyane +4 more

Defective HIV DNA genomes provide ancestral relevance critical for phylogenetic inference of reservoir dynamics

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.04.490630

N/A

0DataRank · unranked

0 citations

Andrea S Ramirez-Mata, Melanie N. Cash, Jose Estrada, Stephen D. Shank, Adam Browning +5 more

Evolutionary Shortcuts via Multinucleotide Substitutions and Their Impact on Natural Selection Analyses

Molecular Biology and Evolution(2023)10.1093/molbev/msad150

N/A

0DataRank · unranked

40 citations

Jordan D. Zehr, David Enard, Joseph W. Thornton, Sergei L. Kosakovsky Pond, Alexander G. Lucaci

Natural selection differences detected in key protein domains between non-pathogenic and pathogenic feline coronavirus phenotypes

Virus Evolution(2023)10.1093/ve/vead019

N/A

0DataRank · unranked

24 citations

Sergei L. Kosakovsky Pond, Jean K. Millet, Ximena A. Olarte‐Castillo, Alexander G. Lucaci, Stephen D. Shank +6 more

The phylogenomics and evolutionary dynamics of the organellar genomes in carnivorous Utricularia and Genlisea species (Lentibulariaceae)

Molecular Phylogenetics and Evolution(2023)10.1016/j.ympev.2023.107711

N/A

0DataRank · unranked

13 citations

Vitor F. O. Miranda, Todd P. Michael, Bartosz J. Płachno, Ramon Guedes Matos, Lubomı́r Adamec +5 more

Antigen pressure from two founder viruses induces multiple insertions at a single antibody position to generate broadly neutralizing HIV antibodies

PLoS Pathogens(2023)10.1371/journal.ppat.1011416

N/A

0DataRank · unranked

5 citations

Sasha Murrell, Ben Murrell, Oluwarotimi Omorodion, Lorena S. Ver, Nancy C. Carrico +24 more

Molecular modeling and phylogenetic analyses highlight the role of amino acid 347 of the N1 subtype neuraminidase in influenza virus host range and interspecies adaptation

Frontiers in Microbiology(2023)10.3389/fmicb.2023.1309156

N/A

0DataRank · unranked

4 citations

Giuseppina Raffaini, Marco Guerrini, Sergei L. Kosakovsky Pond, Mikhail Matrosovich, Stefano Elli

Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses

Genome Biology and Evolution(2023)10.1093/gbe/evad076

N/A

0DataRank · unranked

6 citations

Sergei L. Kosakovsky Pond, Natalia Martínez de la Viña, Bernardo Gutiérrez, Rhys Inward, Julien Thézé +6 more

The Complete Sequence and Comparative Analysis of Ape Sex Chromosomes

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.30.569198

N/A

0DataRank · unranked

24 citations

Brandon D. Pickett, Robert S. Harris, Gabrielle A. Hartley, Monika Čechová, Karol Pal +78 more

Viral genome sequence datasets display pervasive evidence of strand-specific substitution biases that are best described using non-reversible nucleotide substitution models

eLife(2023)10.7554/elife.87361

N/A

0DataRank · unranked

0 citations

Penelope Hartnady, Wimbai Caroline Mandikumba, Kayleigh D. Rutherford, Christopher Brian Currin, Florence Phelanyane +5 more

Deep Sequencing Reveals Compartmentalized HIV-1 in the Semen of Men with and without Sexually Transmitted Infection-Associated Urethritis

UNC Libraries(2023)10.17615/jazf-1144

N/A

0DataRank · unranked

0 citations

Sergei L. Kosakovsky Pond, R. Swanstroma, Shuai Zhou, Mitch Matoga, Council, O.D. +5 more

The timing of HIV-1 infection of cells that persist on therapy is not strongly influenced by replication competency or cellular tropism of the provirus

PLoS Pathogens(2024)10.1371/journal.ppat.1011974

N/A

0DataRank · unranked

7 citations

Melissa-Rose Abrahams, Matthew Moeser, Lynn Tyers, Nancie M. Archin, Amy Sondgeroth +12 more

AUTO-TUNE: SELECTING THE DISTANCE THRESHOLD FOR INFERRING HIV TRANSMISSION CLUSTERS

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.11.584522

N/A

0DataRank · unranked

1 citations

Vanessa Dávila‐Conn, Daniel Ji, Hannah Verdonk, Santiago Ávila‐Ríos, Andrew Brown +3 more

AOC: Analysis of Orthologous Collections -- an application for the characterization of natural selection in protein-coding sequences

PubMed(2024)10.48550/arxiv.2406.09522

N/A

0DataRank · unranked

0 citations

Sergei L. Kosakovsky Pond, Alexander G. Lucaci

Positive selection, genetic recombination, and intra-host evolution in novel equine coronavirus genomes and other members of the Embecovirus subgenus

Microbiology Spectrum(2024)10.1128/spectrum.00867-24

N/A

0DataRank · unranked

0 citations

Sergei L. Kosakovsky Pond, Stephen D. Shank, Holly McQueary, Jennifer K. Grenier, Gary R. Whittaker +3 more

HIV-1 Rebound Virus Consists of a Small Number of Lineages That Entered the Reservoir Close to ART Initiation

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.29.635391

N/A

0DataRank · unranked

4 citations

Matthew Moeser, Jean Felistas Ntuli, Shuntai Zhou, E. Spielvogel, Amy Sondgeroth +11 more

Viral genome sequence datasets display pervasive evidence of strand-specific substitution biases that are best described using non-reversible nucleotide substitution models

Research Square(2025)10.21203/rs.3.rs-2407778/v2

N/A

0DataRank · unranked

0 citations

Penelope Hartnady, Wimbai Caroline Mandikumba, Kayleigh D. Rutherford, Christopher Brian Currin, Florence Phelanyane +4 more

WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.03.680205

N/A

0DataRank · unranked

0 citations

Andrea S. Ramirez-Mata, Melanie N. Cash, Jose L. Estrada, Stephen D. Shank, A. Browning +5 more

The persistent pool of HIV-1-infected cells is formed episodically during untreated infection.

UNC Libraries(2025)10.17615/9zn7-gt17

N/A

0DataRank · unranked

0 citations

Ann Emery, Olivia D Council, Amy Sondgeroth, Bonnie E. Shook‐Sa, Sergei L. Kosakovsky Pond +14 more

MoleRate: comparing molecular relative evolutionary rates to detect convergent evolution

Evolution(2025)10.1093/evolut/qpaf240

N/A

0DataRank · unranked

0 citations

Nathan L Clark, Anton Nekrutenko, Maria Chikina, Sergei L. Kosakovsky Pond, Avery Selberg

Viral CpG Deficiency Provides No Evidence That Dogs Were Intermediate Hosts for SARS-CoV-2

Molecular Biology and Evolution(2020)10.1093/molbev/msaa178

N/A

0DataRank · unranked

20 citations

Todd A. Castoe, Blair W. Perry, Spyros Lytras, Kristen J. Wade, David L. Robertson +9 more

A new method for inferring timetrees from temporally sampled molecular sequences

PLoS Computational Biology(2020)10.1371/journal.pcbi.1007046

N/A

0DataRank · unranked

28 citations

Koichiro Tamura, Qiqing Tao, Louise A. Huuki-Myers, Sergei L. Kosakovsky Pond, Jessica M. Priest +3 more

Equiprobable discrete models of site-specific substitution rates underestimate the extent of rate variability

PLoS ONE(2020)10.1371/journal.pone.0229493

N/A

0DataRank · unranked

3 citations

Sadie R Wisotsky, Sergei L. Kosakovsky Pond, Spencer V. Muse, Frank Mannino

Deep Sequencing Reveals Compartmentalized HIV-1 in the Semen of Men with and without Sexually Transmitted Infection-Associated Urethritis

Journal of Virology(2020)10.1128/jvi.00151-20

N/A

0DataRank · unranked

9 citations

Chase D. McCann, Irving Hoffman, Gerald Tegha, Deborah Kamwendo, Mitch Matoga +4 more

Natural selection in the evolution of SARS-CoV-2 in bats, not humans, created a highly capable human pathogen

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.28.122366

N/A

0DataRank · unranked

41 citations

Spyros Lytras, Steven Weaver, Joshua B. Singer, Maciej F. Boni, Philippe Lemey +3 more

No more business as usual: agile and effective responses to emerging pathogen threats require open data and open analytics

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.21.959973

N/A

0DataRank · unranked

4 citations

Anton Nekrutenko, Sergei L. Kosakovsky Pond, Galaxy and HyPhy developments teams

Extra base hits: widespread empirical support for instantaneous multiple-nucleotide changes

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.13.091652

N/A

0DataRank · unranked

4 citations

Sadie R Wisotsky, Stephen D. Shank, Steven Weaver, Sergei L. Kosakovsky Pond, Alexander G. Lucaci

Deep Sequencing Reveals Compartmentalized HIV-1 in the Semen of Men with and without STI-associated Urethritis

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.28.924225

N/A

0DataRank · unranked

0 citations

Chase D. McCann, Irving Hoffman, Gerald Tegha, Deborah Kamwendo, Mitch Matoga +4 more

Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen

PLoS Biology(2021)10.1371/journal.pbio.3001115

N/A

0DataRank · unranked

224 citations

Spyros Lytras, Steven Weaver, Joshua B. Singer, Maciej F. Boni, Philippe Lemey +3 more

HIV-1 and SARS-CoV-2: Patterns in the evolution of two pandemic pathogens

Cell Host & Microbe(2021)10.1016/j.chom.2021.05.012

N/A

0DataRank · unranked

115 citations

Elena Giorgi, Srirupa Chakraborty, Kien Nguyen, Tanmoy Bhattacharya, James Theiler +51 more

An Evolutionary Portrait of the Progenitor SARS-CoV-2 and Its Dominant Offshoots in COVID-19 Pandemic

Molecular Biology and Evolution(2021)10.1093/molbev/msab118

N/A

0DataRank · unranked

81 citations

Qiqing Tao, Steven Weaver, Maxwell Sanderford, Marcos A. Caraballo‐Ortiz, Sudip Sharma +3 more

Extra base hits: Widespread empirical support for instantaneous multiple-nucleotide changes

PLoS ONE(2021)10.1371/journal.pone.0248337

N/A

0DataRank · unranked

37 citations

Sadie R Wisotsky, Stephen D. Shank, Steven Weaver, Sergei L. Kosakovsky Pond, Alexander G. Lucaci

Stepwise Evolution and Exceptional Conservation of ORF1a/b Overlap in Coronaviruses

Molecular Biology and Evolution(2021)10.1093/molbev/msab265

N/A

0DataRank · unranked

12 citations

Sergei L. Kosakovsky Pond, Anton Nekrutenko, Mei Han

Effective Human Immunodeficiency Virus Molecular Surveillance Requires Identification of Incident Cases of Infection

Clinical Infectious Diseases(2021)10.1093/cid/ciab140

N/A

0DataRank · unranked

17 citations

Tom Chen, Rui Wang, Christy M. Anderson, Sergei L. Kosakovsky Pond, Masato Nakazawa +4 more

Genomics and epidemiology of a novel SARS-CoV-2 lineage in Manaus, Brazil

medRxiv(2021)10.1101/2021.02.26.21252554

N/A

0DataRank · unranked

206 citations

Thomas A. Mellan, Charles Whittaker, Ingra Morales Claro, Darlan da Silva Cândido, Swapnil Mishra +65 more

Freely accessible ready to use global infrastructure for SARS-CoV-2 monitoring

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.25.437046

N/A

0DataRank · unranked

10 citations

Simon Bray, Marius van den Beek, Dave Bouvier, Nathaniel Coraor, Milad Miladi +12 more

Identification of evolutionary trajectories shared across human betacoronaviruses

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.24.445313

N/A

0DataRank · unranked

8 citations

Sergei L. Kosakovsky Pond, Natalia Martínez de la Viña, Bernardo Gutiérrez, Rhys Inward, Julien Thézé +6 more

Conserved recombination patterns across coronavirus subgenera

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.21.469423

N/A

0DataRank · unranked

4 citations

Phillip Swanepoel, Rentia Lourens, Mpumelelo Zondo, Isaac Abodunran, Spyros Lytras +10 more

Characterization of changes in the hemagglutinin that accompanied the emergence of H3N2/1968 pandemic influenza viruses

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.19.439873

N/A

0DataRank · unranked

2 citations

Juliane Röder, Tatyana Matrosovich, Jana Beicht, Jan Baumann, Nancy Mounogou Kouassi +13 more

TopHap: Rapid inference of key phylogenetic structures from common haplotypes in large genome collections with limited diversity

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.12.13.472454

N/A

0DataRank · unranked

2 citations

Sayaka Miura, Maxwell Sanderford, Tenzin Dolker, Qiqing Tao, Steven Weaver +3 more

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa

Nature(2022)10.1038/s41586-022-04411-y

N/A

0DataRank · unranked

1910 citations

Sikhulile Moyo, Daniel G. Amoako, Houriiyah Tegally, Cathrine Scheepers, Christian L. Althaus +94 more

Exploring the Natural Origins of SARS-CoV-2 in the Light of Recombination

Genome Biology and Evolution(2022)10.1093/gbe/evac018

N/A

0DataRank · unranked

165 citations

Joseph Hughes, Darren P. Martin, Phillip Swanepoel, Arné de Klerk, Rentia Lourens +5 more

Susceptibility of SARS-CoV-2 Omicron Variants to Therapeutic Monoclonal Antibodies: Systematic Review and Meta-analysis

Microbiology Spectrum(2022)10.1128/spectrum.00926-22

N/A

0DataRank · unranked

82 citations

Philip L. Tzou, Sergei L. Kosakovsky Pond, John P. A. Ioannidis, Robert W. Shafer, Kaiming Tao

Conserved recombination patterns across coronavirus subgenera

Virus Evolution(2022)10.1093/ve/veac054

N/A

0DataRank · unranked

36 citations

Phillip Swanepoel, Rentia Lourens, Mpumelelo Zondo, Isaac Abodunran, Spyros Lytras +10 more

Recent Zoonotic Spillover and Tropism Shift of a Canine Coronavirus Is Associated with Relaxed Selection and Putative Loss of Function in NTD Subdomain of Spike Protein

Viruses(2022)10.3390/v14050853

N/A

0DataRank · unranked

27 citations

Sergei L. Kosakovsky Pond, Darren P. Martin, Kristina Ceres, Gary R. Whittaker, Jean K. Millet +3 more

Molecular evidence for SARS-CoV-2 in samples collected from patients with morbilliform eruptions since late 2019 in Lombardy, northern Italy

Environmental Research(2022)10.1016/j.envres.2022.113979

N/A

0DataRank · unranked

27 citations

Marta Canuti, Silvia Bianchi, Sudhir Kumar, Clara Fappani, María Gori +11 more

TopHap: rapid inference of key phylogenetic structures from common haplotypes in large genome collections with limited diversity

Bioinformatics(2022)10.1093/bioinformatics/btac186

N/A

0DataRank · unranked

11 citations

Sayaka Miura, Maxwell Sanderford, Tenzin Dolker, Qiqing Tao, Steven Weaver +3 more

Sierra SARS-CoV-2 sequence and antiviral resistance analysis program

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