CMCNet: Aligning Ultrasound Image Embeddings with Textual TI-RADS Representations for Fine-Grained Thyroid Classification

Ultrasound is the primary imaging modality for assessing thyroid nodules, and the ACR TI-RADS framework standardizes diagnosis through five ultrasound feature categories that are aggregated into five risk levels (TR1-TR5). Although widely adopted in clinical practice, most deep learning approaches focus on binary malignancy classification, while multi-class prediction and explicit utilization of feature-level supervision remain underexplored, largely due to limited annotated data. In this study, we introduce the STN dataset of 600 thyroid nodules with paired transverse and longitudinal ultrasound images, bounding box annotations, and complete labels for all five TI-RADS feature categories. Following the clinical decision process, we investigate how structured feature information can guide representation learning during training while requiring only images at inference. We demonstrate that text embeddings derived from standardized feature descriptions form a stable surrogate representation for TI-RADS risk levels. Based on this observation, we propose CMCNet, which aligns image embeddings to fixed textual embeddings via a Center-Margin Contrastive Loss that simultaneously promotes intra-class compactness and inter-class separation. Experimental results show that this embedding alignment strategy is more data-efficient and robust than direct multitask learning, and consistently outperforms InfoNCE, center loss, a strong multitask baseline, and a VQA-style multimodal model, particularly in imbalanced settings. The dataset is freely available at doi: 10.5281/zenodo.19125693 and the source code is available at: https://www.healthinformaticslab.org/supp/.

Frequency-Domain Latent Attention Gating for Cross-Domain Token Aggregation

Token aggregation is a common bottleneck in models that map token representations to sample-level predictions, yet most pooling methods operate only in the original token domain. We propose FLaG, a plug-in aggregation module that transforms token representations with the real FFT, summarizes spectral components with learnable latent queries, applies a channel-wise gate, and reconstructs enhanced time-domain tokens for final pooling. We evaluate FLaG on antimicrobial peptide (AMP) activity prediction with ESM2, image classification with ResNet18 on CIFAR-10 and CIFAR-100, and text classification with RoBERTa on IMDB and GLUE. FLaG achieves its clearest gains on the ESM2-8M antimicrobial peptide tasks and on CIFAR-100, while remaining competitive with strong text baselines on IMDB and GLUE. Then we probe its behavior on the AMP setting with band knockouts, gate summaries, residue perturbations, latent-query readouts, and structure-proxy stratification. We find that low-frequency bands contribute the most overall, and the remaining higher-band pattern is more sample-specific. The gate acts as a broadly shared spectral reweighting stage and the cross-attention patterns are sample-specific with mild query-wise differentiation, and higher-helix peptides exhibit stronger average spectral sensitivity in both bacteria. The supplementary materials, source code and data are released at https://www.healthinformaticslab.org/supp/ and https://github.com/Kewei2023/AMPCliff/tree/FLaG.

A transformer-BiGRU-based framework with data augmentation and confident learning for network intrusion detection

In today's fast-paced digital communication, the surge in network traffic data and frequency demands robust and precise network intrusion solutions. Conventional machine learning methods struggle to grapple with complex patterns within the vast network intrusion datasets, which suffer from data scarcity and class imbalance. As a result, we have integrated machine learning and deep learning techniques within the network intrusion detection system to bridge this gap. This study has developed TrailGate, a novel framework that combines machine learning and deep learning techniques. By integrating Transformer and Bidirectional Gated Recurrent Unit (BiGRU) architectures with advanced feature selection strategies and supplemented by data augmentation techniques, TrailGate can identifies common attack types and excels at detecting and mitigating emerging threats. This algorithmic fusion excels at detecting common and well-understood attack types and has the unique ability to swiftly identify and neutralize emerging threats that stem from existing paradigms.

DeepSelective: Feature Gating and Representation Matching for Interpretable Clinical Prediction

The rapid accumulation of Electronic Health Records (EHRs) has transformed healthcare by providing valuable data that enhance clinical predictions and diagnoses. While conventional machine learning models have proven effective, they often lack robust representation learning and depend heavily on expert-crafted features. Although deep learning offers powerful solutions, it is often criticized for its lack of interpretability. To address these challenges, we propose DeepSelective, a novel end to end deep learning framework for predicting patient prognosis using EHR data, with a strong emphasis on enhancing model interpretability. DeepSelective combines data compression techniques with an innovative feature selection approach, integrating custom-designed modules that work together to improve both accuracy and interpretability. Our experiments demonstrate that DeepSelective not only enhances predictive accuracy but also significantly improves interpretability, making it a valuable tool for clinical decision-making. The source code is freely available at http://www.healthinformaticslab.org/supp/resources.php .

Latent Swap Joint Diffusion for Long-Form Audio Generation

Previous work on long-form audio generation using global-view diffusion or iterative generation demands significant training or inference costs. While recent advancements in multi-view joint diffusion for panoramic generation provide an efficient option, they struggle with spectrum generation with severe overlap distortions and high cross-view consistency costs. We initially explore this phenomenon through the connectivity inheritance of latent maps and uncover that averaging operations excessively smooth the high-frequency components of the latent map. To address these issues, we propose Swap Forward (SaFa), a frame-level latent swap framework that synchronizes multiple diffusions to produce a globally coherent long audio with more spectrum details in a forward-only manner. At its core, the bidirectional Self-Loop Latent Swap is applied between adjacent views, leveraging stepwise diffusion trajectory to adaptively enhance high-frequency components without disrupting low-frequency components. Furthermore, to ensure cross-view consistency, the unidirectional Reference-Guided Latent Swap is applied between the reference and the non-overlap regions of each subview during the early stages, providing centralized trajectory guidance. Quantitative and qualitative experiments demonstrate that SaFa significantly outperforms existing joint diffusion methods and even training-based long audio generation models. Moreover, we find that it also adapts well to panoramic generation, achieving comparable state-of-the-art performance with greater efficiency and model generalizability. Project page is available at https://swapforward.github.io/.

Information Entropy Invariance: Enhancing Length Extrapolation in Attention Mechanisms

Improving the length extrapolation capabilities of Large Language Models (LLMs) remains a critical challenge in natural language processing. Many recent efforts have focused on modifying the scaled dot-product attention mechanism, and often introduce scaled temperatures without rigorous theoretical justification. To fill this gap, we introduce a novel approach based on information entropy invariance. We propose two new scaled temperatures to enhance length extrapolation. First, a training-free method InfoScale is designed for dot-product attention, and preserves focus on original tokens during length extrapolation by ensuring information entropy remains consistent. Second, we theoretically analyze the impact of scaling (CosScale) on cosine attention. Experimental data demonstrates that combining InfoScale and CosScale achieves state-of-the-art performance on the GAU-{\alpha} model with a context window extended to 64 times the training length, and outperforms seven existing methods. Our analysis reveals that significantly increasing CosScale approximates windowed attention, and highlights the significance of attention score dilution as a key challenge in long-range context handling. The code and data are available at https://github.com/HT-NEKO/InfoScale.

Enhancing Multimodal Sentiment Analysis for Missing Modality through Self-Distillation and Unified Modality Cross-Attention

In multimodal sentiment analysis, collecting text data is often more challenging than video or audio due to higher annotation costs and inconsistent automatic speech recognition (ASR) quality. To address this challenge, our study has developed a robust model that effectively integrates multimodal sentiment information, even in the absence of text modality. Specifically, we have developed a Double-Flow Self-Distillation Framework, including Unified Modality Cross-Attention (UMCA) and Modality Imagination Autoencoder (MIA), which excels at processing both scenarios with complete modalities and those with missing text modality. In detail, when the text modality is missing, our framework uses the LLM-based model to simulate the text representation from the audio modality, while the MIA module supplements information from the other two modalities to make the simulated text representation similar to the real text representation. To further align the simulated and real representations, and to enable the model to capture the continuous nature of sample orders in sentiment valence regression tasks, we have also introduced the Rank-N Contrast (RNC) loss function. When testing on the CMU-MOSEI, our model achieved outstanding performance on MAE and significantly outperformed other models when text modality is missing. The code is available at: https://github.com/WarmCongee/SDUMC

TemporalPaD: a reinforcement-learning framework for temporal feature representation and dimension reduction

Recent advancements in feature representation and dimension reduction have highlighted their crucial role in enhancing the efficacy of predictive modeling. This work introduces TemporalPaD, a novel end-to-end deep learning framework designed for temporal pattern datasets. TemporalPaD integrates reinforcement learning (RL) with neural networks to achieve concurrent feature representation and feature reduction. The framework consists of three cooperative modules: a Policy Module, a Representation Module, and a Classification Module, structured based on the Actor-Critic (AC) framework. The Policy Module, responsible for dimensionality reduction through RL, functions as the actor, while the Representation Module for feature extraction and the Classification Module collectively serve as the critic. We comprehensively evaluate TemporalPaD using 29 UCI datasets, a well-known benchmark for validating feature reduction algorithms, through 10 independent tests and 10-fold cross-validation. Additionally, given that TemporalPaD is specifically designed for time series data, we apply it to a real-world DNA classification problem involving enhancer category and enhancer strength. The results demonstrate that TemporalPaD is an efficient and effective framework for achieving feature reduction, applicable to both structured data and sequence datasets. The source code of the proposed TemporalPaD is freely available as supplementary material to this article and at http://www.healthinformaticslab.org/supp/.

Towards Automated Data Sciences with Natural Language and SageCopilot: Practices and Lessons Learned

While the field of NL2SQL has made significant advancements in translating natural language instructions into executable SQL scripts for data querying and processing, achieving full automation within the broader data science pipeline - encompassing data querying, analysis, visualization, and reporting - remains a complex challenge. This study introduces SageCopilot, an advanced, industry-grade system system that automates the data science pipeline by integrating Large Language Models (LLMs), Autonomous Agents (AutoAgents), and Language User Interfaces (LUIs). Specifically, SageCopilot incorporates a two-phase design: an online component refining users' inputs into executable scripts through In-Context Learning (ICL) and running the scripts for results reporting & visualization, and an offline preparing demonstrations requested by ICL in the online phase. A list of trending strategies such as Chain-of-Thought and prompt-tuning have been used to augment SageCopilot for enhanced performance. Through rigorous testing and comparative analysis against prompt-based solutions, SageCopilot has been empirically validated to achieve superior end-to-end performance in generating or executing scripts and offering results with visualization, backed by real-world datasets. Our in-depth ablation studies highlight the individual contributions of various components and strategies used by SageCopilot to the end-to-end correctness for data sciences.

AMPCliff: quantitative definition and benchmarking of activity cliffs in antimicrobial peptides

Activity cliff (AC) is a phenomenon that a pair of similar molecules differ by a small structural alternation but exhibit a large difference in their biochemical activities. The AC of small molecules has been extensively investigated but limited knowledge is accumulated about the AC phenomenon in peptides with canonical amino acids. This study introduces a quantitative definition and benchmarking framework AMPCliff for the AC phenomenon in antimicrobial peptides (AMPs) composed by canonical amino acids. A comprehensive analysis of the existing AMP dataset reveals a significant prevalence of AC within AMPs. AMPCliff quantifies the activities of AMPs by the metric minimum inhibitory concentration (MIC), and defines 0.9 as the minimum threshold for the normalized BLOSUM62 similarity score between a pair of aligned peptides with at least two-fold MIC changes. This study establishes a benchmark dataset of paired AMPs in Staphylococcus aureus from the publicly available AMP dataset GRAMPA, and conducts a rigorous procedure to evaluate various AMP AC prediction models, including nine machine learning, four deep learning algorithms, four masked language models, and four generative language models. Our analysis reveals that these models are capable of detecting AMP AC events and the pre-trained protein language ESM2 model demonstrates superior performance across the evaluations. The predictive performance of AMP activity cliffs remains to be further improved, considering that ESM2 with 33 layers only achieves the Spearman correlation coefficient=0.50 for the regression task of the MIC values on the benchmark dataset. Source code and additional resources are available at https://www.healthinformaticslab.org/supp/ or https://github.com/Kewei2023/AMPCliff-generation.