378 search results for “cryo-electron microscopy” in the Public website
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Quantitative Particle Tracking
Brownian motion is the random motion of (colloidal) particles due to collisions with the atoms and molecules of the solvents, which are moving due to temperature.
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Molecular mechanisms of adverse outcome and translational biomarkers
Adverse drug reactions (ADRs) remain one of the major reasons for patient mortality and (early) drug withdrawal. Currently, different in vivo and in vitro models are used to assess the toxic potential of drugs in the pre-clinical phase. Unfortunately, the predictive value of this model does not fit…
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Photothermal studies of single molecules and gold nanoparticles: vapor nanobubbles and conjugated polymers
Promotor: M.A.G.J. Orrit
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Water related adsorbates on stepped platinum surfaces
Promotor: M.T.M. Koper, Co-Promotor: L.B.F. Juurlink
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Photon detection at subwavelength scales
Promotor: E.R. Eliel, Co-Promotor: M.J.A. de Dood
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Ultrasensitive in situ visualization of active glucocerebrosidase molecules
Deficiency of glucocerebrosidase (GBA) underlies Gaucher disease, a common lysosomal storage disorder. Carriership for Gaucher disease has recently been identified as major risk for parkinsonism. Presently, no method exists to visualize active GBA molecules in situ. We here report the design, synthesis…
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Translational pharmacokinetics-pharmacodynamics in zebrafish: integration of experimental and computational methods
The zebrafish is a promising vertebrate model organism in early drug discovery and development.
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A Model Membrane Approach to Elucidate the Molecular Organization in the Skin Barrier
Promotor: J. A. Bouwstra
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Image-based phenotypic screening for breast cancer metastasis drug target discovery
The main aim of this thesis was to unravel the signaling and regulatory networks that drive tumor cell migration during breast cancer metastasis.
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Setup: Static Magnetic Field with Low Noise
Our cantilevers have a low intrinsic damping rate: this enables us to measure with low noise, since damping is proportionate to noise. However, when the magnet is close to the surface of a sample we want to study, we measure a much higher effective damping rate. This is caused by magnetic interaction…
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The electrode-electrolyte interface in CO2 reduction and H2 evolution: a multiscale approach
Electrocatalysis allows for storing electricity or converting it into chemical bonds, producing chemical building blocks and fuels using renewable resources.
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Atomic Insights into Hydrodesulfurization
Hydrodesulfurization (HDS) is an ubiquitous part of oil refining that ensures that fuels are cleaned of impurities and environment release of pollutants such as SOx and NOx gasses are minimized.
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Protein condensates and fiber formation
Some species of proteins which can form liquid-like condensates, also exhibit growth into fibers (or fibrils). One particularly interesting set of such proteins are those that are associated with neurodegeneration in which the fiber growth may be related to the pathological fibrils observed in disea…
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Network flow algorithms for discrete tomography
Promotor: R. Tijdeman, Co-promotor: H.J.J. te Riele
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Ikat from Timor and its outer islands: insular and interwoven
This dissertation investigates ikat from the eastern Indonesian islands from a uniquely technical perspective, including design analysis of asymmetry and microscopy.
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Understanding the uptake and internal distribution of metallic nanoparticles in Danio rerio larvae
The aim is to discover where differently shaped metal nanoparticles distributes in Danio rerio, linking the distribution with genomic responses and so come up with a Mode of Action.
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Using cryo-EM methods to uncover structure and function of bacteriophages
Bacteriophages, or phages for short, are the most abundant biological entity in nature. They shape bacterial communities and are a major driving force in bacterial evolution.
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The environmentally-regulated interplay between local three- dimensional chromatin architecture and gene expression
Nucleoid associated proteins maintain the architecture of the bacterial chromosome and regulate gene expression, hinting that their role as transcription factors may involve local three-dimensional chromosome re-modelling.
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Scalable organic solvent free supercritical fluid spray drying process for producing dry protein formulations
In this study, we evaluated the influence of supercritical carbon dioxide (scCO2) spray drying conditions, in the absence of organic solvent, on the ability to produce dry protein/trehalose formulations at 1:10 and 1:4 (w/w) ratios.
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Target Discovery
The goal of target discovery is to identify and validate proteins and biological pathways that are involved in the disease process. Modulating these target proteins and pathways with small molecules, therapeutic proteins or other biomolecules (e.g. mRNA) could deliver an effective and safe drug or v…
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Applications for activity-based probes in biomedical research on glycosidases
Lysosomal glycosidases are acid hydrolases that fragment glycoconjugates in lysosomes.
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Giant unilamellar vesicles: An efficient membrane biophysical tool and its application in drug delivery studies
Promotor: A. Kros
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Frontiers of Modern Physics
This is the physics summer school of Leiden University. It is part of the Leiden Institute of Physics (LION). The summer school is intended for Bachelor (BSc) students in physics. It covers topics from quantum matter and optics, to biological & soft matter physics and cosmology and theoretical physics.…
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New IBL-professor in Ultrastructural Biology: Ariane Briegel
Ariane Briegel has been appointed Professor in the fìeld of Ultrastructural Biology within the Faculty of Science at the Institute of Biology from the 1st of December 2015. Her expertise is in using electron cryotomography to study how microbes sense and respond to their environment.
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Dangerous microbes in lower level safety lab? A new technique could make it possible
Researchers need to work in specialized environments when they work with dangerous bacteria and viruses. These microbes spread easily, so only in labs with a high biosafety levels they can be studied. Unfortunately, to look at the microbes properly, expensive microscopes are needed that are not always…
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How Oncode-PACT is bringing new cancer medicines closer with 325 million in Growth Fund money
How can you ensure that more experimental drugs reach the finish line? At the moment, only one in twenty cancer drugs that are tested on humans makes it to the market. This is an enormous loss for patients and society. With a grant from the National Growth Fund, Oncode-PACT aims to efficiently select…
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Joan van der Waals colloquium
The Joan van der Waals colloquium is an ongoing bi-weekly lecture series.
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Research
Developing computational algorithms for structural biology -A high resolution, three dimensional view of a molecule provides detailed information that help elucidate its function: by knowing the exact arrangement of atoms in a molecule, we can understand disease, develop drugs to combat them and improve…
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Milan Allan Lab - Understanding Quantum Matter
We are a dynamic research group at the Leiden Institute of Physics. Our aim is to explore and understand quantum materials, including strange metals, high-temperature superconductors, and quantum critical electron matter.
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Evaluation of synergistic effects of Chinese herbal medicine and natural compounds on cancers
What are the biological effects of Chinese herbal medicine in regulation of cancer cell metastasis?
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Setup: Low Temperatures
A lot of our research is performed at temperatures close to absolute zero, among other reasons because this increases the sensitivity of the measurements.
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Evolution and development of flowers, fruits and inflorescences of Phalaenopsis and other orchid species
The study of orchid flowers, fruits, and inflorescences is crucial due to the remarkable diversity of orchid species and their unique adaptations to pollinators and seed dispersers. However, our understanding of the evolution and development of these organs within the orchid family remains limited.
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Developing systems for high-throughput screening of infectious diseases using zebrafish
Promotor: Prof.dr. H.P. Spaink, Co-promotor: Prof. dr. A.H. Meijer
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Synthetic, Physical and Computational Chemistry of Propeller-shaped Polycyclic Aromatic Hydrocarbons
This thesis systematically studies the physicochemical properties of non-planar, propeller-shaped, polycyclic aromatic hydrocarbons. The synthesis of several so-called propellerenes is described on a gram scale, using optimized procedures aimed at using less hazardous reagents and reducing the amount…
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Drug Discovery & Safety
In the research programme Drug Discovery & Safety, we are interested in the efficacy and safety of new drugs and novel means to decipher these aspects. Hence, we employ advanced imaging and high-throughput screening techniques next to computational approaches such as chem- and bioinformatics.
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Student projects
To get an idea of the science communication products and research that is possible, a few examples of student projects of recent years are shown below.
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Cryo-EM of cholera infection
The structure of bacterial cells provides crucial clues about their interaction with their host. What are the key structural features of a bacterial cell that determine pathogenicity? What roles do these structures play in the life cycle, and how do they change during the infection process?
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Stable single molecules for quantum optics and all-optical switches
Promotor: Prof.dr. M.A.G.J. Orrit
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Towards a single-molecule FRET study of Frauenfelder's nonexponential rebinding of CO in myoglobin
Early time-resolved experiments by Frauenfelder on the ensemble of the kinetic rebinding of CO to myoglobin molecules resulted in a stretched exponential relaxa-tion due to a very large spread of the reaction rates of individual molecules.
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Renewable Energy
The transition to new and renewable energy sources should be completed by 2050. Researchers in various disciplines at Leiden University are conducting unique research that will help us make this transition and reduce CO2 emissions.
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Teaching
Research projects for students of the University of Leiden and other Dutch Universities are often available at the MacBio group. The research lines are also described in the Research section. For details of specific projects contact the supervisor (Ubbink, Dame, Boyle, Jeuken or Wentink).
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Bob van de Water
Science
water_b@lacdr.leidenuniv.nl | +31 71 527 6223
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Erik Danen
Science
e.danen@lacdr.leidenuniv.nl | +31 71 527 4486
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Nose of E. coli zips open and shut
PhD student Wen Yang discovered how certain cell receptors in E. coli bacteria signal 'smells'. With the use of ice-cold electron microscopy microbiologists from Leiden gain more insight into how bacteria respond to their environment. Publication in mBio.
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Working at the Faculty of Science
Working for a top faculty? Discover the vacancies at the Faculty of Science and apply immediately.
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Laboratory for Artefact Studies
Commercial enterprises who want to make use of the expertise and facilities are referred to LAB , the commercial unit responsible for specialized laboratory work.
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Vibration Isolation
To be able to measure small forces or small deviations from Boltzmann, the external vibrations at the resonance frequency must be very low. To achieve this, we have developed a very soft vibration isolation system and combine it with several other measures to reduce vibrations in our dilution refrigerators.…
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Solid State NMR and modelling of photoinduced energy and electron transfer
Huub de Groot is professor in Biophysical Organic Chemistry. With his team he works in the field of photosynthesis and artificial photosynthesis. The molecular basis for photosynthesis is formed by protein complexes and organelles that contain chlorophyll molecules. The antenna systems herein capture…
- Jan van Ruitenbeek Lab - Atomic and Molecular Conductors
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Research
An overview of the research at the Cancer Dug Target Discovery group.