ArticlePloS one2013
PombeX: robust cell segmentation for fission yeast transillumination images.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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Who cites it
10 citing papers in PubMed, 19 citations in OpenAlex.
- A Rapidly Inducible DNA Double-Strand Break to Monitor Telomere Formation, DNA Repair, and Checkpoint Activation.Methods in molecular biology (Clifton, N.J.) · 2025Article
- MAARS Software for Automatic and Quantitative Analysis of Mitotic Progression.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Article
- Live cell microscopy: From image to insight.Biophysics reviews · 2022Review
- Pomegranate: 2D segmentation and 3D reconstruction for fission yeast and other radially symmetric cells.Scientific reports · 2020Article
- Automated morphometry toolbox for analysis of microscopic model organisms using simple bright-field imaging.Biology open · 2019Article
- A Kinect-Based Segmentation of Touching-Pigs for Real-Time Monitoring.Sensors (Basel, Switzerland) · 2018Article
- MAARS: a novel high-content acquisition software for the analysis of mitotic defects in fission yeast.Molecular biology of the cell · 2017Article
- Long-term tracking of budding yeast cells in brightfield microscopy: CellStar and the Evaluation Platform.Journal of the Royal Society, Interface · 2017Article
- Cell Detection Using Extremal Regions in a Semisupervised Learning Framework.Journal of healthcare engineering · 2017Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
Schizosaccharomyces pombe shares many genes and proteins with humans and is a good model for chromosome behavior and DNA dynamics, which can be analyzed by visualizing the behavior of fluorescently tagged proteins in vivo. Performing a genome-wide screen for changes in such proteins requires developing methods that automate analysis of a large amount of images, the first step of which requires robust segmentation of the cell. We developed a segmentation system, PombeX, that can segment cells from transmitted illumination images with focus gradient and varying contrast. Corrections for focus gradient are applied to the image to aid in accurate detection of cell membrane and cytoplasm pixels, which is used to generate initial contours for cells. Gradient vector flow snake evolution is used to obtain the final cell contours. Finally, a machine learning-based validation of cell contours removes most incorrect or spurious contours. Quantitative evaluations show overall good segmentation performance on a large set of images, regardless of differences in image quality, lighting condition, focus condition and phenotypic profile. Comparisons with recent related methods for yeast cells show that PombeX outperforms current methods, both in terms of segmentation accuracy and computational speed.
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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.