Author

Vinícius Bonetti Franceschi

Imperial College LondonORCID 0000-0002-0006-9337Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genetic & Genomic Medicine· 2 Bioinformatics· 1 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Assay:whole-genome sequencing· 4 Research Focus:phylogenetics / evolution· 3 Organism:human· 2 Organism:virus· 2 Assay:DNA methylation· 1 Research Focus:variant effect prediction· 1

Frequent Co-Authors

Claudia Elizabeth ThompsoniD· 2 shared Erik VolziD· 2 shared Gabriela Bettella CybisiD· 2 shared Patrícia Aline Gröhs FerrarezeiD· 2 shared Ricardo Ariel ZimermaniD· 2 shared Alexandre Horn· 1 shared Ann M. DennisiD· 1 shared Camila Peter· 1 shared

Activity by Year

2021-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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2 shared papersGenetic & Genomic Medicine

Claudia Elizabeth ThompsonORCID

Mutual co-authors in cluster

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4 papers

Recent·Most cited

Evolutionary BiologyJournal of The Royal Society InterfacePeer-reviewedSep 9, 2026

Untangling the effects of within-host and between-host natural selection in viruses with applications to evolution of HIV-1 co-receptor usage

Kieran O. Drake, Vinícius Bonetti Franceschi, Fabrícia Ferreira do Nascimento…·on behalf of the PANGEA Consortium

This paper develops a method to estimate multi-level selection coefficients for pathogens, applying it to HIV-1 co-receptor usage and finding a strong trade-off between within-host and between-host fitness.

DOI 10.1098/rsif.2025.1012

humanDNA methylation

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BioinformaticsVirus EvolutionPeer-reviewedJan 1, 2023

Model design for non-parametric phylodynamic inference and applications to pathogen surveillance

Xavier Didelot, Vinícius Bonetti Franceschi, Simon D. W. Frost…·Erik Volz

This paper develops a frequentist non-parametric method for phylodynamic inference and applies it to study cholera and COVID-19 epidemics.

18 citations

humanwhole-genome sequencing

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Genetic & Genomic MedicineVirus ResearchPeer-reviewedAug 5, 2021

Mutation hotspots, geographical and temporal distribution of SARS-CoV-2 lineages in Brazil, February 2020 to February 2021: insights and limitations from uneven sequencing efforts

Vinícius Bonetti Franceschi, Patrícia Aline Gröhs Ferrareze, Ricardo Ariel Zimerman…·Claudia Elizabeth Thompson

The paper analyzes SARS-CoV-2 lineage mutations, geographical and temporal distribution in Brazil using phylogenetics, highlighting immune evasion mutations and the need for improved genomic surveillance.

25 citations

viruswhole-genome sequencing

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Genetic & Genomic MedicinePathogensPeer-reviewedAug 5, 2021

Predominance of the SARS-CoV-2 lineage P.1 and its sublineage P.1.2 in patients from the metropolitan region of Porto Alegre, Southern Brazil in March 2021: a phylogenomic analysis

Vinícius Bonetti Franceschi, Gabriel Dickin Caldana, Christiano Perin…·Claudia Elizabeth Thompson

The paper analyzes SARS-CoV-2 genomic data from Porto Alegre, Brazil, showing P.1 lineage predominance and the emergence of its sublineage P.1.2, with implications for viral dispersal and diversification.

14 citations

viruswhole-genome sequencing

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