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Concept

Single particle analysis

Related publications (26)

Microsecond Time-Resolved Cryo-Electron Microscopy

Oliver Florian Harder

Recently, single-particle cryo-electron microscopy emerged as a technique capable of determining protein structures at near-atomic resolution and resolving protein dynamics with a temporal resolution ranging from second to milliseconds. This thesis describ ...

EPFL2024

Near-atomic resolution reconstructions from in situ revitrified cryo samples

Marcel Drabbels, Ulrich Lorenz, Gabriele Bongiovanni, Jonathan Mark Voss, Oliver Florian Harder

A microsecond time-resolved version of cryo-electron microscopy (cryo-EM) has recently been introduced to enable observation of the fast conformational motions of proteins. The technique involves locally melting a cryo sample with a laser beam to allow the ...

2023

Towards near-atomic resolution imaging of microsecond nanoscale dynamics

Gabriele Bongiovanni

Time-resolved electron microscopy has made significant progress in recent years, with some groups now working on instruments that offer attosecond temporal resolution. While much of the research in the field revolves around the improvement of temporal reso ...

EPFL2023

In Situ and Time-Resolved Transmission Electron Microscopy of Nanoscale Processes

Chengcheng Yan

Observing the fast dynamics of nanoscale systems is crucial in order to understand and ultimately control their behavior. Characterizing these dynamic processes requires techniques with atomic spatial resolution and a temporal resolution that matches the t ...

EPFL2023

Micromechanics of oxide inclusions in ferrous alloys

Alejandra Inés Slagter

Oxide inclusions are inevitably present in steel as a direct consequence of the steelmaking process; as a result, a cubic centimetre of modern steel will generally contain about a million of these hard and brittle micrometre-sized ceramic particles. Inclus ...

EPFL2023

Structural Basis of the Allosteric Inhibition of Human ABCG2 by Nanobodies

Henning Paul-Julius Stahlberg, Dongchun Ni

ABCG2 is an ATP-binding cassette transporter that exports a wide range of xenobiotic compounds and has been recognized as a contributing factor for multidrug resistance in cancer cells. Substrate and inhibitor interactions with ABCG2 have been extensively ...

Academic Press Ltd- Elsevier Science Ltd2023

Random conical tilt reconstruction without particle picking in cryo-electron microscopy

Nicolas Boumal

A method is proposed to reconstruct the 3D molecular structure from micrographs collected at just one sample tilt angle in the random conical tilt scheme in cryo-electron microscopy. The method uses autocorrelation analysis on the micrographs to estimate f ...

INT UNION CRYSTALLOGRAPHY2022

Microsecond melting and revitrification of cryo samples with a correlative light-electron microscopy approach

Marcel Drabbels, Gabriele Bongiovanni, Oliver Florian Harder

We have recently introduced a novel approach to time-resolved cryo-electron microscopy (cryo-EM) that affords microsecond time resolution. It involves melting a cryo sample with a laser beam to allow dynamics of the embedded particles to occur. Once the la ...

2022

Biomass burning and marine aerosol processing over the southeast Atlantic Ocean: a TEM single-particle analysis

Athanasios Nenes, Jonathan Marc Taylor

This study characterizes single-particle aerosol composition from filters collected during the ObseRvations of Aerosols above CLouds and their intEractionS (ORACLES) and CLoud-Aerosol-Radiation Interaction and Forcing: Year 2017 (CLARIFY-2017) campaigns. I ...

Copernicus GmbH2022

80 K cryogenic stage for ice lithography

Danick Briand, Rubaiyet Iftekharul Haque, Jaemin Kim

We present a cryogenic system design and development for ice lithography. The cryo-stage is designed with embedded channels to allow direct liquid nitrogen flow, enabling fast cryogenic cooling, and low sample temperature. The stage cools down to 78.8 K in ...

ELSEVIER2022

Characterization of the electron-accepting part of the organohalide respiration chain of Dehalobacter and Desulfitobacterium

Lorenzo Cimmino

Organohalide respiration (OHR) is a bacterial anaerobic process that use halogenated compounds, e.g. tetrachloroethene (PCE), as terminal electron acceptors. D. restrictus strain PER-K23, an obligate OHR bacterium (OHRB), and D. hafniense strain TCE1, a ba ...

EPFL2022

CryoGAN: A New Reconstruction Paradigm for Single-Particle Cryo-EM Via Deep Adversarial Learning

Michaël Unser, Michael Thompson McCann, Laurène Donati, Harshit Gupta

We present CryoGAN, a new paradigm for single-particle cryo-electron microscopy (cryo-EM) reconstruction based on unsupervised deep adversarial learning. In single-particle cryo-EM, the structure of a biomolecule needs to be reconstructed from a large set ...

2021

Rapid melting and revitrification as an approach to microsecond time-resolved cryo-electron microscopy

Marcel Drabbels, Ulrich Lorenz, Pavel Olshin, Jonathan Mark Voss, Oliver Florian Harder

Proteins typically undergo dynamics on the microsecond to millisecond timescale, which is much faster than the time resolution of cryo-electron microscopy. Here, we propose a novel approach for microsecond time-resolved cryo-electron microscopy that involv ...

Elsevier2021

Functional and structural characterization of Serratia marcescens ExbB: determinants of the interaction with HasB/TonB

Henning Paul-Julius Stahlberg

ExbBD is part of a cytoplasmic membrane molecular motor driven by the proton-motive force. It belongs to the larger family of motors involved in nutriment import across the outer membrane of Gram-negative bacteria (ExbBD), flagellar rotation (MotAB) or lat ...

2021

New Methods for the Integrative Dynamic Modeling of Biomolecular Structures

Sylvain Träger

The true understanding of most cellular functions is only really achievable through the structural determination of their underlying macromolecular assemblies. However, their size, large number of individual components and metastable states make their eluc ...

EPFL2021

Joint Angular Refinement and Reconstruction for Single-Particle Cryo-EM

Michaël Unser, Emmanuel Emilien Louis Soubies, Laurène Donati

Single-particle cryo-electron microscopy (cryo-EM) reconstructs the three-dimensional (3D) structure of bio-molecules from a large set of 2D projection images with random and unknown orientations. A crucial step in the single-particle cryo-EM pipeline is 3 ...

2020

Reconstruction Methods for Cryo-Electron Microscopy: From Model-based to Data-driven

Laurène Donati

The topic of this thesis is the development of new reconstruction methods for cryo-electron microscopy (cryo-EM). Cryo-EM has revolutionized the field of structural biology over the last decade and now permits the regular discovery of biostructures. Yet, t ...

EPFL2020

Thermal stability of size-selected copper nanoparticles: Effect of size, support and CO2 hydrogenation atmosphere

Andreas Züttel, Wen Luo, Kun Zhao, Mostapha Dakhchoune, Mo Li, Alexandre Borsay

Metal nanoparticles with a precisely controlled particle size distribution are ideal model catalysts for fundamental studies in catalysis. In this work, the thermal stability of size-selected Cu nanoparticles (Cu NPs) were deposited by magnetron sputtering ...

2020

Single particle cryo‐EM of the complex between interphotoreceptor retinoid‐binding protein and a monoclonal antibody

Henning Paul-Julius Stahlberg

Interphotoreceptor retinoid‐binding protein (IRBP) is a highly expressed protein secreted by rod and cone photoreceptors that has major roles in photoreceptor homeostasis as well as retinoid and polyunsaturated fatty acid transport between the neural retin ...

2020

Novel features of centriole polarity and cartwheel stacking revealed by cryo-tomography

Pierre Gönczy, Paul Guichard, Davide Demurtas, Sergey Nazarov, Georgios Hatzopoulos, Alexandra Bezler, Veronika Nemcíková Villímová

Centrioles are polarized microtubule-based organelles that seed the formation of cilia, and which assemble from a cartwheel containing stacked ring oligomers ofSAS-6 proteins. A cryo-tomography map of centrioles from the termite flagellateTrichonymphaspp. ...

2020