Localization of Metal Electrodes in the Intact Rat Brain Using Registration of 3D Microcomputed Tomography Images to a Magnetic Resonance Histology Atlas

ENeuro
Jana Schaich BorgKafui Dzirasa

Abstract

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-slic...Continue Reading

Citations

Feb 17, 2019·Journal of Neural Transmission·Artur PałaszRyszard Wiaderkiewicz
Mar 15, 2019·Acta Neuropathologica Communications·Iris Margalit TrutzerBasilis Zikopoulos
Jul 1, 2020·Journal of Neural Engineering·Khalil B RamadiMichael J Cima
Sep 19, 2020·Nature Communications·Bálint KirályBalázs Hangya

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Methods Mentioned

BETA
imaging technique
imaging techniques

Software Mentioned

SAMARATAG
3D
SAMARA
One Plus One
OnePlusOneEvolutionary
Nikon NIS
Slicer
LabVIEW
- Elements Basic Research Microscope Imaging Software
MATLAB

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