InShaDe: Invariant Shape Descriptors for Visual Analysis of Histology 2D Cellular and Nuclear Shapes

Agus, Marco; Al-Thelaya, Khaled; Cali, Corrado; Boido, Marina M.; Yang, Yin; Pintore, Giovanni; Gobbetti, Enrico; Schneider, Jens

InShaDe: Invariant Shape Descriptors for Visual Analysis of Histology 2D Cellular and Nuclear Shapes

Files

061-070.pdf (9.2 MB)

Date

2020

Authors

Agus, Marco
Al-Thelaya, Khaled
Cali, Corrado
Boido, Marina M.
Yang, Yin
Pintore, Giovanni
Gobbetti, Enrico
Schneider, Jens

Publisher

The Eurographics Association

Abstract

We present a shape processing framework for visual exploration of cellular nuclear envelopes extracted from histology images. The framework is based on a novel shape descriptor of closed contours relying on a geodesically uniform resampling of discrete curves to allow for discrete differential-geometry-based computation of unsigned curvature at vertices and edges. Our descriptor is, by design, invariant under translation, rotation and parameterization. Moreover, it additionally offers the option for uniform-scale-invariance. The optional scale-invariance is achieved by scaling features to z-scores, while invariance under parameterization shifts is achieved by using elliptic Fourier analysis (EFA) on the resulting curvature vectors. These invariant shape descriptors provide an embedding into a fixed-dimensional feature space that can be utilized for various applications: (i) as input features for deep and shallow learning techniques; (ii) as input for dimension reduction schemes for providing a visual reference for clustering collection of shapes. The capabilities of the proposed framework are demonstrated in the context of visual analysis and unsupervised classification of histology images.

        @inproceedings{10.2312:vcbm.20201173
,
booktitle = {Eurographics Workshop on Visual Computing for Biology and Medicine
},
editor = {Kozlíková, Barbora and Krone, Michael and Smit, Noeska and Nieselt, Kay and Raidou, Renata Georgia
},
title = {{InShaDe: Invariant Shape Descriptors for Visual Analysis of Histology 2D Cellular and Nuclear Shapes
}},
author = {Agus, Marco and 
Al-Thelaya, Khaled and 
Cali, Corrado and 
Boido, Marina M. and 
Yang, Yin and 
Pintore, Giovanni and 
Gobbetti, Enrico and 
Schneider, Jens
},
year = {2020
},
publisher = {The Eurographics Association
},
ISSN = {2070-5786
},
ISBN = {978-3-03868-109-0
},
DOI = {10.2312/vcbm.20201173
}
}