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One of the challenges in single particle reconstruction in cryo-electron microscopy is to find a three-dimensional model of a molecule using its two-dimensional noisy projection-images. In this paper, we propose a robust "angular…

计算几何 · 计算机科学 2020-01-08 Gabi Pragier , Yoel Shkolnisky

Cryo-electron microscopy is a state-of-the-art method for determining high-resolution three-dimensional models of molecules, from their two-dimensional projection images taken by an electron microscope. A crucial step in this method is to…

图像与视频处理 · 电气工程与系统科学 2022-12-16 Eitan Rosen , Yoel Shkolnisky

We consider the problem of estimating an unbiased and reference-free ab-inito model for non-symmetric molecules from images generated by single-particle cryo-electron microscopy. The proposed algorithm finds the globally optimal assignment…

定量方法 · 定量生物学 2018-10-30 Ido Greenberg , Yoel Shkolnisky

Single particle cryo-electron microscopy has become a critical tool in structural biology over the last decade, able to achieve atomic scale resolution in three dimensional models from hundreds of thousands of (noisy) two-dimensional…

数值分析 · 数学 2023-07-19 Aaditya V. Rangan , Leslie Greengard

We revisit the topic of common lines between projection images in single particle cryo-electron microscopy (cryo-EM). We derive a novel low-rank constraint on a certain $2n \times n$ matrix storing properly-scaled basis vectors for the…

最优化与控制 · 数学 2024-06-10 Tommi Muller , Adriana L. Duncan , Eric J. Verbeke , Joe Kileel

Single particle cryo-electron microscopy (EM) is an increasingly popular method for determining the 3-D structure of macromolecules from noisy 2-D images of single macromolecules whose orientations and positions are random and unknown. One…

计算机视觉与模式识别 · 计算机科学 2017-04-11 Roy R. Lederman , Amit Singer

Single-particle cryo-electron microscopy (cryo-EM) has recently joined X-ray crystallography and NMR spectroscopy as a high-resolution structural method to resolve biological macromolecules. In a cryo-EM experiment, the microscope produces…

信息论 · 计算机科学 2022-10-28 Tamir Bendory , Nicolas Boumal , William Leeb , Eitan Levin , Amit Singer

A common task in cryo-electron microscopy (cryo-EM) data processing is to compare three-dimensional density maps of macromolecules. In this paper, we propose an algorithm for aligning three-dimensional density maps that exploits common…

图像与视频处理 · 电气工程与系统科学 2023-02-27 Yael Harpaz , Yoel Shkolnisky

The goal of cryo-electron microscopy (EM) is to reconstruct the 3-dimensional structure of a molecule from a collection of its 2-dimensional projected images. In this article, we show that the basic premise of cryo-EM --- patching together…

计算机视觉与模式识别 · 计算机科学 2017-04-25 Ke Ye , Lek-Heng Lim

We propose a method to reconstruct the 3-D molecular structure from micrographs collected at just one sample tilt angle in the random conical tilt scheme in cryo-electron microscopy. Our method uses autocorrelation analysis on the…

数据分析、统计与概率 · 物理学 2021-01-12 Ti-Yen Lan , Nicolas Boumal , Amit Singer

Single-Particle Reconstruction (SPR) in Cryo-Electron Microscopy (cryo-EM) is the task of estimating the 3D structure of a molecule from a set of noisy 2D projections, taken from unknown viewing directions. Many algorithms for SPR start…

最优化与控制 · 数学 2018-01-09 Eitan Levin , Tamir Bendory , Nicolas Boumal , Joe Kileel , Amit Singer

Cryogenic electron microscopy (cryo-EM) provides images from different copies of the same biomolecule in arbitrary orientations. Here, we present an end-to-end unsupervised approach that learns individual particle orientations from cryo-EM…

图像与视频处理 · 电气工程与系统科学 2021-07-08 Youssef S. G. Nashed , Frederic Poitevin , Harshit Gupta , Geoffrey Woollard , Michael Kagan , Chuck Yoon , Daniel Ratner

Single particle cryo-electron microscopy is a vital tool for 3D characterization of protein structures. A typical workflow involves acquiring projection images of a collection of randomly oriented particles, picking and classifying…

图像与视频处理 · 电气工程与系统科学 2021-03-22 S. V. Venkatakrishnan , Puneet Juneja , Hugh O'Neill

Cryo-electron microscopy (cryo-EM) has become a tool of fundamental importance in structural biology, helping us understand the basic building blocks of life. The algorithmic challenge of cryo-EM is to jointly estimate the unknown 3D poses…

计算机视觉与模式识别 · 计算机科学 2022-09-01 Axel Levy , Frédéric Poitevin , Julien Martel , Youssef Nashed , Ariana Peck , Nina Miolane , Daniel Ratner , Mike Dunne , Gordon Wetzstein

Single-particle electron cryomicroscopy is an essential tool for high-resolution 3D reconstruction of proteins and other biological macromolecules. An important challenge in cryo-EM is the reconstruction of non-rigid molecules with parts…

图像与视频处理 · 电气工程与系统科学 2021-05-31 Amit Moscovich , Amit Halevi , Joakim Andén , Amit Singer

Single-particle electron cryomicroscopy (cryo-EM) is an increasingly popular technique for elucidating the three-dimensional structure of proteins and other biologically significant complexes at near-atomic resolution. It is an imaging…

计算物理 · 物理学 2020-04-01 Amit Singer , Fred J. Sigworth

Cryo-electron microscopy is a technique in structural biology for discovering/determining the 3D structure of small molecules. A key step in this process is detecting common lines of intersection between unknown embedded image planes. We…

代数几何 · 数学 2014-02-25 David Dynerman

Determining the three-dimensional structure of proteins and protein complexes at atomic resolution is a fundamental task in structural biology. Over the last decade, remarkable progress has been made using "single particle" cryo-electron…

数值分析 · 数学 2017-06-05 Alex Barnett , Leslie Greengard , Andras Pataki , Marina Spivak

Single particle cryogenic electron microscopy (cryo-EM) is an imaging technique capable of recovering the high-resolution 3-D structure of biological macromolecules from many noisy and randomly oriented projection images. One notable…

生物大分子 · 定量生物学 2024-01-30 Andy Zhang , Oscar Mickelin , Joe Kileel , Eric J. Verbeke , Nicholas F. Marshall , Marc Aurèle Gilles , Amit Singer

Cryo-electron microscopy (cryo-EM) is an emerging experimental method to characterize the structure of large biomolecular assemblies. Single particle cryo-EM records 2D images (so-called micrographs) of projections of the three-dimensional…

应用统计 · 统计学 2013-12-02 Mikhail Langovoy , Michael Habeck , Bernhard Schoelkopf
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