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E. Holmes · SciRah

Researcher profile · Semantic Scholar

E. Holmes

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E. Holmes — researcher profile on SciRah

h-index: 153
Works: 825
Citations: 110K

Most-cited papers

Identification of novel bat coronaviruses sheds light on the evolutionary origins of SARS-CoV-2 and related viruses
Hong Zhou, Jingkai Ji, Xing Chen, Y. Bi +11 more
2021bioRxiv356 citations Open access
Semantic Scholar
The Huanan Seafood Wholesale Market in Wuhan was the early epicenter of the COVID-19 pandemic
M. Worobey, J. Levy, L. Serrano, A. Crits-Christoph +14 more
2022Science310 citations Open access
Semantic Scholar
Virome characterization of game animals in China reveals a spectrum of emerging pathogens
Wanting He, Xin Hou, Jin Zhao, Jiumeng Sun +18 more
2022Cell228 citations Open access
Semantic Scholar
The molecular epidemiology of multiple zoonotic origins of SARS-CoV-2
J. Pekar, AndrewV. Magee, Edyth Parker, Niema Moshiri +25 more
2022Science199 citations Open access
Semantic Scholar
Using artificial intelligence to document the hidden RNA virosphere
Xin Hou, Yong He, Pan Fang, Shi-qiang Mei +21 more
2024bioRxiv153 citations Open access
Semantic Scholar
RNA viromes from terrestrial sites across China expand environmental viral diversity
Yan-Mei Chen, Sabrina Sadiq, Jun-Hua Tian, Xiao Chen +15 more
2022Nature Microbiology147 citations
Semantic Scholar
Diversity and evolution of the animal virome
Erin Harvey, E. Holmes
2022Nature Reviews Microbiology137 citations
Semantic Scholar
Human-to-human transmission of Chlamydia psittaci in China, 2020: an epidemiological and aetiological investigation.
Zhenjie Zhang, Hong Zhou, Hua Cao, Jingkai Ji +15 more
2022The Lancet Microbe116 citations Open access
Semantic Scholar
Zoonotic disease and virome diversity in bats
Kate van Brussel, E. Holmes
2021Current Opinion in Virology116 citations Open access
Semantic Scholar
Individual bat virome analysis reveals co-infection and spillover among bats and virus zoonotic potential
Jing Wang, Yuanfei Pan, Li-fen Yang, Wei-hong Yang +19 more
2023Nature Communications110 citations Open access
Semantic Scholar
Genomic epidemiology of the SARS-CoV-2 epidemic in Brazil
M. Giovanetti, S. Slavov, V. Fonseca, E. Wilkinson +99 more
2022Nature Microbiology99 citations Open access
Semantic Scholar
RdRp-scan: A bioinformatic resource to identify and annotate divergent RNA viruses in metagenomic sequence data
Justine Charon, J. Buchmann, Sabrina Sadiq, E. Holmes
2022bioRxiv98 citations Open access
Semantic Scholar
Co-infection with SARS-CoV-2 Omicron and Delta variants revealed by genomic surveillance
R. Rockett, J. Draper, M. Gall, E. Sim +21 more
2022Nature Communications93 citations Open access
Semantic Scholar
Virome composition in marine fish revealed by meta-transcriptomics
J. Geoghegan, F. Di Giallonardo, M. Wille, Ayda Susana Ortiz-Baez +7 more
2021Virus Evolution80 citations Open access
Semantic Scholar
Understanding the Impact of Resistance to Influenza Antivirals
E. Holmes, A. Hurt, Z. Dobbie, B. Clinch +2 more
2021Clinical Microbiology Reviews71 citations Open access
Semantic Scholar
Addendum: A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology
A. Rambaut, E. Holmes, Á. O'Toole, V. Hill +4 more
2021Nature Microbiology68 citations Open access
Semantic Scholar
COVID-19—lessons for zoonotic disease
E. Holmes
2022Science66 citations
Semantic Scholar
Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
M. Giovanetti, V. Fonseca, E. Wilkinson, Houriiyah Tegally +24 more
2021medRxiv66 citations Open access
Semantic Scholar
The Ecology of Viral Emergence.
E. Holmes
2022Annual Review of Virology54 citations Open access
Semantic Scholar
Transcriptome Mining Expands Knowledge of RNA Viruses across the Plant Kingdom
Jonathon C. O. Mifsud, R. Gallagher, E. Holmes, J. Geoghegan
2022Journal of Virology54 citations Open access
Semantic Scholar
Feline Calicivirus Virulent Systemic Disease: Clinical Epidemiology, Analysis of Viral Isolates and In Vitro Efficacy of Novel Antivirals in Australian Outbreaks
M. Bordicchia, T. Fumian, Kate van Brussel, Alice G. Russo +9 more
2021Viruses49 citations Open access
Semantic Scholar
Rapid Epidemic Expansion of Chikungunya Virus East/Central/South African Lineage, Paraguay
M. Giovanetti, C. Vázquez, M. Lima, Emerson Castro +36 more
2023Emerging Infectious Diseases46 citations Open access
Semantic Scholar
RNA virome abundance and diversity is associated with host age in a bird species.
M. Wille, M. Shi, A. Hurt, M. Klaassen +1 more
2021Virology44 citations Open access
Semantic Scholar
Genomic epidemiology unveils the dynamics and spatial corridor behind the Yellow Fever virus outbreak in Southern Brazil
M. Giovanetti, F. Pinotti, C. Zanluca, V. Fonseca +90 more
2023Science Advances40 citations Open access
Semantic Scholar
Frequent intergenotypic recombination between the non-structural and structural genes is a major driver of epidemiological fitness in caliciviruses
J. Mahar, Maria Jenckel, N. Huang, Elena Smertina +3 more
2021bioRxiv40 citations Open access
Semantic Scholar
Revealing RNA virus diversity and evolution in unicellular algae transcriptomes
Justine Charon, S. Murray, E. Holmes
2021bioRxiv38 citations Open access
Semantic Scholar
Expanding the range of the respiratory infectome in Australian feedlot cattle with and without respiratory disease using metatranscriptomics
B. Brito, M. Frost, Kay Anantanawat, Frederick R. Jaya +6 more
2023Microbiome36 citations Open access
Semantic Scholar
Strong host phylogenetic and ecological effects on host competency for avian influenza in Australian wild birds
M. Wille, S. Lisovski, D. Roshier, M. Ferenczi +7 more
2022bioRxiv36 citations Open access
Semantic Scholar
Transcriptome mining extends the host range of the Flaviviridae to non-bilaterians
Jonathon C. O. Mifsud, Vincenzo A. Costa, Mary E. Petrone, E. Marzinelli +2 more
2022bioRxiv35 citations Open access
Semantic Scholar
Nationwide genomic surveillance reveals the prevalence and evolution of honeybee viruses in China
Nannan Li, Ci-Xiu Li, Tao Hu, Juan Li +7 more
2023Microbiome34 citations Open access
Semantic Scholar
Epizootic Haemorrhagic Disease Virus Serotype 8 in Tunisia, 2021
S. Sghaier, C. Sailleau, M. Marcacci, Sarah Thabet +18 more
2022Viruses34 citations Open access
Semantic Scholar
Emergence and Spread of SARS-CoV-2 Lineages B.1.1.7 and P.1 in Italy
F. Di Giallonardo, I. Puglia, V. Curini, C. Cammà +5 more
2021medRxiv32 citations Open access
Semantic Scholar
The enteric virome of cats with feline panleukopenia differs in abundance and diversity from healthy cats
Kate van Brussel, Xiu-Wang Wang, M. Shi, M. Carrai +5 more
2022Transboundary and Emerging Diseases31 citations Open access
Semantic Scholar
A total infectome approach to understand the etiology of infectious disease in pigs
Xin-Yi Huang, Weichen Wu, Xiao-Xiao Tian, Xin Hou +16 more
2022Microbiome31 citations Open access
Semantic Scholar
Zoonotic risk assessment among farmed mammals.
Meng Lu, Wanting He, J. Pettersson, G. Baele +4 more
2023Cell30 citations Open access
Semantic Scholar
Total infectome characterization of respiratory infections in pre-COVID-19 Wuhan, China
M. Shi, Su Zhao, Bin Yu, Wei-Chen Wu +13 more
2022PLoS Pathogens29 citations Open access
Semantic Scholar
Australia as a global sink for the genetic diversity of avian influenza A virus
M. Wille, V. Grillo, Silvia Ban de Gouvea Pedroso, G. Burgess +28 more
2021bioRxiv29 citations Open access
Semantic Scholar
A time-series meta-transcriptomic analysis reveals the seasonal, host, and gender structure of mosquito viromes
Yun Feng, Qin-yu Gou, Wei-hong Yang, Wei-Chen Wu +4 more
2022Virus Evolution28 citations Open access
Semantic Scholar
Use of Genomics to Track Coronavirus Disease Outbreaks, New Zealand
J. Geoghegan, J. Douglas, Xiao-Yun Ren, M. Storey +17 more
2021Emerging Infectious Diseases28 citations Open access
Semantic Scholar
Characterization of an Emergent Chicken H3N8 Influenza Virus in Southern China: a Potential Threat to Public Health
Peiwen Chen, Ziying Jin, Liuxia Peng, Zuo-Yi Zheng +20 more
2023Journal of Virology27 citations Open access
Semantic Scholar
Surveillance of Rodent Pests for SARS-CoV-2 and Other Coronaviruses, Hong Kong
Elliott F. Miot, Brian M. Worthington, K. H. Ng, Lucy de Guilhem de Lataillade +14 more
2022Emerging Infectious Diseases27 citations Open access
Semantic Scholar
Resolving deep evolutionary relationships within the RNA virus phylum Lenarviricota
Sabrina Sadiq, Yan-Mei Chen, Yong-Zhen Zhang, E. Holmes
2022Virus Evolution26 citations Open access
Semantic Scholar
Host Phylogeny Shapes Viral Transmission Networks in an Island Ecosystem
R. French, S. Anderson, K. Cain, T. Greene +6 more
2022bioRxiv25 citations Open access
Semantic Scholar
Limited cross-species virus transmission in a spatially restricted coral reef fish community
Vincenzo A. Costa, D. Bellwood, Jonathon C. O. Mifsud, Kate van Brussel +3 more
2022bioRxiv24 citations Open access
Semantic Scholar
Faecal virome of the Australian grey-headed flying fox from urban/suburban environments contains novel coronaviruses, retroviruses and sapoviruses
Kate van Brussel, J. Mahar, Ayda Susana Ortiz-Baez, M. Carrai +7 more
2022bioRxiv24 citations Open access
Semantic Scholar
The diversity and evolutionary relationships of ticks and tick-borne bacteria collected in China
Jun-Hua Tian, Xin Hou, Mi-Hong Ge, Hongbin Xu +6 more
2022Parasites & Vectors23 citations Open access
Semantic Scholar
Host adaptive radiation is associated with rapid virus diversification and cross-species transmission in African cichlid fishes
Vincenzo A. Costa, F. Ronco, Jonathon C. O. Mifsud, Erin Harvey +2 more
2023bioRxiv21 citations Open access
Semantic Scholar
Metatranscriptomic Sequencing Reveals Host Species as an Important Factor Shaping the Mosquito Virome
Ci-Xiu Li, Shu-Qi Liu, Hong Zhou, Wei Zhu +10 more
2023Microbiology spectrum20 citations Open access
Semantic Scholar
Unbiased Characterization of the Microbiome and Virome of Questing Ticks
S. Chandra, Erin Harvey, D. Emery, E. Holmes +1 more
2021Frontiers in Microbiology20 citations Open access
Semantic Scholar
Understanding the divergent evolution and epidemiology of H3N8 influenza viruses in dogs and horses
B. Wasik, Evin Rothschild, Ian E. H. Voorhees, S. Reedy +7 more
2023bioRxiv18 citations Open access
Semantic Scholar

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