ArticlePloS one2016
Object Segmentation and Ground Truth in 3D Embryonic Imaging.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 10 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
10 citing papers in PubMed.
- Scale space detector for analyzing spatiotemporal ventricular contractility and nuclear morphogenesis in zebrafish.iScience · 2022Article
- GIANI - open-source software for automated analysis of 3D microscopy images.Journal of cell science · 2022Article
- Cell Tracking Profiler - a user-driven analysis framework for evaluating 4D live-cell imaging data.Journal of cell science · 2020Article
- 3D convolutional neural networks-based segmentation to acquire quantitative criteria of the nucleus during mouse embryogenesis.NPJ systems biology and applications · 2020Article
- XitoSBML: A Modeling Tool for Creating Spatial Systems Biology Markup Language Models From Microscopic Images.Frontiers in genetics · 2019Article
- A high-throughput imaging and nuclear segmentation analysis protocol for cleared 3D culture models.Scientific reports · 2018Article
- A Kinect-Based Segmentation of Touching-Pigs for Real-Time Monitoring.Sensors (Basel, Switzerland) · 2018Article
- A framework for quantification and physical modeling of cell mixing applied to oscillator synchronization in vertebrate somitogenesis.Biology open · 2017Article
- Delta-Notch signalling in segmentation.Arthropod structure & development · 2017Review
- Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
Abstract
Many questions in developmental biology depend on measuring the position and movement of individual cells within developing embryos. Yet, tools that provide this data are often challenged by high cell density and their accuracy is difficult to measure. Here, we present a three-step procedure to address this problem. Step one is a novel segmentation algorithm based on image derivatives that, in combination with selective post-processing, reliably and automatically segments cell nuclei from images of densely packed tissue. Step two is a quantitative validation using synthetic images to ascertain the efficiency of the algorithm with respect to signal-to-noise ratio and object density. Finally, we propose an original method to generate reliable and experimentally faithful ground truth datasets: Sparse-dense dual-labeled embryo chimeras are used to unambiguously measure segmentation errors within experimental data. Together, the three steps outlined here establish a robust, iterative procedure to fine-tune image analysis algorithms and microscopy settings associated with embryonic 3D image data sets.
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What OpenQuestion holds
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.