A5087593861- Microtubule and mitosis dynamics
- Gene Regulatory Network Analysis
- Influenza Virus Research Studies
- Circadian rhythm and melatonin
- Immune Response and Inflammation
- Scientific Computing and Data Management
- Light effects on plants
- Bacteriophages and microbial interactions
- Microbial Metabolic Engineering and Bioproduction
- Semantic Web and Ontologies
- Monoclonal and Polyclonal Antibodies Research
- Biochemical and Structural Characterization
- Diabetes and associated disorders
- Stochastic processes and statistical mechanics
- Fungal and yeast genetics research
- Photoreceptor and optogenetics research
- Protist diversity and phylogeny
- Ubiquitin and proteasome pathways
- Cell Image Analysis Techniques
- Atmospheric Ozone and Climate
- Cellular transport and secretion
- Peptidase Inhibition and Analysis
- Biomedical Text Mining and Ontologies
- Research Data Management Practices
- stochastic dynamics and bifurcation
Board of the Swiss Federal Institutes of Technology
2023
ETH Zurich
2012-2023
SIB Swiss Institute of Bioinformatics
2015-2023
Novartis (Switzerland)
2022
Life Science Zurich
2018-2019
University of California, Santa Barbara
2013
In eukaryotes, the organization and function of microtubule cytoskeleton depend on allocation different roles to individual microtubules. For example, many asymmetrically dividing cells differentially specify behavior at old new centrosomes. Here we show that yeast spindle pole bodies (SPBs, centrosomes) control plus-end dynamics cargoes their astral microtubules, remotely from minus-end. The SPB recruits kinesin motor protein Kip2, which then translocates emanating promotes extension...
Background. Influenza vaccine immunogenicity is suboptimal in immunocompromised patients. However, there are limited data on the interplay of T- and B- cell responses to vaccination with simultaneous immunosuppression. Methods. We collected peripheral blood mononuclear cells from transplant recipients before 1 month after seasonal influenza vaccination. Before vaccination, H1N1-specific B-cell activation were quantified flow cytometry. also developed a mathematical model using markers...
Internal tagging of proteins by inserting small functional peptides into surface accessible permissive sites has proven to be an indispensable tool for basic and applied science. Permissive are typically identified transposon mutagenesis on a case-by-case basis, limiting scalability their exploitation as system-wide protein engineering tool.We developed apporach predicting stretches (PSs) in based the identification length-variable regions (regions containing indels) homologous proteins.We...
Kinesins are microtubule-dependent motor proteins, some of which moonlight as microtubule polymerases, such the yeast protein Kip2. Here, we show that CLIP-170 ortholog Bik1 stabilizes Kip2 at ends where domain promotes polymerization. Live-cell imaging and mathematical estimation dynamics reveal disrupting Kip2–Bik1 interaction aborts dwelling abrogates its polymerization activity. Structural modeling biochemical experiments identify a patch positively charged residues enables to bind free...
Abstract Background Dynamic mathematical models in the form of systems ordinary differential equations (ODEs) play an important role biology. For any sufficiently complex model, speed and accuracy solving ODEs by numerical integration is critical. This applies especially to identification problems where parameter sensitivities must be integrated alongside system variables. Although several very good general purpose ODE solvers exist, few them compute automatically. Results We present a novel...
Abstract The development and approval of new treatments generates large volumes results, such as summaries efficacy safety. However, it is commonly overlooked that analyzing clinical study data also produces in the form results. For example, descriptive statistics model predictions are data. Although integrating putting findings into context a cornerstone scientific work, analysis results often neglected source. Results end up stored “data products” PDF documents not machine readable or...
In the mammalian suprachiasmatic nucleus (SCN), a population of noisy cell-autonomous oscillators synchronizes to generate robust circadian rhythms at organism level. Within these cells, two isoforms Cryptochrome, <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">Cry1</i> and xmlns:xlink="http://www.w3.org/1999/xlink">Cry2</i> , participate in negative feedback loop driving oscillation. Previous work has shown that single, dissociated SCN...
Simulating synthetic image data is crucial for the design and validation of bio-imaging pipelines. Most existing frameworks assume objects in pixel space, whereas most spatio-temporal models biological processes are formulated object space. We show that key to a physically-principled simulation engine model carefully mapping between pixels. present sound mathematical computational framework our engine: virtual microscope. A careful measure-theoretic formulation object-pixel allows us handle...
In the mammalian suprachiasmatic nucleus (SCN), a population of noisy cell-autonomous oscillators synchronizes to generate robust circadian rhythms at organism-level. Within these cells two isoforms Cryptochrome, Cry1 and Cry2, participate in negative feedback loop driving rhythmicity. Previous work has shown that single, dissociated SCN neurons respond differently Cry2 knockouts: knockouts are arrhythmic while display more regular rhythms. These differences have led speculation CRY1 CRY2...
Introduction: Influenza vaccine immunogenicity is suboptimal in transplant recipients. However, there are limited data on T- and B- cell responses to their relationship with immunosuppression. Methods: We collected PBMCs from recipients pre one-month post seasonal influenza vaccination. Cells were stimulated A/H1N1 strain. Flow cytometry was used determine the frequency of IFNγ as a Th1 marker, IL4 Th2 HLA-DR CD86 B-cell activation markers. A multiplex cytokine panel performed supernatants...
The development and approval of new treatments generates large volumes results, such as summaries efficacy safety. However, it is commonly overlooked that analyzing clinical study data also produces in the form results. For example, descriptive statistics model predictions are data. Although integrating putting findings into context a cornerstone scientific work, analysis results often neglected source. Results end up stored "data products" PDF documents not machine readable or amenable to...