arXiv subjects

Michelle F. Miranda

Publications and source records attributed to Michelle F. Miranda.

9 recordsLinked to original sources

arXiv2026

Shape-Based Inductive Bias for Glioma Grading from Tumor Contours

Glioma grading from tumor contours is often treated as a pixel problem even when the signal of interest is shape. We align closed contours with a functional shape-alignment framework, separate global deformation from residual Fourier shape, and organize these quantities as frequency-ordered tokens. In five-fold patient-disjoint cross-validation on BraTS~2020 tumor contours, with model selection performed using grouped inner validation, a compact multilayer perceptron (MLP) achieves the highest mean balanced accuracy at 71.5\%, compared with 65.9\% for ResNet-18 and 63.3\% for ViT-Tiny. It also gives the highest mean low-grade glioma F1 at 54.9\%. Its pooled out-of-fold balanced accuracy is 72.4\% (patient-bootstrap 95\% CI: 66.4--77.8\%). The selected MLPs use 2.9k--117.3k parameters across folds, at least 46 times fewer than the pixel baselines. In a controlled noise-free simulation, shape-based models reach 56.3--71.5\% balanced accuracy while the pixel models remain at 50.0--52.5\%. This work demonstrates how incorporating a shape-based inductive bias at the representation level can improve interpretability and scalability while enabling substantial dimensionality reduction.

eess.IV↗

arXiv2026

Locatability and Locatability Robustness of Visual Variables in Single Target Localization

Finding a particular object in a display is important for viewers in many visualizations, for example, when reacting to brushing or to a highlighted object. This can be enabled by making the target object different in one of the visual variables that determine the object's appearance; for example, by changing its color or size. Certain interpretations of the visual search literature have promoted the view that using visual variables such as hue-often labeled as preattentive-would make the target object automatically "popout," implying that an object can be located almost instantly, regardless of the number of objects in the display. In this paper we present a study that serves as a bridge between the extensive visual search literature and visualization, establishing empirical base measurements for the localization task. By testing displays with up to hundreds of objects, we are able to show that none of the common visual variables is immune to the increase in the number of objects. We also provide the first empirically informed comparisons between visual variables for this task in the context of visualization, and show how different visual variables have varying robustness with respect to two additional dimensions: the location of the target and the overall visual arrangement (layout). A free copy of this paper and all supplemental materials are available on our online repository: https://osf.io/z68ak/overview.

cs.HC↗

arXiv2025

A Wavelet-Based Framework for Mapping Long Memory in Resting-State fMRI: Age-Related Changes in the Hippocampus from the ADHD-200 Dataset

Functional magnetic resonance imaging (fMRI) time series are known to exhibit long-range temporal dependencies that challenge traditional modeling approaches. In this study, we propose a novel computational pipeline to characterize and interpret these dependencies using a long-memory (LM) framework, which captures the slow, power-law decay of autocorrelation in resting-state fMRI (rs-fMRI) signals. The pipeline involves voxelwise estimation of LM parameters via a wavelet-based Bayesian method, yielding spatial maps that reflect temporal dependence across the brain. These maps are then projected onto a lower-dimensional space via a composite basis and are then related to individual-level covariates through group-level regression. We applied this approach to the ADHD-200 dataset and found significant positive associations between age in children and the LM parameter in the hippocampus, after adjusting for ADHD symptom severity and medication status. These findings complement prior neuroimaging work by linking long-range temporal dependence to developmental changes in memory-related brain regions. Overall, the proposed methodology enables detailed mapping of intrinsic temporal dynamics in rs-fMRI and offers new insights into the relationship between functional signal memory and brain development.

stat.AP↗

arXiv2024

A canonical polyadic tensor basis for fast Bayesian estimation of multi-subject fMRI activation patterns

Task-evoked functional magnetic resonance imaging studies, such as the Human Connectome Project (HCP), are a powerful tool for exploring how brain activity is influenced by cognitive tasks like memory retention, decision-making, and language processing. A fast Bayesian function-on-scalar model is proposed for estimating population-level activation maps linked to the working memory task. The model is based on the canonical polyadic (CP) tensor decomposition of coefficient maps obtained for each subject. This decomposition effectively yields a tensor basis capable of extracting both common features and subject-specific features from the coefficient maps. These subject-specific features, in turn, are modeled as a function of covariates of interest using a Bayesian model that accounts for the correlation of the CP-extracted features. The dimensionality reduction achieved with the tensor basis allows for a fast MCMC estimation of population-level activation maps. This model is applied to one hundred unrelated subjects from the HCP dataset, yielding significant insights into brain signatures associated with working memory.

stat.AP↗

arXiv2023

Novel Bayesian method for simultaneous detection of activation signatures and background connectivity for task fMRI data

In this paper, we introduce a new Bayesian approach for analyzing task fMRI data that simultaneously detects activation signatures and background connectivity. Our modeling involves a new hybrid tensor spatial-temporal basis strategy that enables scalable computing yet captures nearby and distant intervoxel correlation and long-memory temporal correlation. The spatial basis involves a composite hybrid transform with two levels: the first accounts for within-ROI correlation, and second between-ROI distant correlation. We demonstrate in simulations how our basis space regression modeling strategy increases sensitivity for identifying activation signatures, partly driven by the induced background connectivity that itself can be summarized to reveal biological insights. This strategy leads to computationally scalable fully Bayesian inference at the voxel or ROI level that adjusts for multiple testing. We apply this model to Human Connectome Project data to reveal insights into brain activation patterns and background connectivity related to working memory tasks.

stat.AP↗

arXiv2022

Neuroimaging Feature Extraction using a Neural Network Classifier for Imaging Genetics

A major issue in the association of genes to neuroimaging phenotypes is the high dimension of both genetic data and neuroimaging data. In this article, we tackle the latter problem with an eye toward developing solutions that are relevant for disease prediction. Supported by a vast literature on the predictive power of neural networks, our proposed solution uses neural networks to extract from neuroimaging data features that are relevant for predicting Alzheimer's Disease (AD) for subsequent relation to genetics. Our neuroimaging-genetic pipeline is comprised of image processing, neuroimaging feature extraction and genetic association steps. We propose a neural network classifier for extracting neuroimaging features that are related with disease and a multivariate Bayesian group sparse regression model for genetic association. We compare the predictive power of these features to expert selected features and take a closer look at the SNPs identified with the new neuroimaging features.

q-bio.QM↗

arXiv2018

Bayesian Semiparametric Functional Mixed Models for Serially Correlated Functional Data, with Application to Glaucoma Data

Glaucoma, a leading cause of blindness, is characterized by optic nerve damage related to intraocular pressure (IOP), but its full etiology is unknown. Researchers at UAB have devised a custom device to measure scleral strain continuously around the eye under fixed levels of IOP, which here is used to assess how strain varies around the posterior pole, with IOP, and across glaucoma risk factors such as age. The hypothesis is that scleral strain decreases with age, which could alter biomechanics of the optic nerve head and cause damage that could eventually lead to glaucoma. To evaluate this hypothesis, we adapted Bayesian Functional Mixed Models to model these complex data consisting of correlated functions on spherical scleral surface, with nonparametric age effects allowed to vary in magnitude and smoothness across the scleral surface, multi-level random effect functions to capture within-subject correlation, and functional growth curve terms to capture serial correlation across IOPs that can vary around the scleral surface. Our method yields fully Bayesian inference on the scleral surface or any aggregation or transformation thereof, and reveals interesting insights into the biomechanical etiology of glaucoma. The general modeling framework described is very flexible and applicable to many complex, high-dimensional functional data.

stat.ME↗

arXiv2017

TPRM: Tensor partition regression models with applications in imaging biomarker detection

Medical imaging studies have collected high dimensional imaging data to identify imaging biomarkers for diagnosis, screening, and prognosis, among many others. These imaging data are often represented in the form of a multi-dimensional array, called a tensor. The aim of this paper is to develop a tensor partition regression modeling (TPRM) framework to establish a relationship between low-dimensional clinical outcomes (e.g., diagnosis) and high dimensional tensor covariates. Our TPRM is a hierarchical model and efficiently integrates four components: (i) a partition model, (ii) a canonical polyadic decomposition model, (iii) a principal components model, and (iv) a generalized linear model with a sparse inducing normal mixture prior. This framework not only reduces ultra-high dimensionality to a manageable level, resulting in efficient estimation, but also optimizes prediction accuracy in the search for informative sub-tensors. Posterior computation proceeds via an efficient Markov chain Monte Carlo algorithm. Simulation shows that TPRM outperforms several other competing methods. We apply TPRM to predict disease status (Alzheimer versus control) by using structural magnetic resonance imaging data obtained from the Alzheimer's Disease Neuroimaging Initiative (ADNI) study.

stat.AP↗

arXiv2016

Bayesian spatial transformation models with applications in neuroimaging data

The aim of this paper is to develop a class of spatial transformation models (STM) to spatially model the varying association between imaging measures in a three-dimensional (3D) volume (or 2D surface) and a set of covariates. Our STMs include a varying Box-Cox transformation model for dealing with the issue of non-Gaussian distributed imaging data and a Gaussian Markov Random Field model for incorporating spatial smoothness of the imaging data. Posterior computation proceeds via an efficient Markov chain Monte Carlo algorithm. Simulations and real data analysis demonstrate that the STM significantly outperforms the voxel-wise linear model with Gaussian noise in recovering meaningful geometric patterns. Our STM is able to reveal important brain regions with morphological changes in children with attention deficit hyperactivity disorder.

stat.AP↗