arXiv subjects

Clara Fischer

Publications and source records attributed to Clara Fischer.

5 recordsLinked to original sources

arXiv2026

Representation learning of human cortical folding to reveal long lasting neurodevelopmental signatures

The human brain folds in utero, primarily during late gestation. Shortly after birth, cortical folding patterns are established and remain stable thereafter, making them promising early neurodevelopmental markers. Yet it is unclear whether the representations given by current neuroimaging foundation models capture cortical folding variability. Here, we introduce Champollion, a self-supervised learning framework that learns interpretable local representations of cortical folding from structural MRI. Optimized on representative folding-related tasks, Champollion accurately captures known folding patterns across cortical regions and external datasets. In a comprehensive benchmark, it consistently outperforms neuroimaging and general-purpose foundation models. Furthermore, Champollion reveals richer genetic associations than conventional morphometric descriptors and identifies localized folding signatures associated with incomplete hippocampal inversion, prematurity, and maternal smoking. These results establish cortical folding as a rich and largely untapped source of neurodevelopmental information, and Champollion provides a unified framework for discovering, localizing and interpreting long lasting cortical folding signatures.

q-bio.QM↗

arXiv2024

Optimizing contrastive learning for cortical folding pattern detection

The human cerebral cortex has many bumps and grooves called gyri and sulci. Even though there is a high inter-individual consistency for the main cortical folds, this is not the case when we examine the exact shapes and details of the folding patterns. Because of this complexity, characterizing the cortical folding variability and relating them to subjects' behavioral characteristics or pathologies is still an open scientific problem. Classical approaches include labeling a few specific patterns, either manually or semi-automatically, based on geometric distances, but the recent availability of MRI image datasets of tens of thousands of subjects makes modern deep-learning techniques particularly attractive. Here, we build a self-supervised deep-learning model to detect folding patterns in the cingulate region. We train a contrastive self-supervised model (SimCLR) on both Human Connectome Project (1101 subjects) and UKBioBank (21070 subjects) datasets with topological-based augmentations on the cortical skeletons, which are topological objects that capture the shape of the folds. We explore several backbone architectures (convolutional network, DenseNet, and PointNet) for the SimCLR. For evaluation and testing, we perform a linear classification task on a database manually labeled for the presence of the "double-parallel" folding pattern in the cingulate region, which is related to schizophrenia characteristics. The best model, giving a test AUC of 0.76, is a convolutional network with 6 layers, a 10-dimensional latent space, a linear projection head, and using the branch-clipping augmentation. This is the first time that a self-supervised deep learning model has been applied to cortical skeletons on such a large dataset and quantitatively evaluated. We can now envisage the next step: applying it to other brain regions to detect other biomarkers.

cs.LG↗

arXiv2020

Digital Contact Tracing Service: An improved decentralized design for privacy and effectiveness

We propose a decentralized digital contact tracing service that preserves the users' privacy by design while complying to the highest security standards. Our approach is based on Bluetooth and measures actual encounters of people, the contact time period, and estimates the proximity of the contact. We trace the users' contacts and the possible spread of infectious diseases while preventing location tracking of users, protecting their data and identity. We verify and improve the impact of tracking based on epidemiological models. We compare a centralized and decentralized approach on a legal perspective and find a decentralized approach preferable considering proportionality and data minimization.

cs.CY↗

arXiv2018

Neural correlates of episodic memory in the Memento cohort

IntroductionThe free and cued selective reminding test is used to identify memory deficits in mild cognitive impairment and demented patients. It allows assessing three processes: encoding, storage, and recollection of verbal episodic memory.MethodsWe investigated the neural correlates of these three memory processes in a large cohort study. The Memento cohort enrolled 2323 outpatients presenting either with subjective cognitive decline or mild cognitive impairment who underwent cognitive, structural MRI and, for a subset, fluorodeoxyglucose--positron emission tomography evaluations.ResultsEncoding was associated with a network including parietal and temporal cortices; storage was mainly associated with entorhinal and parahippocampal regions, bilaterally; retrieval was associated with a widespread network encompassing frontal regions.DiscussionThe neural correlates of episodic memory processes can be assessed in large and standardized cohorts of patients at risk for Alzheimer's disease. Their relation to pathophysiological markers of Alzheimer's disease remains to be studied.

q-bio.NC↗

arXiv2014

Predictive support recovery with TV-Elastic Net penalty and logistic regression: an application to structural MRI

The use of machine-learning in neuroimaging offers new perspectives in early diagnosis and prognosis of brain diseases. Although such multivariate methods can capture complex relationships in the data, traditional approaches provide irregular (l2 penalty) or scattered (l1 penalty) predictive pattern with a very limited relevance. A penalty like Total Variation (TV) that exploits the natural 3D structure of the images can increase the spatial coherence of the weight map. However, TV penalization leads to non-smooth optimization problems that are hard to minimize. We propose an optimization framework that minimizes any combination of l1, l2, and TV penalties while preserving the exact l1 penalty. This algorithm uses Nesterov's smoothing technique to approximate the TV penalty with a smooth function such that the loss and the penalties are minimized with an exact accelerated proximal gradient algorithm. We propose an original continuation algorithm that uses successively smaller values of the smoothing parameter to reach a prescribed precision while achieving the best possible convergence rate. This algorithm can be used with other losses or penalties. The algorithm is applied on a classification problem on the ADNI dataset. We observe that the TV penalty does not necessarily improve the prediction but provides a major breakthrough in terms of support recovery of the predictive brain regions.

stat.ML↗