Diana Mateus

Bio: Diana Mateus is an academic researcher from École centrale de Nantes. The author has contributed to research in topics: Segmentation & Deep learning. The author has an hindex of 25, co-authored 106 publications receiving 2198 citations. Previous affiliations of Diana Mateus include Hoffmann-La Roche & French Institute for Research in Computer Science and Automation.

A Deep Metric for Multimodal Registration

Abstract: Multimodal registration is a challenging problem due the high variability of tissue appearance under different imaging modalities. The crucial component here is the choice of the right similarity measure. We make a step towards a general learning-based solution that can be adapted to specific situations and present a metric based on a convolutional neural network. Our network can be trained from scratch even from a few aligned image pairs. The metric is validated on intersubject deformable registration on a dataset different from the one used for training, demonstrating good generalization. In this task, we outperform mutual information by a significant margin.

Articulated Shape Matching Using Laplacian Eigenfunctions and Unsupervised Point Registration

Abstract: Matching articulated shapes represented by voxel-sets reduces to maximal sub-graph isomorphism when each set is described by a weighted graph. Spectral graph theory can be used to map these graphs onto lower dimensional spaces and match shapes by aligning their embeddings in virtue of their invariance to change of pose. Classical graph isomorphism schemes relying on the ordering of the eigenvalues to align the eigenspaces fail when handling large data-sets or noisy data. We derive a new formulation that finds the best alignment between two congruent $K$-dimensional sets of points by selecting the best subset of eigenfunctions of the Laplacian matrix. The selection is done by matching eigenfunction signatures built with histograms, and the retained set provides a smart initialization for the alignment problem with a considerable impact on the overall performance. Dense shape matching casted into graph matching reduces then, to point registration of embeddings under orthogonal transformations; the registration is solved using the framework of unsupervised clustering and the EM algorithm. Maximal subset matching of non identical shapes is handled by defining an appropriate outlier class. Experimental results on challenging examples show how the algorithm naturally treats changes of topology, shape variations and different sampling densities.

Articulated shape matching using Laplacian eigenfunctions and unsupervised point registration

Abstract: Matching articulated shapes represented by voxel-sets reduces to maximal sub-graph isomorphism when each set is described by a weighted graph. Spectral graph theory can be used to map these graphs onto lower dimensional spaces and match shapes by aligning their embeddings in virtue of their invariance to change of pose. Classical graph isomorphism schemes relying on the ordering of the eigenvalues to align the eigenspaces fail when handling large data-sets or noisy data. We derive a new formulation that finds the best alignment between two congruent K-dimensional sets of points by selecting the best subset of eigenfunctions of the Laplacian matrix. The selection is done by matching eigenfunction signatures built with histograms, and the retained set provides a smart initialization for the alignment problem with a considerable impact on the overall performance. Dense shape matching casted into graph matching reduces then, to point registration of embeddings under orthogonal transformations; the registration is solved using the framework of unsupervised clustering and the EM algorithm. Maximal subset matching of non identical shapes is handled by defining an appropriate outlier class. Experimental results on challenging examples show how the algorithm naturally treats changes of topology, shape variations and different sampling densities.

Fast multiple organ detection and localization in whole-body MR Dixon sequences

Abstract: Automatic localization of multiple anatomical structures in medical images provides important semantic information with potential benefits to diverse clinical applications. Aiming at organ-specific attenuation correction in PET/MR imaging, we propose an efficient approach for estimating location and size of multiple anatomical structures in MR scans. Our contribution is three-fold: (1) we apply supervised regression techniques to the problem of anatomy detection and localization in whole-body MR, (2) we adapt random ferns to produce multidimensional regression output and compare them with random regression forests, and (3) introduce the use of 3D LBP descriptors in multi-channel MR Dixon sequences. The localization accuracy achieved with both fern- and forest-based approaches is evaluated by direct comparison with state of the art atlas-based registration, on ground-truth data from 33 patients. Our results demonstrate improved anatomy localization accuracy with higher efficiency and robustness.

Deep Learning, Neural Networks

Abstract: Deep learning is a special branch of machine learning using a collage of algorithms to model high-level data motifs. Deep learning resembles the biological communications of systems of brain neurons in the central nervous system (CNS), where synthetic graphs represent the CNS network as nodes/states and connections/edges between them. For instance, in a simple synthetic network consisting of a pair of connected nodes, an output sent by one node is received by the other as an input signal. When more nodes are present in the network, they may be arranged in multiple levels (like a multiscale object) where the ith layer output serves as the input of the next (i + 1)st layer. The signal is manipulated at each layer, sent as a layer output downstream, interpreted as an input to the next, (i + 1)st layer, and so forth. Deep learning relies on multipler layers of nodes and many edges linking the nodes forming input/output (I/O) layered grids representing a multiscale processing network. At each layer, linear and non-linear transformations are converting inputs into outputs.

Shape google: Geometric words and expressions for invariant shape retrieval

Abstract: The computer vision and pattern recognition communities have recently witnessed a surge of feature-based methods in object recognition and image retrieval applications. These methods allow representing images as collections of “visual words” and treat them using text search approaches following the “bag of features” paradigm. In this article, we explore analogous approaches in the 3D world applied to the problem of nonrigid shape retrieval in large databases. Using multiscale diffusion heat kernels as “geometric words,” we construct compact and informative shape descriptors by means of the “bag of features” approach. We also show that considering pairs of “geometric words” (“geometric expressions”) allows creating spatially sensitive bags of features with better discriminative power. Finally, adopting metric learning approaches, we show that shapes can be efficiently represented as binary codes. Our approach achieves state-of-the-art results on the SHREC 2010 large-scale shape retrieval benchmark.

Decision Forests: A Unified Framework for Classification, Regression, Density Estimation, Manifold, Learning and Semi-supervised Learning

Abstract: This review presents a unified, efficient model of random decision forests which can be applied to a number of machine learning, computer vision, and medical image analysis tasks. Our model extends existing forest-based techniques as it unifies classification, regression, density estimation, manifold learning, semi-supervised learning, and active learning under the same decision forest framework. This gives us the opportunity to write and optimize the core implementation only once, with application to many diverse tasks. The proposed model may be used both in a discriminative or generative way and may be applied to discrete or continuous, labeled or unlabeled data. The main contributions of this review are: (1) Proposing a unified, probabilistic and efficient model for a variety of learning tasks; (2) Demonstrating margin-maximizing properties of classification forests; (3) Discussing probabilistic regression forests in comparison with other nonlinear regression algorithms; (4) Introducing density forests for estimating probability density functions; (5) Proposing an efficient algorithm for sampling from a density forest; (6) Introducing manifold forests for nonlinear dimensionality reduction; (7) Proposing new algorithms for transductive learning and active learning. Finally, we discuss how alternatives such as random ferns and extremely randomized trees stem from our more general forest model. This document is directed at both students who wish to learn the basics of decision forests, as well as researchers interested in the new contributions. It presents both fundamental and novel concepts in a structured way, with many illustrative examples and real-world applications. Thorough comparisons with state-of-the-art algorithms such as support vector machines, boosting and Gaussian processes are presented and relative advantages and disadvantages discussed. The many synthetic examples and existing commercial applications demonstrate the validity of the proposed model and its flexibility.