Localization of Metal Electrodes in the Intact Rat Brain Using Registration of 3D Microcomputed Tomography Images to a Magnetic Resonance Histology Atlas.
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Simultaneous neural recordings taken from multiple areas of the rodent brain are garnering growing interest due to the insight they can provide about spatially distributed neural circuitry. The promise of such recordings has inspired great progress in methods for surgically implanting large numbers of metal electrodes into intact rodent brains. However, methods for localizing the precise location of these electrodes have remained severely lacking. Traditional histological techniques that require slicing and staining of physical brain tissue are cumbersome, and become increasingly impractical as the number of implanted electrodes increases. Here we solve these problems by describing a method that registers 3-D computerized tomography (CT) images of intact rat brains implanted with metal electrode bundles to a Magnetic Resonance Imaging Histology (MRH) Atlas. Our method allows accurate visualization of each electrode bundle's trajectory and location without removing the electrodes from the brain or surgically implanting external markers. In addition, unlike physical brain slices, once the 3D images of the electrode bundles and the MRH atlas are registered, it is possible to verify electrode placements from many angles by "re-slicing" the images along different planes of view. Further, our method can be fully automated and easily scaled to applications with large numbers of specimens. Our digital imaging approach to efficiently localizing metal electrodes offers a substantial addition to currently available methods, which, in turn, may help accelerate the rate at which insights are gleaned from rodent network neuroscience.
Published Version (Please cite this version)10.1523/ENEURO.0017-15.2015
Publication InfoBadea, Alexandra; Badea, Cristian Tudorel; Borg, JS; Dzirasa, Kafui; Johnson, G Allan; & Vu, MA (2015). Localization of Metal Electrodes in the Intact Rat Brain Using Registration of 3D Microcomputed Tomography Images to a Magnetic Resonance Histology Atlas. eNeuro, 2(4). 10.1523/ENEURO.0017-15.2015. Retrieved from http://hdl.handle.net/10161/10327.
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Associate Professor in Radiology
My research has centered on multivariate image based phenotyping, with a focus on neurological conditions like Alzheimer’s disease. I work on imaging and analysis techniques to provide a comprehensive characterization of the brain. MRI is particularly suitable for brain imaging, and diffusion tensor imaging is an important tool for studying white matter, and the connectivity amongst gray matter regions. Using such techniques, we have developed high resolution, multivariate populat
Professor in Radiology
Dr. Cristian T. Badea is a Professor in the Department of Radiology and faculty in the Departments of Biomedical Engineering and Medical Physics. His research focuses on pre-clinical imaging. Dr. Badea has research interests in the physics and biomedical applications of computed tomography (CT), micro-CT, tomosynthesis, and image reconstruction algorithms.
K. Ranga Rama Krishnan Associate Professor
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