Is the study of Machine Learning distracting for Neurosciences?

International audienc

Sharing Data and Image Processing Pipelines: The Information Analysis & Management initiative

International audienc

Machine Learning & Neurosciences

International audienc

Fast joint detection-estimation of evoked brain activity in event-related fMRI using a variational approach

In standard clinical within-subject analyses of event-related fMRI data, two steps are usually performed separately: detection of brain activity and estimation of the hemodynamic response. Because these two steps are inherently linked, we adopt the so-called region-based Joint Detection-Estimation (JDE) framework that addresses this joint issue using a multivariate inference for detection and estimation. JDE is built by making use of a regional bilinear generative model of the BOLD response and constraining the parameter estimation by physiological priors using temporal and spatial information in a Markovian modeling. In contrast to previous works that use Markov Chain Monte Carlo (MCMC) techniques to approximate the resulting intractable posterior distribution, we recast the JDE into a missing data framework and derive a Variational Expectation-Maximization (VEM) algorithm for its inference. A variational approximation is used to approximate the Markovian model in the unsupervised spatially adaptive JDE inference, which allows fine automatic tuning of spatial regularisation parameters. It follows a new algorithm that exhibits interesting properties compared to the previously used MCMC-based approach. Experiments on artificial and real data show that VEM-JDE is robust to model mis-specification and provides computational gain while maintaining good performance in terms of activation detection and hemodynamic shape recovery

Apprentissage Machine et Santé

International audienc

Multi-layer Aggregation as a key to feature-based OOD detection

Deep Learning models are easily disturbed by variations in the input images that were not observed during the training stage, resulting in unpredictable predictions. Detecting such Out-of-Distribution (OOD) images is particularly crucial in the context of medical image analysis, where the range of possible abnormalities is extremely wide. Recently, a new category of methods has emerged, based on the analysis of the intermediate features of a trained model. These methods can be divided into 2 groups: single-layer methods that consider the feature map obtained at a fixed, carefully chosen layer, and multi-layer methods that consider the ensemble of the feature maps generated by the model. While promising, a proper comparison of these algorithms is still lacking. In this work, we compared various feature-based OOD detection methods on a large spectra of OOD (20 types), representing approximately 7800 3D MRIs. Our experiments shed the light on two phenomenons. First, multi-layer methods consistently outperform single-layer approaches, which tend to have inconsistent behaviour depending on the type of anomaly. Second, the OOD detection performance highly depends on the architecture of the underlying neural network.Comment: Accepted for presentation at the Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging (UNSURE) at MICCAI 202

TriadNet: Sampling-free predictive intervals for lesional volume in 3D brain MR images

The volume of a brain lesion (e.g. infarct or tumor) is a powerful indicator of patient prognosis and can be used to guide the therapeutic strategy. Lesional volume estimation is usually performed by segmentation with deep convolutional neural networks (CNN), currently the state-of-the-art approach. However, to date, few work has been done to equip volume segmentation tools with adequate quantitative predictive intervals, which can hinder their usefulness and acceptation in clinical practice. In this work, we propose TriadNet, a segmentation approach relying on a multi-head CNN architecture, which provides both the lesion volumes and the associated predictive intervals simultaneously, in less than a second. We demonstrate its superiority over other solutions on BraTS 2021, a large-scale MRI glioblastoma image database.Comment: Accepted for presentation at the Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging (UNSURE) at MICCAI 202

Towards frugal unsupervised detection of subtle abnormalities in medical imaging

Anomaly detection in medical imaging is a challenging task in contexts where abnormalities are not annotated. This problem can be addressed through unsupervised anomaly detection (UAD) methods, which identify features that do not match with a reference model of normal profiles. Artificial neural networks have been extensively used for UAD but they do not generally achieve an optimal trade-o$\hookleftarrow$ between accuracy and computational demand. As an alternative, we investigate mixtures of probability distributions whose versatility has been widely recognized for a variety of data and tasks, while not requiring excessive design e$\hookleftarrow$ort or tuning. Their expressivity makes them good candidates to account for complex multivariate reference models. Their much smaller number of parameters makes them more amenable to interpretation and e cient learning. However, standard estimation procedures, such as the Expectation-Maximization algorithm, do not scale well to large data volumes as they require high memory usage. To address this issue, we propose to incrementally compute inferential quantities. This online approach is illustrated on the challenging detection of subtle abnormalities in MR brain scans for the follow-up of newly diagnosed Parkinsonian patients. The identified structural abnormalities are consistent with the disease progression, as accounted by the Hoehn and Yahr scale

Temporal and Spatial Independent Component Analysis for fMRI Data Sets Embedded in the AnalyzeFMRI R Package

For statistical analysis of functional magnetic resonance imaging (fMRI) data sets, we propose a data-driven approach based on independent component analysis (ICA) implemented in a new version of the AnalyzeFMRI R package. For fMRI data sets, spatial dimension being much greater than temporal dimension, spatial ICA is the computationally tractable approach generally proposed. However, for some neuroscientific applications, temporal independence of source signals can be assumed and temporal ICA becomes then an attractive exploratory technique. In this work, we use a classical linear algebra result ensuring the tractability of temporal ICA. We report several experiments on synthetic data and real MRI data sets that demonstrate the potential interest of our R package

Graph-based methods coupled with specific distributional distances for adversarial attack detection

Artificial neural networks are prone to being fooled by carefully perturbed inputs which cause an egregious misclassification. These \textit{adversarial} attacks have been the focus of extensive research. Likewise, there has been an abundance of research in ways to detect and defend against them. We introduce a novel approach of detection and interpretation of adversarial attacks from a graph perspective. For an image, benign or adversarial, we study how a neural network's architecture can induce an associated graph. We study this graph and introduce specific measures used to predict and interpret adversarial attacks. We show that graphs-based approaches help to investigate the inner workings of adversarial attacks