A5089359230- vaccines and immunoinformatics approaches
- Advanced Proteomics Techniques and Applications
- Immunotherapy and Immune Responses
- Toxic Organic Pollutants Impact
- Mass Spectrometry Techniques and Applications
- Atmospheric chemistry and aerosols
- Monoclonal and Polyclonal Antibodies Research
- Glycosylation and Glycoproteins Research
- Peptidase Inhibition and Analysis
- Air Quality and Health Impacts
- Veterinary Medicine and Surgery
- Immune Response and Inflammation
- Kidney Stones and Urolithiasis Treatments
- Chemical Synthesis and Analysis
- Immune cells in cancer
- Urban Stormwater Management Solutions
- Indoor Air Quality and Microbial Exposure
- Analytical Chemistry and Chromatography
- Odor and Emission Control Technologies
- Protein purification and stability
- Microtubule and mitosis dynamics
- Atmospheric and Environmental Gas Dynamics
- Hydrology and Drought Analysis
- Chemokine receptors and signaling
- Phagocytosis and Immune Regulation
Institute for Biomedical Research and Innovation
2024
National Research Council
2024
Ludwig Cancer Research
2017-2020
University of Lausanne
2017-2020
University Hospital of Lausanne
2017-2020
Utrecht University
2013-2018
Netherlands Metabolomics Centre
2014-2018
Thermo Fisher Scientific (Germany)
2016
Pharmo Institute
2014
HUN-REN Research Centre for Natural Sciences
2011
New players in the repertoire Antigen-presenting cells, such as macrophages and dendritic activate immunological T cells by presenting them with antigens bound major histocompatibility complexes (MHCs). The proteasome typically processes these antigens, which include peptides derived from both self microbial origins. Liepe et al. now report that, surprisingly, a large fraction of to class I MHC on multiple human cell types are spliced together two different fragments same protein. Such...
Comprehensive knowledge of the human leukocyte antigen (HLA) class-I and class-II peptides presented to T-cells is crucial for designing innovative therapeutics against cancer other diseases. However methodologies their purification mass-spectrometry analysis have been a major limitation. We designed novel high-throughput, reproducible sensitive method sequential immuno-affinity HLA-I -II from up 96 samples in plate format, suitable both cell lines tissues. Our methodology drastically...
Mass spectrometry (MS)-based immunopeptidomics investigates the repertoire of peptides presented at cell surface by major histocompatibility complex (MHC) molecules. The broad clinical relevance MHC-associated peptides, e.g. in precision medicine, provides a strong rationale for large-scale generation immunopeptidomic datasets and recent developments MS-based peptide analysis technologies now support required data. Importantly, availability diverse has resulted an increasing need to...
Mass spectrometry (MS)-based proteomics workflows can crudely be classified into two distinct regimes, targeting either relatively small peptides (i.e., 0.7 kDa < Mw 3.0 kDa) or to medium sized intact proteins 10 30 kDa), respectively, termed bottom-up and top-down proteomics. Recently, a niche has started explored covering the analysis of middle-range aptly middle-down Although follow, in principle, modular workflow similar that proteomics, we hypothesized each these modules would benefit...
Proteomics applications performed on the popular benchtop Q Exactive Orbitrap mass spectrometer have so far relied exclusively higher collision-energy dissociation (HCD) fragmentation for peptide sequencing. While this technique is applicable to a wide range of biological questions, it also has limitations, and all questions cannot be addressed equally well. Here, we demonstrate that capabilities can extended with ultraviolet photodissociation (UVPD) fragmentation, complete synchronization...
We report unexpected mass spectrometric observations of glycosylated human leukocyte antigen (HLA) class I-bound peptides. Complemented by molecular modeling, in vitro enzymatic assays, and oxonium ion patterns, we propose that the observed O-linked glycans carrying up to five monosaccharides are extended O-GlcNAc's rather than GalNAc-initiated O-glycans. A cytosolic O-GlcNAc modification is normally terminal does not extend produce a polysaccharide, but on an HLA peptide presents special...
Comprehensive analysis of the complex nature Human Leukocyte Antigen (HLA) class II ligandome is utmost importance to understand basis for CD4+ T cell mediated immunity and tolerance. Here, we implemented important improvements in repertoire HLA-DR-presented peptides, using hybrid mass spectrometry-based peptide fragmentation techniques on a sample isolated from matured human monocyte-derived dendritic cells (DC). The reported data set constitutes nearly 14 thousand unique high-confident...
As aberrant protein phosphorylation is a hallmark of tumor cells, the display tumor-specific phosphopeptides by Human Leukocyte Antigen (HLA) class I molecules can be exploited in treatment cancer T-cell-based immunotherapy. Yet, characterization and prediction HLA-I phospholigands challenging as molecular determinants presentation such post-translationally modified peptides are not fully understood. Here, we employed peptidomic workflow to identify 256 unique phosphorylated ligands...
In order to understand cellular signaling, a clear understanding of kinase-substrate relationships is essential. Some these are defined by consensus recognition motifs present in substrates making them amendable for phosphorylation designated kinases. Here, we explore method that based on two sequential steps strong cation exchange chromatography combined with differential stable isotope labeling, define kinase high accuracy. We demonstrate the value our evaluating very distinct kinases:...
In both downtown Algiers and the waste landfill of Oued Smar, concentrations particulate organic compounds comprising n-alkanes, n-alkanoic acids, n-alkan-2-ones, polycyclic aromatic hydrocarbons (PAHs), oxygenated (OPAHs), nitrated (NPAHs) in ambient air were measured from May 1998 to February 1999. All components except OPAHs had a tendency strongly increase colder weather. Motor vehicles found be main source airborne particles Algiers, while combustion pyrolysis processes bacterial...
Alterations in protein post-translational modification (PTM) are recognized hallmarks of diseases. These modifications potentially provide a unique source disease-related human leukocyte antigen (HLA) class I-presented peptides that can elicit specific immune responses. While phosphorylated HLA have already received attention, arginine methylated I peptide presentation has not been characterized detail. In B-cell line we detected 149 harboring mono- and/or dimethylated residues by mass...
Aluminum-based adjuvants are the most widely used in human vaccines. A comprehensive understanding of mechanism action aluminum at molecular level, however, is still elusive. Here, we unravel effects hydroxide Al(OH)3 by a systems-wide analysis Al(OH)3-induced monocyte response. Cell response cytokine release was combined with (targeted) transcriptome and full proteome analysis. Results from this study revealed two novel pathways to become activated upon stimulation Al(OH)3: first pathway...
Protein phosphorylation is a widespread process forming the mechanistic basis of cellular signaling. Up to now, different aspects, for example, site-specificity, kinetics, role co-factors, and structure-function relationships have been typically investigated by multiple techniques that are incompatible with one another. The approach introduced here maximizes amount information gained on protein (complex) while minimizing sample handling. Using high-resolution native mass spectrometry intact...
Abstract Minimal information about an immuno‐peptidomics experiment (MIAIPE) is initiative of the members Human Immuno‐Peptidome Project (HIPP), international program organized by Proteome Organization (HUPO). The aim MIAIPE guidelines to deliver technical representing minimal required sufficiently support evaluation and interpretation immunopeptidomics experiments. document has been designed report essential sample preparation, mass spectrometric measurement, associated spectrometry...
Vitality Forms (VFs) constitute the dynamic essence of human actions, providing insights into how individuals engage in activities. The ability to perceive and express VFs during interpersonal interactions is pivotal for understanding others' intentions, behaviors, fostering effective social communication. Despite their ubiquity all research exploring role neurodivergent conditions related communicative skills, particularly autism, remains limited. This study aims investigate expression...
The EASY-spray technology can now be implemented as a simple online 2D SCX-RP ultra-high pressure system, which allows one to reach deep proteome coverages.
Induction of an effective tumor immunity is a complex process that includes the appropriate presentation antigens, activation specific T cells, and elimination malignant cells. Potent efficient cell dependent on multiple factors, such as timely expression co-stimulatory molecules, differentiation state professional antigen presenting cells (e.g. dendritic cells; DCs), functionality processing machinery (APPM), repertoire HLA class I II-bound peptides (termed immunopeptidome) presented to So...
Hypochlorous acid (HOCl)-treated whole tumor cell lysates (Ox-L) have been shown to be more immunogenic when used as an antigen source for therapeutic dendritic (DC)-based vaccines, improving downstream immune responses both in vitro and vivo. However, the mechanisms behind improved immunogenicity are still elusive. To address this question, we conducted a proteomic immunopeptidomics analyses map modifications alterations introduced by HOCl treatment using human melanoma line model system....
Aluminum-based adjuvants have widely been used in human vaccines since 1926. In the absence of antigens, aluminum-based can initiate inflammatory preparedness innate cells, yet impact antigens on this response has not investigated so far. study, we address modulating effect vaccine monocyte-derived by comparing processes initiated Al(OH)3 and Infanrix, an Al(OH)3-adjuvanted trivalent combination (DTaP), containing diphtheria toxoid (D), tetanus (T) acellular pertussis (aP) antigens. A...