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Digital Three-Dimensional Atlas of Quail Development Using High-Resolution MRI

Ruffins, Seth W. and Martin, Melanie and Keough, Lindsey and Truong, Salina and Fraser, Scott E. and Jacobs, Russell E. and Lansford, Rusty (2007) Digital Three-Dimensional Atlas of Quail Development Using High-Resolution MRI. TheScientificWorld, 7 . pp. 592-604. ISSN 1537-744X. doi:10.1100/tsw.2007.125.

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We present an archetypal set of three-dimensional digital atlases of the quail embryo based on microscopic magnetic resonance imaging (µMRI). The atlases are composed of three modules: (1) images of fixed ex ovo quail, ranging in age from embryonic day 5 to 10 (e05 to e10); (2) a coarsely delineated anatomical atlas of the µMRI data; and (3) an organ system–based hierarchical graph linked to the anatomical delineations. The atlas is designed to be accessed using SHIVA, a free Java application. The atlas is extensible and can contain other types of information including anatomical, physiological, and functional descriptors. It can also be linked to online resources and references. This digital atlas provides a framework to place various data types, such as gene expression and cell migration data, within the normal three-dimensional anatomy of the developing quail embryo. This provides a method for the analysis and examination of the spatial relationships among the different types of information within the context of the entire embryo.

Item Type:Article
Related URLs:
URLURL TypeDescription
Fraser, Scott E.0000-0002-5377-0223
Jacobs, Russell E.0000-0002-1382-8486
Lansford, Rusty0000-0002-2159-3699
Additional Information:©2007 with author. Published by TheScientificWorld; Received January 25, 2007; Revised April 18, 2007; Accepted April 24, 2007; Published May 11, 2007 This work was funded, in part, by the NIH NCRR (R21HD047347-01A2), the NIH NCRR (U24 RR021760) BIRN, and the NIH NHGRI Center for Excellence in Genomic Science (P50 HG004071). Published under TheScientificWorld's Open Choice Alternative <>.
Funding AgencyGrant Number
NIHU24 RR021760
NIHP50 HG004071
Subject Keywords:anatomy, embryo, development, imaging, microscopy, avian, quail, MRI
Record Number:CaltechAUTHORS:RUFtswj07
Persistent URL:
Official Citation:Ruffins, S.W., Martin, M., Keough, L., Truong, S., Fraser, S.E., Jacobs, R.E., and Lansford, R. (2007 Digital three-dimensional atlas of quail development using high-resolution MRI. TSW Development & Embryology, 47–59. DOI 10.1100/tsw.2007.137.
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:8096
Deposited By: Archive Administrator
Deposited On:30 Jul 2007
Last Modified:08 Nov 2021 20:48

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