ReviewMolecules (Basel, Switzerland)2019
Advances in Structure Modeling Methods for Cryo-Electron Microscopy Maps.
Review in Molecules (Basel, Switzerland), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Secondary Structure Detection and Structure Modeling for Cryo-EM.Methods in molecular biology (Clifton, N.J.) · 2025Article
- DomainFit: Identification of protein domains in cryo-EM maps at intermediate resolution using AlphaFold2-predicted models.Structure (London, England : 1993) · 2024Article
- DeepMainmast: integrated protocol of protein structure modeling for cryo-EM with deep learning and structure prediction.Nature methods · 2024Article
- Integrated Protocol of Protein Structure Modeling for Cryo-EM with Deep Learning and Structure Prediction.bioRxiv : the preprint server for biology · 2023Article
- CryoREAD: de novo structure modeling for nucleic acids in cryo-EM maps using deep learning.Nature methods · 2023Article
- Gentle and fast all-atom model refinement to cryo-EM densities via a maximum likelihood approach.PLoS computational biology · 2023Article
- Structure of a 28.5 kDa duplex-embedded G-quadruplex system resolved to 7.4 Å resolution with cryo-EM.Nucleic acids research · 2023Article
- Protein Structural Modeling for Electron Microscopy Maps Using VESPER and MAINMAST.Current protocols · 2022Article
- 3D reconstruction from cryo-EM projection images using two spherical embeddings.Communications biology · 2022Article
- MarkovFit: Structure Fitting for Protein Complexes in Electron Microscopy Maps Using Markov Random Field.Frontiers in molecular biosciences · 2022Article
- Simulation and Machine Learning Methods for Ion-Channel Structure Determination, Mechanistic Studies and Drug Design.Frontiers in pharmacology · 2022Review
- Using cryo-EM to uncover mechanisms of bacterial transcriptional regulation.Biochemical Society transactions · 2021Review
- EMNUSS: a deep learning framework for secondary structure annotation in cryo-EM maps.Briefings in bioinformatics · 2021Article
- Kinematic Reconstruction of Cyclic Peptides and Protein Backbones from Partial Data.Journal of chemical information and modeling · 2021Article
- A Fast Image Alignment Approach for 2D Classification of Cryo-EM Images Using Spectral Clustering.Current issues in molecular biology · 2021Article
- Efficient Flexible Fitting Refinement with Automatic Error Fixing for De Novo Structure Modeling from Cryo-EM Density Maps.Journal of chemical information and modeling · 2021Article
- Deep Learning-Based Advances in Protein Structure Prediction.International journal of molecular sciences · 2021Review
- Detecting protein and DNA/RNA structures in cryo-EM maps of intermediate resolution using deep learning.Nature communications · 2021Article
- State-dependent sequential allostery exhibited by chaperonin TRiC/CCT revealed by network analysis of Cryo-EM maps.Progress in biophysics and molecular biology · 2021Article
- Hybrid methods for combined experimental and computational determination of protein structure.The Journal of chemical physics · 2020Review
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Cryo-electron microscopy (cryo-EM) has now become a widely used technique for structure determination of macromolecular complexes. For modeling molecular structures from density maps of different resolutions, many algorithms have been developed. These algorithms can be categorized into rigid fitting, flexible fitting, and de novo modeling methods. It is also observed that machine learning (ML) techniques have been increasingly applied following the rapid progress of the ML field. Here, we review these different categories of macromolecule structure modeling methods and discuss their advances over time.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.