A5033617784- Microfluidic and Bio-sensing Technologies
- Cell Image Analysis Techniques
- Advanced Thermodynamics and Statistical Mechanics
- Complex Systems and Time Series Analysis
- Advanced Fluorescence Microscopy Techniques
- Diffusion and Search Dynamics
- Orbital Angular Momentum in Optics
- Economic theories and models
- Electron and X-Ray Spectroscopy Techniques
- Mechanical and Optical Resonators
- Micro and Nano Robotics
- Advanced Electron Microscopy Techniques and Applications
- Theoretical and Computational Physics
- Economic Theory and Policy
- DNA and Nucleic Acid Chemistry
- Scientific Computing and Data Management
- Nonlinear Dynamics and Pattern Formation
- Angiogenesis and VEGF in Cancer
- Slime Mold and Myxomycetes Research
- Coronary Interventions and Diagnostics
- PARP inhibition in cancer therapy
- Viral Infectious Diseases and Gene Expression in Insects
- Aluminum toxicity and tolerance in plants and animals
- Lymphatic System and Diseases
- Bacterial Genetics and Biotechnology
Harvard University
2023-2025
Center for Systems Biology
2023-2025
ETH Zurich
2016-2023
Swiss Data Science Center
2020
University of Zurich
2017
University Hospital of Zurich
2017
University of Parma
2017
Board of the Swiss Federal Institutes of Technology
2016
Princeton University
2008-2011
Max Planck Institute for the Physics of Complex Systems
2006-2010
We explain and demonstrate a new method of force position calibrations for optical tweezers with back-focal-plane photodetection. The combines power spectral measurements thermal motion the response to sinusoidal translation stage. It consequently does not use drag coefficient trapped object as an input. Thus, neither viscosity, nor size object, its distance nearby surfaces needs be known. requires only low level instrumentation can applied in situ all spatial dimensions. is both accurate...
Eukaryotic cells are large enough to detect signals and then orient them by differentiating the signal strength across length breadth of cell. Amoebae, fibroblasts, neutrophils growth cones all behave in this way. Little is known however about cell motion searching behavior absence a signal. Is individual best characterized as random walk? Do have search strategy when they beyond range would otherwise move toward? Here we ask if single, isolated, Dictyostelium Polysphondylium amoebae bias...
Optical tweezers are widely used to measure molecular forces in biology. Such measurements often influenced by a nearby surface that can perturb both the calibration of as well hydrodynamic acting on microspheres which biomolecules attached. In this study, we have very stable optical setup employing recently developed method (Tolić-Nørrelykke, S. F.; Schäffer, E.; Howard, J.; Pavone, F. S.; Jülicher, Flyvbjerg, H. Rev. Sci. Instrum. 2006, 77 (10), 103101) determine how and depend height...
Abstract Sinusoidal endothelial cells and mesenchymal CXCL12-abundant reticular are principal bone marrow stromal components, which critically modulate haematopoiesis at various levels, including haematopoietic stem cell maintenance. These subsets thought to be scarce function via highly specific interactions in anatomically confined niches. Yet, knowledge on their abundance, global distribution spatial associations remains limited. Using three-dimensional quantitative microscopy we show...
Due to their involvement in many physiologic and pathologic processes, there is a great interest identifying new molecular pathways that mediate the formation function of blood lymphatic vessels. Vascular research increasingly involves image-based analysis quantification vessel networks tissue whole-mounts or tube-like structures formed by cultured endothelial cells vitro. While both types experiments deliver important mechanistic insights into (lymph)angiogenic manual such are typically...
Image data are universal in life sciences research. Their proper handling is not. A significant proportion of image research papers show signs mishandling that undermine their interpretation. We propose a precise description the processing and analysis applied required to address this problem. new norm for reporting reproducible analyses will diminish mishandling, as it alert co-authors, referees, journals aberrant or, if published nonetheless, document reader. To promote norm, we discuss...
Single-molecule measurements of the activities a variety enzymes show that rates catalysis may vary markedly between different molecules in putatively homogenous enzyme preparations. We measured rate at which purified Escherichia coli RNA polymerase moves along ∼2650-bp DNA during transcript elongation vitro 0.5 mm nucleoside triphosphates. Individual specifically biotinated derivative were tagged with 199-nm diameter avidin-coated polystyrene beads; movement surface-linked molecule was...
Optical tweezers and atomic force microscope (AFM) cantilevers are often calibrated by fitting their experimental power spectra of Brownian motion. We demonstrate here that if this is done with typical weighted least-squares methods, the result a bias relative size between −2/n +1/n on value fitted diffusion coefficient. Here, n number averaged over, so calibrations contain 10%–20% bias. Both sign depend weighting scheme applied. Hence, do length-scale based The for characteristic frequency...
The stochastic dynamics of the damped harmonic oscillator in a heat bath is simulated with an algorithm that exact for time steps arbitrary size. Exact analytical results are given correlation functions and power spectra form they acquire when computed from experimental time-lapse recordings. Three applications discussed: (i) effects finite sampling rate time, described exactly here, similar other dynamical systems---e.g., motile microorganisms their time-lapse-recorded trajectories. (ii)...
Low- and high-density lipoproteins (LDL HDL) must pass the endothelial layer to exert pro- antiatherogenic activities, respectively, within vascular wall. However, rate-limiting factors that mediate transendothelial transport of are yet little known. Therefore, we performed a high-throughput screen with kinase drug inhibitors identify modulators LDL HDL transport.Microscopy-based high-content screening was by incubating human aortic cells 141 kinase-inhibiting drugs fluorescent-labeled or...
In pancreatic ductal adenocarcinoma cancer (PDAC) drug resistance is a severe clinical problem and patients relapse within few months after receiving the standard-of-care chemotherapy. One contributing factor to treatment desmoplastic nature of PDAC; tumours are surrounded by thick layers stroma composing up 90% tumour mass. This stroma, which mostly comprised extracellular matrix (ECM) proteins, secreted cancer-associated fibroblasts (CAFs) residing in microenvironment. However, mechanistic...
Aggressive cancers, such as pancreatic ductal adenocarcinoma (PDAC), are often characterized by a complex and desmoplastic tumor microenvironment rich in stroma, supportive connective tissue composed primarily of extracellular matrix (ECM) non-cancerous cells. Desmoplasia, which is dense deposition major reason for therapy resistance, acting both physical barrier that interferes with drug penetration niche protects cancer cells through diverse mechanisms. A precise understanding spatial cell...
We present a dynamical many-body theory of money in which the value is time dependent ``strategic variable'' that chosen by individual agents. The equilibrium not fixed equations, and thus represents continuous symmetry. dynamics breaks this symmetry fixating at level depends on initial conditions. fluctuations around equilibrium, for instance presence noise, are governed ``Goldstone modes'' associated with broken idea illustrated simple network model monopolistic vendors buyers.
Background: The LDLR (low-density lipoprotein receptor) in the liver is major determinant of LDL-cholesterol levels human plasma. discovery genes that regulate activity helps to identify pathomechanisms hypercholesterolemia and novel therapeutic targets against atherosclerotic cardiovascular disease. Methods: We performed a genome-wide RNA interference screen for limiting uptake fluorescent LDL into Huh-7 hepatocarcinoma cells. Top hit were validated by vitro experiments as well analyses...
The purpose of this study was to determine the effects Photoactivated Chromophore for Keratitis Corneal Cross-Linking (PACK-CXL) protocol modifications on corneal resistance enzymatic digestion and treatment depth.
Bioimage analysis (BIA), a crucial discipline in biological research, overcomes the limitations of subjective microscopy through creation and application quantitative reproducible methods. The establishment dedicated BIA support within academic institutions is vital to improving research quality efficiency can significantly advance scientific discovery. However, lack training resources, limited career paths insufficient recognition contributions made by bioimage analysts prevent full...
We introduce the NEUBIAS Gateway, a new platform for publishing materials related to bioimage analysis, an interdisciplinary field bridging computer science and life sciences. This emerging has been lacking central place share efforts of growing group scientists addressing biological questions using image data. The Gateway welcomes wide range publication formats including articles, reviews, reports training materials. hope further supports this important grow helps more biologists...
A simple model economy with interacting producers and consumers is introduced. When driven by extreme dynamics, the self-organizes not to an attractor state, but asymptote, on which has a constant rate of deflation, critical, exhibits avalanches activity power-law distributed sizes. This example demonstrates that self-organized critical behavior occurs in larger class systems than so far considered: attractive fixed point, but, e.g., may also display criticality.
Human CtIP is best known for its role in DNA end resection to initiate double-strand break repair by homologous recombination. Recently, has also been shown protect reversed replication forks from nucleolytic degradation upon stress. However, still little about the damage response (DDR) networks that preserve genome integrity and sustain cell survival context of insufficiency. Here, reveal such potential buffering relationships, we screened a DDR siRNA library CtIP-deficient cells identify...