Journal
JOURNAL OF NEUROSCIENCE METHODS
Volume 194, Issue 1, Pages 56-63Publisher
ELSEVIER SCIENCE BV
DOI: 10.1016/j.jneumeth.2009.12.014
Keywords
3D reconstruction; Atlases; Anatomical framework; Brain; Neuroinformatics
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Funding
- NIMH NIH HHS [P50 MH086400] Funding Source: Medline
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Computer based three-dimensional reconstruction and co-registration of experimental data provide powerful tools for integration of observation derived from various technical approaches leading to better understanding of brain functions. Here we describe a method to build a 3D multi-modal and multi-dimensional model of brain structures providing framework for data sharing. All image processing, registration and 3D reconstruction were performed using open source software IMOD package software and ImageJ. The reconstruction procedure is based on series of AChE and Nissl stained sections aligned to blockface pictures. Integration of experimental data into the reference model is achieved by co-registration of Nissl sections of experimental brain cases by positioning landmarks on corresponding anatomical structures. To overcome the challenge of comparing for experimental sections with those of the reference model, adjustment of experimental model to the brain model was done section by section and limited to the structures of interest. For this adjustment we stress the use of cytoarchitectural criteria for accurate registration of anatomical structures and co-registration procedures. (C) 2009 Elsevier B.V. All rights reserved.
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