Jacques Fellay
EPFL SV GHI UPFELLAY
AAB 2 40 (Bâtiment AAB)
Station 19
1015 Lausanne
+41 21 693 18 49
+41 21 693 72 32
Local:
AAB 2 40
EPFL
>
SV
>
GHI
>
UPFELLAY
Web site: Site web: https://fellay-lab.epfl.ch
Domaines de compétences
Génomique humaine des maladies infectieuses - Immunogénétique - Interactions virus-hôte - Génomique translationnelle - Santé personnalisée
Publications
Publications Infoscience
Infoscience
Joint host-pathogen genomic analysis identifies hepatitis B virus mutations associated with human NTCP and HLA class I variation
American Journal Of Human Genetics. 2024-06-06. DOI : 10.1016/j.ajhg.2024.04.013.Diagnostic accuracy of a sequence-specific Mtb-DNA hybridization assay in urine: a case-control study including subclinical TB cases
Microbiology Spectrum. 2024-05-08. DOI : 10.1128/spectrum.00426-24.Bacterial diversity dominates variable macrophage responses of tuberculosis patients in Tanzania
Scientific Reports. 2024-04-23. DOI : 10.1038/s41598-024-60001-0.A common NFKB1 variant detected through antibody analysis in UK Biobank predicts risk of infection and allergy
American Journal Of Human Genetics. 2024-02-01. DOI : 10.1016/j.ajhg.2023.12.013.Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19 (vol 15, 22, 2023)
Genome Medicine. 2024-01-06. DOI : 10.1186/s13073-023-01278-0.Prevalence of actionable pharmacogenetic variants in a Swiss hospital cohort
2024-01-01. 56th Annual Conference of the European-Society-of-Human-Genetics (ESHG), Glasgow, SCOTLAND, JUN 10-13, 2023. p. 700-700.Inborn errors of type I interferon immunity in patients with severe acute hepatitis E
2024-01-01. 56th Annual Conference of the European-Society-of-Human-Genetics (ESHG), Glasgow, SCOTLAND, JUN 10-13, 2023. p. 451-451.Prevalence of clonal hematopoiesis in people living with HIV
2024-01-01. 56th Annual Conference of the European-Society-of-Human-Genetics (ESHG), Glasgow, SCOTLAND, JUN 10-13, 2023. p. 443-444.The impact of human genetics on Mycobacterium tuberculosis intra-host evolution
2024-01-01. 56th Annual Conference of the European-Society-of-Human-Genetics (ESHG), Glasgow, SCOTLAND, JUN 10-13, 2023. p. 346-346.The HLA-B*57:01 allele corresponds to a very large MHC haploblock likely explaining its massive effect for HIV-1 elite control
Frontiers In Immunology. 2023-12-11. DOI : 10.3389/fimmu.2023.1305856.Inborn errors of type I interferon immunity in patients with symptomatic acute hepatitis E
Hepatology. 2023-12-08. DOI : 10.1097/HEP.0000000000000701.Predicting type 2 diabetes risk before and after solid organ transplantation using polygenic scores in a Danish cohort
Frontiers In Molecular Biosciences. 2023-12-07. DOI : 10.3389/fmolb.2023.1282412.Cytokine-armed dendritic cell progenitors for antigen-agnostic cancer immunotherapy
Nature Cancer. 2023-11-23. DOI : 10.1038/s43018-023-00668-y.Autoantibodies against type I IFNs in humans with alternative NF-κB pathway deficiency
Nature. 2023-11-08. DOI : 10.1038/s41586-023-06717-x.Inborn Errors of Type I Interferon Immunity in Patients with Severe Acute Hepatitis E
2023-09-11. p. 14S-14S.Africa-specific human genetic variation near CHD1L associates with HIV-1 load
Nature. 2023-08-02. DOI : 10.1038/s41586-023-06370-4.Variation in African genomes linked to control of HIV
Nature. 2023-08-02. DOI : 10.1038/d41586-023-02277-2.A metagenome-wide association study of HIV disease progression in HIV controllers
Iscience. 2023-07-21. DOI : 10.1016/j.isci.2023.107214.Autoantibodies neutralizing type I IFNs underlie West Nile virus encephalitis in & SIM;40% of patients
Journal Of Experimental Medicine. 2023-06-22. DOI : 10.1084/jem.20230661.Multiancestry sex-stratified genomic associations with HIV viral load and controller status from the ICGH
Jci Insight. 2023-06-08. DOI : 10.1172/jci.insight.170068.Association of a Polygenic Risk Score With Osteoporosis in People Living With HIV: The Swiss HIV Cohort Study
Journal Of Infectious Diseases. 2023-05-24. DOI : 10.1093/infdis/jiad179.A polygenic risk score to predict sudden cardiac arrest in patients with cardiovascular disease
2023-05-11. 55th European-Society-of-Human-Genetics (ESHG) Conference, Vienna, AUSTRIA, JUN 11-14, 2022. p. 691-691.Host genomic susceptibility to severe respiratory syncytial virus infection
2023-05-11. 55th European-Society-of-Human-Genetics (ESHG) Conference, Vienna, AUSTRIA, JUN 11-14, 2022. p. 163-164.A polygenic risk score improves the prediction of cardiovascular risk associated with obstructive sleep-apnoea
2023-05-11. 55th European-Society-of-Human-Genetics (ESHG) Conference, Vienna, AUSTRIA, JUN 11-14, 2022. p. 145-146.Secondary structure of the human mitochondrial genome affects formation of deletions
Bmc Biology. 2023-05-08. DOI : 10.1186/s12915-023-01606-1.Viral Genetic Determinants of Prolonged Respiratory Syncytial Virus Infection Among Infants in a Healthy Term Birth Cohort
Journal Of Infectious Diseases. 2023-05-01. DOI : 10.1093/infdis/jiac442.Epigenetic ageing accelerates before antiretroviral therapy and decelerates after viral suppression in people with HIV in Switzerland: a longitudinal study over 17 years
Lancet Healthy Longevity. 2023-05-01. DOI : 10.1016/S2666-7568(23)00037-5.Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19
Genome Medicine. 2023-04-05. DOI : 10.1186/s13073-023-01173-8.Back-to-Africa introductions of Mycobacterium tuberculosis as the main cause of tuberculosis in Dar es Salaam, Tanzania
Plos Pathogens. 2023-04-01. DOI : 10.1371/journal.ppat.1010893.Associations of genetic and infectious risk factors with coronary heart disease
Elife. 2023-02-14. DOI : 10.7554/eLife.79742.Leukocyte Count and Coronary Artery Disease Events in People With Human Immunodeficiency Virus: A Longitudinal Study
Clinical Infectious Diseases. 2023-01-23. DOI : 10.1093/cid/ciad033.Combining European and US risk prediction models with polygenic risk scores to refine cardiovascular prevention: the CoLaus|PsyCoLaus Study
European Journal Of Preventive Cardiology. 2023-01-18. DOI : 10.1093/eurjpc/zwad012.Multivalent Virucidal Antivirals: Synthesis, Mechanisms of Action, and Immune-stimulating Effects
Lausanne, EPFL, 2023. DOI : 10.5075/epfl-thesis-10366.Genetic features and genomic targets of human KRAB-zinc finger proteins
Genome Research. 2023. DOI : 10.1101/gr.277722.123.Host-Pathogen Interactions Through the Genomic Lens
Lausanne, EPFL, 2023. DOI : 10.5075/epfl-thesis-10351.Visual masking deficits in schizophrenia: a view into the genetics of the disease through an endophenotype
Translational Psychiatry. 2022-12-31. DOI : 10.1038/s41398-022-02275-4.Variability of Primary Sjogren's Syndrome Is Driven by Interferon alpha and Interferon alpha Blood Levels Are Associated With the Class II HLA-DQ Locus
Arthritis & Rheumatology. 2022-11-02. DOI : 10.1002/art.42265.The combined impact of persistent infections and human genetic variation on C-reactive protein levels
Bmc Medicine. 2022-11-01. DOI : 10.1186/s12916-022-02607-7.A mitochondria-specific mutational signature of aging: increased rate of A > G substitutions on the heavy strand
Nucleic Acids Research. 2022-09-21. DOI : 10.1093/nar/gkac779.Polygenic Risk Scores for Prediction of Subclinical Coronary Artery Disease in Persons Living With HIV: The Swiss HIV Cohort Study
Clinical Infectious Diseases. 2022-09-13. DOI : 10.1093/cid/ciac758.A Phylogeny-aware GWAS Framework to Correct for Heritable Pathogen Effects on Infectious Disease Traits
Molecular Biology And Evolution. 2022-08-03. DOI : 10.1093/molbev/msac163.A Baseline Cellular Antiviral State Is Maintained by cGAS and Its Most Frequent Naturally Occurring Variant rs610913
Journal Of Immunology. 2022-08-01. DOI : 10.4049/jimmunol.2100685.Improving polygenic prediction with genetically inferred ancestry
Human Genetics And Genomics Advances. 2022-07-14. DOI : 10.1016/j.xhgg.2022.100109.Host genomics of SARS-CoV-2 infection
European Journal Of Human Genetics. 2022-06-30. DOI : 10.1038/s41431-022-01136-4.The risk of COVID-19 death is much greater and age dependent with type I IFN autoantibodies
Proceedings Of The National Academy Of Sciences Of The United States Of America. 2022-05-24. DOI : 10.1073/pnas.2200413119.Identifying and Characterizing Trans Women in the Swiss HIV Cohort Study as an Epidemiologically Distinct Risk Group (vol 74, pg 1468, 2022)
Clinical Infectious Diseases. 2022-04-27. DOI : 10.1093/cid/ciac242.CD38 Expression by Antigen-Specific CD4 T Cells Is Significantly Restored 5 Months After Treatment Initiation Independently of Sputum Bacterial Load at the Time of Tuberculosis Diagnosis
Frontiers In Medicine. 2022-04-15. DOI : 10.3389/fmed.2022.821776.Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load
Virus Evolution. 2022-04-07. DOI : 10.1093/ve/veac022.A polygenic risk score to predict sudden cardiac arrest in patients with cardiovascular disease
2022-04-01. 50th European Mathematical Genetics Meeting (EMGM), Univ Cambridge, MRC Biostatist Unit, Cambridge, ENGLAND, April 21-22, 2022. p. 28-28.Risk of mitochondrial deletions is affected by the global secondary structure of the mitochondrial genome
2022-04-01. p. 438-439.Increased CHIP prevalence amongst people living with HIV
2022-04-01. p. 75-75.A billion-year trend of amino acid substitutions in the mitochondrial genome
2022-04-01. p. 535-535.Mitochondrial mutational spectrum in human cancers is sensitive to cellular hypoxia
2022-04-01. p. 413-414.A highly virulent variant of HIV-1 circulating in the Netherlands
Science. 2022-02-04. DOI : 10.1126/science.abk1688.Increased prevalence of clonal hematopoiesis of indeterminate potential amongst people living with HIV
Scientific Reports. 2022-01-12. DOI : 10.1038/s41598-021-04308-2.Using population-specific add-on polymorphisms to improve genotype imputation in underrepresented populations
Plos Computational Biology. 2022-01-01. DOI : 10.1371/journal.pcbi.1009628.The interplay between human genetic variation, chronic inflammation and persistent infection: relevance for cardiovascular morbidity
Lausanne, EPFL, 2022. DOI : 10.5075/epfl-thesis-9518.Identifying and Characterizing Trans Women in the Swiss HIV Cohort Study as an Epidemiologically Distinct Risk Group
Clinical Infectious Diseases. 2022. DOI : 10.1093/cid/ciab628.A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection
Nature Immunology. 2022. DOI : 10.1038/s41590-021-01030-z.Telomere Length Declines in Persons With Human Immunodeficiency Virus Before Antiretroviral Therapy Start but Not After Viral Suppression: A Longitudinal Study Over >17 Years
Journal Of Infectious Diseases. 2021-12-16. DOI : 10.1093/infdis/jiab603.Human genomics of the humoral immune response against polyomaviruses
Virus Evolution. 2021-12-01. DOI : 10.1093/ve/veab058.Coronary Artery Disease-Associated and Longevity-Associated Polygenic Risk Scores for Prediction of Coronary Artery Disease Events in Persons Living With Human Immunodeficiency Virus: The Swiss HIV Cohort Study
Clinical Infectious Diseases. 2021-11-01. DOI : 10.1093/cid/ciab521.Viral genome wide association study identifies novel hepatitis C virus polymorphisms associated with sofosbuvir treatment failure
Nature Communications. 2021-10-20. DOI : 10.1038/s41467-021-25649-6.Truly privacy-preserving federated analytics for precision medicine with multiparty homomorphic encryption
Nature Communications. 2021-10-11. DOI : 10.1038/s41467-021-25972-y.A high-resolution HLA reference panel capturing global population diversity enables multi-ancestry fine-mapping in HIV host response
Nature Genetics. 2021-10-01. DOI : 10.1038/s41588-021-00935-7.Immunological lessons from genome-wide association studies of infections
Current Opinion In Immunology. 2021-10-01. DOI : 10.1016/j.coi.2021.03.017.Autoantibodies neutralizing type I IFNs are present in similar to 4% of uninfected individuals over 70 years old and account for similar to 20% of COVID-19 deaths
Science Immunology. 2021-08-01. DOI : 10.1126/sciimmunol.abl4340.Genetic variation near CXCL12 is associated with susceptibility to HIV-related non-Hodgkin lymphoma
Haematologica. 2021-08-01. DOI : 10.3324/haematol.2020.247023.HIV-1 and human genetic variation
Nature Reviews Genetics. 2021-06-24. DOI : 10.1038/s41576-021-00378-0.Rapid Progression of Kidney Dysfunction in People Living With HIV: Use of Polygenic and Data Collection on Adverse Events of Anti-HIV Drugs (D:A:D) Risk Scores
Journal Of Infectious Diseases. 2021-06-15. DOI : 10.1093/infdis/jiaa695.Systematic screening of viral and human genetic variation identifies antiretroviral resistance and immune escape link
Elife. 2021-06-01. DOI : 10.7554/eLife.67388.Revolutionizing Medical Data Sharing Using Advanced Privacy-Enhancing Technologies: Technical, Legal, and Ethical Synthesis
Journal Of Medical Internet Research. 2021-02-25. DOI : 10.2196/25120.The influence of human genetic variation on Epstein–Barr virus sequence diversity
Scientific Reports. 2021-02-25. DOI : 10.1038/s41598-021-84070-7.Blood virosphere in febrile Tanzanian children
Emerging Microbes & Infections. 2021-01-01. DOI : 10.1080/22221751.2021.1925161.The genetic architecture of complex human traits at the dawn of genomic medicine
Lausanne, EPFL, 2021. DOI : 10.5075/epfl-thesis-8464.Dissemination of Mycobacterium tuberculosis is associated to a SIGLEC1 null variant that limits antigen exchange via trafficking extracellular vesicles
Journal Of Extracellular Vesicles. 2021-01-01. DOI : 10.1002/jev2.12046.On the use of applied machine learning and digital infrastructure to leverage social media data in health and epidemiology
Lausanne, EPFL, 2021. DOI : 10.5075/epfl-thesis-8283.Genome-to-genome analysis identifies an Asian-specific variant in the gene encoding NTCP that leads to specific HBV escape mutations during chronic infection
2020-12-01. p. 316-317.Human genomics of the humoral response against polyomaviruses
2020-12-01. p. 312-313.An indel in the promoter region of NFKB1 confers protection against infection but increases risk of allergy
2020-12-01. p. 311-312.Using reference-fixed principal components to improve polygenic risk score prediction
2020-12-01. p. 134-135.Host Genomics of the HIV-1 Reservoir Size and Its Decay Rate During Suppressive Antiretroviral Treatment
Jaids-Journal Of Acquired Immune Deficiency Syndromes. 2020-12-01. DOI : 10.1097/QAI.0000000000002473.Whole-exome Sequencing for the Identification of Rare Variants in Primary Immunodeficiency Genes in Children With Sepsis: A Prospective, Population-based Cohort Study
Clinical Infectious Diseases. 2020-11-15. DOI : 10.1093/cid/ciaa290.HLA tapasin independence: broader peptide repertoire and HIV control
Proceedings Of The National Academy Of Sciences Of The United States Of America. 2020-11-10. DOI : 10.1073/pnas.2013554117.Heritability of the HIV-1 reservoir size and decay under long-term suppressive ART
Nature Communications. 2020-11-02. DOI : 10.1038/s41467-020-19198-7.Virosaurus A Reference to Explore and Capture Virus Genetic Diversity
Viruses-Basel. 2020-11-01. DOI : 10.3390/v12111248.Inborn errors of type I IFN immunity in patients with life-threatening COVID-19
Science. 2020-10-23. DOI : 10.1126/science.abd4570.Designing a Tanzanian Specific SNP Array Add-On to Capture Population-Specific Genetic Variations and to Improve Genotype Imputation
2020-07-01. 48th European Mathematical Genetics Meeting (EMGM), Lausanne, SWITZERLAND, Apr 16-17, 2020. p. 227-227. DOI : 10.1159/000507248.Susceptibility to infection in early life: a growing role for human genetics
Human Genetics. 2020-06-01. DOI : 10.1007/s00439-019-02109-2.Exploring the interactions between the human and viral genomes
Human Genetics. 2020-06-01. DOI : 10.1007/s00439-019-02089-3.Assessing the impact of non-pharmaceutical interventions on SARS-CoV-2 transmission in Switzerland
Swiss Medical Weekly. 2020-05-30. DOI : 10.4414/smw.20295.HLA Heterozygote Advantage against HIV-1 Is Driven by Quantitative and Qualitative Differences in HLA Allele-Specific Peptide Presentation
Molecular Biology And Evolution. 2020-03-01. DOI : 10.1093/molbev/msz249.Contribution of Genetic Background and Data Collection on Adverse Events of Anti-human Immunodeficiency Virus (HIV) Drugs (D:A:D) Clinical Risk Score to Chronic Kidney Disease in Swiss HIV-infected Persons With Normal Baseline Estimated Glomerular Filtration Rate
Clinical Infectious Diseases. 2020-03-01. DOI : 10.1093/cid/ciz280.SPHN/PHRT - MedCo in Action: Empowering the Swiss Molecular Tumor Board with Privacy-Preserving and Real-Time Patient Discovery
2020-01-01. 30th Medical Informatics Europe (MIE) Conference, Geneva, SWITZERLAND, Apr, 2020. p. 1161-1162. DOI : 10.3233/SHTI200345.GenoShare: Supporting Privacy-Informed Decisions for Sharing Individual-Level Genetic Data
2020-01-01. 30th Medical Informatics Europe (MIE) Conference, Geneva, SWITZERLAND, Apr, 2020. p. 238-241. DOI : 10.3233/SHTI200158.Data protection and ethics requirements for multisite research with health data: a comparative examination of legislative governance frameworks and the role of data protection technologies
Journal Of Law And The Biosciences. 2020-01-01. DOI : 10.1093/jlb/lsaa010.Contact networks across ages: computational analysis of epidemiological dynamics
Lausanne, EPFL, 2020. DOI : 10.5075/epfl-thesis-7482.Impact of Genetic and Nongenetic Factors on Body Mass Index and Waist-Hip Ratio Change in HIV-Infected Individuals Initiating Antiretroviral Therapy
Open Forum Infectious Diseases. 2020-01-01. DOI : 10.1093/ofid/ofz464.COVID-19 epidemic in Switzerland: on the importance of testing, contact tracing and isolation
Swiss Medical Weekly. 2020-03-19. DOI : 10.4414/smw.2020.20225.HIV host genomics in the era of effective antiretroviral therapy
Lausanne, EPFL, 2020. DOI : 10.5075/epfl-thesis-10132.Enseignement & Phd
Enseignement
Life Sciences Engineering