A5079311481- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Advanced Biosensing Techniques and Applications
- Cancer Cells and Metastasis
- Monoclonal and Polyclonal Antibodies Research
- HER2/EGFR in Cancer Research
- Gene expression and cancer classification
- AI in cancer detection
- Bioinformatics and Genomic Networks
- Folate and B Vitamins Research
- Gene Regulatory Network Analysis
- Mass Spectrometry Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Cancer Immunotherapy and Biomarkers
- Immune cells in cancer
- 3D Shape Modeling and Analysis
- Effects and risks of endocrine disrupting chemicals
- Protein Tyrosine Phosphatases
- Pharmaceutical and Antibiotic Environmental Impacts
- Microbial Metabolic Engineering and Bioproduction
- Pancreatic function and diabetes
- Microplastics and Plastic Pollution
- Microtubule and mitosis dynamics
- Advanced biosensing and bioanalysis techniques
- RNA modifications and cancer
University of Zurich
2017-2024
University Children's Hospital Zurich
2024
ETH Zurich
2016-2019
Life Science Zurich
2017-2019
Biognosys (Switzerland)
2015
Kantonsschule Enge
2009
The data-independent acquisition (DIA) approach has recently been introduced as a novel mass spectrometric method that promises to combine the high content aspect of shotgun proteomics with reproducibility and precision selected reaction monitoring. Here, we evaluate, whether SWATH-MS type DIA effectively translates into better protein profiling compared established proteomics.We implemented on widely used Orbitrap platform retention-time-normalized (iRT) spectral libraries for targeted data...
Cellular metabolic fluxes are determined by enzyme activities and metabolite abundances. Biochemical approaches reveal the impact of specific substrates or regulators on kinetics but do not capture extent to which concentrations vary across physiological states and, therefore, how cellular reactions regulated. We measured 25 steady-state yeast cultures. then assessed flux can be explained a Michaelis-Menten relationship between enzyme, substrate, product, potential regulator concentrations....
To build comprehensive models of cellular states and interactions in normal diseased tissue, genetic proteomic information must be extracted with single-cell spatial resolution. Here, we extended imaging mass cytometry to enable multiplexed detection mRNA proteins tissues. Three target species were detected by RNAscope-based metal situ hybridization simultaneous antibody 16 proteins. Analysis 70 breast cancer samples showed that HER2 CK19 protein levels are moderately correlated on the...
Abstract The functions of the tumor microenvironment (TME) are orchestrated by precise spatial organization specialized cells, yet little is known about multicellular structures that form within TME. Here we systematically mapped TME in situ using imaging mass cytometry and multitiered analysis 693 breast tumors linked to genomic clinical data. We identified ten recurrent varied vascular content, stromal quiescence versus activation, leukocyte composition. These had distinct enrichment...
Abstract Phagocytosis is a process in which target cells or particles are engulfed and taken up by other cells, typically professional phagocytes; this crucial many physiological processes disease states. The detection of targets for phagocytosis directed complex repertoire cell surface receptors. Pattern recognition receptors directly detect binding uptake, while opsonic complement objects coated soluble factors. However, the importance single combinatorial marker expression across...
Abstract Bis(2‐ethylhexyl)phthalate (DEHP) is a widely used plasticizer that commonly found contaminant of aquatic environments. However, little known about the long‐term effects DEHP on fish development, as previous studies yielded conflicting results and mostly investigated concentrations higher than those in natural habitats. We thus aimed to investigate DHEP (i) at present environment, (ii) under conditions might accentuate any deleterious consequences (larvae rather adult fish, use...
ABSTRACT Mass cytometry enables simultaneous analysis of over 40 proteins and their modifications in single cells through use metal-tagged antibodies. Compared to fluorescent dyes, the pure metal isotopes strongly reduces spectral overlap among measurement channels. Crosstalk still exists, however, caused by isotopic impurity, oxide formation, mass cytometer properties. Spillover effects can be minimized, but not avoided, following a set constraining rules when designing an antibody panel....
5,10-methylenetetrahydrofolate reductase (MTHFR) is a folate cycle enzyme required for the intracellular synthesis of methionine. MTHFR was previously shown to be partially phosphorylated at 16 residues, which abrogated by conversion threonine 34 alanine (T34A) or truncation first 37 amino acids (i.e. expression 38-656), and promoted methionine supplementation. Here, we over-expressed wild-type (MTFHRWT), as well variants MTHFRT34A MTHFR38-656 in 293T cells provide further insights into...
5,10-methylenetetrahydrofolate reductase (MTHFR) is a folate cycle enzyme required for the intracellular synthesis of methionine. MTHFR was previously shown to be partially phosphorylated at 16 residues, which abrogated by conversion threonine 34 alanine (T34A) or truncation first 37 amino acids (i.e. expression 38-656), and promoted methionine supplementation. Here, we over-expressed wild-type (MTFHR
Single-cell, spatially resolved 9omics analysis of tissues is poised to transform biomedical research and clinical practice. We have developed a computational histology topography cytometry toolbox (histoCAT) enable the interactive, quantitative, comprehensive exploration phenotypes individual cells, cell-to-cell interactions, microenvironments, morphological structures within intact tissues. histoCAT will be useful in all areas tissue-based research. highlight unique abilities by highly...
1) Our results show that unfractionated library not only leads to a comparable number of identifications (Figure 2a), but the are more reproducible 2b, 2c). As such, performing fractionation during generation is necessarily beneficial if sample for DIA runs also fractionated. We argue amount extra effort required could be instead used replicates. rule thumb, preparation should similar runs.
Mass cytometry enables simultaneous analysis of over 40 proteins and their modifications in single cells through use metal-tagged antibodies. Compared to fluorescent dyes, the pure metal isotopes strongly reduces spectral overlap among measurement channels. Crosstalk still exists, however, caused by isotopic impurity, oxide formation, mass cytometer properties. Spillover effects can be minimized, but not avoided, following a set constraining rules when designing an antibody panel. Generation...