ArticleMicroscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada2016
Quantifying Variability of Manual Annotation in Cryo-Electron Tomograms.
Article in Microscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Semi-supervised clustering with knowledge-guided representation learning in cryo-electron tomography.PLOS digital health · 2026Article
- Modified Dice Coefficients for Evaluation of Tumor Segmentation from PET Images: A Proof-of-Concept Study.Journal of imaging informatics in medicine · 2026Article
- Tracing low-level structures in cryo-electron tomography.PloS one · 2025Article
- 3D whole body preclinical micro-CT database of subcutaneous tumors in mice with annotations from 3 annotators.Scientific data · 2024Article
- Missing Wedge Completion via Unsupervised Learning with Coordinate Networks.International journal of molecular sciences · 2024Article
- High-confidence 3D template matching for cryo-electron tomography.Nature communications · 2024Article
- Missing Wedge Completion via Unsupervised Learning with Coordinate Networks.bioRxiv : the preprint server for biology · 2024Article
- The advent of preventive high-resolution structural histopathology by artificial-intelligence-powered cryogenic electron tomography.Frontiers in molecular biosciences · 2024Review
- Extracting nanoscale membrane morphology from single-molecule localizations.Biophysical journal · 2023Article
- Efficient manual annotation of cryogenic electron tomograms using IMOD.STAR protocols · 2022Article
- Cryo-electron tomography provides topological insights into mutant huntingtin exon 1 and polyQ aggregates.Communications biology · 2021Article
- A massively multi-scale approach to characterizing tissue architecture by synchrotron micro-CT applied to the human placenta.Journal of the Royal Society, Interface · 2021Article
- Cryogenic Super-Resolution Fluorescence and Electron Microscopy Correlated at the Nanoscale.Annual review of physical chemistry · 2021Review
- Visualizing Individual RuBisCO and Its Assembly into Carboxysomes in Marine Cyanobacteria by Cryo-Electron Tomography.Journal of molecular biology · 2018Article
- Cryo-soft X-ray tomography: using soft X-rays to explore the ultrastructure of whole cells.Emerging topics in life sciences · 2018Article
- Convolutional neural networks for automated annotation of cellular cryo-electron tomograms.Nature methods · 2017Article
- Volume Segmentation and Analysis of Biological Materials Using SuRVoS (Super-region Volume Segmentation) Workbench.Journal of visualized experiments : JoVE · 2017Article
- SuRVoS: Super-Region Volume Segmentation workbench.Journal of structural biology · 2017Article
- The advent of structural biologyBiophysics reports · 2017Article
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
Although acknowledged to be variable and subjective, manual annotation of cryo-electron tomography data is commonly used to answer structural questions and to create a "ground truth" for evaluation of automated segmentation algorithms. Validation of such annotation is lacking, but is critical for understanding the reproducibility of manual annotations. Here, we used voxel-based similarity scores for a variety of specimens, ranging in complexity and segmented by several annotators, to quantify the variation among their annotations. In addition, we have identified procedures for merging annotations to reduce variability, thereby increasing the reliability of manual annotation. Based on our analyses, we find that it is necessary to combine multiple manual annotations to increase the confidence level for answering structural questions. We also make recommendations to guide algorithm development for automated annotation of features of interest.
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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.