title: Reconstruction of 3-dimensional histology volume and its application to study mouse mammary glands.
abstract: Histology volume reconstruction facilitates the study of 3D shape and volume change of an organ at the level of macrostructures made up of cells. It can also be used to investigate and validate novel techniques and algorithms in volumetric medical imaging and therapies. Creating 3D high-resolution atlases of different organs(1,2,3) is another application of histology volume reconstruction. This provides a resource for investigating tissue structures and the spatial relationship between various cellular features. We present an image registration approach for histology volume reconstruction, which uses a set of optical blockface images. The reconstructed histology volume represents a reliable shape of the processed specimen with no propagated post-processing registration error. The Hematoxylin and Eosin (H&E) stained sections of two mouse mammary glands were registered to their corresponding blockface images using boundary points extracted from the edges of the specimen in histology and blockface images. The accuracy of the registration was visually evaluated. The alignment of the macrostructures of the mammary glands was also visually assessed at high resolution. This study delineates the different steps of this image registration pipeline, ranging from excision of the mammary gland through to 3D histology volume reconstruction. While 2D histology images reveal the structural differences between pairs of sections, 3D histology volume provides the ability to visualize the differences in shape and volume of the mammary glands.
authors.affiliation: Department of Medical Biophysics, University of Toronto; rushin.shojaii@sri.utoronto.ca.
authors.forename: Rushin
authors.initials: R
authors.lastname: Shojaii
authors.affiliation: Platform Biological Sciences, Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto.
authors.forename: Stephanie
authors.initials: S
authors.lastname: Bacopulos
authors.affiliation: Platform Biological Sciences, Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto.
authors.forename: Wenyi
authors.initials: W
authors.lastname: Yang
authors.affiliation: Physical Sciences, Sunnybrook Research Institute.
authors.forename: Tigran
authors.initials: T
authors.lastname: Karavardanyan
authors.affiliation: Department of Pathology and Laboratory Medicine, Medical University of South Carolina.
authors.forename: Demetri
authors.initials: D
authors.lastname: Spyropoulos
authors.affiliation: Manitoba Institute of Cell Biology, University of Manitoba.
authors.forename: Afshin
authors.initials: A
authors.lastname: Raouf
authors.affiliation: Department of Medical Biophysics, University of Toronto; Physical Sciences, Sunnybrook Research Institute.
authors.forename: Anne
authors.initials: A
authors.lastname: Martel
authors.affiliation: Platform Biological Sciences, Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto.
authors.forename: Arun
authors.initials: A
authors.lastname: Seth
mesh_terms: D000818:Animals; D005260:Female; D021621:Imaging, Three-Dimensional / Q000379:methods; D018969:Insulin-Like Growth Factor Binding Proteins / Q000172:deficiency; D008321:Mammary Glands, Animal / Q000033:anatomy & histology* / Q000166:cytology / Q000378:metabolism; D051379:Mice; D016612:Paraffin Embedding
chemical_list: D018969:Insulin-Like Growth Factor Binding Proteins; C102529:insulin-like growth factor binding protein-related protein 1