Retrieving Filter Spectra in CNN for Explainable Sleep Stage Classification

Despite significant advances in deep learning-based sleep stage classification, the clinical adoption of automatic classification models remains slow. One key challenge is the lack of explainability, as many models function as black boxes with millions of parameters. In response, recent work has increasingly focussed on enhancing model explainability. This study contributes to these efforts by globally explaining spectral processing of individual EEG channels. Specifically, we introduce a method to retrieve the filter spectrum of low-level convolutional feature extraction and compare it with the classification-relevant spectral information in the data. We evaluate our approach on the MSA-CNN model using the ISRUC-S3 and Sleep-EDF-20 datasets. Our findings show that spectral processing plays a significant role in the lower frequency bands. In addition, comparing the correlation between filter spectrum and data-based spectral information with univariate performance indicates that the model naturally prioritises the most informative channels in a multimodal setting. We specify how these insights can be leveraged to enhance model performance. The code for the filter spectrum retrieval and its analysis is available at https://github.com/sgoerttler/MSA-CNN.

MSA-CNN: A Lightweight Multi-Scale CNN with Attention for Sleep Stage Classification

Recent advancements in machine learning-based signal analysis, coupled with open data initiatives, have fuelled efforts in automatic sleep stage classification. Despite the proliferation of classification models, few have prioritised reducing model complexity, which is a crucial factor for practical applications. In this work, we introduce Multi-Scale and Attention Convolutional Neural Network (MSA-CNN), a lightweight architecture featuring as few as ~10,000 parameters. MSA-CNN leverages a novel multi-scale module employing complementary pooling to eliminate redundant filter parameters and dense convolutions. Model complexity is further reduced by separating temporal and spatial feature extraction and using cost-effective global spatial convolutions. This separation of tasks not only reduces model complexity but also mirrors the approach used by human experts in sleep stage scoring. We evaluated both small and large configurations of MSA-CNN against nine state-of-the-art baseline models across three public datasets, treating univariate and multivariate models separately. Our evaluation, based on repeated cross-validation and re-evaluation of all baseline models, demonstrated that the large MSA-CNN outperformed all baseline models on all three datasets in terms of accuracy and Cohen's kappa, despite its significantly reduced parameter count. Lastly, we explored various model variants and conducted an in-depth analysis of the key modules and techniques, providing deeper insights into the underlying mechanisms. The code for our models, baselines, and evaluation procedures is available at https://github.com/sgoerttler/MSA-CNN.

Knowledge-Guided Biomarker Identification for Label-Free Single-Cell RNA-Seq Data: A Reinforcement Learning Perspective

Gene panel selection aims to identify the most informative genomic biomarkers in label-free genomic datasets. Traditional approaches, which rely on domain expertise, embedded machine learning models, or heuristic-based iterative optimization, often introduce biases and inefficiencies, potentially obscuring critical biological signals. To address these challenges, we present an iterative gene panel selection strategy that harnesses ensemble knowledge from existing gene selection algorithms to establish preliminary boundaries or prior knowledge, which guide the initial search space. Subsequently, we incorporate reinforcement learning through a reward function shaped by expert behavior, enabling dynamic refinement and targeted selection of gene panels. This integration mitigates biases stemming from initial boundaries while capitalizing on RL's stochastic adaptability. Comprehensive comparative experiments, case studies, and downstream analyses demonstrate the effectiveness of our method, highlighting its improved precision and efficiency for label-free biomarker discovery. Our results underscore the potential of this approach to advance single-cell genomics data analysis.

Augmented Contrastive Clustering with Uncertainty-Aware Prototyping for Time Series Test Time Adaptation

Test-time adaptation aims to adapt pre-trained deep neural networks using solely online unlabelled test data during inference. Although TTA has shown promise in visual applications, its potential in time series contexts remains largely unexplored. Existing TTA methods, originally designed for visual tasks, may not effectively handle the complex temporal dynamics of real-world time series data, resulting in suboptimal adaptation performance. To address this gap, we propose Augmented Contrastive Clustering with Uncertainty-aware Prototyping (ACCUP), a straightforward yet effective TTA method for time series data. Initially, our approach employs augmentation ensemble on the time series data to capture diverse temporal information and variations, incorporating uncertainty-aware prototypes to distill essential characteristics. Additionally, we introduce an entropy comparison scheme to selectively acquire more confident predictions, enhancing the reliability of pseudo labels. Furthermore, we utilize augmented contrastive clustering to enhance feature discriminability and mitigate error accumulation from noisy pseudo labels, promoting cohesive clustering within the same class while facilitating clear separation between different classes. Extensive experiments conducted on three real-world time series datasets and an additional visual dataset demonstrate the effectiveness and generalization potential of the proposed method, advancing the underexplored realm of TTA for time series data.

GeneSUM: Large Language Model-based Gene Summary Extraction

Emerging topics in biomedical research are continuously expanding, providing a wealth of information about genes and their function. This rapid proliferation of knowledge presents unprecedented opportunities for scientific discovery and formidable challenges for researchers striving to keep abreast of the latest advancements. One significant challenge is navigating the vast corpus of literature to extract vital gene-related information, a time-consuming and cumbersome task. To enhance the efficiency of this process, it is crucial to address several key challenges: (1) the overwhelming volume of literature, (2) the complexity of gene functions, and (3) the automated integration and generation. In response, we propose GeneSUM, a two-stage automated gene summary extractor utilizing a large language model (LLM). Our approach retrieves and eliminates redundancy of target gene literature and then fine-tunes the LLM to refine and streamline the summarization process. We conducted extensive experiments to validate the efficacy of our proposed framework. The results demonstrate that LLM significantly enhances the integration of gene-specific information, allowing more efficient decision-making in ongoing research.

Surface-Based Authentication System for Integrated Circuit Chips

The rapid development of the semiconductor industry and the ubiquity of electronic devices have led to a significant increase in the counterfeiting of integrated circuits (ICs). This poses a major threat to public health, the banking industry, and military defense sectors that are heavily reliant on electronic systems. The electronic physically unclonable functions (PUFs) are widely used to authenticate IC chips at the unit level. However, electronic PUFs are limited by their requirement for IC chips to be in working status for measurements and their sensitivity to environmental variations. This paper proposes using optical PUFs for IC chip authentication by leveraging the unique microscopic structures of the packaging surface of individual IC chips. The proposed method relies on color images of IC chip surfaces acquired using a flatbed scanner or mobile camera. Our initial study reveals that these consumer-grade imaging devices can capture meaningful physical features from IC chip surfaces. We then propose an efficient, lightweight verification scheme leveraging specular-reflection-based features extracted from videos, achieving an equal error rate (EER) of 0.0008. We conducted factor, sensitivity, and ablation studies to understand the detailed characteristics of the proposed lightweight verification scheme. This work is the first to apply the optical PUF principle for the authentication of IC chips and has the potential to significantly enhance the security of the semiconductor supply chain.

Towards Open-Vocabulary Video Semantic Segmentation

Semantic segmentation in videos has been a focal point of recent research. However, existing models encounter challenges when faced with unfamiliar categories. To address this, we introduce the Open Vocabulary Video Semantic Segmentation (OV-VSS) task, designed to accurately segment every pixel across a wide range of open-vocabulary categories, including those that are novel or previously unexplored. To enhance OV-VSS performance, we propose a robust baseline, OV2VSS, which integrates a spatial-temporal fusion module, allowing the model to utilize temporal relationships across consecutive frames. Additionally, we incorporate a random frame enhancement module, broadening the model's understanding of semantic context throughout the entire video sequence. Our approach also includes video text encoding, which strengthens the model's capability to interpret textual information within the video context. Comprehensive evaluations on benchmark datasets such as VSPW and Cityscapes highlight OV-VSS's zero-shot generalization capabilities, especially in handling novel categories. The results validate OV2VSS's effectiveness, demonstrating improved performance in semantic segmentation tasks across diverse video datasets.

Multimodality Helps Few-Shot 3D Point Cloud Semantic Segmentation

Few-shot 3D point cloud segmentation (FS-PCS) aims at generalizing models to segment novel categories with minimal annotated support samples. While existing FS-PCS methods have shown promise, they primarily focus on unimodal point cloud inputs, overlooking the potential benefits of leveraging multimodal information. In this paper, we address this gap by introducing a cost-free multimodal FS-PCS setup, utilizing textual labels and the potentially available 2D image modality. Under this easy-to-achieve setup, we present the MultiModal Few-Shot SegNet (MM-FSS), a model effectively harnessing complementary information from multiple modalities. MM-FSS employs a shared backbone with two heads to extract intermodal and unimodal visual features, and a pretrained text encoder to generate text embeddings. To fully exploit the multimodal information, we propose a Multimodal Correlation Fusion (MCF) module to generate multimodal correlations, and a Multimodal Semantic Fusion (MSF) module to refine the correlations using text-aware semantic guidance. Additionally, we propose a simple yet effective Test-time Adaptive Cross-modal Calibration (TACC) technique to mitigate training bias, further improving generalization. Experimental results on S3DIS and ScanNet datasets demonstrate significant performance improvements achieved by our method. The efficacy of our approach indicates the benefits of leveraging commonly-ignored free modalities for FS-PCS, providing valuable insights for future research. The code is available at https://github.com/ZhaochongAn/Multimodality-3D-Few-Shot .

Learning Pattern-Specific Experts for Time Series Forecasting Under Patch-level Distribution Shift

Time series forecasting, which aims to predict future values based on historical data, has garnered significant attention due to its broad range of applications. However, real-world time series often exhibit complex non-uniform distribution with varying patterns across segments, such as season, operating condition, or semantic meaning, making accurate forecasting challenging. Existing approaches, which typically train a single model to capture all these diverse patterns, often struggle with the pattern drifts between patches and may lead to poor generalization. To address these challenges, we propose \textbf{TFPS}, a novel architecture that leverages pattern-specific experts for more accurate and adaptable time series forecasting. TFPS employs a dual-domain encoder to capture both time-domain and frequency-domain features, enabling a more comprehensive understanding of temporal dynamics. It then uses subspace clustering to dynamically identify distinct patterns across data patches. Finally, pattern-specific experts model these unique patterns, delivering tailored predictions for each patch. By explicitly learning and adapting to evolving patterns, TFPS achieves significantly improved forecasting accuracy. Extensive experiments on real-world datasets demonstrate that TFPS outperforms state-of-the-art methods, particularly in long-term forecasting, through its dynamic and pattern-aware learning approach. The data and codes are available: \url{https://github.com/syrGitHub/TFPS}.

Temporal Source Recovery for Time-Series Source-Free Unsupervised Domain Adaptation

Source-Free Unsupervised Domain Adaptation (SFUDA) has gained popularity for its ability to adapt pretrained models to target domains without accessing source domains, ensuring source data privacy. While SFUDA is well-developed in visual tasks, its application to Time-Series SFUDA (TS-SFUDA) remains limited due to the challenge of transferring crucial temporal dependencies across domains. Although a few researchers begin to explore this area, they rely on specific source domain designs, which are impractical as source data owners cannot be expected to follow particular pretraining protocols. To solve this, we propose Temporal Source Recovery (TemSR), a framework that transfers temporal dependencies for effective TS-SFUDA without requiring source-specific designs. TemSR features a recovery process that leverages masking, recovery, and optimization to generate a source-like distribution with recovered source temporal dependencies. To ensure effective recovery, we further design segment-based regularization to restore local dependencies and anchor-based recovery diversity maximization to enhance the diversity of the source-like distribution. The source-like distribution is then adapted to the target domain using traditional UDA techniques. Extensive experiments across multiple TS tasks demonstrate the effectiveness of TemSR, even surpassing existing TS-SFUDA method that requires source domain designs. Code is available in https://github.com/Frank-Wang-oss/TemSR.