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

+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

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

C. W. Thorball; T. Oudot-Mellakh; N. Ehsan; C. Hammer; F. A. Santoni et al.

Haematologica. 2021-08-01. DOI : 10.3324/haematol.2020.247023.

Jacques Fellay

Associate Professor

Fields of expertise

Mission

Biography

Publications

Infoscience publications

Infoscience

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

HIV-1 and human genetic variation

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

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

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

Associations between usual diet and gut microbiota composition: results from the Milieu Interieur cross-sectional study

Human genomics of acute liver failure due to hepatitis B virus infection: An exome sequencing study in liver transplant recipients

Blacklisting variants common in private cohorts but not in public databases optimizes human exome analysis

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

A viral vector based in vivo model of tauopathy to explore therapeutic strategies against tau pathology

Exploring on Protein-DNA interactions

HIV-1 Vpu is a potent transcriptional suppressor of NF-κB-elicited antiviral immune responses

Virucidal nanomaterials against influenza

Interferon lambda 3/4 polymorphisms are associated with AIDS-related Kaposi's sarcoma

Human genetic variants and age are the strongest predictors of humoral immune responses to common pathogens and vaccines

Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver

Killer cell immunoglobulin–like receptor 3DL1 variation modifies HLA-B*57 protection against HIV-1

Natural variation in the parameters of innate immune cells is preferentially driven by genetic factors

Detection of novel astroviruses MLB1 and MLB2 in the sera of febrile Tanzanian children

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

Elevated HLA-A expression impairs HIV control through inhibition of NKG2A-expressing cells

Visual masking deficits in schizophrenia: A view into the genetics of the disease through an endophenotype

Genetic determinants of healthy human immune variance: from humoral response to microbiome diversity

Correcting for Population Stratification Reduces False Positive and False Negative Results in Joint Analyses of Host and Pathogen Genomes

Computational and Statistical analyses of Molecular Evolution and Demography using Large-scale Sequencing Data

Genomics: a Swiss army knife to fight leprosy

On Secure Cloud Computing for Genomic Data: From Storage to Analysis

Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4 T Cell Decline and Per-Parasite Pathogenicity

Differential immunodominance hierarchy of CD8 T cell responses in HLA-B*27:05 and B*27:02-mediated control of HIV-1 infection

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

HLA-B*14:02-Restricted Env-Specific CD8 T-Cell Activity Has Highly Potent Antiviral Efficacy Associated with Immune Control of HIV Infection

Evaluating the Impact of Functional Genetic Variation on HIV-1 Control

Distinctive roles of age, sex, and genetics in shaping transcriptional variation of human immune responses to microbial challenges

Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe

Severe viral respiratory infections in children with IFIH1 loss-of-function mutations

SQC: Secure Quality Control for Meta-Analysis of Genome-Wide Association Studies

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