Jacques Fellay

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Associate Professor

jacques.fellay@epfl.ch +41 21 693 18 49 http://fellay-lab.epfl.ch

https://orcid.org/0000-0002-8240-939X

EPFL SV GHI GR-FE
SV 3824 (Bâtiment SV)
Station 19
CH-1015 Lausanne

+41 21 693 18 49
+41 21 693 72 32
Office: SV 3824
EPFL > SV > GHI > GR-FE

Web site: Web site: https://fellay-lab.epfl.ch

EPFL Comité Campus Genève
Campus Biotech B1
Chemin des Mines 9
CH-1202 Genève

+41 21 693 18 49
EPFL > VPO > VPO-DC > EPFLGE > EPFLGE-CC

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Administrative data

Fields of expertise

Human genomics of infectious diseases - Immunogenetics - Virus-host interactions - Translational genomics - Personalized health

Mission

Human genetic variation plays a key role in determining individual outcomes after exposure to infectious agents. The mission of our laboratory is to contribute to a better understanding of inter-individual differences in response to infections, using a range of contemporary genomic tools. Approaches include genome-wide genotyping and association analysis, exome/genome sequencing and transcriptomics.

Biography

Jacques Fellay is a medical scientist with expertise in infectious diseases and human genomics. He obtained his MD from the University of Lausanne in 2002 and his PhD from University of Utrecht. After a clinical training in infectious diseases in Switzerland and a 4-years postdoctoral fellowship at Duke University, he joined the EPFL in April 2011 with an SNF Professorship. On top of his EPFL affiliation, Jacques is also Head of Precision Medicine at the University Hospital (CHUV) in Lausanne, Group Leader at the Swiss Institute of Bioinformatics, and Co-director of the Health2030 Genome Center at Campus Biotech in Geneva.

Publications

Infoscience publications

Infoscience

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

D. Trutschel; P. Bost; X. Mariette; V. Bondet; A. Llibre et al.

Arthritis & Rheumatology. 2022-11-02. DOI : 10.1002/art.42265.

Jacques Fellay

Associate Professor

Fields of expertise

Mission

Biography

Publications

Infoscience publications

Infoscience

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

The combined impact of persistent infections and human genetic variation on C-reactive protein levels

A mitochondria-specific mutational signature of aging: increased rate of A > G substitutions on the heavy strand

Polygenic Risk Scores for Prediction of Subclinical Coronary Artery Disease in Persons Living With HIV: The Swiss HIV Cohort Study

A Phylogeny-aware GWAS Framework to Correct for Heritable Pathogen Effects on Infectious Disease Traits

A Baseline Cellular Antiviral State Is Maintained by cGAS and Its Most Frequent Naturally Occurring Variant rs610913

Improving polygenic prediction with genetically inferred ancestry

Host genomics of SARS-CoV-2 infection

The risk of COVID-19 death is much greater and age dependent with type I IFN autoantibodies

Identifying and Characterizing Trans Women in the Swiss HIV Cohort Study as an Epidemiologically Distinct Risk Group (vol 74, pg 1468, 2022)

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

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

A polygenic risk score to predict sudden cardiac arrest in patients with cardiovascular disease

Risk of mitochondrial deletions is affected by the global secondary structure of the mitochondrial genome

Increased CHIP prevalence amongst people living with HIV

A billion-year trend of amino acid substitutions in the mitochondrial genome

Mitochondrial mutational spectrum in human cancers is sensitive to cellular hypoxia

A highly virulent variant of HIV-1 circulating in the Netherlands

Increased prevalence of clonal hematopoiesis of indeterminate potential amongst people living with HIV

The interplay between human genetic variation, chronic inflammation and persistent infection: relevance for cardiovascular morbidity

Identifying and Characterizing Trans Women in the Swiss HIV Cohort Study as an Epidemiologically Distinct Risk Group

A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection

Telomere Length Declines in Persons With Human Immunodeficiency Virus Before Antiretroviral Therapy Start but Not After Viral Suppression: A Longitudinal Study Over >17 Years

Human genomics of the humoral immune response against polyomaviruses

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

Viral genome wide association study identifies novel hepatitis C virus polymorphisms associated with sofosbuvir treatment failure

Truly privacy-preserving federated analytics for precision medicine with multiparty homomorphic encryption

A high-resolution HLA reference panel capturing global population diversity enables multi-ancestry fine-mapping in HIV host response

Immunological lessons from genome-wide association studies of infections

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

Genetic variation near CXCL12 is associated with susceptibility to HIV-related non-Hodgkin lymphoma

HIV-1 and human genetic variation

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

Systematic screening of viral and human genetic variation identifies antiretroviral resistance and immune escape link

Revolutionizing Medical Data Sharing Using Advanced Privacy-Enhancing Technologies: Technical, Legal, and Ethical Synthesis

The influence of human genetic variation on Epstein–Barr virus sequence diversity

Blood virosphere in febrile Tanzanian children

The genetic architecture of complex human traits at the dawn of genomic medicine

Dissemination of Mycobacterium tuberculosis is associated to a SIGLEC1 null variant that limits antigen exchange via trafficking extracellular vesicles

Genome-to-genome analysis identifies an Asian-specific variant in the gene encoding NTCP that leads to specific HBV escape mutations during chronic infection

Human genomics of the humoral response against polyomaviruses

An indel in the promoter region of NFKB1 confers protection against infection but increases risk of allergy

Using reference-fixed principal components to improve polygenic risk score prediction

Host Genomics of the HIV-1 Reservoir Size and Its Decay Rate During Suppressive Antiretroviral Treatment

Whole-exome Sequencing for the Identification of Rare Variants in Primary Immunodeficiency Genes in Children With Sepsis: A Prospective, Population-based Cohort Study

HLA tapasin independence: broader peptide repertoire and HIV control

Heritability of the HIV-1 reservoir size and decay under long-term suppressive ART

Virosaurus A Reference to Explore and Capture Virus Genetic Diversity

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

Designing a Tanzanian Specific SNP Array Add-On to Capture Population-Specific Genetic Variations and to Improve Genotype Imputation

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

Exploring the interactions between the human and viral genomes

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

COVID-19 epidemic in Switzerland: on the importance of testing, contact tracing and isolation

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

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

SPHN/PHRT - MedCo in Action: Empowering the Swiss Molecular Tumor Board with Privacy-Preserving and Real-Time Patient Discovery

GenoShare: Supporting Privacy-Informed Decisions for Sharing Individual-Level Genetic Data

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

Contact networks across ages: computational analysis of epidemiological dynamics

Impact of Genetic and Nongenetic Factors on Body Mass Index and Waist-Hip Ratio Change in HIV-Infected Individuals Initiating Antiretroviral Therapy

HIV host genomics in the era of effective antiretroviral therapy

Gender medicine and oncology: report and consensus of an ESMO workshop

Systems Biology in 874 Patients with Primary Sjogren's Syndrome Indicates the Predominant Role of Interferon Alpha Compared to Interferon Gamma, Its Association with Systemic Complications, and a New Aspect of the Genetic Contribution of HLA

Genome-to-genome analysis of Epstein-Barr virus infection

Rare variants in antiviral response genes drive severe viral respiratory infections in children

Human genetic determinants of chronic low-grade inflammation in the general population

Predicting the Occurrence of Variants in RAG1 and RAG2

A comprehensive assessment of demographic, environmental, and host genetic associations with gut microbiome diversity in healthy individuals

Adaptation of hepatitis C virus to interferon lambda polymorphism across multiple viral genotypes

HIV Transmission Chains Exhibit Greater HLA-B Homogeneity Than Randomly Expected

Determinants of HIV-1 reservoir size and long-term dynamics during suppressive ART

Differential immunodominance hierarchy of CD8+ T cell responses in HLA-B27:05 and B27:02-mediated control of HIV-1 infection