| Year |
Citation |
Score |
| 2024 |
François S, Hill SC, Perrins CM, Pybus OG. Characterization of the genomic sequence of a circo-like virus and of three chaphamaparvoviruses detected in mute swan (). Microbiology Resource Announcements. e0118623. PMID 38376411 DOI: 10.1128/mra.01186-23 |
0.342 |
|
| 2024 |
Yang Q, Wang B, Lemey P, Dong L, Mu T, Wiebe RA, Guo F, Trovão NS, Park SW, Lewis N, Tsui JL, Bajaj S, Cheng Y, Yang L, Haba Y, ... ... Pybus OG, et al. Synchrony of Bird Migration with Global Dispersal of Avian Influenza Reveals Exposed Bird Orders. Nature Communications. 15: 1126. PMID 38321046 DOI: 10.1038/s41467-024-45462-1 |
0.328 |
|
| 2023 |
Fiddaman SR, Dimopoulos EA, Lebrasseur O, du Plessis L, Vrancken B, Charlton S, Haruda AF, Tabbada K, Flammer PG, Dascalu S, Marković N, Li H, Franklin G, Symmons R, Baron H, ... ... Pybus OG, et al. Ancient chicken remains reveal the origins of virulence in Marek's disease virus. Science (New York, N.Y.). 382: 1276-1281. PMID 38096384 DOI: 10.1126/science.adg2238 |
0.334 |
|
| 2023 |
Roemer C, Sheward DJ, Hisner R, Gueli F, Sakaguchi H, Frohberg N, Schoenmakers J, Sato K, O'Toole Á, Rambaut A, Pybus OG, Ruis C, Murrell B, Peacock TP. SARS-CoV-2 evolution in the Omicron era. Nature Microbiology. 8: 1952-1959. PMID 37845314 DOI: 10.1038/s41564-023-01504-w |
0.504 |
|
| 2023 |
Gutierrez B, da Silva Candido D, Bajaj S, Rodriguez Maldonado AP, Ayala FG, Rodriguez MLT, Rodriguez AA, Arámbula CW, González ER, Martínez IL, Díaz-Quiñónez JA, Pichardo MV, Hill SC, Thézé J, Faria NR, ... Pybus OG, et al. Convergent trends and spatiotemporal patterns of Aedes-borne arboviruses in Mexico and Central America. Plos Neglected Tropical Diseases. 17: e0011169. PMID 37672514 DOI: 10.1371/journal.pntd.0011169 |
0.333 |
|
| 2023 |
François S, Nazki S, Vickers SH, Fournié G, Perrins CM, Broadbent AJ, Pybus OG, Hill SC. Genetic diversity, recombination and cross-species transmission of a waterbird gammacoronavirus in the wild. The Journal of General Virology. 104. PMID 37589541 DOI: 10.1099/jgv.0.001883 |
0.325 |
|
| 2023 |
Castelán-Sánchez HG, Delaye L, Inward RPD, Dellicour S, Gutierrez B, Martinez de la Vina N, Boukadida C, Pybus OG, de Anda Jáuregui G, Guzmán P, Flores-Garrido M, Fontanelli Ó, Hernández Rosales M, Meneses A, Olmedo-Alvarez G, et al. Comparing the evolutionary dynamics of predominant SARS-CoV-2 virus lineages co-circulating in Mexico. Elife. 12. PMID 37498057 DOI: 10.7554/eLife.82069 |
0.303 |
|
| 2023 |
Tsui JL, McCrone JT, Lambert B, Bajaj S, Inward RPD, Bosetti P, Pena RE, Tegally H, Hill V, Zarebski AE, Peacock TP, Liu L, Wu N, Davis M, Bogoch II, ... ... Pybus OG, et al. Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1. Science (New York, N.Y.). 381: 336-343. PMID 37471538 DOI: 10.1126/science.adg6605 |
0.556 |
|
| 2023 |
Sahadeo NSD, Nicholls S, Moreira FRR, O'Toole Á, Ramkissoon V, Whittaker C, Hill V, McCrone JT, Mohammed N, Ramjag A, Brown Jordan A, Hill SC, Singh R, Nathaniel-Girdharrie SM, Hinds A, ... ... Pybus OG, et al. Implementation of genomic surveillance of SARS-CoV-2 in the Caribbean: Lessons learned for sustainability in resource-limited settings. Plos Global Public Health. 3: e0001455. PMID 36963002 DOI: 10.1371/journal.pgph.0001455 |
0.318 |
|
| 2023 |
Zhang G, Li B, Raghwani J, Vrancken B, Jia R, Hill SC, Fournié G, Cheng Y, Yang Q, Wang Y, Wang Z, Dong L, Pybus OG, Tian H. Bidirectional movement of emerging H5N8 avian influenza viruses between Europe and Asia via migratory birds since early 2020. Molecular Biology and Evolution. PMID 36703230 DOI: 10.1093/molbev/msad019 |
0.358 |
|
| 2022 |
Hill V, Du Plessis L, Peacock TP, Aggarwal D, Colquhoun R, Carabelli AM, Ellaby N, Gallagher E, Groves N, Jackson B, McCrone JT, O'Toole Á, Price A, Sanderson T, Scher E, ... ... Pybus OG, et al. The origins and molecular evolution of SARS-CoV-2 lineage B.1.1.7 in the UK. Virus Evolution. 8: veac080. PMID 36533153 DOI: 10.1093/ve/veac080 |
0.536 |
|
| 2022 |
Raghwani J, Faust CL, François S, Nguyen D, Marsh K, Raulo A, Hill SC, Parag KV, Simmonds P, Knowles SCL, Pybus OG. Seasonal dynamics of the wild rodent faecal virome. Molecular Ecology. PMID 36367339 DOI: 10.1111/mec.16778 |
0.314 |
|
| 2022 |
Wille M, Tolf C, Latorre-Margalef N, Fouchier RAM, Halpin RA, Wentworth DE, Ragwani J, Pybus OG, Olsen B, Waldenström J. Evolutionary features of a prolific subtype of avian influenza A virus in European waterfowl. Virus Evolution. 8: veac074. PMID 36128050 DOI: 10.1093/ve/veac074 |
0.382 |
|
| 2022 |
Li Y, Bletsa M, Zisi Z, Boonen I, Gryseels S, Kafetzopoulou L, Webster JP, Catalano S, Pybus OG, Van de Perre F, Li H, Li Y, Li Y, Abramov A, Lymberakis P, et al. Endogenous Viral Elements in Shrew Genomes Provide Insights into Pestivirus Ancient History. Molecular Biology and Evolution. 39. PMID 36063436 DOI: 10.1093/molbev/msac190 |
0.37 |
|
| 2022 |
Happi C, Adetifa I, Mbala P, Njouom R, Nakoune E, Happi A, Ndodo N, Ayansola O, Mboowa G, Bedford T, Neher RA, Roemer C, Hodcroft E, Tegally H, O'Toole Á, ... ... Pybus O, et al. Urgent need for a non-discriminatory and non-stigmatizing nomenclature for monkeypox virus. Plos Biology. 20: e3001769. PMID 35998195 DOI: 10.1371/journal.pbio.3001769 |
0.565 |
|
| 2022 |
McCrone JT, Hill V, Bajaj S, Pena RE, Lambert BC, Inward R, Bhatt S, Volz E, Ruis C, Dellicour S, Baele G, Zarebski AE, Sadilek A, Wu N, Schneider A, ... ... Pybus OG, et al. Context-specific emergence and growth of the SARS-CoV-2 Delta variant. Nature. PMID 35952712 DOI: 10.1038/s41586-022-05200-3 |
0.577 |
|
| 2022 |
Gutierrez B, Castelán Sánchez HG, Candido DDS, Jackson B, Fleishon S, Houzet R, Ruis C, Delaye L, Faria NR, Rambaut A, Pybus OG, Escalera-Zamudio M. Emergence and widespread circulation of a recombinant SARS-CoV-2 lineage in North America. Cell Host & Microbe. PMID 35853454 DOI: 10.1016/j.chom.2022.06.010 |
0.568 |
|
| 2022 |
Tegally H, Moir M, Everatt J, Giovanetti M, Scheepers C, Wilkinson E, Subramoney K, Makatini Z, Moyo S, Amoako DG, Baxter C, Althaus CL, Anyaneji UJ, Kekana D, Viana R, ... ... Pybus OG, et al. Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa. Nature Medicine. PMID 35760080 DOI: 10.1038/s41591-022-01911-2 |
0.543 |
|
| 2022 |
Neto Z, Martinez PA, Hill SC, Jandondo D, Thézé J, Mirandela M, Aguiar RS, Xavier J, Dos Santos Sebastião C, Cândido ALM, Vaz F, Castro GR, Paixão JP, Loman NJ, Lemey P, ... Pybus OG, et al. Molecular and genomic investigation of an urban outbreak of dengue virus serotype 2 in Angola, 2017-2019. Plos Neglected Tropical Diseases. 16: e0010255. PMID 35584153 DOI: 10.1371/journal.pntd.0010255 |
0.371 |
|
| 2022 |
Attwood SW, Hill SC, Aanensen DM, Connor TR, Pybus OG. Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic. Nature Reviews. Genetics. PMID 35459859 DOI: 10.1038/s41576-022-00483-8 |
0.332 |
|
| 2022 |
Raghwani J, du Plessis L, McCrone JT, Hill SC, Parag KV, Thézé J, Kumar D, Puvar A, Pandit R, Pybus OG, Fournié G, Joshi M, Joshi C. Genomic Epidemiology of Early SARS-CoV-2 Transmission Dynamics, Gujarat, India. Emerging Infectious Diseases. 28. PMID 35203112 DOI: 10.3201/eid2804.212053 |
0.438 |
|
| 2022 |
O'Toole Á, Pybus OG, Abram ME, Kelly EJ, Rambaut A. Pango lineage designation and assignment using SARS-CoV-2 spike gene nucleotide sequences. Bmc Genomics. 23: 121. PMID 35148677 DOI: 10.1186/s12864-022-08358-2 |
0.554 |
|
| 2022 |
Li B, Deng A, Li K, Hu Y, Li Z, Shi Y, Xiong Q, Liu Z, Guo Q, Zou L, Zhang H, Zhang M, Ouyang F, Su J, Su W, ... ... Pybus OG, et al. Viral infection and transmission in a large, well-traced outbreak caused by the SARS-CoV-2 Delta variant. Nature Communications. 13: 460. PMID 35075154 DOI: 10.1038/s41467-022-28089-y |
0.335 |
|
| 2022 |
Viana R, Moyo S, Amoako DG, Tegally H, Scheepers C, Althaus CL, Anyaneji UJ, Bester PA, Boni MF, Chand M, Choga WT, Colquhoun R, Davids M, Deforche K, Doolabh D, ... ... Pybus OG, et al. Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa. Nature. PMID 35042229 DOI: 10.1038/s41586-022-04411-y |
0.562 |
|
| 2022 |
Kraemer MUG, Pybus OG, Fraser C, Cauchemez S, Rambaut A, Cowling BJ. Publisher Correction: Monitoring key epidemiological parameters of SARS-CoV-2 transmission. Nature Medicine. PMID 35022580 DOI: 10.1038/s41591-021-01670-6 |
0.437 |
|
| 2021 |
McCrone JT, Hill V, Bajaj S, Pena RE, Lambert BC, Inward R, Bhatt S, Volz E, Ruis C, Dellicour S, Baele G, Zarebski AE, Sadilek A, Wu N, Schneider A, ... ... Pybus OG, et al. Context-specific emergence and growth of the SARS-CoV-2 Delta variant. Medrxiv : the Preprint Server For Health Sciences. PMID 34981069 DOI: 10.1101/2021.12.14.21267606 |
0.559 |
|
| 2021 |
Kraemer M, McCrone J, Hill V, Bajaj S, Evans-Pena R, Lambert B, Inward R, Bhatt S, Volz E, Ruis C, Dellicour S, Baele G, Zarebski A, Sadilek A, Wu N, ... ... Pybus O, et al. Context-specific emergence and growth of the SARS-CoV-2 Delta variant. Research Square. PMID 34981043 DOI: 10.21203/rs.3.rs-1159614/v1 |
0.559 |
|
| 2021 |
Kraemer MUG, Pybus OG, Fraser C, Cauchemez S, Rambaut A, Cowling BJ. Monitoring key epidemiological parameters of SARS-CoV-2 transmission. Nature Medicine. 27: 1854-1855. PMID 34750555 DOI: 10.1038/s41591-021-01545-w |
0.437 |
|
| 2021 |
O'Toole Á, Scher E, Underwood A, Jackson B, Hill V, McCrone JT, Colquhoun R, Ruis C, Abu-Dahab K, Taylor B, Yeats C, du Plessis L, Maloney D, Medd N, Attwood SW, ... ... Pybus OG, et al. Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool. Virus Evolution. 7: veab064. PMID 34527285 DOI: 10.1093/ve/veab064 |
0.599 |
|
| 2021 |
Gutierrez B, Márquez S, Prado-Vivar B, Becerra-Wong M, Guadalupe JJ, Candido DDS, Fernandez-Cadena JC, Morey-Leon G, Armas-Gonzalez R, Andrade-Molina DM, Bruno A, De Mora D, Olmedo M, Portugal D, Gonzalez M, ... ... Pybus OG, et al. Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador. Virus Evolution. 7: veab051. PMID 34527281 DOI: 10.1093/ve/veab051 |
0.406 |
|
| 2021 |
Jackson B, Boni MF, Bull MJ, Colleran A, Colquhoun RM, Darby AC, Haldenby S, Hill V, Lucaci A, McCrone JT, Nicholls SM, O'Toole Á, Pacchiarini N, Poplawski R, Scher E, ... ... Pybus OG, et al. Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic. Cell. PMID 34499854 DOI: 10.1016/j.cell.2021.08.014 |
0.608 |
|
| 2021 |
Brito AF, Semenova E, Dudas G, Hassler GW, Kalinich CC, Kraemer MUG, Hill SC, Sabino EC, Pybus OG, Dye C, Bhatt S, Flaxamn S, Suchard MA, Grubaugh ND, et al. Global disparities in SARS-CoV-2 genomic surveillance. Medrxiv : the Preprint Server For Health Sciences. PMID 34462754 DOI: 10.1101/2021.08.21.21262393 |
0.389 |
|
| 2021 |
Kraemer MUG, Hill V, Ruis C, Dellicour S, Bajaj S, McCrone JT, Baele G, Parag KV, Battle AL, Gutierrez B, Jackson B, Colquhoun R, O'Toole Á, Klein B, Vespignani A, ... ... Pybus OG, et al. Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence. Science (New York, N.Y.). PMID 34301854 DOI: 10.1126/science.abj0113 |
0.529 |
|
| 2021 |
Konings F, Perkins MD, Kuhn JH, Pallen MJ, Alm EJ, Archer BN, Barakat A, Bedford T, Bhiman JN, Caly L, Carter LL, Cullinane A, de Oliveira T, Druce J, El Masry I, ... ... Pybus O, et al. SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse. Nature Microbiology. PMID 34108654 DOI: 10.1038/s41564-021-00932-w |
0.42 |
|
| 2021 |
O'Toole Á, Hill V, Pybus OG, Watts A, Bogoch II, Khan K, Messina JP, Tegally H, Lessells RR, Giandhari J, Pillay S, Tumedi KA, et al. Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2. Wellcome Open Research. 6: 121. PMID 34095513 DOI: 10.12688/wellcomeopenres.16661.2 |
0.541 |
|
| 2021 |
Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FCS, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, ... ... Pybus OG, et al. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil. Science (New York, N.Y.). PMID 33853970 DOI: 10.1126/science.abh2644 |
0.553 |
|
| 2021 |
Gutierrez B, Márquez S, Prado-Vivar B, Becerra-Wong M, Guadalupe JJ, da Silva Candido D, Fernandez-Cadena JC, Morey-Leon G, Armas-Gonzalez R, Andrade-Molina DM, Bruno A, de Mora D, Olmedo M, Portugal D, Gonzalez M, ... ... Pybus OG, et al. Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador. Medrxiv : the Preprint Server For Health Sciences. PMID 33851177 DOI: 10.1101/2021.03.31.21254685 |
0.409 |
|
| 2021 |
Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FC, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, ... ... Pybus OG, et al. Genomics and epidemiology of a novel SARS-CoV-2 lineage in Manaus, Brazil. Medrxiv : the Preprint Server For Health Sciences. PMID 33688664 DOI: 10.1101/2021.02.26.21252554 |
0.58 |
|
| 2021 |
Dellicour S, Gill MS, Faria NR, Rambaut A, Pybus OG, Suchard MA, Lemey P. Relax, keep walking-a practical guide to continuous phylogeographic inference with BEAST. Molecular Biology and Evolution. PMID 33528560 DOI: 10.1093/molbev/msab031 |
0.443 |
|
| 2021 |
Rambaut A, Holmes EC, O'Toole Á, Hill V, McCrone JT, Ruis C, du Plessis L, Pybus OG. Addendum: A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology. Nature Microbiology. PMID 33514928 DOI: 10.1038/s41564-021-00872-5 |
0.509 |
|
| 2021 |
du Plessis L, McCrone JT, Zarebski AE, Hill V, Ruis C, Gutierrez B, Raghwani J, Ashworth J, Colquhoun R, Connor TR, Faria NR, Jackson B, Loman NJ, O'Toole Á, Nicholls SM, ... ... Pybus OG, et al. Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK. Science (New York, N.Y.). PMID 33419936 DOI: 10.1126/science.abf2946 |
0.611 |
|
| 2020 |
Volz E, Hill V, McCrone JT, Price A, Jorgensen D, O'Toole Á, Southgate J, Johnson R, Jackson B, Nascimento FF, Rey SM, Nicholls SM, Colquhoun RM, da Silva Filipe A, Shepherd J, ... ... Pybus OG, et al. Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity. Cell. PMID 33275900 DOI: 10.1016/j.cell.2020.11.020 |
0.506 |
|
| 2020 |
Dellicour S, Lequime S, Vrancken B, Gill MS, Bastide P, Gangavarapu K, Matteson NL, Tan Y, du Plessis L, Fisher AA, Nelson MI, Gilbert M, Suchard MA, Andersen KG, Grubaugh ND, ... Pybus OG, et al. Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework. Nature Communications. 11: 5620. PMID 33159066 DOI: 10.1038/s41467-020-19122-z |
0.394 |
|
| 2020 |
Lima STS, Souza WM, Cavalcante JW, da Silva Candido D, Fumagalli MJ, Carrera JP, Simões Mello LM, de Carvalho Araújo FM, Cavalcante Ramalho IL, de Almeida Barreto FK, de Melo Braga DN, Simião AR, Miranda da Silva MJ, Oliveira RMAB, Lima CPS, ... ... Pybus OG, et al. Fatal outcome of chikungunya virus infection in Brazil. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. PMID 32766829 DOI: 10.1093/cid/ciaa1038 |
0.319 |
|
| 2020 |
Hill SC, de Souza R, Thézé J, Claro I, Aguiar RS, Abade L, Santos FCP, Cunha MS, Nogueira JS, Salles FCS, Rocco IM, Maeda AY, Vasami FGS, du Plessis L, Silveira PP, ... ... Pybus OG, et al. Genomic Surveillance of Yellow Fever Virus Epizootic in São Paulo, Brazil, 2016 - 2018. Plos Pathogens. 16: e1008699. PMID 32764827 DOI: 10.1371/journal.ppat.1008699 |
0.401 |
|
| 2020 |
Candido DS, Claro IM, de Jesus JG, Souza WM, Moreira FRR, Dellicour S, Mellan TA, du Plessis L, Pereira RHM, Sales FCS, Manuli ER, Thézé J, Almeida L, Menezes MT, Voloch CM, ... ... Pybus OG, et al. Evolution and epidemic spread of SARS-CoV-2 in Brazil. Science (New York, N.Y.). PMID 32703910 DOI: 10.1126/Science.Abd2161 |
0.609 |
|
| 2020 |
Rambaut A, Holmes EC, O'Toole Á, Hill V, McCrone JT, Ruis C, du Plessis L, Pybus OG. A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology. Nature Microbiology. PMID 32669681 DOI: 10.1038/S41564-020-0770-5 |
0.627 |
|
| 2020 |
Liu Z, Zheng H, Lin H, Li M, Yuan R, Peng J, Xiong Q, Sun J, Li B, Wu J, Yi L, Peng X, Zhang H, Zhang W, Hulswit RJG, ... ... Pybus OG, et al. Identification of common deletions in the spike protein of SARS-CoV-2. Journal of Virology. PMID 32571797 DOI: 10.1128/Jvi.00790-20 |
0.577 |
|
| 2020 |
Deng X, Gu W, Federman S, du Plessis L, Pybus OG, Faria N, Wang C, Yu G, Bushnell B, Pan CY, Guevara H, Sotomayor-Gonzalez A, Zorn K, Gopez A, Servellita V, et al. Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California. Science (New York, N.Y.). PMID 32513865 DOI: 10.1126/Science.Abb9263 |
0.358 |
|
| 2020 |
Deng X, Gu W, Federman S, Du Plessis L, Pybus O, Faria N, Wang C, Yu G, Pan CY, Guevara H, Sotomayor-Gonzalez A, Zorn K, Gopez A, Servellita V, Hsu E, et al. A Genomic Survey of SARS-CoV-2 Reveals Multiple Introductions into Northern California without a Predominant Lineage. Medrxiv : the Preprint Server For Health Sciences. PMID 32511579 DOI: 10.1101/2020.03.27.20044925 |
0.4 |
|
| 2020 |
Lu J, du Plessis L, Liu Z, Hill V, Kang M, Lin H, Sun J, François S, Kraemer MUG, Faria NR, McCrone JT, Peng J, Xiong Q, Yuan R, Zeng L, ... ... Pybus OG, et al. Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China. Cell. PMID 32359424 DOI: 10.1016/J.Cell.2020.04.023 |
0.607 |
|
| 2020 |
Yang Q, Zhao X, Lemey P, Suchard MA, Bi Y, Shi W, Liu D, Qi W, Zhang G, Stenseth NC, Pybus OG, Tian H. Assessing the role of live poultry trade in community-structured transmission of avian influenza in China. Proceedings of the National Academy of Sciences of the United States of America. PMID 32123088 DOI: 10.1073/Pnas.1906954117 |
0.323 |
|
| 2020 |
Giovanetti M, Faria NR, Lourenço J, Goes de Jesus J, Xavier J, Claro IM, Kraemer MUG, Fonseca V, Dellicour S, Thézé J, da Silva Salles F, Gräf T, Silveira PP, do Nascimento VA, Costa de Souza V, ... ... Pybus OG, et al. Genomic and Epidemiological Surveillance of Zika Virus in the Amazon Region. Cell Reports. PMID 32075736 DOI: 10.1016/j.celrep.2020.01.085 |
0.438 |
|
| 2020 |
Wise EL, Márquez S, Mellors J, Paz V, Atkinson B, Gutierrez B, Zapata S, Coloma J, Pybus OG, Jackson SK, Trueba G, Fejer G, Logue CH, Pullan ST. Oropouche virus cases identified in Ecuador using an optimised qRT-PCR informed by metagenomic sequencing. Plos Neglected Tropical Diseases. 14: e0007897. PMID 31961856 DOI: 10.1371/journal.pntd.0007897 |
0.315 |
|
| 2020 |
Deng X, Achari A, Federman S, Yu G, Somasekar S, Bártolo I, Yagi S, Mbala-Kingebeni P, Kapetshi J, Ahuka-Mundeke S, Muyembe-Tamfum JJ, Ahmed AA, Ganesh V, Tamhankar M, Patterson JL, ... ... Pybus OG, et al. Metagenomic sequencing with spiked primer enrichment for viral diagnostics and genomic surveillance. Nature Microbiology. PMID 31932713 DOI: 10.1038/S41564-019-0637-9 |
0.321 |
|
| 2019 |
Hill SC, Vasconcelos J, Neto Z, Jandondo D, Zé-Zé L, Aguiar RS, Xavier J, Thézé J, Mirandela M, Micolo Cândido AL, Vaz F, Sebastião CDS, Wu CH, Kraemer MUG, Melo A, ... ... Pybus OG, et al. Emergence of the Asian lineage of Zika virus in Angola: an outbreak investigation. The Lancet. Infectious Diseases. 19: 1138-1147. PMID 31559967 DOI: 10.1016/S1473-3099(19)30293-2 |
0.359 |
|
| 2019 |
Li T, Mbala-Kingebeni P, Naccache SN, Thézé J, Bouquet J, Federman S, Somasekar S, Yu G, Sanchez-San Martin C, Achari A, Schneider BS, Rimoin AW, Rambaut A, Nsio J, Mulembakani P, ... ... Pybus OG, et al. Metagenomic Next-Generation Sequencing of the 2014 Ebola Virus Disease Outbreak in the Democratic Republic of the Congo. Journal of Clinical Microbiology. PMID 31315955 DOI: 10.1128/Jcm.00827-19 |
0.583 |
|
| 2019 |
Hill SC, Hansen R, Watson S, Coward V, Russell C, Cooper J, Essen S, Everest H, Parag KV, Fiddaman S, Reid S, Lewis N, Brookes SM, Smith AL, Sheldon B, ... ... Pybus OG, et al. Comparative micro-epidemiology of pathogenic avian influenza virus outbreaks in a wild bird population. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 374: 20180259. PMID 31056057 DOI: 10.1098/Rstb.2018.0259 |
0.355 |
|
| 2019 |
Hill SC, Neto de Vasconcelos J, Granja BG, Thézé J, Jandondo D, Neto Z, Mirandela M, Sebastião CDS, Cândido ALM, Clemente C, Pereira da Silva S, de Oliveira T, Pybus OG, Faria NR, Afonso JM. Early Genomic Detection of Cosmopolitan Genotype of Dengue Virus Serotype 2, Angola, 2018. Emerging Infectious Diseases. 25: 784-787. PMID 30882320 DOI: 10.3201/eid2504.180958 |
0.393 |
|
| 2019 |
Naveca FG, Claro I, Giovanetti M, de Jesus JG, Xavier J, Iani FCM, do Nascimento VA, de Souza VC, Silveira PP, Lourenço J, Santillana M, Kraemer MUG, Quick J, Hill SC, Thézé J, ... ... Pybus OG, et al. Genomic, epidemiological and digital surveillance of Chikungunya virus in the Brazilian Amazon. Plos Neglected Tropical Diseases. 13: e0007065. PMID 30845267 DOI: 10.1371/Journal.Pntd.0007065 |
0.363 |
|
| 2019 |
Grubaugh ND, Ladner JT, Lemey P, Pybus OG, Rambaut A, Holmes EC, Andersen KG. Tracking virus outbreaks in the twenty-first century. Nature Microbiology. 4: 10-19. PMID 30546099 DOI: 10.1038/S41564-018-0296-2 |
0.585 |
|
| 2018 |
Lu J, Raghwani J, Pryce R, Bowden TA, Thézé J, Huang S, Song Y, Zou L, Liang L, Bai R, Jing Y, Zhou P, Kang M, Yi L, Wu J, ... Pybus OG, et al. Molecular Evolution, Diversity, and Adaptation of Influenza A(H7N9) Viruses in China. Emerging Infectious Diseases. 24: 1795-1805. PMID 30226157 DOI: 10.3201/Eid2410.171063 |
0.388 |
|
| 2018 |
Dellicour S, Baele G, Dudas G, Faria NR, Pybus OG, Suchard MA, Rambaut A, Lemey P. Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak. Nature Communications. 9: 2222. PMID 29884821 DOI: 10.1038/S41467-018-03763-2 |
0.569 |
|
| 2018 |
Thézé J, Li T, du Plessis L, Bouquet J, Kraemer MUG, Somasekar S, Yu G, de Cesare M, Balmaseda A, Kuan G, Harris E, Wu CH, Ansari MA, Bowden R, Faria NR, ... ... Pybus OG, et al. Genomic Epidemiology Reconstructs the Introduction and Spread of Zika Virus in Central America and Mexico. Cell Host & Microbe. PMID 29805095 DOI: 10.1016/J.Chom.2018.04.017 |
0.383 |
|
| 2018 |
Yang Q, Shi W, Zhang L, Xu Y, Xu J, Li S, Zhang J, Hu K, Ma C, Zhao X, Li X, Liu F, Tong X, Zhang G, Yu P, ... Pybus OG, et al. Westward Spread of Highly Pathogenic Avian Influenza A(H7N9) Virus among Humans, China. Emerging Infectious Diseases. 24. PMID 29619922 DOI: 10.3201/eid2406.171135 |
0.345 |
|
| 2018 |
Vasylyeva TI, Liulchuk M, Friedman SR, Sazonova I, Faria NR, Katzourakis A, Babii N, Scherbinska A, Thézé J, Pybus OG, Smyrnov P, Mbisa JL, Paraskevis D, Hatzakis A, Magiorkinis G. Molecular epidemiology reveals the role of war in the spread of HIV in Ukraine. Proceedings of the National Academy of Sciences of the United States of America. 115: 1051-1056. PMID 29339468 DOI: 10.1073/pnas.1701447115 |
0.304 |
|
| 2017 |
Langat P, Raghwani J, Dudas G, Bowden TA, Edwards S, Gall A, Bedford T, Rambaut A, Daniels R, Russell C, Pybus OG, McCauley J, Kellam P, Watson SJ. Genome-wide evolutionary dynamics of influenza B viruses on a global scale. Plos Pathogens. 13: e1006749. PMID 29284042 DOI: 10.1371/Journal.Ppat.1006749 |
0.607 |
|
| 2017 |
Faria NR, da Costa AC, Lourenço J, Loureiro P, Lopes ME, Ribeiro R, Alencar CS, Kraemer MUG, Villabona-Arenas CJ, Wu CH, Thézé J, Khan K, Brent SE, Romano C, Delwart E, ... ... Pybus OG, et al. Genomic and epidemiological characterisation of a dengue virus outbreak among blood donors in Brazil. Scientific Reports. 7: 15216. PMID 29123142 DOI: 10.1038/s41598-017-15152-8 |
0.415 |
|
| 2017 |
Charlys da Costa A, Thézé J, Komninakis SCV, Sanz-Duro RL, Felinto MRL, Moura LCC, Barroso IMO, Santos LEC, Nunes MAL, Moura AA, Lourenço J, Deng X, Delwart EL, Guimarães MRDAS, Pybus OG, et al. Spread of Chikungunya Virus East/Central/South African Genotype in Northeast Brazil. Emerging Infectious Diseases. 23: 1742-1744. PMID 28930031 DOI: 10.3201/eid2310.170307 |
0.392 |
|
| 2017 |
Dellicour S, Rose R, Faria NR, Vieira LFP, Bourhy H, Gilbert M, Lemey P, Pybus OG. Using viral gene sequences to compare and explain the heterogeneous spatial dynamics of virus epidemics. Molecular Biology and Evolution. PMID 28651357 DOI: 10.1093/molbev/msx176 |
0.348 |
|
| 2017 |
Quick J, Grubaugh ND, Pullan ST, Claro IM, Smith AD, Gangavarapu K, Oliveira G, Robles-Sikisaka R, Rogers TF, Beutler NA, Burton DR, Lewis-Ximenez LL, de Jesus JG, Giovanetti M, Hill SC, ... ... Pybus OG, et al. Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples. Nature Protocols. 12: 1261-1276. PMID 28538739 DOI: 10.1038/Nprot.2017.066 |
0.338 |
|
| 2017 |
Grubaugh ND, Ladner JT, Kraemer MUG, Dudas G, Tan AL, Gangavarapu K, Wiley MR, White S, Thézé J, Magnani DM, Prieto K, Reyes D, Bingham AM, Paul LM, Robles-Sikisaka R, ... ... Pybus OG, et al. Genomic epidemiology reveals multiple introductions of Zika virus into the United States. Nature. PMID 28538723 DOI: 10.1038/Nature22400 |
0.608 |
|
| 2017 |
Dudas G, Carvalho LM, Bedford T, Tatem AJ, Baele G, Faria NR, Park DJ, Ladner JT, Arias A, Asogun D, Bielejec F, Caddy SL, Cotten M, D'Ambrozio J, Dellicour S, ... ... Pybus OG, et al. Virus genomes reveal factors that spread and sustained the Ebola epidemic. Nature. PMID 28405027 DOI: 10.1038/Nature22040 |
0.613 |
|
| 2017 |
Lythgoe KA, Gardner A, Pybus OG, Grove J. Short-Sighted Virus Evolution and a Germline Hypothesis for Chronic Viral Infections. Trends in Microbiology. PMID 28377208 DOI: 10.1016/J.Tim.2017.03.003 |
0.343 |
|
| 2016 |
Arias A, Watson SJ, Asogun D, Tobin EA, Lu J, Phan MVT, Jah U, Wadoum REG, Meredith L, Thorne L, Caddy S, Tarawalie A, Langat P, Dudas G, Faria NR, ... ... Pybus OG, et al. Rapid outbreak sequencing of Ebola virus in Sierra Leone identifies transmission chains linked to sporadic cases. Virus Evolution. 2: vew016. PMID 28694998 DOI: 10.1093/Ve/Vew016 |
0.607 |
|
| 2016 |
Spiri AM, Thézé J, Meli ML, Cattori V, Berger A, Steinrigl A, Pybus OG, Hofmann-Lehmann R, Willi B. The genetic diversity and phenotypic associations of feline caliciviruses from cats in Switzerland. The Journal of General Virology. PMID 27902382 DOI: 10.1099/jgv.0.000622 |
0.365 |
|
| 2016 |
Wu J, Lu J, Faria NR, Zeng X, Song Y, Zou L, Yi L, Liang L, Ni H, Kang M, Zhang X, Huang G, Zhong H, Bowden TA, Raghwani J, ... ... Pybus OG, et al. Effect of Live Poultry Market Interventions on Influenza A(H7N9) Virus, Guangdong, China. Emerging Infectious Diseases. 22: 2104-2112. PMID 27869613 DOI: 10.3201/Eid2212.160450 |
0.325 |
|
| 2016 |
Rambaut A, Lam TT, Max Carvalho L, Pybus OG. Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). Virus Evolution. 2: vew007. PMID 27774300 DOI: 10.1093/Ve/Vew007 |
0.508 |
|
| 2016 |
Naccache SN, Thézé J, Sardi SI, Somasekar S, Greninger AL, Bandeira AC, Campos GS, Tauro LB, Faria NR, Pybus OG, Chiu CY. Distinct Zika Virus Lineage in Salvador, Bahia, Brazil. Emerging Infectious Diseases. 22. PMID 27448188 DOI: 10.3201/Eid2210.160663 |
0.389 |
|
| 2016 |
Lu J, Fang L, Zheng H, Lao J, Yang F, Sun L, Xiao J, Lin J, Song T, Ni T, Raghwani J, Ke C, Faria NR, Bowden TA, Pybus OG, et al. The Evolution and Transmission of Epidemic GII.17 Noroviruses. The Journal of Infectious Diseases. PMID 27354370 DOI: 10.1093/infdis/jiw208 |
0.307 |
|
| 2016 |
Giovanetti M, Faria NR, Nunes MR, de Vasconcelos JM, Lourenço J, Rodrigues SG, Vianez JL, da Silva SP, Lemos PS, Tavares FN, Martin DP, do Rosário MS, Siqueira I, Ciccozzi M, Pybus OG, et al. Zika virus complete genome from Salvador, Bahia, Brazil. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. PMID 27071531 DOI: 10.1016/j.meegid.2016.03.030 |
0.355 |
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| 2016 |
Faria NR, Azevedo RD, Kraemer MU, Souza R, Cunha MS, Hill SC, Thézé J, Bonsall MB, Bowden TA, Rissanen I, Rocco IM, Nogueira JS, Maeda AY, Vasami FG, Macedo FL, ... ... Pybus OG, et al. Zika virus in the Americas: Early epidemiological and genetic findings. Science (New York, N.Y.). PMID 27013429 DOI: 10.1126/Science.Aaf5036 |
0.403 |
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| 2016 |
Dialdestoro K, Sibbesen JA, Maretty L, Raghwani J, Gall A, Kellam P, Pybus OG, Hein J, Jenkins PA. Coalescent Inference Using Serially Sampled, High-Throughput Sequencing Data from Intrahost HIV Infection. Genetics. 202: 1449-72. PMID 26857628 DOI: 10.1534/Genetics.115.177931 |
0.33 |
|
| 2016 |
Hogan C, Iles J, Frost EH, Giroux G, Cassar O, Gessain A, Dion MJ, Ilunga V, Rambaut A, Yengo-Ki-Ngimbi AÉ, Behets F, Pybus OG, Pépin J. Epidemic history and iatrogenic transmission of blood-borne viruses in mid-20th century Kinshasa. The Journal of Infectious Diseases. PMID 26768251 DOI: 10.1093/Infdis/Jiw009 |
0.546 |
|
| 2016 |
Raghwani J, Bhatt S, Pybus OG. Faster Adaptation in Smaller Populations: Counterintuitive Evolution of HIV during Childhood Infection. Plos Computational Biology. 12: e1004694. PMID 26741359 DOI: 10.1371/journal.pcbi.1004694 |
0.379 |
|
| 2015 |
Pybus OG, Tatem AJ, Lemey P. Virus evolution and transmission in an ever more connected world. Proceedings. Biological Sciences / the Royal Society. 282: 20142878. PMID 26702033 DOI: 10.1098/Rspb.2014.2878 |
0.385 |
|
| 2015 |
Thézé J, Lowes S, Parker J, Pybus OG. Evolutionary and phylogenetic analysis of the hepaciviruses and pegiviruses. Genome Biology and Evolution. PMID 26494702 DOI: 10.1093/gbe/evv202 |
0.401 |
|
| 2015 |
Watson SJ, Langat P, Reid SM, Lam TT, Cotten M, Kelly M, Van Reeth K, Qiu Y, Simon G, Bonin E, Foni E, Chiapponi C, Larsen L, Hjulsager C, Markowska-Daniel I, ... ... Pybus OG, et al. Molecular Epidemiology and Evolution of Influenza Viruses Circulating within European Swine between 2009 and 2013. Journal of Virology. PMID 26202246 DOI: 10.1128/Jvi.00840-15 |
0.397 |
|
| 2015 |
Hill SC, Lee YJ, Song BM, Kang HM, Lee EK, Hanna A, Gilbert M, Brown IH, Pybus OG. Wild waterfowl migration and domestic duck density shape the epidemiology of highly pathogenic H5N8 influenza in the Republic of Korea. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. PMID 26079277 DOI: 10.1016/j.meegid.2015.06.014 |
0.343 |
|
| 2015 |
Nunes MR, Faria NR, de Vasconcelos JM, Golding N, Kraemer MU, de Oliveira LF, Azevedo Rdo S, da Silva DE, da Silva EV, da Silva SP, Carvalho VL, Coelho GE, Cruz AC, Rodrigues SG, Vianez JL, ... ... Pybus OG, et al. Emergence and potential for spread of Chikungunya virus in Brazil. Bmc Medicine. 13: 102. PMID 25976325 DOI: 10.1186/s12916-015-0348-x |
0.344 |
|
| 2015 |
Biek R, Pybus OG, Lloyd-Smith JO, Didelot X. Measurably evolving pathogens in the genomic era. Trends in Ecology & Evolution. 30: 306-313. PMID 25887947 DOI: 10.1016/J.Tree.2015.03.009 |
0.346 |
|
| 2015 |
Hill SC, Murphy AA, Cotten M, Palser AL, Benson P, Lesellier S, Gormley E, Richomme C, Grierson S, Bhuachalla DN, Chambers M, Kellam P, Boschiroli ML, Ehlers B, Jarvis MA, ... Pybus OG, et al. Discovery of a polyomavirus in European badgers (Meles meles) and the evolution of host range in the family Polyomaviridae. The Journal of General Virology. 96: 1411-22. PMID 25626684 DOI: 10.1099/Vir.0.000071 |
0.337 |
|
| 2014 |
Faria NR, Rambaut A, Suchard MA, Baele G, Bedford T, Ward MJ, Tatem AJ, Sousa JD, Arinaminpathy N, Pépin J, Posada D, Peeters M, Pybus OG, Lemey P. HIV epidemiology. The early spread and epidemic ignition of HIV-1 in human populations. Science (New York, N.Y.). 346: 56-61. PMID 25278604 DOI: 10.1126/Science.1256739 |
0.506 |
|
| 2014 |
Liu W, Fan H, Raghwani J, Lam TT, Li J, Pybus OG, Yao HW, Wo Y, Liu K, An XP, Pei GQ, Li H, Wang HY, Zhao JJ, Jiang T, et al. Occurrence and reassortment of avian influenza A (H7N9) viruses derived from coinfected birds in China. Journal of Virology. 88: 13344-51. PMID 25210174 DOI: 10.1128/JVI.01777-14 |
0.321 |
|
| 2014 |
Lemey P, Rambaut A, Bedford T, Faria N, Bielejec F, Baele G, Russell CA, Smith DJ, Pybus OG, Brockmann D, Suchard MA. Unifying viral genetics and human transportation data to predict the global transmission dynamics of human influenza H3N2. Plos Pathogens. 10: e1003932. PMID 24586153 DOI: 10.1371/Journal.Ppat.1003932 |
0.579 |
|
| 2013 |
Lam TT, Wang J, Shen Y, Zhou B, Duan L, Cheung CL, Ma C, Lycett SJ, Leung CY, Chen X, Li L, Hong W, Chai Y, Zhou L, Liang H, ... ... Pybus OG, et al. The genesis and source of the H7N9 influenza viruses causing human infections in China. Nature. 502: 241-4. PMID 23965623 DOI: 10.1038/Nature12515 |
0.566 |
|
| 2013 |
Gray RR, Tanaka Y, Takebe Y, Magiorkinis G, Buskell Z, Seeff L, Alter HJ, Pybus OG. Evolutionary analysis of hepatitis C virus gene sequences from 1953. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 368: 20130168. PMID 23938759 DOI: 10.1098/Rstb.2013.0168 |
0.327 |
|
| 2013 |
Pybus OG, Gray RR. Virology: The virus whose family expanded. Nature. 498: 310-1. PMID 23783626 DOI: 10.1038/498310B |
0.306 |
|
| 2013 |
Cotten M, Lam TT, Watson SJ, Palser AL, Petrova V, Grant P, Pybus OG, Rambaut A, Guan Y, Pillay D, Kellam P, Nastouli E. Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus. Emerging Infectious Diseases. 19: 736-42B. PMID 23693015 DOI: 10.3201/Eid1905.130057 |
0.605 |
|
| 2013 |
Lam TT, Chong YL, Shi M, Hon CC, Li J, Martin DP, Tang JW, Mok CK, Shih SR, Yip CW, Jiang J, Hui RK, Pybus OG, Holmes EC, Leung FC. Systematic phylogenetic analysis of influenza A virus reveals many novel mosaic genome segments. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 18: 367-78. PMID 23548803 DOI: 10.1016/J.Meegid.2013.03.015 |
0.389 |
|
| 2013 |
Lam TT, Liu W, Bowden TA, Cui N, Zhuang L, Liu K, Zhang YY, Cao WC, Pybus OG. Evolutionary and molecular analysis of the emergent severe fever with thrombocytopenia syndrome virus. Epidemics. 5: 1-10. PMID 23438426 DOI: 10.1016/j.epidem.2012.09.002 |
0.422 |
|
| 2012 |
Pybus OG, Suchard MA, Lemey P, Bernardin FJ, Rambaut A, Crawford FW, Gray RR, Arinaminpathy N, Stramer SL, Busch MP, Delwart EL. Unifying the spatial epidemiology and molecular evolution of emerging epidemics. Proceedings of the National Academy of Sciences of the United States of America. 109: 15066-71. PMID 22927414 DOI: 10.1073/Pnas.1206598109 |
0.542 |
|
| 2012 |
Lam TT, Hon CC, Lemey P, Pybus OG, Shi M, Tun HM, Li J, Jiang J, Holmes EC, Leung FC. Phylodynamics of H5N1 avian influenza virus in Indonesia. Molecular Ecology. 21: 3062-77. PMID 22574738 DOI: 10.1111/J.1365-294X.2012.05577.X |
0.406 |
|
| 2012 |
Allicock OM, Lemey P, Tatem AJ, Pybus OG, Bennett SN, Mueller BA, Suchard MA, Foster JE, Rambaut A, Carrington CVF. Phylogeography and population dynamics of dengue viruses in the Americas Molecular Biology and Evolution. 29: 1533-1543. PMID 22319149 DOI: 10.1093/Molbev/Msr320 |
0.576 |
|
| 2012 |
Nakano T, Takahashi K, Pybus OG, Hashimoto N, Kato H, Okano H, Kobayashi M, Fujita N, Shiraki K, Takei Y, Ayada M, Arai M, Okamoto H, Mishiro S. New findings regarding the epidemic history and population dynamics of Japan-indigenous genotype 3 hepatitis E virus inferred by molecular evolution. Liver International : Official Journal of the International Association For the Study of the Liver. 32: 675-88. PMID 22181032 DOI: 10.1111/j.1478-3231.2011.02728.x |
0.322 |
|
| 2012 |
Raghwani J, Thomas XV, Koekkoek SM, Schinkel J, Molenkamp R, van de Laar TJ, Takebe Y, Tanaka Y, Mizokami M, Rambaut A, Pybus OG. Origin and evolution of the unique hepatitis C virus circulating recombinant form 2k/1b Journal of Virology. 86: 2212-2220. PMID 22114341 DOI: 10.1128/Jvi.06184-11 |
0.478 |
|
| 2012 |
Baillie GJ, Galiano M, Agapow PM, Myers R, Chiam R, Gall A, Palser AL, Watson SJ, Hedge J, Underwood A, Platt S, McLean E, Pebody RG, Rambaut A, Green J, ... ... Pybus OG, et al. Evolutionary dynamics of local pandemic H1N1/2009 influenza virus lineages revealed by whole-genome analysis. Journal of Virology. 86: 11-8. PMID 22013031 DOI: 10.1128/Jvi.05347-11 |
0.602 |
|
| 2011 |
Vijaykrishna D, Smith GJ, Pybus OG, Zhu H, Bhatt S, Poon LL, Riley S, Bahl J, Ma SK, Cheung CL, Perera RA, Chen H, Shortridge KF, Webby RJ, Webster RG, et al. Long-term evolution and transmission dynamics of swine influenza A virus. Nature. 473: 519-22. PMID 21614079 DOI: 10.1038/Nature10004 |
0.379 |
|
| 2011 |
Gray RR, Parker J, Lemey P, Salemi M, Katzourakis A, Pybus OG. The mode and tempo of hepatitis C virus evolution within and among hosts Bmc Evolutionary Biology. 11. PMID 21595904 DOI: 10.1186/1471-2148-11-131 |
0.314 |
|
| 2011 |
Bhatt S, Holmes EC, Pybus OG. The genomic rate of molecular adaptation of the human influenza A virus Molecular Biology and Evolution. 28: 2443-2451. PMID 21415025 DOI: 10.1093/Molbev/Msr044 |
0.405 |
|
| 2011 |
Shapiro B, Ho SYW, Drummond AJ, Suchard MA, Pybus OG, Rambaut A. A bayesian phylogenetic method to estimate unknown sequence ages Molecular Biology and Evolution. 28: 879-887. PMID 20889726 DOI: 10.1093/Molbev/Msq262 |
0.484 |
|
| 2010 |
Sharp CP, LeBreton M, Kantola K, Nana A, Diffo Jle D, Djoko CF, Tamoufe U, Kiyang JA, Babila TG, Ngole EM, Pybus OG, Delwart E, Delaporte E, Peeters M, Soderlund-Venermo M, et al. Widespread infection with homologues of human parvoviruses B19, PARV4, and human bocavirus of chimpanzees and gorillas in the wild. Journal of Virology. 84: 10289-96. PMID 20668071 DOI: 10.1128/Jvi.01304-10 |
0.312 |
|
| 2010 |
Auguste AJ, Lemey P, Pybus OG, Suchard MA, Salas RA, Adesiyun AA, Barrett AD, Tesh RB, Weaver SC, Carrington CV. Yellow fever virus maintenance in Trinidad and its dispersal throughout the Americas. Journal of Virology. 84: 9967-77. PMID 20631128 DOI: 10.1128/Jvi.00588-10 |
0.341 |
|
| 2010 |
Tee KK, Lam TT, Chan YF, Bible JM, Kamarulzaman A, Tong CY, Takebe Y, Pybus OG. Evolutionary genetics of human enterovirus 71: origin, population dynamics, natural selection, and seasonal periodicity of the VP1 gene. Journal of Virology. 84: 3339-50. PMID 20089660 DOI: 10.1128/JVI.01019-09 |
0.343 |
|
| 2009 |
Katzourakis A, Gifford RJ, Tristem M, Gilbert MT, Pybus OG. Macroevolution of complex retroviruses. Science (New York, N.Y.). 325: 1512. PMID 19762636 DOI: 10.1126/science.1174149 |
0.343 |
|
| 2009 |
Pybus OG, Rambaut A. Evolutionary analysis of the dynamics of viral infectious disease Nature Reviews Genetics. 10: 540-550. PMID 19564871 DOI: 10.1038/Nrg2583 |
0.579 |
|
| 2009 |
Smith GJD, Vijaykrishna D, Bahl J, Lycett SJ, Worobey M, Pybus OG, Ma SK, Cheung CL, Raghwani J, Bhatt S, Peiris JSM, Guan Y, Rambaut A. Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza a epidemic Nature. 459: 1122-1125. PMID 19516283 DOI: 10.1038/Nature08182 |
0.594 |
|
| 2009 |
Paraskevis D, Pybus O, Magiorkinis G, Hatzakis A, Wensing AM, van de Vijver DA, Albert J, Angarano G, Asjö B, Balotta C, Boeri E, Camacho R, Chaix ML, Coughlan S, Costagliola D, et al. Tracing the HIV-1 subtype B mobility in Europe: a phylogeographic approach. Retrovirology. 6: 49. PMID 19457244 DOI: 10.1186/1742-4690-6-49 |
0.321 |
|
| 2009 |
Fraser C, Donnelly CA, Cauchemez S, Hanage WP, Van Kerkhove MD, Hollingsworth TD, Griffin J, Baggaley RF, Jenkins HE, Lyons EJ, Jombart T, Hinsley WR, Grassly NC, Balloux F, Ghani AC, ... ... Pybus OG, et al. Pandemic potential of a strain of influenza A (H1N1): early findings. Science (New York, N.Y.). 324: 1557-61. PMID 19433588 DOI: 10.1126/Science.1176062 |
0.551 |
|
| 2008 |
Gifford RJ, Katzourakis A, Tristem M, Pybus OG, Winters M, Shafer RW. A transitional endogenous lentivirus from the genome of a basal primate and implications for lentivirus evolution. Proceedings of the National Academy of Sciences of the United States of America. 105: 20362-7. PMID 19075221 DOI: 10.1073/pnas.0807873105 |
0.365 |
|
| 2008 |
Lam TT, Hon CC, Pybus OG, Kosakovsky Pond SL, Wong RT, Yip CW, Zeng F, Leung FC. Evolutionary and transmission dynamics of reassortant H5N1 influenza virus in Indonesia. Plos Pathogens. 4: e1000130. PMID 18725937 DOI: 10.1371/journal.ppat.1000130 |
0.376 |
|
| 2008 |
Tee KK, Pybus OG, Li XJ, Han X, Shang H, Kamarulzaman A, Takebe Y. Temporal and spatial dynamics of human immunodeficiency virus type 1 circulating recombinant forms 08_BC and 07_BC in Asia. Journal of Virology. 82: 9206-15. PMID 18596096 DOI: 10.1128/JVI.00399-08 |
0.33 |
|
| 2008 |
Kelly CK, Bowler MG, Pybus O, Harvey PH. Phylogeny, niches, and relative abundance in natural communities. Ecology. 89: 962-70. PMID 18481521 DOI: 10.1890/07-0322.1 |
0.35 |
|
| 2008 |
Rambaut A, Pybus OG, Nelson MI, Viboud C, Taubenberger JK, Holmes EC. The genomic and epidemiological dynamics of human influenza A virus Nature. 453: 615-619. PMID 18418375 DOI: 10.1038/Nature06945 |
0.611 |
|
| 2008 |
Belshaw R, Gardner A, Rambaut A, Pybus OG. Pacing a small cage: mutation and RNA viruses Trends in Ecology and Evolution. 23: 188-193. PMID 18295930 DOI: 10.1016/J.Tree.2007.11.010 |
0.495 |
|
| 2008 |
Parker J, Rambaut A, Pybus OG. Correlating viral phenotypes with phylogeny: Accounting for phylogenetic uncertainty Infection, Genetics and Evolution. 8: 239-246. PMID 17921073 DOI: 10.1016/J.Meegid.2007.08.001 |
0.509 |
|
| 2007 |
Gifford RJ, de Oliveira T, Rambaut A, Pybus OG, Dunn D, Vandamme AM, Kellam P, Pillay D. Phylogenetic surveillance of viral genetic diversity and the evolving molecular epidemiology of human immunodeficiency virus type 1. Journal of Virology. 81: 13050-6. PMID 17898057 DOI: 10.1128/Jvi.00889-07 |
0.584 |
|
| 2007 |
Belshaw R, Pybus OG, Rambaut A. The evolution of genome compression and genomic novelty in RNA viruses Genome Research. 17: 1496-1504. PMID 17785537 DOI: 10.1101/Gr.6305707 |
0.53 |
|
| 2007 |
Katzourakis A, Tristem M, Pybus OG, Gifford RJ. Discovery and analysis of the first endogenous lentivirus. Proceedings of the National Academy of Sciences of the United States of America. 104: 6261-5. PMID 17384150 DOI: 10.1073/pnas.0700471104 |
0.347 |
|
| 2007 |
Lemey P, Kosakovsky Pond SL, Drummond AJ, Pybus OG, Shapiro B, Barroso H, Taveira N, Rambaut A. Synonymous substitution rates predict HIV disease progression as a result of underlying replication dynamics. Plos Computational Biology. 3: e29. PMID 17305421 DOI: 10.1371/Journal.Pcbi.0030029 |
0.488 |
|
| 2007 |
Pybus OG, Rambaut A, Belshaw R, Freckleton RP, Drummond AJ, Holmes EC. Phylogenetic evidence for deleterious mutation load in RNA viruses and its contribution to viral evolution. Molecular Biology and Evolution. 24: 845-52. PMID 17218639 DOI: 10.1093/Molbev/Msm001 |
0.521 |
|
| 2006 |
de Oliveira T, Pybus OG, Rambaut A, Salemi M, Cassol S, Ciccozzi M, Rezza G, Gattinara GC, D'Arrigo R, Amicosante M, Perrin L, Colizzi V, Perno CF. Molecular epidemiology: HIV-1 and HCV sequences from Libyan outbreak. Nature. 444: 836-7. PMID 17171825 DOI: 10.1038/444836A |
0.499 |
|
| 2006 |
Lemey P, Rambaut A, Pybus OG. HIV evolutionary dynamics within and among hosts. Aids Reviews. 8: 125-40. PMID 17078483 |
0.514 |
|
| 2006 |
Shackelton LA, Rambaut A, Pybus OG, Holmes EC. JC virus evolution and its association with human populations. Journal of Virology. 80: 9928-33. PMID 17005670 DOI: 10.1128/Jvi.00441-06 |
0.567 |
|
| 2006 |
Shapiro B, Rambaut A, Pybus OG, Holmes EC. A phylogenetic method for detecting positive epistasis in gene sequences and its application to RNA virus evolution. Molecular Biology and Evolution. 23: 1724-30. PMID 16774976 DOI: 10.1093/Molbev/Msl037 |
0.562 |
|
| 2006 |
Alcantara LC, de Oliveira T, Gordon M, Pybus O, Mascarenhas RE, Seixas MO, Gonçalves M, Hlela C, Cassol S, Galvão-Castro B. Tracing the origin of Brazilian HTLV-1 as determined by analysis of host and viral genes. Aids (London, England). 20: 780-2. PMID 16514313 DOI: 10.1097/01.aids.0000216383.14808.13 |
0.367 |
|
| 2005 |
Carrington CV, Foster JE, Pybus OG, Bennett SN, Holmes EC. Invasion and maintenance of dengue virus type 2 and type 4 in the Americas. Journal of Virology. 79: 14680-7. PMID 16282468 DOI: 10.1128/Jvi.79.23.14680-14687.2005 |
0.394 |
|
| 2005 |
Katzourakis A, Rambaut A, Pybus OG. The evolutionary dynamics of endogenous retroviruses Trends in Microbiology. 13: 463-468. PMID 16109487 DOI: 10.1016/J.Tim.2005.08.004 |
0.52 |
|
| 2005 |
Walker PR, Pybus OG, Rambaut A, Holmes EC. Comparative population dynamics of HIV-1 subtypes B and C: subtype-specific differences in patterns of epidemic growth Infection, Genetics and Evolution. 5: 199-208. PMID 15737910 DOI: 10.1016/J.Meegid.2004.06.011 |
0.512 |
|
| 2004 |
Shapiro B, Drummond AJ, Rambaut A, Wilson MC, Matheus PE, Sher AV, Pybus OG, Gilbert MT, Barnes I, Binladen J, Willerslev E, Hansen AJ, Baryshnikov GF, Burns JA, Davydov S, et al. Rise and fall of the Beringian steppe bison. Science (New York, N.Y.). 306: 1561-5. PMID 15567864 DOI: 10.1126/Science.1101074 |
0.481 |
|
| 2004 |
Nakano T, Lu L, Liu P, Pybus OG. Viral gene sequences reveal the variable history of hepatitis C virus infection among countries. The Journal of Infectious Diseases. 190: 1098-108. PMID 15319860 DOI: 10.1086/422606 |
0.339 |
|
| 2004 |
Lemey P, Pybus OG, Rambaut A, Drummond AJ, Robertson DL, Roques P, Worobey M, Vandamme AM. The molecular population genetics of HIV-1 group O. Genetics. 167: 1059-68. PMID 15280223 DOI: 10.1534/Genetics.104.026666 |
0.495 |
|
| 2003 |
Drummond A, Pybus OG, Rambaut A. Inference of Viral Evolutionary Rates from Molecular Sequences Advances in Parasitology. 54: 331-358. PMID 14711090 DOI: 10.1016/S0065-308X(03)54008-8 |
0.605 |
|
| 2003 |
Twiddy SS, Pybus OG, Holmes EC. Comparative population dynamics of mosquito-borne flaviviruses. Infection, Genetics and Evolution. 3: 87-95. PMID 12809802 DOI: 10.1016/S1567-1348(02)00153-3 |
0.333 |
|
| 2003 |
Robbins KE, Lemey P, Pybus OG, Jaffe HW, Youngpairoj AS, Brown TM, Salemi M, Vandamme AM, Kalish ML. U.S. Human immunodeficiency virus type 1 epidemic: date of origin, population history, and characterization of early strains. Journal of Virology. 77: 6359-66. PMID 12743293 DOI: 10.1128/Jvi.77.11.6359-6366.2003 |
0.307 |
|
| 2003 |
Walker PR, Worobey M, Rambaut A, Holmes EC, Pybus OG. Epidemiology: Sexual transmission of HIV in Africa. Nature. 422: 679. PMID 12700750 DOI: 10.1038/422679A |
0.489 |
|
| 2002 |
Worobey M, Rambaut A, Pybus OG, Robertson DL. Questioning the evidence for genetic recombination in the 1918 "Spanish flu" virus. Science (New York, N.Y.). 296: 211 discussion 211. PMID 11951002 DOI: 10.1126/Science.296.5566.211A |
0.544 |
|
| 2002 |
Jenkins GM, Rambaut A, Pybus OG, Holmes EC. Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis. Journal of Molecular Evolution. 54: 156-65. PMID 11821909 DOI: 10.1007/S00239-001-0064-3 |
0.539 |
|
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