Summary of 1-Bao-WormEmbryo

SSBD:database URL
Relase date
Updated date
Quantitative data based on Experiment
Number of Datasets
1 ( Image datasets: 0, Quantitative data datasets: 1 )
Size of Datasets
22.9 MB ( Image datasets: 0 bytes, Quantitative data datasets: 22.9 MB )

C. elegans

nuclear division dynamics
Molecular Function (MF)
Biological Process (BP)
embryo development
Cellular Component (CC)
Biological Imaging Method
XYZ Scale
XY: 0.09 micrometer/pixel, Z: 1.0 micrometer/slice
T scale
1.0 minute for each time interval

Image Acquisition
Experiment type
Microscope type
Acquisition mode
Contrast method
Microscope model
Detector model
Objective model
Filter set

Related paper(s)

Zhirong Bao, John I Murray, Thomas Boyle, Siew Loon Ooi, Matthew J Sandel, Robert H Waterston (2006) Automated cell lineage tracing in Caenorhabditis elegans., Proceedings of the National Academy of Sciences of the United States of America, Volume 103, Number 8, pp. 2707-12

Published in 2006 Feb 21 (Electronic publication in Feb. 13, 2006, midnight )

(Abstract) The invariant cell lineage and cell fate of Caenorhabditis elegans provide a unique opportunity to decode the molecular mechanisms of animal development. To exploit this opportunity, we have developed a system for automated cell lineage tracing during C. elegans embryogenesis, based on 3D, time-lapse imaging and automated image analysis. Using ubiquitously expressed histone-GFP fusion protein to label cells/nuclei and a confocal microscope, the imaging protocol captures embryogenesis at high spatial (31 planes at 1 microm apart) and temporal (every minute) resolution without apparent effects on development. A set of image analysis algorithms then automatically recognizes cells at each time point, tracks cell movements, divisions and deaths over time and assigns cell identities based on the canonical naming scheme. Starting from the four-cell stage (or earlier), our software, named starrynite, can trace the lineage up to the 350-cell stage in 25 min on a desktop computer. The few errors of automated lineaging can then be corrected in a few hours with a graphic interface that allows easy navigation of the images and the reported lineage tree. The system can be used to characterize lineage phenotypes of genes and/or extended to determine gene expression patterns in a living embryo at the single-cell level. We envision that this automation will make it practical to systematically decipher the developmental genes and pathways encoded in the genome of C. elegans.
(MeSH Terms)

Robert H. Waterston , University of Washington , Department of Genome Sciences
Zhirong Bao, John I. Murray, Thomas Boyle, Siew Loon Ooi, Matthew J. Sandel, Robert H. Waterston

Dataset List of 1-Bao-WormEmbryo

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# 1
Datast ID 081505_L1
Dataset Kind Quantitative data
Dataset Size 22.9 MB
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