Challenges and Practical Solutions to MRI and Histology Matching and Measurements Using Available ImageJ Software Tools.

Autor: Khodanovich MY; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Anan'ina TV; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Krutenkova EP; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Akulov AE; Institute of Cytology and Genetics, The Siberian Branch of the Russian Academy of Sciences, 10 Lavrentyeva Avenue, 630090 Novosibirsk, Russia., Kudabaeva MS; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Svetlik MV; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Tumentceva YA; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Shadrina MM; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia., Naumova AV; Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.; Department of Radiology, University of Washington, 850 Republican Street, Seattle, WA 98109, USA.
Jazyk: angličtina
Zdroj: Biomedicines [Biomedicines] 2022 Jun 30; Vol. 10 (7). Date of Electronic Publication: 2022 Jun 30.
DOI: 10.3390/biomedicines10071556
Abstrakt: Traditionally histology is the gold standard for the validation of imaging experiments. Matching imaging slices and histological sections and the precise outlining of corresponding tissue structures are difficult. Challenges are based on differences in imaging and histological slice thickness as well as tissue shrinkage and alterations after processing. Here we describe step-by-step instructions that might be used as a universal pathway to overlay MRI and histological images and for a correlation of measurements between imaging modalities. The free available (Fiji is just) ImageJ software tools were used for regions of interest transformation (ROIT) and alignment using a rat brain MRI as an example. The developed ROIT procedure was compared to a manual delineation of rat brain structures. The ROIT plugin was developed for ImageJ to enable an automatization of the image processing and structural analysis of the rodent brain.
Databáze: MEDLINE
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