ArticleJournal of structural biology2019
goCTF: Geometrically optimized CTF determination for single-particle cryo-EM.
Article in Journal of structural biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- H pilin cyclisation and pilus biogenesis are promiscuous but electrostatic perturbations impair conjugation efficiency.Nature communications · 2026Article
- H pilin cyclisation and pilus biogenesis are promiscuous but electrostatic perturbations impair conjugation efficiency.bioRxiv : the preprint server for biology · 2025Article
- An approach for coherent periodogram averaging of tilt-series data for improved contrast transfer function estimation.FEBS open bio · 2025Article
- A large-scale curated and filterable dataset for cryo-EM foundation model pre-training.Scientific data · 2025Article
- Article
- Cryo-EM structure of PML RBCC dimer reveals CC-mediated octopus-like nuclear body assembly mechanism.Cell discovery · 2024Article
- ATG9B is a tissue-specific homotrimeric lipid scramblase that can compensate for ATG9A.Autophagy · 2024Article
- Accurate, automatic determination of astigmatism and phase with Ctfplotter in IMOD.Journal of structural biology · 2024Article
- Overcoming resolution attenuation during tilted cryo-EM data collection.Nature communications · 2024Article
- Multi-scale structures of the mammalian radial spoke and divergence of axonemal complexes in ependymal cilia.Nature communications · 2024Article
- Computational methods forFrontiers in cellular and infection microbiology · 2023Review
- 8 Å structure of the outer rings of the Xenopus laevis nuclear pore complex obtained by cryo-EM and AI.Protein & cell · 2022Article
- Emerging Themes in CryoEM─Single Particle Analysis Image Processing.Chemical reviews · 2022Review
- High-resolution structure determination using high-throughput electron cryo-tomography.Acta crystallographica. Section D, Structural biology · 2022Review
- Unique binding pattern for a lineage of human antibodies with broad reactivity against influenza A virus.Nature communications · 2022Article
- Structural insights into the activation of autoinhibited human lipid flippase ATP8B1 upon substrate binding.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Cryogenic electron microscopy approaches that combine images and tilt series.Microscopy (Oxford, England) · 2022Article
- Fluoxetine targets an allosteric site in the enterovirus 2C AAA+ ATPase and stabilizes a ring-shaped hexameric complex.Science advances · 2022Article
- Mechanism of siRNA production by a plant Dicer-RNA complex in dicing-competent conformation.Science (New York, N.Y.) · 2021Article
- The structure of ORC-Cdc6 on an origin DNA reveals the mechanism of ORC activation by the replication initiator Cdc6.Nature communications · 2021Article
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1 author.
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Abstract
Preferred particle orientation represents a recurring problem in single-particle cryogenic electron microcopy (cryo-EM). A specimen-independent approach through tilting has been attempted to increase particle orientation coverage, thus minimizing anisotropic three-dimensional (3D) reconstruction. However, focus gradient is a critical issue hindering tilt applications from being a general practice in single-particle cryo-EM. The present study describes a newly developed geometrically optimized approach, goCTF, to reliably determine the global focus gradient. A novel strategy of determining contrast transfer function (CTF) parameters from a sector of the signal preserved power spectrum is applied to increase reliability. Subsequently, per-particle based local focus refinement is conducted in an iterative manner to further improve the defocus accuracy. Novel diagnosis methods using a standard deviation defocus plot and goodness of fit heatmap have also been proposed to evaluate CTF fitting quality prior to 3D refinement. In a benchmark study, goCTF processed a published single-particle cryo-EM dataset for influenza hemagglutinin trimer collected at a 40-degree specimen tilt. The resulting 3D reconstruction map was improved from 4.1 Å to 3.7 Å resolution. The goCTF program is built on the open-source code of CTFFIND4, which adopts a consistent user interface for ease of use.
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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.