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Sergei L. Kosakovsky Pond

Sergei L. Kosakovsky Pond

D-Index & Metrics

Genetics

D-Index
78
Citations
38953
World Ranking
1664
National Ranking
766

Overview

Sergei L. Kosakovsky Pond is affiliated with Temple University in the United States and has contributed extensively to research in the fields of Medicine and Biochemistry, Genetics and Molecular Biology. Their work spans mainly Infectious Diseases, Molecular Biology, and Genetics, with additional focus on Animal Science and Zoology, and Epidemiology.

The scientist's research addresses multiple key topics, including SARS-CoV-2 and COVID-19 research, Genomics and Phylogenetic Studies, Animal Virus Infections, Viral gastroenteritis research and epidemiology, HIV research and treatment, RNA and protein synthesis mechanisms, and vaccines and immunoinformatics approaches.

Frequent collaborators in their work are Steven Weaver, Alexander G. Lucaci, Darren P. Martin, Stephen D. Shank, and David L. Robertson.

They have published in a variety of scientific venues, with the most frequent outlets being bioRxiv (Cold Spring Harbor Laboratory), Molecular Biology and Evolution, PLoS ONE, Nature, and PLoS Pathogens.

Notable recent papers authored or co-authored by Sergei L. Kosakovsky Pond include:

  • Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa, 2022, Nature
  • Detection of a SARS-CoV-2 variant of concern in South Africa, 2021, Nature
  • Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil, 2021, Science
  • Emergence and rapid spread of a new severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2) lineage with multiple spike mutations in South Africa, 2020, bioRxiv (Cold Spring Harbor Laboratory)
  • The biological and clinical significance of emerging SARS-CoV-2 variants, 2021, Nature Reviews Genetics

Best Publications

  • HyPhy: hypothesis testing using phylogenies

    Sergei L. Kosakovsky Pond;Simon D. W. Frost;Spencer V. Muse

  • Not So Different After All: A Comparison of Methods for Detecting Amino Acid Sites Under Selection

    Sergei L. Kosakovsky Pond;Simon D. W. Frost

  • Datamonkey 2010

    Wayne Delport;Art F. Y. Poon;Simon D. W. Frost;Sergei L. Kosakovsky Pond

  • Detecting individual sites subject to episodic diversifying selection.

    Ben Murrell;Ben Murrell;Joel O. Wertheim;Sasha Moola;Thomas Weighill

  • Detection of a SARS-CoV-2 variant of concern in South Africa.

    Houriiyah Tegally;Eduan Wilkinson;Marta Giovanetti;Marta Giovanetti;Arash Iranzadeh

  • Datamonkey: rapid detection of selective pressure on individual sites of codon alignments

    Sergei L. Kosakovsky Pond;Simon D. W. Frost

  • Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil.

    Nuno R Faria;Thomas A Mellan;Charles Whittaker;Ingra M Claro

  • FUBAR : A Fast, Unconstrained Bayesian AppRoximation for inferring selection

    Ben Murrell;Sasha Moola;Sasha Moola;Amandla Mabona;Amandla Mabona;Thomas Weighill

  • The biological and clinical significance of emerging SARS-CoV-2 variants.

    Kaiming Tao;Philip L. Tzou;Janin Nouhin;Ravindra K. Gupta

  • Emergence and rapid spread of a new severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2) lineage with multiple spike mutations in South Africa

    Houriiyah Tegally;Eduan Wilkinson;Marta Giovanetti;Marta Giovanetti;Arash Iranzadeh

  • Automated Phylogenetic Detection of Recombination Using a Genetic Algorithm

    Sergei L. Kosakovsky Pond;David Posada;Michael B. Gravenor;Christopher H. Woelk

  • GARD: a genetic algorithm for recombination detection

    Sergei L. Kosakovsky Pond;David Posada;Michael B. Gravenor;Christopher H. Woelk

  • Datamonkey 2.0: A Modern Web Application for Characterizing Selective and Other Evolutionary Processes.

    Steven Weaver;Stephen D Shank;Stephanie J Spielman;Michael Li

  • Persistent HIV-1 replication maintains the tissue reservoir during therapy

    Ramon Lorenzo-Redondo;Helen R. Fryer;Trevor Bedford;Eun Young Kim

  • Gene-Wide Identification of Episodic Selection

    Ben Murrell;Steven Weaver;Martin D. Smith;Joel O. Wertheim

  • Less is More: an Adaptive Branch-Site Random Effects Model for Efficient Detection of Episodic Diversifying Selection

    Martin D. Smith;Joel O. Wertheim;Steven Weaver;Ben Murrell

  • RELAX: Detecting Relaxed Selection in a Phylogenetic Framework

    Joel O. Wertheim;Ben Murrell;Martin D. Smith;Sergei L. Kosakovsky Pond

  • Multiple emergences of genetically diverse amphibian-infecting chytrids include a globalized hypervirulent recombinant lineage.

    Rhys A. Farrer;Lucy A. Weinert;Jon Bielby;Trenton W. J. Garner

  • IDEPI: rapid prediction of HIV-1 antibody epitopes and other phenotypic features from sequence data using a flexible machine learning platform.

    N. Lance Hepler;Konrad Scheffler;Steven Weaver;Ben Murrell

  • Automated phylogenetic detection of recombina- tion using a genetic algorithm.

    Sergei L. Kosakovsky Pond;David Posada;Michael B. Gravenor;H Christopher

Frequent Co-Authors

Davey M. Smith
Davey M. Smith University of California, San Diego
Douglas D. Richman
Douglas D. Richman University of California, San Diego
Simon D. W. Frost
Simon D. W. Frost Microsoft (United States)
Susan J. Little
Susan J. Little University of California, San Diego
Ben Murrell
Ben Murrell Karolinska Institute
Sara Gianella
Sara Gianella University of California, San Diego
James I. Mullins
James I. Mullins University of Washington
Andrew J. Leigh Brown
Andrew J. Leigh Brown University of Edinburgh
Scott Letendre
Scott Letendre University of California, San Diego

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