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Recent advances in engineering technologies have enabled the collection of a large number of longitudinal features. This wealth of information presents unique opportunities for researchers to investigate the complex nature of diseases and uncover underlying disease mechanisms. However, analyzing such kind of data can be difficult due to its high dimensionality, heterogeneity and computational challenges. In this article, we propose a Bayesian nonparametric mixture model for clustering high-dimensional mixed-type (eg, continuous, discrete and categorical) longitudinal features. We employ a sparse factor model on the joint distribution of random effects and the key idea is to induce clustering at the latent factor level instead of the original data to escape the curse of dimensionality. The number of clusters is estimated through a Dirichlet process prior. An efficient Gibbs sampler is developed to estimate the posterior distribution of the model parameters. Analysis of real and simulated data is presented and discussed. Our study demonstrates that the proposed model serves as a useful analytical tool for clustering high-dimensional longitudinal data.
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http://dx.doi.org/10.1002/sim.10151 | DOI Listing |
Int J Biol Macromol
September 2025
Department of Computational Biology, Indraprastha Institute of Information Technology Delhi (IIIT-Delhi), Okhla Phase III, New Delhi, 110020, India; Infosys Centre for Artificial Intelligence, Indraprastha Institute of Information Technology Delhi (IIIT-Delhi), Okhla Phase III, New Delhi, 110020, In
Understanding the structural and functional diversity of toxin proteins is critical for elucidating macromolecular behavior, mechanistic variability, and structure-driven bioactivity. Traditional approaches have primarily focused on binary toxicity prediction, offering limited resolution into distinct modes of action of toxins. Here, we present MultiTox, an ensemble stacking framework for the classification of toxin proteins based on their molecular mode of action: neurotoxins, cytotoxins, hemotoxins, and enterotoxins.
View Article and Find Full Text PDFBioinformatics
September 2025
Department of Mathematical Sciences, The University of Texas at Dallas, TX United States.
Motivation: The advent of next-generation sequencing-based spatially resolved transcriptomics (SRT) techniques has reshaped genomic studies by enabling high-throughput gene expression profiling while preserving spatial and morphological context. Understanding gene functions and interactions in different spatial domains is crucial, as it can enhance our comprehension of biological mechanisms, such as cancer-immune interactions and cell differentiation in various regions. It is necessary to cluster tissue regions into distinct spatial domains and identify discriminating genes that elucidate the clustering result, referred to as spatial domain-specific discriminating genes (DGs).
View Article and Find Full Text PDFAm J Ophthalmol
September 2025
Singapore Eye Research Institute, Singapore National Eye Centre, Singapore; Duke-NUS Graduate Medical School, Singapore; Department of Ophthalmology, Emory University School of Medicine, Emory University; Department of Biomedical Engineering, Georgia Institute of Technology/Emory University, Atlanta
Purpose: To characterize the 3D structural phenotypes of the optic nerve head (ONH) in patients with glaucoma, high myopia, and concurrent high myopia and glaucoma, and to evaluate their variations across these conditions.
Design: Retrospective cross-sectional study.
Participants: A total of 685 optical coherence tomography (OCT) scans from 754 subjects of Singapore-Chinese ethnicity, including 256 healthy (H), 94 highly myopic (HM), 227 glaucomatous (G), and 108 highly myopic with glaucoma (HMG) cases METHODS: We segmented the retinal and connective tissue layers from OCT volumes and their boundary edges were converted into 3D point clouds.
PLoS One
September 2025
Smart Manufacturing and Artificial Intelligence, Micron Memory Malaysia Sdn. Bhd., Batu Kawan, Penang, Malaysia.
Advances in data collection have resulted in an exponential growth of high-dimensional microarray datasets for binary classification in bioinformatics and medical diagnostics. These datasets generally possess many features but relatively few samples, resulting in challenges associated with the "curse of dimensionality", such as feature redundancy and an elevated risk of overfitting. While traditional feature selection approaches, such as filter-based and wrapper-based approaches, can help to reduce dimensionality, they often struggle to capture feature interactions while adequately preserving model generalization.
View Article and Find Full Text PDFBoth sensory and non-sensory brain regions receive mixed inputs from single neurons which require decomposition and integration before proceeding through a processing hierarchy. Whether mixed input signals are used in biological neural networks to derive pure single neuron representations, or distributed as new population representations from mixed single neurons, is not clear. In this study, we measured the distribution of single neuron hue and luminance tuning in the dorsolateral geniculate nucleus (dLGN) and primary visual cortex (V1) of mice, as well as the information about and structure of hue and luminance representations in populations of hundred of simultaneously sampled neurons.
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