Unit
Prof. Fellay Group
LaboratoryRelated publications (1,000)
Joint host-pathogen genomic analysis identifies hepatitis B virus mutations associated with human NTCP and HLA class I variation
Jacques Fellay, Bruno Emanuel Ferreira De Sousa Correia, Zhi Ming Xu, Andreas Scheck, Dylan Lawless, Olivier Noël Marie Naret, Arne Schneuing, David Gfeller, Thomas Junier, Sina Rüeger
Evolutionary changes in the hepatitis B virus (HBV) genome could reflect its adaptation to host -induced selective pressure. Leveraging paired human exome and ultra -deep HBV genome-sequencing data from 567 affected individuals with chronic hepatitis B, we ...
Cell Press2024Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics
Tamar Kohn, Xavier Fernandez Cassi
Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...
2024A common NFKB1 variant detected through antibody analysis in UK Biobank predicts risk of infection and allergy
Jacques Fellay, Flavia Aurelia Shoko Hodel
Infectious agents contribute significantly to the global burden of diseases through both acute infection and their chronic sequelae. We leveraged the UK Biobank to identify genetic loci that influence humoral immune response to multiple infections. From 45 ...
Cambridge2024The dynamic genetic determinants of increased transcriptional divergence in spermatids
Cis-genetic effects are key determinants of transcriptional divergence in discrete tissues and cell types. However, how cis- and trans-effects act across continuous trajectories of cellular differentiation in vivo is poorly understood. Here, we quantify al ...
Berlin2024Alpha1-antitrypsin improves survival in murine abdominal sepsis model by decreasing inflammation and sequestration of free heme
Background Excessive inflammation, hemolysis, and accumulation of labile heme play an essential role in the pathophysiology of multi-organ dysfunction syndrome (MODS) in sepsis. Alpha1-antitrypsin (AAT), an acute phase protein with heme binding capacity, i ...
Frontiers Media Sa2024Single-cell analysis of the interactions between Mycobacterium tuberculosis and macrophages
Mycobacterium Tuberculosis is a highly effective pathogen infecting nearly a third of the world's population. An M. tuberculosis infection starts when droplets containing bacteria enter an individual's lungs. The first host cells to contact the bacteria ar ...
EPFL2024Multi-well plate lid for single-step pooling of 96 samples for high-throughput barcode-based sequencing
Bart Deplancke, Daniel Migliozzi, Gilles Weder, Riccardo Dainese, Daniel Alpern, Hüseyin Baris Atakan, Mustafa Demir, Dariia Gudkova
High-throughput transcriptomics is of increasing fundamental biological and clinical interest. The generation of molecular data from large collections of samples, such as biobanks and drug libraries, is boosting the development of new biomarkers and treatm ...
Dordrecht2024Ancestral genome reconstruction enhances transposable element annotation by identifying degenerate integrants
Didier Trono, Evaristo Jose Planet Letschert, Wayo Matsushima
Growing evidence indicates that transposable elements (TEs) play important roles in evolution by providing genomes with coding and non-coding sequences. Identification of TE-derived functional elements, however, has relied on TE annotations in individual s ...
2024Human alveolar lining fl uid from the elderly promotes Mycobacterium tuberculosis intracellular growth and translocation into the cytosol of alveolar epithelial cells
Vivek Vijay Thacker, Richa Mishra
The elderly population is highly susceptible to developing respiratory diseases, including tuberculosis, a devastating disease caused by the airborne pathogen Mycobacterium tuberculosis ( M.tb ) that kills one person every 18 seconds. Once M.tb reaches the ...
Elsevier Science Inc2024Meeting our Makers:Uncovering the cis-regulatory activity of transposable elements using statistical learning
The adaptation of organisms to their environment depends on the innovative potential inherent to genetic variation. In complex organisms such as mammals, processes like development and immunity require tight gene regulation. Complex forms emerge more often ...
EPFL2024