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Deep neural networks, including transformers and convolutional neural networks (CNNs), have significantly improved multivariate time series classification (MTSC). However, these methods often rely on supervised learning, which does not fully account for the sparsity and locality of patterns in time series data (e.g., quantification of diseases-related anomalous points in ECG and abnormal detection in signal). To address this challenge, we formally discuss and reformulate MTSC as a weakly supervised problem, introducing a novel multiple-instance learning (MIL) framework for better localization of patterns of interest and modeling time dependencies within time series. Our novel approach, TimeMIL, formulates the temporal correlation and ordering within a time-aware MIL pooling, leveraging a tokenized transformer with a specialized learnable wavelet positional token. The proposed method surpassed 26 recent state-of-the-art MTSC methods, underscoring the effectiveness of the weakly supervised TimeMIL in MTSC. The code is available https://github.com/xiwenc1/TimeMIL. 

Brain networks have attracted increasing attention due to the potential to better characterize brain dynamics and abnormalities in neurological and psychiatric conditions. Recent years have witnessed enormous successes in deep learning. Many AI algorithms, especially graph learning methods, have been proposed to analyze brain networks. An important issue for existing graph learning methods is that those models are not typically easy to interpret. In this study, we proposed an interpretable graph learning model for brain network regression analysis. We applied this new framework on the subjects from Human Connectome Project (HCP) for predicting multiple Adult Self-Report (ASR) scores. We also use one of the ASR scores as the example to demonstrate how to identify sex differences in the regression process using our model. In comparison with other state-of-the-art methods, our results clearly demonstrate the superiority of our new model in effectiveness, fairness, and transparency. 

Biomarkers play an important role in early detection and intervention in Alzheimer’s disease (AD). However, obtaining effective biomarkers for AD is still a big challenge. In this work, we propose to use the worst transportation cost as a univariate biomarker to index cortical morphometry for tracking AD progression. The worst transportation (WT) aims to find the least economical way to transport one measure to the other, which contrasts to the optimal transportation (OT) that finds the most economical way between measures. To compute the WT cost, we generalize the Brenier theorem for the OT map to the WT map, and show that the WT map is the gradient of a concave function satisfying the Monge-Ampere equation. We also develop an efficient algorithm to compute the WT map based on computational geometry. We apply the algorithm to analyze cortical shape difference between dementia due to AD and normal aging individuals. The experimental results reveal the effectiveness of our proposed method which yields better statistical performance than other competiting methods including the OT. 

Shape analysis has been playing an important role in early diagnosis and prognosis of neurodegenerative diseases such as Alzheimer's diseases (AD). However, obtaining effective shape representations remains challenging. This paper proposes to use the Alexandrov polyhedra as surface-based shape signatures for cortical morphometry analysis. Given a closed genus-0 surface, its Alexandrov polyhedron is a convex representation that encodes its intrinsic geometry information. We propose to compute the polyhedra via a novel spherical optimal transport (OT) computation. In our experiments, we observe that the Alexandrov polyhedra of cortical surfaces between pathology-confirmed AD and cognitively unimpaired individuals are significantly different. Moreover, we propose a visualization method by comparing local geometry differences across cortical surfaces. We show that the proposed method is effective in pinpointing regional cortical structural changes impacted by AD.