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   Articles with "cryo maps" as a keyword



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Super Resolution Cryo-EM Maps with 3D Deep Generative Networks

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recommendations! Published in 2021 at "Biophysical Journal"

DOI: 10.1016/j.bpj.2020.11.1801

Abstract: An increasing number of biological macromolecules have been solved with cryo-electron microscopy (cryo-EM). Over the past few years, the resolutions of density maps determined by cryo-EM have largely improved in general. However, there are still… read more here.

Keywords: resolution; super resolution; cryo; resolution cryo ... See more keywords

Automated model building and protein identification in cryo-EM maps

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recommendations! Published in 2024 at "Nature"

DOI: 10.1038/s41586-024-07215-4

Abstract: Interpreting electron cryo-microscopy (cryo-EM) maps with atomic models requires high levels of expertise and labour-intensive manual intervention in three-dimensional computer graphics programs1,2. Here we present ModelAngelo, a machine-learning approach for automated atomic model building in… read more here.

Keywords: cryo; protein; identification; cryo maps ... See more keywords

Electron scattering properties of biological macromolecules and their use for cryo-EM map sharpening

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recommendations! Published in 2022 at "Faraday Discussions"

DOI: 10.1039/d2fd00078d

Abstract: Resolution-dependent loss of contrast in cryo-EM maps may obscure features at high resolution that are critical for map interpretation. Post-processing of cryo-EM maps can improve the interpretability by adjusting the resolution-dependence of structure factor amplitudes… read more here.

Keywords: map; cryo maps; properties biological; scattering properties ... See more keywords

DEMO-EM2: assembling protein complex structures from cryo-EM maps through intertwined chain and domain fitting

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recommendations! Published in 2024 at "Briefings in Bioinformatics"

DOI: 10.1093/bib/bbae113

Abstract: Abstract The breakthrough in cryo-electron microscopy (cryo-EM) technology has led to an increasing number of density maps of biological macromolecules. However, constructing accurate protein complex atomic structures from cryo-EM maps remains a challenge. In this… read more here.

Keywords: demo em2; chain; protein complex; cryo maps ... See more keywords

Finding antibodies in cryo-EM maps with CrAI

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recommendations! Published in 2025 at "Bioinformatics"

DOI: 10.1093/bioinformatics/btaf157

Abstract: Abstract Motivation Therapeutic antibodies have emerged as a prominent class of new drugs due to their high specificity and their ability to bind to several protein targets. Once an initial antibody has been identified, its… read more here.

Keywords: maps crai; method; finding antibodies; antibodies cryo ... See more keywords

Refinement of cryo-EM 3D maps with a self-supervised denoising model: crefDenoiser

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recommendations! Published in 2024 at "IUCrJ"

DOI: 10.1107/s2052252524005918

Abstract: State-of-the-art 3D cryo-EM map denoising with a self-supervised neural network model optimized for theoretical noise-free maps is introduced. read more here.

Keywords: self supervised; cryo; model; cryo maps ... See more keywords

Smart De Novo Macromolecular Structure Modeling from Cryo-EM Maps.

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recommendations! Published in 2023 at "Journal of molecular biology"

DOI: 10.2139/ssrn.4265664

Abstract: The study of macromolecular structures has expanded our understanding of the amazing cell machinery and such knowledge has changed how the pharmaceutical industry develops new vaccines in recent years. Traditionally, x-ray crystallography has been the… read more here.

Keywords: macromolecular structure; smart novo; cryo maps; novo macromolecular ... See more keywords
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Bayesian Modeling of Biomolecular Assemblies with Cryo-EM Maps

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recommendations! Published in 2017 at "Frontiers in Molecular Biosciences"

DOI: 10.3389/fmolb.2017.00015

Abstract: A growing array of experimental techniques allows us to characterize the three-dimensional structure of large biological assemblies at increasingly higher resolution. In addition to X-ray crystallography and nuclear magnetic resonance in solution, new structure determination… read more here.

Keywords: modeling biomolecular; cryo maps; bayesian modeling; structure ... See more keywords

MarkovFit: Structure Fitting for Protein Complexes in Electron Microscopy Maps Using Markov Random Field

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recommendations! Published in 2022 at "Frontiers in Molecular Biosciences"

DOI: 10.3389/fmolb.2022.935411

Abstract: An increasing number of protein complex structures are determined by cryo-electron microscopy (cryo-EM). When individual protein structures have been determined and are available, an important task in structure modeling is to fit the individual structures… read more here.

Keywords: cryo maps; electron microscopy; microscopy; using markov ... See more keywords

Beyond Current Boundaries: Integrating Deep Learning and AlphaFold for Enhanced Protein Structure Prediction from Low-Resolution Cryo-EM Maps

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recommendations! Published in 2024 at "Computational biology and chemistry"

DOI: 10.48550/arxiv.2410.23321

Abstract: Constructing atomic models from cryo-electron microscopy (cryo-EM) maps is a crucial yet intricate task in structural biology. While advancements in deep learning, such as convolutional neural networks (CNNs) and graph neural networks (GNNs), have spurred… read more here.

Keywords: deep learning; low resolution; biology; resolution ... See more keywords