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- Angela Ciuffi
- Selected publications
Selected publications
Sex and Age Impact CD4+ T Cell Susceptibility to HIV In Vitro through Cell Activation Dynamics.
Brandt L, Angelino P, Martinez R, Cristinelli S, and Ciuffi A
Cells 2023
Africa-specific human genetic variation near CHD1L associated with HIV-1 load.
McLaren PJ, Porreca I, Iaconis G, Mok HP, Mukhopadhyay S, Karakoc E, Cristinelli S, Pomilla C, Bartha I, Thorball CW, Tough RH, et al
Nature 2023
Transcriptomic profiling reveals intense host-pathogen dispute compromising homeostasis during acute Rift Valley fever virus infection.
Bermúdez-Méndez E, Angelino P, van Keulen L, van de Water L, Rockx B, Pijlman G, Ciuffi A, Kortekaas J, and Wichgers Schreur P
Journal of Virology 2023
The Impact of Epitranscriptomics on Antiviral Innate Immunity.
The Impact of Epitranscriptomics on Antiviral Innate Immunity.
Viruses 2022
Role of the cellular factor CTCF in the regulation of bovine leukemia virus latency and three-dimensional chromatin organization
Bellefroid M, Rodari A, Galais M, Krijger PHL, Tjalsma SJD, Nestola L, Plant E, Vos ESM, Cristinelli S, Van Driessche B, Vanhulle C, Ait-Ammart A, Burny A, Ciuffi A, de Laat W, and Van Lint C
Bellefroid M, Rodari A, Galais M, Krijger PHL, Tjalsma SJD, Nestola L, Plant E, Vos ESM, Cristinelli S, Van Driessche B, Vanhulle C, Ait-Ammart A, Burny A, Ciuffi A, de Laat W, and Van Lint C
Exploring m6A and m5C Epitranscriptomes upon Viral Infection: an Example with HIV.
Cristinelli S, Angelino P, and Ciuffi A
Journal of Visualized Experiments 2022
Entry of Polarized Effector Cells into Quiescence Forces HIV Latency.
Dobrowolski C, Valadkhan S, Graham AC, Shukla M, Ciuffi A, Telenti A, Karn J
MBio. 2019 Mar 26;10(2)
Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.
Golumbeanu M, Desfarges S, Hernandez C, Quadroni M, Rato S, Mohammadi P, Telenti A, Beerenwinkel N, Ciuffi A
Sci Rep. 2019 Jan 18;9(1):213
Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells.
Golumbeanu M, Cristinelli S, Rato S, Munoz M, Cavassini M, Beerenwinkel N, Ciuffi A
Cell Rep. 2018 Apr 24;23(4):942-950
The use of single-cell RNA-Seq to understand virus-host interactions.
Cristinelli S, Ciuffi A
Curr Opin Virol. 2018 Apr;29:39-50
Unravelling HIV-1 Latency, One Cell at a Time.
Kok YL, Ciuffi A, Metzner KJ
Trends Microbiol. 2017 Nov;25(11):932-941
Single-cell analysis identifies cellular markers of the HIV permissive cell.
Rato S, Rausell A, Muñoz M, Telenti A, Ciuffi A
PLoS Pathog. 2017 Oct;13(10):e1006678
Exploring viral infection using single-cell sequencing.
Rato S, Golumbeanu M, Telenti A, Ciuffi A
Virus Res. 2017 Jul 15;239:55-68
Single-virus tracking uncovers the missing link between HIV integration site location and viral gene expression.
Ciuffi A, Cristinelli S, Rato S
Nat Struct Mol Biol. 2017 Jan 5;24(1):8-11
Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay.
Trypsteen W, Mohammadi P, Van Hecke C, Mestdagh P, Lefever S, Saeys Y, De Bleser P, Vandesompele J, Ciuffi A, Vandekerckhove L, De Spiegelaere W
Sci Rep. 2016 Oct 26;6:36111
Innate immune defects in HIV permissive cell lines.
Rausell A, Muñoz M, Martinez R, Roger T, Telenti A, Ciuffi A
Retrovirology. 2016 Jun 27;13(1):43
Single-Cell Genomics for Virology.
Ciuffi A, Rato S, Telenti A
Viruses. 2016 May 4;8(5)
Guanylate Binding Protein (GBP) 5 Is an Interferon-Inducible Inhibitor of HIV-1 Infectivity.
Krapp C, Hotter D, Gawanbacht A, McLaren PJ, Kluge SF, Stürzel CM, Mack K, Reith E, Engelhart S, Ciuffi A, Hornung V, Sauter D, Telenti A, Kirchhoff F
Cell Host Microbe. 2016 Apr 13;19(4):504-14
The benefits of integration.
Ciuffi A
Clin Microbiol Infect. 2016 Apr;22(4):324-332
Viral cell biology: HIV RNA gets methylated.
Ciuffi A
Nat Microbiol. 2016 Mar 29;1:16037
Dual and Opposite Effects of hRAD51 Chemical Modulation on HIV-1 Integration.
Thierry S, Benleulmi MS, Sinzelle L, Thierry E, Calmels C, Chaignepain S, Waffo-Teguo P, Merillon JM, Budke B, Pasquet JM, Litvak S, Ciuffi A, Sung P, Connell P, Hauber I, Hauber J, Andreola ML, Delelis O, Parissi V
Chem Biol. 2015 Jun 18;22(6):712-23
Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses.
McLaren PJ, Gawanbacht A, Pyndiah N, Krapp C, Hotter D, Kluge SF, Götz N, Heilmann J, Mack K, Sauter D, Thompson D, Perreaud J, Rausell A, Munoz M, Ciuffi A, Kirchhoff F, Telenti A
Retrovirology. 2015 May 16;12:41
HIV-1 immune activation induces Siglec-1 expression and enhances viral trans-infection in blood and tissue myeloid cells.
Pino M, Erkizia I, Benet S, Erikson E, Fernández-Figueras MT, Guerrero D, Dalmau J, Ouchi D, Rausell A, Ciuffi A, Keppler OT, Telenti A, Kräusslich HG, Martinez-Picado J, Izquierdo-Useros N
Retrovirology. 2015 May 7;12:37
Dynamic models of viral replication and latency.
Mohammadi P, Ciuffi A, Beerenwinkel N
Curr Opin HIV AIDS. 2015 Mar;10(2):90-5
Bioinformatics and HIV latency.
Ciuffi A, Mohammadi P, Golumbeanu M, di Iulio J, Telenti A
Curr HIV/AIDS Rep. 2015 Mar;12(1):97-106
Dynamics of HIV latency and reactivation in a primary CD4+ T cell model.
Mohammadi P, di Iulio J, Muñoz M, Martinez R, Bartha I, Cavassini M, Thorball C, Fellay J, Beerenwinkel N, Ciuffi A, Telenti A
PLoS Pathog. 2014 May;10(5):e1004156
GuavaH: a compendium of host genomic data in HIV biology and disease.
Bartha I, McLaren PJ, Ciuffi A, Fellay J, Telenti A
Retrovirology. 2014 Jan 15;11:6
Susceptibility and adaptation to human TRIM5α alleles at positive selected sites in HIV-1 capsid.
Rahm N, Gfeller D, Snoeck J, Martinez R, McLaren PJ, Ortiz M, Ciuffi A, Telenti A
Virology. 2013 Jul 5;441(2):162-70
State of genomics and epigenomics research in the perspective of HIV cure.
Ciuffi A, Telenti A
Curr Opin HIV AIDS. 2013 May;8(3):176-81
24 hours in the life of HIV-1 in a T cell line.
Mohammadi P, Desfarges S, Bartha I, Joos B, Zangger N, Muñoz M, Günthard HF, Beerenwinkel N, Telenti A, Ciuffi A
PLoS Pathog. 2013 Jan;9(1):e1003161
LEDGF/p75 TATA-less promoter is driven by the transcription factor Sp1.
Desfarges S, Abderrahmani A, Hernàndez-Novoa B, Munoz M, Ciuffi A
J Mol Biol. 2011 Nov 25;414(2):177-93
A gene-rich, transcriptionally active environment and the pre-deposition of repressive marks are predictive of susceptibility to KRAB/KAP1-mediated silencing.
Meylan S, Groner AC, Ambrosini G, Malani N, Quenneville S, Zangger N, Kapopoulou A, Kauzlaric A, Rougemont J, Ciuffi A, Bushman FD, Bucher P, Trono D
BMC Genomics. 2011 Jul 26;12:378
Analysis of HIV-1 expression level and sense of transcription by high-throughput sequencing of the infected cell.
Lefebvre G, Desfarges S, Uyttebroeck F, Muñoz M, Beerenwinkel N, Rougemont J, Telenti A, Ciuffi A
J Virol. 2011 Jul;85(13):6205-11
Unique spectrum of activity of prosimian TRIM5alpha against exogenous and endogenous retroviruses.
Rahm N, Yap M, Snoeck J, Zoete V, Muñoz M, Radespiel U, Zimmermann E, Michielin O, Stoye JP, Ciuffi A, Telenti A
J Virol. 2011 May;85(9):4173-83
Estimating the net contribution of interleukin-28B variation to spontaneous hepatitis C virus clearance.
di Iulio J, Ciuffi A, Fitzmaurice K, Kelleher D, Rotger M, Fellay J, Martinez R, Pulit S, Furrer H, Günthard HF, Battegay M, Bernasconi E, Schmid P, Hirschel B, Barnes E, Klenerman P, Telenti A, Rauch A, Swiss HIV Cohort Study.
Hepatology. 2011 May;53(5):1446-54
Identification of HIV integration sites in infected host genomic DNA.
Ciuffi A, Barr SD
Methods. 2011 Jan;53(1):39-46
ZNRD1 (zinc ribbon domain-containing 1) is a host cellular factor that influences HIV-1 replication and disease progression.
Ballana E, Senserrich J, Pauls E, Faner R, Mercader JM, Uyttebroeck F, Palou E, Mena MP, Grau E, Clotet B, Ruiz L, Telenti A, Ciuffi A, Esté JA
Clin Infect Dis. 2010 Apr 1;50(7):1022-32
KRAB-zinc finger proteins and KAP1 can mediate long-range transcriptional repression through heterochromatin spreading.
Groner AC, Meylan S, Ciuffi A, Zangger N, Ambrosini G, Dénervaud N, Bucher P, Trono D
PLoS Genet. 2010 Mar 5;6(3):e1000869
Retroviral integration site selection.
Desfarges S, Ciuffi A
Viruses. 2010 Jan;2(1):111-30
Evolutionary trajectories of primate genes involved in HIV pathogenesis.
Ortiz M, Guex N, Patin E, Martin O, Xenarios I, Ciuffi A, Quintana-Murci L, Telenti A
Mol Biol Evol. 2009 Dec;26(12):2865-75
Methods for integration site distribution analyses in animal cell genomes.
Ciuffi A, Ronen K, Brady T, Malani N, Wang G, Berry CC, Bushman FD
Methods. 2009 Apr;47(4):261-8
Mechanisms governing lentivirus integration site selection.
Ciuffi A
Curr Gene Ther. 2008 Dec;8(6):419-29
DNA bar coding and pyrosequencing to analyze adverse events in therapeutic gene transfer.
Wang GP, Garrigue A, Ciuffi A, Ronen K, Leipzig J, Berry C, Lagresle-Peyrou C, Benjelloun F, Hacein-Bey-Abina S, Fischer A, Cavazzana-Calvo M, Bushman FD
Nucleic Acids Res. 2008 May;36(9):e49
Antiretroviral activity of ancestral TRIM5alpha.
Goldschmidt V, Ciuffi A, Ortiz M, Brawand D, Muñoz M, Kaessmann H, Telenti A
J Virol. 2008 Mar;82(5):2089-96
Modulating target site selection during human immunodeficiency virus DNA integration in vitro with an engineered tethering factor.
Ciuffi A, Diamond TL, Hwang Y, Marshall HM, Bushman FD
Hum Gene Ther. 2006 Sep;17(9):960-7
Retroviral DNA integration: HIV and the role of LEDGF/p75.
Ciuffi A, Bushman FD
Trends Genet. 2006 Jul;22(7):388-95
Integration site selection by HIV-based vectors in dividing and growth-arrested IMR-90 lung fibroblasts.
Ciuffi A, Mitchell RS, Hoffmann C, Leipzig J, Shinn P, Ecker JR, Bushman FD
Mol Ther. 2006 Feb;13(2):366-73
A role for LEDGF/p75 in targeting HIV DNA integration.
Ciuffi A, Llano M, Poeschla E, Hoffmann C, Leipzig J, Shinn P, Ecker JR, Bushman F
Nat Med. 2005 Dec;11(12):1287-9
Genome-wide analysis of retroviral DNA integration.
Bushman F, Lewinski M, Ciuffi A, Barr S, Leipzig J, Hannenhalli S, Hoffmann C
Nat Rev Microbiol. 2005 Nov;3(11):848-58
CHUV
Rue du Bugnon 48
CH-1011 Lausanne, Suisse
+41 21 314 4056
CHUV
Rue du Bugnon 48
CH-1011 Lausanne, Suisse
+41 21 314 4056