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Three-dimensional tumour microenvironment reconstruction and tumour-immune interactions' analysis

Barmpoutis, P; Kayhanian, H; Waddingham, W; Alexander, DC; Jansen, M; (2021) Three-dimensional tumour microenvironment reconstruction and tumour-immune interactions' analysis. In: 2021 Digital Image Computing: Techniques and Applications (DICTA). IEEE: Gold Coast, Australia. Green open access

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Abstract

Tumours arise within complex 3D microenvironments, but the routine 2D analysis of tumours often underestimates the spatial heterogeneity. In this paper, we present a methodology to reconstruct and analyse 3D tumour models from routine clinical samples allowing 3D interactions to be analysed at cellular resolution. Our workflow involves cutting thin serial sections of tumours followed by labelling of cells using markers of interest. Serial sections are then scanned, and digital multiplexed data are created for computational reconstruction. Following spectral unmixing, a registration method of the consecutive images based on a pre-alignment, a parametric and a non-parametric image registration step is applied. For the segmentation of the cells, an ellipsoidal model is proposed and for the 3D reconstruction, a cubic interpolation method is used. The proposed 3D models allow us to identify specific interaction patterns that emerge as tumours develop, adapt and evolve within their host microenvironment. We applied our technique to map tumour-immune interactions of colorectal cancer and preliminary results suggest that 3D models better represent the tumor-immune cells interaction revealing mechanisms within the tumour microenvironment and its heterogeneity.

Type: Proceedings paper
Title: Three-dimensional tumour microenvironment reconstruction and tumour-immune interactions' analysis
Event: 2021 Digital Image Computing: Techniques and Applications (DICTA)
Dates: 29 Nov 2021 - 1 Dec 2021
ISBN-13: 9781665417099
Open access status: An open access version is available from UCL Discovery
DOI: 10.1109/DICTA52665.2021.9647283
Publisher version: https://doi.org/10.1109/DICTA52665.2021.9647283
Language: English
Additional information: This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
Keywords: Multiplexing, Solid modeling, Adaptation models, Pathology, Three-dimensional displays, Computational modeling, Spatial resolution
UCL classification: UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Cancer Institute > Research Department of Pathology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Cancer Institute
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science > Dept of Computer Science
UCL > Provost and Vice Provost Offices > UCL BEAMS
URI: https://discovery.ucl.ac.uk/id/eprint/10150406
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