Researchers from five institutions are available as collaborators for the Amplifying Funds in Infection Biology
EMBL
Alex Bateman (IBTT)
- Bacterial cell surface proteins, host-pathogen interactions, deep learning
Maria Bernabeu Aznar (IBTT)
- Malaria pathogenesis, blood-brain barrier models, vascular inflammation
Sagar Bhogaraju (IBTT)
- Ubiquitination pathways, bacterial effector proteins, Legionnaires’ disease
Peer Bork (METT)
- Metagenomics, microbial communities, global microbiomes
Matthieu Boulard (IBTT)
- Epigenetic gene silencing, adaptive immune response, epigenomic profiling
Matthew Bowler (IBTT)
- Host reaction to infection, Toxoplasma gondii, inflammatory response
Guy Cochrane (IBTT)
- Nucleotide sequence data, disease surveillance, vaccine development
Alvaro Hernan Crevenna Escobar (IBTT)
- Light imaging, host-pathogen interactions, immune response
Wolfgang Huber (IBTT)
- Single-cell omics, CRISPR perturbation assays, drug-gene-environment interaction networks, DESeq2
Gautam Dey (IBTT)
- Nuclear organisation, malaria parasite, cell cycle network
Robert Finn (METT)
- Metagenomic data, microbial diversity, genome reconstruction
Maria Marta Garcia Alai (METT)
- Structural biology, protein-lipid interactions, endocytosis
Nick Goldman (IBTT)
- Molecular evolution, machine learning, viral genome data
Jan Kosinski (IBTT)
- Influenza virus, structural biology, pathogen interactions
Eva Kowalinski (IBTT)
- RNA processing, Trypanosoma parasites, X-ray crystallography and cryo-electron microscopy
Andrew Leach (IBTT)
- Drug discovery, antimicrobial agents, biological processes
John Lees (IBTT, METT)
- Pathogen informatics, genomic epidemiology, bioinformatics tools
Julia Mahamid (IBTT)
- Mycoplasma pneumoniae, RNA viruses, protein synthesis machinery
José Márquez (IBTT)
- Macromolecular crystallography, therapeutic targets, small-molecule inhibitors
Maria-Jesus Martin (METT)
- Bioinformatics tools, protein sequence, UniProt database
Simone Mattei (IBTT)
- Protozoan parasites, cryo-electron tomography, mitochondrial ribosomes
Evangelia Petsalaki (IBTT)
- Human cell signalling, pathogen interactions, network biology
Julio Saez Rodriguez (METT)
- Cellular network deregulation, big data integration, disease therapeutics
Mikhail Savitski (METT)
- Stability proteomics, Thermal Proteome Profiling, drug discovery
Nassos Typas (IBTT, METT)
- Microbial systems biology, antibiotic resistance, bacterial networks
Jordi van Gestel (METT)
- Microbial development, predation, mathematical modelling
Flora Vincent (METT)
- Marine microbial interactions, symbiosis, carbon cycling
Matthias Wilmanns (IBTT)
- Mycobacterial secretion mechanism, type VII secretion, structural biology
David Yuan (IBTT)
- Genomic analysis, SARS-CoV-2, quantum computing algorithms
Judith Zaugg (IBTT)
- Epigenetic variation, immunology, single-cell multiomics
Maria Zimmermann (METT)
- Gut bacteria, computational modelling, multi-omics data
Michael Zimmermann (METT)
- Gut microbiome, enzyme-encoding genes, drug metabolism
Institut Pasteur
This list is not restrictive, please check the complete list of researchers here.
- Epigenetic chemical biology
- FlavImmunity
- Stress adaptation and metabolism
- Experimental and computational methods for predictive biology
- Parasite RNA biology
- Molecular diversity of microbes
- Biodiversity and epidemiology of bacterial pathogens
- Biology of intracellular bacteria
- Spleen, parasites and infections
- Microbiome-host interactions
- Evolutionary dynamics of infectious diseases
- Ecology and evolution of antibiotics resistance
- Trypanosome molecular biology
- Epidemiology and modelling of antibacterial evasion
- Spatial regulation of genomes
- Biology of infection
- Insect-virus interactions
- Bacterial genome plasticity
- Humoral immunology
- Microbial paleogenomics
- Structural virology
- Microbial evolutionary genomics
- Ecology and emergence of arthropod-borne pathogens
- Tissue homeostasis
- Cellular biology of microbial infection
- Evolutionary genomics of RNA viruses
- Molecular parasitology and signaling
- Infectious disease epidemiology and analytics
- Membrane traffic and pathogenesis
MIMS
- Method development in organic synthesis and design and synthesis of molecules to be used for treatment of infectious and neurodegenerative diseases
- Illuminating the dark proteome in innate immunity
- Identify molecules and mechanisms that viruses need to bind to and enter host cells
- Occurrence and impact of viruses in human diseases, with a specific emphasis on sequencing viral genomes directly from patient samples
- Molecular basis of malaria transmission by mosquitos
- Parasite-host interactions that govern malaria infection and disease
- Structure and mechanism of viral replication complexes
- Bioinformatic approaches to monitor and combat the spread of bacterial pathogens
- Bacterial cell wall composition and its contribution to long-standing and emerging infectious diseases
- Human gut microbes at high resolution, adaptive evolution and functional variation across bacterial strains
- Understanding molecular mechanisms behind the ability of bacteria to adapt to different environments
- Immune defects of newborns and viral pathogenesis during myocarditis
- Membrane sculpting mechanisms in health and disease
- Mapping protein function in human gut microbiome species using proteomics and systems biology
- Immune system evolution; cytidine deaminases in adaptive immunity and genome editing
- Host immunological and metabolomic responses to acute infections and vaccination
- Modelling adaptive mechanisms in living systems under stress by developing and applying mathematics, algorithms, and visualizations
- Electron microscopy methods to study cytoskeleton structure, assembly and spatial organization in cells and bacteria
- Interaction between diet, gut microbiota and mucosal barrier function
- Cell-autonomous immunity and bacterial evasion strategies
- Exploring modulation of host cell signalling mediated by secreted bacterial factors
- Host-pathogen interaction and viral pathogenicity
GIMM
- Trypanosoma brucei; variant surface glycoproteins; metabolic adaptation
- Regulatory T cells; infection and immunity; computational biology
- Plasmodium infection; liver stage; host microbiota
- Plasmodium and co-infections; novel antiplasmodial compounds; vaccination strategies
- Antimicrobial peptides; biosensors; nanomedicine
- Disease tolerance, infection biology; iron metabolism
- Plasmodium falciparum; Toxoplasma; immune evasion
- Tissue resident memory T cells; tumor therapy; metabolic pathways
- Quorum sensing; gut microbiota; inflamatory diseases
HZI
- Fc biology, antibody Fc, Fc effector functions, Fc engineering, monoclonal antibodies, systems Serology
- Innate immunity, herpesviral immune modulation, receptor signalling and trafficking, Type I interferon response, bone morphogenetic proteins, cytokines
- Antibacterial and antiviral drug discovery and optimization, antibacterial drug conjugates, PROTACs, mode of action studies through metabolomics, intracellular drug quantification, peptide arrays
- Influenza, Influenza-pneumococcal co-infection, murine infection models, mucosal immunity, ex vivo immune cell phenotyping (FACS, transcriptional profiling), alveolar type II epithelial cells as targets for and responders to infections, prophylactic and therapeutic interventions (e.g. induction of the antiviral state by targeted stimulation of the interferon system), vaccination (systemic/ mucosal; protein, RNA, defective interfering particles)
- Pseudovirus neutralisation assay, mutational scanning, virus reverse genetics, SARS-CoV-2, herpesvirus, RSV, Influenza, VSV, vaccine vector development, in vivo animal models, functional T cell assays, live cell imaging, CMV latency, dynamic transcriptomics at single-cell level
- Phage-host interactions, jumbo phages, stress response, complexes in infected cells
- Clinical isolates, molecular diagnostics, AMR, genotype-phenotype correlation
Lina Herhaus (starting October 2024)
- Host-pathogen interactions, autophagy, innate immunity
- Phages, bacterial immunity, RNA
- Monoclonal antibodies, human dendritic cells and infection, infection mouse models, neuroinfection
- Cellular microbiology, bacterial infection, molecular infection mechanisms, Gram-negative pathogens, host pathogen interactions, secretion systems
- Viral infection, neuroinflammation, neurodegeneration, memory, brain fog, long COVID
- Genetic regulation, immune phenotypes, immune responses, infection and vaccination, multi-omics integration, single cell genomics, spatial genomics
- Systems immunology, mathematical models, infection dynamics, host-pathogen interaction, adaptive immunity, whole body research.
- Complex organoids, host-pathogen interactions, human tissue engineering, ACE2-molecular decoys, microbial effectomes, lectin applications
- Vaccination strategies, high-risk individuals, biomarker discovery, mass spectrometry, RNA sequencing, therapeutic targets
- Respiratory viruses, hepatitis viruses, RSV, determinants of severe infection, antivirals, vaccines
- Single-cell RNA-seq, spatial transcriptomics, RNA biology, intestinal infection, clinics
- Bacterial interaction, immune responses, respiratory microbiome, epithelial models, air-liquid interface, precision cut lung slices
- Microbiome, colonisation resistance, MDR enterobacterales, microbiome-based therapeutics, Klebsiella, Segatella/Prevotella
- RNA biology of bacterial infections