Publications by authors named "Jacques Fellay"

100Publications

[Pharmacogenomics : a toolbox to improve drug prescription].

Rev Med Suisse 2020 Nov;16(716):2259-2263

Service de médecine interne, Département de médecine, CHUV, 1011 Lausanne.

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November 2020

Virosaurus A Reference to Explore and Capture Virus Genetic Diversity.

Viruses 2020 Nov 1;12(11). Epub 2020 Nov 1.

Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, 1011 Geneva, Switzerland.

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http://dx.doi.org/10.3390/v12111248DOI Listing
November 2020

Inborn errors of type I IFN immunity in patients with life-threatening COVID-19.

Authors:
Qian Zhang Paul Bastard Zhiyong Liu Jérémie Le Pen Marcela Moncada-Velez Jie Chen Masato Ogishi Ira K D Sabli Stephanie Hodeib Cecilia Korol Jérémie Rosain Kaya Bilguvar Junqiang Ye Alexandre Bolze Benedetta Bigio Rui Yang Andrés Augusto Arias Qinhua Zhou Yu Zhang Fanny Onodi Sarantis Korniotis Léa Karpf Quentin Philippot Marwa Chbihi Lucie Bonnet-Madin Karim Dorgham Nikaïa Smith William M Schneider Brandon S Razooky Hans-Heinrich Hoffmann Eleftherios Michailidis Leen Moens Ji Eun Han Lazaro Lorenzo Lucy Bizien Philip Meade Anna-Lena Neehus Aileen Camille Ugurbil Aurélien Corneau Gaspard Kerner Peng Zhang Franck Rapaport Yoann Seeleuthner Jeremy Manry Cecile Masson Yohann Schmitt Agatha Schlüter Tom Le Voyer Taushif Khan Juan Li Jacques Fellay Lucie Roussel Mohammad Shahrooei Mohammed F Alosaimi Davood Mansouri Haya Al-Saud Fahd Al-Mulla Feras Almourfi Saleh Zaid Al-Muhsen Fahad Alsohime Saeed Al Turki Rana Hasanato Diederik van de Beek Andrea Biondi Laura Rachele Bettini Mariella D'Angio' Paolo Bonfanti Luisa Imberti Alessandra Sottini Simone Paghera Eugenia Quiros-Roldan Camillo Rossi Andrew J Oler Miranda F Tompkins Camille Alba Isabelle Vandernoot Jean-Christophe Goffard Guillaume Smits Isabelle Migeotte Filomeen Haerynck Pere Soler-Palacin Andrea Martin-Nalda Roger Colobran Pierre-Emmanuel Morange Sevgi Keles Fatma Çölkesen Tayfun Ozcelik Kadriye Kart Yasar Sevtap Senoglu Şemsi Nur Karabela Carlos Rodríguez-Gallego Giuseppe Novelli Sami Hraiech Yacine Tandjaoui-Lambiotte Xavier Duval Cédric Laouénan Andrew L Snow Clifton L Dalgard Joshua D Milner Donald C Vinh Trine H Mogensen Nico Marr András N Spaan Bertrand Boisson Stéphanie Boisson-Dupuis Jacinta Bustamante Anne Puel Michael J Ciancanelli Isabelle Meyts Tom Maniatis Vassili Soumelis Ali Amara Michel Nussenzweig Adolfo García-Sastre Florian Krammer Aurora Pujol Darragh Duffy Richard P Lifton Shen-Ying Zhang Guy Gorochov Vivien Béziat Emmanuelle Jouanguy Vanessa Sancho-Shimizu Charles M Rice Laurent Abel Luigi D Notarangelo Aurélie Cobat Helen C Su Jean-Laurent Casanova

Science 2020 10 24;370(6515). Epub 2020 Sep 24.

St. Giles Laboratory of Human Genetics of Infectious Diseases, Rockefeller Branch, The Rockefeller University, New York, NY, USA.

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http://dx.doi.org/10.1126/science.abd4570DOI Listing
October 2020

[Precision medicine : at the crossroad of molecular biology, information sciences and humanities].

Rev Med Suisse 2020 Sep;16(704):1574-1578

Unité de médecine de précision, CHUV, 1011 Lausanne.

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September 2020

Assessing the impact of non-pharmaceutical interventions on SARS-CoV-2 transmission in Switzerland.

Swiss Med Wkly 2020 05 30;150:w20295. Epub 2020 May 30.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Switzerland / Precision Medicine Unit, Lausanne University Hospital and University of Lausanne, Switzerland.

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http://dx.doi.org/10.4414/smw.2020.20295DOI Listing
May 2020

Susceptibility to infection in early life: a growing role for human genetics.

Hum Genet 2020 Jun 13;139(6-7):733-743. Epub 2020 Jan 13.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1007/s00439-019-02109-2DOI Listing
June 2020

Exploring the interactions between the human and viral genomes.

Hum Genet 2020 Jun 15;139(6-7):777-781. Epub 2019 Nov 15.

French National Center for Scientific Research (CNRS), Laboratory MIVEGEC (CNRS, IRD, UM), Montpellier, France.

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http://dx.doi.org/10.1007/s00439-019-02089-3DOI Listing
June 2020

HLA Heterozygote Advantage against HIV-1 Is Driven by Quantitative and Qualitative Differences in HLA Allele-Specific Peptide Presentation.

Mol Biol Evol 2020 03;37(3):639-650

Research Group for Evolutionary Immunogenomics, Max Planck Institute for Evolutionary Biology, Plön, Germany.

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http://dx.doi.org/10.1093/molbev/msz249DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7038656PMC
March 2020

Predicting the Occurrence of Variants in RAG1 and RAG2.

J Clin Immunol 2019 10 6;39(7):688-701. Epub 2019 Aug 6.

Department of Clinical Immunology and Allergy, St James's University Hospital, Beckett Street, Leeds, UK.

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http://dx.doi.org/10.1007/s10875-019-00670-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6754361PMC
October 2019

Effect of Fc Receptor Genetic Diversity on HIV-1 Disease Pathogenesis.

Front Immunol 2019 9;10:970. Epub 2019 May 9.

U. S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, MD, United States.

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http://dx.doi.org/10.3389/fimmu.2019.00970DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6520634PMC
September 2020

HIV peptidome-wide association study reveals patient-specific epitope repertoires associated with HIV control.

Proc Natl Acad Sci U S A 2019 01 2;116(3):944-949. Epub 2019 Jan 2.

Research Group for Evolutionary Immunogenomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany;

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http://www.pnas.org/lookup/doi/10.1073/pnas.1812548116
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http://dx.doi.org/10.1073/pnas.1812548116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6338868PMC
January 2019

Are privacy-enhancing technologies for genomic data ready for the clinic? A survey of medical experts of the Swiss HIV Cohort Study.

J Biomed Inform 2018 03 10;79:1-6. Epub 2018 Jan 10.

School of Computer Communications Sciences, École Polytechnique Fédérale de Lausanne, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.jbi.2017.12.013DOI Listing
March 2018

Genetics of human susceptibility to active and latent tuberculosis: present knowledge and future perspectives.

Lancet Infect Dis 2018 03 27;18(3):e64-e75. Epub 2017 Oct 27.

Center for Tuberculosis Research, Department of Medicine Division of Infectious Diseases, Johns Hopkins School of Medicine, Baltimore, MD, USA. Electronic address:

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http://dx.doi.org/10.1016/S1473-3099(17)30623-0DOI Listing
March 2018

[Genomic medicine : the challenges of information in clinical practice].

Rev Med Suisse 2016 Nov;12(537):1838-1844

PMU, Université de Lausanne, 1011 Lausanne.

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November 2016

SQC: secure quality control for meta-analysis of genome-wide association studies.

Bioinformatics 2017 Aug;33(15):2273-2280

School of Computer and Communication Sciences, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1093/bioinformatics/btx193DOI Listing
August 2017

Neonatal Group B Streptococcal Disease in Otherwise Healthy Infants: Failure of Specific Neonatal Immune Responses.

Front Immunol 2017 7;8:215. Epub 2017 Mar 7.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://dx.doi.org/10.3389/fimmu.2017.00215DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5339282PMC
March 2017

Estimating the Respective Contributions of Human and Viral Genetic Variation to HIV Control.

PLoS Comput Biol 2017 02 9;13(2):e1005339. Epub 2017 Feb 9.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pcbi.1005339DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5300119PMC
February 2017

Corrigendum: Exome Sequencing Reveals Primary Immunodeficiencies in Children with Community-Acquired Sepsis.

Front Immunol 2016 27;7:447. Epub 2016 Oct 27.

Lady Cilento Children's Hospital, Brisbane, QLD, Australia; Department of Pediatrics, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland; Paediatric Critical Care Research Group (PCCRG), Mater Research, University of Queensland, Brisbane, QLD, Australia.

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http://dx.doi.org/10.3389/fimmu.2016.00447DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5081341PMC
October 2016

A privacy-preserving solution for compressed storage and selective retrieval of genomic data.

Genome Res 2016 12 27;26(12):1687-1696. Epub 2016 Oct 27.

School of Computer and Communication Sciences, École Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1101/gr.206870.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5131820PMC
December 2016

Familial segregation of group B streptococcal infection in a consanguineous kindred.

Int J Infect Dis 2016 Oct 25;51:22-24. Epub 2016 Aug 25.

Neonatal Intensive Care Unit, San Matteo Hospital, Pavia, Italy; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland; School of Life Sciences, Global Health Institute, Laboratory of Professor Jacques Fellay, École Polytechnique Fédérale de Lausanne, Station 19, CH-1015 Lausanne, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.ijid.2016.08.010DOI Listing
October 2016

Exome Sequencing Reveals Primary Immunodeficiencies in Children with Community-Acquired Sepsis.

Front Immunol 2016 20;7:357. Epub 2016 Sep 20.

Lady Cilento Children's Hospital, Brisbane, QLD, Australia; Department of Pediatrics, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland; Paediatric Critical Care Research Group (PCCRG), Mater Research, University of Queensland, Brisbane, QLD, Australia.

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http://dx.doi.org/10.3389/fimmu.2016.00357DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5028722PMC
September 2016

Role of APOBEC3F Gene Variation in HIV-1 Disease Progression and Pneumocystis Pneumonia.

PLoS Genet 2016 Mar 4;12(3):e1005921. Epub 2016 Mar 4.

Basic Research Laboratory, Center for Cancer Research, National Cancer Institute, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, Maryland, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1005921DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4778847PMC
March 2016

Amino Acid Variation in HLA Class II Proteins Is a Major Determinant of Humoral Response to Common Viruses.

Am J Hum Genet 2015 Nov 8;97(5):738-43. Epub 2015 Oct 8.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland; Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1016/j.ajhg.2015.09.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4667104PMC
November 2015

Adaptation on a genomic scale.

Elife 2015 Feb 3;4:e06193. Epub 2015 Feb 3.

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland and Host-pathogen genomics group, Swiss Institute of Bioinformatics, Lausanne, Switzerland,

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http://dx.doi.org/10.7554/eLife.06193DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4337601PMC
February 2015

Human genetic variation in HIV disease: beyond genome-wide association studies.

Curr Opin HIV AIDS 2015 Mar;10(2):110-5

School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1097/COH.0000000000000133DOI Listing
March 2015

Disentangling human tolerance and resistance against HIV.

PLoS Biol 2014 Sep 16;12(9):e1001951. Epub 2014 Sep 16.

Global Health Institute, EPF Lausanne, Lausanne, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pbio.1001951DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165755PMC
September 2014

Analysis of stop-gain and frameshift variants in human innate immunity genes.

PLoS Comput Biol 2014 Jul 24;10(7):e1003757. Epub 2014 Jul 24.

Department of Laboratories, University Hospital of Lausanne, Lausanne, Switzerland; University of Lausanne, Lausanne, Switzerland.

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https://dx.plos.org/10.1371/journal.pcbi.1003757
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http://dx.doi.org/10.1371/journal.pcbi.1003757DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4110073PMC
July 2014

Dynamics of HIV latency and reactivation in a primary CD4+ T cell model.

PLoS Pathog 2014 May 29;10(5):e1004156. Epub 2014 May 29.

Institute of Microbiology, Centre Hospitalier Universitaire Vaudois, Lausanne, Switzerland; University of Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.ppat.1004156DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4038609PMC
May 2014

[Genomic medicine and infectious diseases].

Authors:
Jacques Fellay

Praxis (Bern 1994) 2014 May;103(10):587-90

Faculté des Sciences de la Vie, EPFL, Service des Maladies Infectieuses, CHUV, Institut Suisse de Bioinformatique, Lausanne.

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http://dx.doi.org/10.1024/1661-8157/a001658DOI Listing
May 2014

HLA class I and KIR genes do not protect against HIV type 1 infection in highly exposed uninfected individuals with hemophilia A.

J Infect Dis 2014 Oct 8;210(7):1047-51. Epub 2014 Apr 8.

Cancer and Inflammation Program, Laboratory of Experimental Immunology, Leidos Biomedical Research, Frederick National Laboratory for Cancer Research, Maryland Ragon Institute of MGH, MIT, and Harvard, Cambridge, Massachusetts.

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http://dx.doi.org/10.1093/infdis/jiu214DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4215081PMC
October 2014

GuavaH: a compendium of host genomic data in HIV biology and disease.

Retrovirology 2014 Jan 15;11. Epub 2014 Jan 15.

Institute of Microbiology, University Hospital Lausanne, Lausanne, Switzerland.

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http://retrovirology.biomedcentral.com/articles/10.1186/1742
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http://dx.doi.org/10.1186/1742-4690-11-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3937115PMC
January 2014

Genetic interplay between HLA-C and MIR148A in HIV control and Crohn disease.

Proc Natl Acad Sci U S A 2013 Dec 18;110(51):20705-10. Epub 2013 Nov 18.

Cancer and Inflammation Program, Laboratory of Experimental Immunology and Basic Research Program, Center for Cancer Research Genetics Core, Science Applications International Corporation-Frederick, Inc., Frederick National Laboratory for Cancer Research, Frederick, MD 21702.

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http://dx.doi.org/10.1073/pnas.1312237110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3870724PMC
December 2013

A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control.

Elife 2013 Oct 29;2:e01123. Epub 2013 Oct 29.

School of Life Sciences , École Polytechnique Fédérale de Lausanne , Lausanne , Switzerland ; Institute of Microbiology , University Hospital and University of Lausanne , Lausanne , Switzerland ; Research Group of Theoretical Biology and Evolutionary Ecology , Eötvös Loránd University and the Hungarian Academy of Sciences , Budapest , Hungary ; Swiss Institute of Bioinformatics , Lausanne , Switzerland.

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http://dx.doi.org/10.7554/eLife.01123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807812PMC
October 2013

Contribution of genetic background, traditional risk factors, and HIV-related factors to coronary artery disease events in HIV-positive persons.

Clin Infect Dis 2013 Jul 26;57(1):112-21. Epub 2013 Mar 26.

Institute of Microbiology, University Hospital Center, University of Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1093/cid/cit196DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3669528PMC
July 2013

European genetic diversity and susceptibility to pathogens.

Hum Hered 2013 21;76(3-4):187-93. Epub 2014 May 21.

Institute of Microbiology, University Hospital Center, University of Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1159/000357758DOI Listing
January 2015

Mapping of positive selection sites in the HIV-1 genome in the context of RNA and protein structural constraints.

Retrovirology 2011 Nov 1;8:87. Epub 2011 Nov 1.

Institute of Microbiology, University Hospital Center and University of Lausanne, Lausanne, Switzerland.

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http://retrovirology.biomedcentral.com/articles/10.1186/1742
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http://dx.doi.org/10.1186/1742-4690-8-87DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3229471PMC
November 2011

A polymorphism in the leptin gene promoter is associated with anemia in patients with HIV disease.

Blood 2011 Nov 16;118(20):5401-8. Epub 2011 Sep 16.

Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, 75 Francis Street, Boston, MA 02115, USA.

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http://dx.doi.org/10.1182/blood-2011-06-362194DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3217345PMC
November 2011