Trahearn, Nicholas, Epstein, D. B. A., Cree, Ian A., Snead, David and Rajpoot, Nasir M. (2017) Hyper-stain inspector : a framework for robust registration and localised co-expression analysis of multiple whole-slide images of serial histology sections. Scientific Reports, 7 . 5641.

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Abstract

In this paper, we present a fast method for registration of multiple large, digitised whole-slide images (WSIs) of serial histology sections. Through cross-slide WSI registration, it becomes possible to select and analyse a common visual field across images of several serial section stained with different protein markers. It is, therefore, a critical first step for any downstream co-localised cross-slide analysis. The proposed registration method uses a two-stage approach, first estimating a fast initial alignment using the tissue sections’ external boundaries, followed by an efficient refinement process guided by key biological structures within the visual field. We show that this method is able to produce a high quality alignment in a variety of circumstances, and demonstrate that the refinement is able to quantitatively improve registration quality. In addition, we provide a case study that demonstrates how the proposed method for cross-slide WSI registration could be used as part of a specific co-expression analysis framework.

Item Type:	Journal Article
Alternative Title:
Subjects:	Q Science > QM Human anatomy Q Science > QP Physiology R Medicine > RB Pathology R Medicine > RC Internal medicine
Divisions:	Faculty of Science > Computer Science Faculty of Science > Mathematics
Library of Congress Subject Headings (LCSH):	Pathology, Pathology--Slides (Photography), Diagnostic imaging, Tissues--Imaging
Journal or Publication Title:	Scientific Reports
Publisher:	Nature Publishing Group
ISSN:	2045-2322
Official Date:	17 July 2017
Dates:	Date Event 17 July 2017 Published 10 May 2017 Accepted
Date of first compliant deposit:	13 June 2017
Volume:	7
Article Number:	5641
Status:	Peer Reviewed
Publication Status:	Published
Access rights to Published version:	Open Access
Funder:	Engineering and Physical Sciences Research Council (EPSRC), Omnyx, LLC (Firm)

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