|Full-length haplotype reconstruction to infer the structure of heterogeneous virus populations|
FD Giallonardo, A Töpfer, M Rey, S Prabhakaran, Y Duport, C Leemann, ...
Nucleic acids research 42 (14), e115-e115, 2014
|Low-frequency drug-resistant HIV-1 and risk of virological failure to first-line NNRTI-based ART: a multicohort European case–control study using centralized ultrasensitive 454 …|
A Cozzi-Lepri, M Noguera-Julian, F Di Giallonardo, R Schuurman, ...
Journal of antimicrobial chemotherapy 70 (3), 930-940, 2015
|Virological factors that increase the transmissibility of emerging human viruses|
JL Geoghegan, AM Senior, F Di Giallonardo, EC Holmes
Proceedings of the National Academy of Sciences 113 (15), 4170-4175, 2016
|RNA-Seq analysis of chikungunya virus infection and identification of granzyme A as a major promoter of arthritic inflammation|
JAC Wilson, NA Prow, WA Schroder, JJ Ellis, HE Cumming, LJ Gearing, ...
PLoS pathogens 13 (2), e1006155, 2017
|Dinucleotide composition in animal RNA viruses is shaped more by virus family than by host species|
F Di Giallonardo, TE Schlub, M Shi, EC Holmes
Journal of virology 91 (8), e02381-16, 2017
|Next-generation sequencing of HIV-1 RNA genomes: determination of error rates and minimizing artificial recombination|
F Di Giallonardo, O Zagordi, Y Duport, C Leemann, B Joos, ...
PloS one 8 (9), e74249, 2013
|Distinct viral lineages from fish and amphibians reveal the complex evolutionary history of hepadnaviruses|
JA Dill, AC Camus, JH Leary, F Di Giallonardo, EC Holmes, TFF Ng
Journal of virology 90 (17), 7920-7933, 2016
|EH3 (ABHD9): the first member of a new epoxide hydrolase family with high activity for fatty acid epoxides|
M Decker, M Adamska, A Cronin, F Di Giallonardo, J Burgener, ...
Journal of lipid research 53 (10), 2038-2045, 2012
|Viral biocontrol: grand experiments in disease emergence and evolution|
F Di Giallonardo, EC Holmes
Trends in microbiology 23 (2), 83-90, 2015
|Fluid spatial dynamics of West Nile virus in the United States: Rapid spread in a permissive host environment|
F Di Giallonardo, JL Geoghegan, DE Docherty, RG McLean, MC Zody, ...
Journal of virology 90 (2), 862-872, 2016
|Tailored enrichment strategy detects low abundant small noncoding RNAs in HIV-1 infected cells|
CF Althaus, V Vongrad, B Niederöst, B Joos, F Di Giallonardo, P Rieder, ...
Retrovirology 9 (1), 1-13, 2012
|A framework for inferring fitness landscapes of patient-derived viruses using quasispecies theory|
D Seifert, F Di Giallonardo, KJ Metzner, HF Günthard, N Beerenwinkel
Genetics 199 (1), 191-203, 2015
|Hidden diversity and evolution of viruses in market fish|
JL Geoghegan, F Di Giallonardo, K Cousins, M Shi, JE Williamson, ...
Virus Evolution 4 (2), vey031, 2018
|An international multicenter study on HIV-1 drug resistance testing by 454 ultra-deep pyrosequencing|
BB Simen, MS Braverman, I Abbate, J Aerssens, Y Bidet, O Bouchez, ...
Journal of virological methods 204, 31-37, 2014
|A comprehensive analysis of primer IDs to study heterogeneous HIV-1 populations|
D Seifert, F Di Giallonardo, A Töpfer, J Singer, S Schmutz, HF Günthard, ...
Journal of molecular biology 428 (1), 238-250, 2016
|Genomic epidemiology of the first wave of SARS-CoV-2 in Italy|
F Di Giallonardo, S Duchene, I Puglia, V Curini, F Profeta, C Cammà, ...
Viruses 12 (12), 1438, 2020
|Contribution of APOBEC3G/F activity to the development of low-abundance drug-resistant human immunodeficiency virus type 1 variants|
M Noguera-Julian, A Cozzi-Lepri, F Di Giallonardo, R Schuurman, ...
Clinical microbiology and infection 22 (2), 191-200, 2016
|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, I Mangone, P Calistri, ...
Viruses 13 (5), 794, 2021
|Substitution model adequacy and assessing the reliability of estimates of virus evolutionary rates and time scales|
S Duchêne, F Di Giallonardo, EC Holmes
Molecular biology and evolution 33 (1), 255-267, 2016
|Monocyte-derived macrophages exhibit distinct and more restricted HIV-1 integration site repertoire than CD4+ T cells|
YL Kok, V Vongrad, M Shilaih, F Di Giallonardo, H Kuster, R Kouyos, ...
Scientific reports 6 (1), 1-11, 2016