Social media has fundamentally transformed how people access information and form social connections, with content expression playing a critical role in driving information diffusion. While prior research has focused largely on network structures and tipping point identification, it provides limited tools for automatically generating content tailored for virality within a specific audience. To fill this gap, we propose the novel task of Diffusion-Oriented Content Generation (DOCG) and introduce an information enhancement algorithm for generating content optimized for diffusion. Our method includes an influence indicator that enables content-level diffusion assessment without requiring access to network topology, and an information editor that employs reinforcement learning to explore interpretable editing strategies. The editor leverages generative models to produce semantically faithful, audience-aware textual or visual content. Experiments on real-world social media datasets and user study demonstrate that our approach significantly improves diffusion effectiveness while preserving the core semantics of the original content.
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Classes, as fundamental elements of Computer Vision, have been extensively studied within incremental learning frameworks. In contrast, tokens, which play essential roles in many research fields, exhibit similar characteristics of growth, yet investigations into their incremental learning remain significantly scarce. This research gap primarily stems from the holistic nature of tokens in language, which imposes significant challenges on the design of incremental learning frameworks for them. To overcome this obstacle, in this work, we turn to a type of token, gene, for a large-scale biological dataset—single-cell transcriptomics—to formulate a pipeline for gene incremental learning and establish corresponding evaluations. We found that the forgetting problem also exists in gene incremental learning, thus we adapted existing class incremental learning methods to mitigate the forgetting of genes. Through extensive experiments, we demonstrated the soundness of our framework design and evaluations, as well as the effectiveness of the method adaptations. Finally, we provide a complete benchmark for gene incremental learning in single-cell transcriptomics.
As embodied intelligence emerges as a core frontier in artificial intelligence research, simulation platforms must evolve beyond low-level physical interactions to capture complex, human-centered social behaviors. We introduce FreeAskWorld, an interactive simulation framework that integrates large language models (LLMs) for high-level behavior planning and semantically grounded interaction, informed by theories of intention and social cognition. Our framework supports scalable, realistic human-agent simulations and includes a modular data generation pipeline tailored for diverse embodied tasks.To validate the framework, we extend the classic Vision-and-Language Navigation (VLN) task into a semantically enriched Direction Inquiry setting, wherein agents can actively seek and interpret navigational guidance. We present and publicly release FreeAskWorld, a large-scale benchmark dataset comprising reconstructed environments, six diverse task types, 16 core object categories, 63,429 annotated sample frames, and more than 17 hours of interaction data to support training and evaluation of embodied AI systems. We benchmark VLN models, and human participants under both open-loop and closed-loop settings. Experimental results demonstrate that models fine-tuned on FreeAskWorld outperform their original counterparts, achieving enhanced semantic understanding and interaction competency. These findings underscore the efficacy of socially grounded simulation frameworks in advancing embodied AI systems toward sophisticated high-level planning and more naturalistic human-agent interaction.
To address partial node failures in unmanned aerial vehicle swarms, self-healing communication techniques are commonly employed to restore backbone connectivity while preserving area coverage. However, existing heuristic methods struggle to scale under large-scale failures and dynamic conditions, while learning-based approaches often suffer from spatial collapse, resulting in significant coverage loss. To overcome these limitations, we propose a resilient self-healing framework that enables rapid connectivity recovery and wide-area coverage through a divide-and-conquer strategy. First, we introduce a buffered dynamic virtual force expansion mechanism that categorizes pairwise distances into repulsive, neutral, and attractive zones, allowing nodes to disperse appropriately while preserving communication links and maintaining safety buffers. Subsequently, we design a multipartite graph convolution module to reason over subnetwork-level interactions and facilitate cross-subnetwork reconnection with global structural awareness. Finally, we develop an adaptive fusion strategy that combines both outputs with time-aware weighting to generate the final motion decisions. Experimental results in both random and uniform deployment scenarios demonstrate that our approach outperforms many state-of-the-art methods in terms of connectivity restoration speed and communication coverage.
Refinement Contrastive Learning of Cell–Gene Associations for Unsupervised Cell Type Identification
PDF ↗Unsupervised cell type identification is crucial for uncovering and characterizing heterogeneous populations in single cell omics studies. Although a range of clustering methods have been developed, most focus exclusively on intrinsic cellular structure and ignore the pivotal role of cell-gene associations, which limits their ability to distinguish closely related cell types. To this end, we propose a Refinement Contrastive Learning framework (scRCL) that explicitly incorporates cell-gene interactions to derive more informative representations. Specifically, we introduce two contrastive distribution alignment components that reveal reliable intrinsic cellular structures by effectively exploiting cell-cell structural relationships. Additionally, we develop a refinement module that integrates gene-correlation structure learning to enhance cell embeddings by capturing underlying cell-gene associations. This module strengthens connections between cells and their associated genes, refining the representation learning to exploiting biologically meaningful relationships. Extensive experiments on several single-cell RNA-seq and spatial transcriptomics benchmark datasets demonstrate that our method consistently outperforms state-of-the-art baselines in cell-type identification accuracy. Moreover, downstream biological analyses confirm that the recovered cell populations exhibit coherent gene-expression signatures, further validating the biological relevance of our approach.
Large language models (LLMs) have demonstrated their instruction-following capabilities and achieved powerful performance on various tasks. Inspired by their success, recent works in the molecular domain have led to the development of large molecular language models (LMLMs) that integrate 1D molecular strings or 2D molecular graphs into the language models. However, existing LMLMs often suffer from hallucination and limited robustness, largely due to inadequate integration of diverse molecular modalities such as 1D sequences, 2D molecular graphs, and 3D conformations. To address these limitations, we propose CoLLaMo, a large language model-based molecular assistant equipped with a multi-level molecular modality-collaborative projector. The relation-aware modality-collaborative attention mechanism in the projector facilitates fine-grained and relation-guided information exchange between atoms by incorporating 2D structural and 3D spatial relations. Furthermore, we present a molecule-centric new automatic measurement, including a hallucination assessment metric and GPT-based caption quality evaluation to address the limitations of token-based generic evaluation metrics (i.e., BLEU) widely used in assessing molecular comprehension of LMLMs. Our extensive experiments demonstrate that our CoLLaMo enhances the molecular modality generalization capabilities of LMLMs, achieving the best performance on multiple tasks, including molecule captioning, computed property QA, descriptive property QA, motif counting, and IUPAC name prediction.
Tracing the Heart’s Pathways: ECG Representation Learning from a Cardiac Conduction Perspective
PDF ↗The multi-lead electrocardiogram (ECG) stands as a cornerstone of cardiac diagnosis. Recent strides in electrocardiogram self-supervised learning (eSSL) have brightened prospects for enhancing representation learning without relying on high-quality annotations. Yet earlier eSSL methods suffer a key limitation: they focus on consistent patterns across leads and beats, overlooking the inherent differences in heartbeats rooted in cardiac conduction processes, while subtle but significant variations carry unique physiological signatures. Moreover, representation learning for ECG analysis should align with ECG diagnostic guidelines, which progress from individual heartbeats to single leads and ultimately to lead combinations. This sequential logic, however, is often neglected when applying pre-trained models to downstream tasks. To address these gaps, we propose CLEAR-HUG, a two-stage framework designed to capture subtle variations in cardiac conduction across leads while adhering to ECG diagnostic guidelines. In the first stage, we introduce an eSSL model termed Conduction-LEAd Reconstructor (CLEAR), which captures both specific variations and general commonalities across heartbeats. Treating each heartbeat as a distinct entity, CLEAR employs a simple yet effective sparse attention mechanism to reconstruct signals without interference from other heartbeats. In the second stage, we implement a Hierarchical lead-Unified Group head (HUG) for disease diagnosis, mirroring clinical workflow. Experimental results across six tasks show a 6.84% improvement, validating the effectiveness of CLEAR-HUG. This highlights its ability to enhance representations of cardiac conduction and align patterns with expert diagnostic guidelines.
Interpretable and Robust Behavior Abstraction via Environment-Disentangled Heterogeneous Graph
PDF ↗To identify the root causes of attacks, behavior abstraction (BA) converts audit logs into multiple behavior graphs and finds similar ones, which has proven effective in bridging the semantic gap and reducing manual workload. Existing works fail to achieve both interpretability and generalization, while also exhibiting limited robustness when facing adversarial attacks. In this paper, we give the first attempt at interpretable and robust behavior abstraction and propose a novel method called Environment-Disentangled Heterogeneous Graph Neural Network (EDHGNN). Motivated by Information Bottleneck (IB) principle, we propose a Heterogeneous Subgraph Disentanglement (HSD) module to disentangle label-relevant and environmental subgraphs through single optimization. We also introduce an Adapted Graph-Level Attention (AGLA) module to extract minimal sufficient representations from label-relevant subgraphs, a Label-Guided Graph Reconstructor (LGGR) to maximize environmental information coverage via reconstruction, and a Relevance Discriminator (RD) to enhance disentanglement quality. Additionally, we construct a new dataset contains ground-truth explanations and 4,160 behavior graphs. Extensive experiments demonstrate that EDHGNN outperforms the state-of-the-art methods in terms of interpretability and robustness against adversarial attacks.
The GATTACA Framework: Graph Neural Network-Based Reinforcement Learning for Controlling Biological Networks
PDF ↗Cellular reprogramming, the artificial transformation of one cell type into another, has been attracting increasing research attention due to its therapeutic potential for complex diseases. However, identifying effective reprogramming strategies through classical wet-lab experiments is hindered by long time commitments and high costs. Although computational methods have been proposed to address this challenge, exact state-of-the-art techniques suffer from limited scalability owing to the notorious state space explosion problem. To overcome this limitation, we explore deep reinforcement learning (DRL) for controlling holistic Boolean network models of complex biological systems, such as gene regulatory and signalling pathway networks. We formulate a novel control problem for Boolean network models operating under the asynchronous update mode, specifically tailored to the context of cellular reprogramming. To solve it, we devise GATTACA - a DRL-based computational framework explicitly designed for scalability, capable of handling large and complex network models where exact methods fail. To facilitate scalability of our framework, we consider our previously introduced concept of a pseudo-attractor and improve the procedure for effective identification of pseudo-attractor states. We incorporate graph neural networks with graph convolution operations into the artificial neural network approximator of the DRL agent's action-value function. The new architecture allows us to leverage the available knowledge on the structure of a biological system and to indirectly, yet effectively, encode the system's dynamics into a latent representation. Experiments on several large-scale, real-world biological networks from the literature demonstrate the scalability and effectiveness of our approach.
Binary Decision Diagrams (BDDs) are instrumental in many electronic design automation (EDA) tasks thanks to their compact representation of Boolean functions. In BDD‑based reversible‑circuit synthesis, which is critical for quantum computing, the chosen variable ordering governs the number of BDD nodes and thus the key metrics of resource consumption, such as Quantum Cost. Because finding an optimal variable ordering for BDDs is an NP‑complete problem, existing heuristics often degrade as circuit complexity grows. We introduce BDD2Seq, a graph‑to‑sequence framework that couples a Graph Neural Network encoder with a Pointer‑Network decoder and Diverse Beam Search to predict high‑quality orderings. By treating the circuit netlist as a graph, BDD2Seq learns structural dependencies that conventional heuristics overlooked, yielding smaller BDDs and faster synthesis. Extensive experiments on three public benchmarks show that BDD2Seq achieves around 1.4 times lower Quantum Cost and 3.7 times faster synthesis than modern heuristic algorithms. To the best of our knowledge, this is the first work to tackle the variable‑ordering problem in BDD‑based reversible‑circuit synthesis with a graph‑based generative model and diversity‑promoting decoding.
Malware detection in real-world settings must deal with evolving threats, limited labeling budgets, and uncertain predictions. Traditional classifiers, without additional mechanisms, struggle to maintain performance under concept drift in malware domains, as their supervised learning formulation cannot optimize when to defer decisions to manual labeling and adaptation. Modern malware detection pipelines combine classifiers with monthly active learning (AL) and rejection mechanisms to mitigate the impact of concept drift. In this work, we develop a novel formulation of malware detection as a one-step Markov Decision Process and train a deep reinforcement learning (DRL) agent, simultaneously optimizing sample classification performance and rejecting high-risk samples for manual labeling. We evaluated the joint detection and drift mitigation policy learned by the DRL-based Malware Detection (DRMD) agent through time-aware evaluations on Android malware datasets subject to realistic drift requiring multi-year performance stability. The policies learned under these conditions achieve a higher Area Under Time (AUT) performance compared to standard classification approaches used in the domain, showing improved resilience to concept drift. Specifically, the DRMD agent achieved an average AUT improvement of 8.66 and 10.90 for the classification-only and classification-rejection policies, respectively. Our results demonstrate for the first time that DRL can facilitate effective malware detection and improved resiliency to concept drift in the dynamic setting of Android malware detection.
MedLA: A Logic-Driven Multi-Agent Framework for Complex Medical Reasoning with Large Language Models
PDF ↗Answering complex medical questions requires not only domain expertise and patient-specific information, but also structured and multi-perspective reasoning. Existing multi-agent approaches often rely on fixed roles or shallow interaction prompts, limiting their ability to detect and resolve fine-grained logical inconsistencies. To address this, we propose MedLA, a logic-driven multi-agent framework built on large language models. Each agent organizes its reasoning process into an explicit logical tree based on syllogistic triads (major premise, minor premise, and conclusion), enabling transparent inference and premise-level alignment. Agents engage in a multi-round, graph-guided discussion to compare and iteratively refine their logic trees, achieving consensus through error correction and contradiction resolution. We demonstrate that MedLA consistently outperforms both static role-based systems and single-agent baselines on challenging benchmarks such as MedDDx and standard medical QA tasks. Furthermore, MedLA scales effectively across both open-source and commercial LLM backbones, achieving state-of-the-art performance and offering a generalizable paradigm for trustworthy medical reasoning.
There is a growing body of work on using Graph Neural Networks (GNNs) to learn representations of circuits, focusing primarily on their static characteristics. However, these models fail to capture circuit runtime behavior, which is crucial for tasks like circuit verification and optimization. To address this limitation, we introduce DR-GNN (DynamicRTL-GNN), a novel approach that learns RTL circuit representations by incorporating both static structures and multi-cycle execution behaviors. DR-GNN leverages an operator-level Control Data Flow Graph (CDFG) to represent Register Transfer Level (RTL) circuits, enabling the model to capture dynamic dependencies and runtime execution. To train and evaluate DR-GNN, we build the first comprehensive dynamic circuit dataset, comprising over 6,300 Verilog designs and 63,000 simulation traces. Our results demonstrate that DR-GNN outperforms existing models in branch hit prediction and toggle rate prediction. Furthermore, its learned representations transfer effectively to related dynamic circuit tasks, achieving strong performance in power estimation and assertion prediction.
Large Language Models (LLMs) perform excellently in fake news detection tasks, but their outputs are often accompanied by hallucinations, i.e., generated content that is contradictory to facts. Previous studies have mostly mitigated hallucinations through prompt design. However, this paper reveals that regions in news articles which easily induce hallucinations in LLMs correspond closely to the most challenging regions for fake news detectors. In this paper, we propose a fake news detection framework (PHPFND) based on post-hoc processing of LLMs hallucination. Specifically, our framework includes a hallucination detection module (ISHD) based on information structuring that detects three types of hallucinations in LLMs in a targeted manner, and a hallucination-driven feature enhancement mechanism (HDFE) that incorporates hallucination signals as explicit features into sentence-level encoding and feature fusion to guide the model’s attention toward high-risk regions. Experimental results on two mainstream fake news datasets show that our proposed method significantly outperforms LLM-based baselines.
From Blind Transfer to Wise Selection: Prototype-Driven Neighbor-Domain Adaptation for Fake News Detection
PDF ↗Multimodal fake news detection across different domains is hampered by the critical challenge of negative transfer, which arises from the indiscriminate fusion of knowledge from all available source domains. Existing methods attempt to learn domain-invariant features or leverage external knowledge but often aggregate information from all domains equally. However, these approaches largely ignore the asymmetric relationships between domains, leading to performance degradation when irrelevant or conflicting knowledge is introduced. To address this, we propose a novel PANDA (Prototype-driven Asymmetric Neighbor-Domain Adaptation) framework that dynamically selects and integrates knowledge from only the most beneficial domains. Initially, PANDA employs a Domain-aware Modal Prompt Generation (DMPG) module to learn transferable knowledge representations for each domain. We then introduce a novel Prototype-based Asymmetric Distance (PAD) to quantify directional domain transferability, which guides a Gumbel-based Neighbor Selector (GNS) to identify the most relevant neighbor domains. Subsequently, a Domain-Collaborative Attention (DCA) module adaptively fuses the selected knowledge to enhance the target domain's representation. Extensive experiments on three benchmarks demonstrate PANDA's superiority, outperforming state-of-the-art baselines with an F1-score improvement of 1.5% on the Weibo-21 dataset.
RFC (Request for Comments) documents constitute the foundation of network protocol standardization. However, they are expressed in natural language, they tend to be lengthy and ambiguous, forcing protocol implementers to rely on extensive manual parsing and coding—a process that is both labor-intensive and prone to errors. This makes the automated parsing and comprehension of RFC documents a major challenge in network protocol research. To address this gap, we introduce large language models (LLMs) into the task of automatic network protocol code generation from RFC documents (RFC2Code) and propose a comprehensive evaluation framework to quantitatively assess LLM performance. We develop an end-to-end automated protocol generation system, APG (Automated Protocol-Generation), which supports implementations of ICMP, IGMP, NTP, and TCP. Compared to prior NLP (Natural language processing) methods, APG achieves a fully automated workflow with approximately 3.17× faster processing, 95% compile success and behavioral correctness for stateless protocols like ICMP, and 90% interoperability for complex stateful protocols such as TCP, requiring only minimal manual intervention.
When Genes Speak: A Semantic-Guided Framework for Spatially Resolved Transcriptomics Data Clustering
PDF ↗Spatial transcriptomics enables gene expression profiling with spatial context, offering unprecedented insights into the tissue microenvironment. However, most computational models treat genes as isolated numerical features, ignoring the rich biological semantics encoded in their symbols. This prevents a truly deep understanding of critical biological characteristics. To overcome this limitation, we present SemST, a semantic-guided deep learning framework for spatial transcriptomics data clustering. SemST leverages Large Language Models (LLMs) to enable genes to "speak" through their symbolic meanings, transforming gene sets within each tissue spot into biologically informed embeddings. These embeddings are then fused with the spatial neighborhood relationships captured by Graph Neural Networks (GNNs), achieving a coherent integration of biological function and spatial structure. We further introduce the Fine-grained Semantic Modulation (FSM) module to optimally exploit these biological priors. The FSM module learns spot-specific affine transformations that empower the semantic embeddings to perform an element-wise calibration of the spatial features, thus dynamically injecting high-order biological knowledge into the spatial context. Extensive experiments on public spatial transcriptomics datasets show that SemST achieves state-of-the-art clustering performance. Crucially, the FSM module exhibits plug-and-play versatility, consistently improving the performance when integrated into other baseline methods.
Inspired by the success of large language models (LLMs) in natural language processing, cell language models (CLMs) have emerged as a promising paradigm to learn cell representations from high-dimensional single-cell data—particularly transcriptomic profiles from scRNA-seq. These foundation models have shown remarkable potential across a variety of downstream applications. However, there remains a lack of foundation models for scATAC-seq data, which measures chromatin accessibility at single-cell level and is critical for decoding epigenetic regulation. Developing such model is considerably more challenging due to the unique characteristics of scATAC-seq data, including the vast number of chromatin regions, lack of standardized annotations, extreme sparsity, and near-binary distributions. To address these challenges, we systematically explore various strategies and propose CLM-Access, a specialized foundation model for scATAC-seq data. CLM-Access incorporates three main innovations: (1) an unified data processing pipeline that maps 2.8 million cells onto an unified reference of over 1 million chromatin regions; (2) a specialized patching and embedding strategy to effectively manage high-dimensional inputs; and (3) a tailored masking and loss function design that preserves fine-grained regional information while enhancing training efficiency and representation quality. With comprehensive benchmarks, we show that CLM-Access significantly outperforms existing methods in key downstream tasks, including batch effect correction, cell type annotation, RNA expression prediction, and multi-modal integration. This work establishes a scalable and interpretable foundation model for single-cell epigenomic analysis and expands the application of CLMs in single-cell research.
Accident anticipation is essential for proactive and safe autonomous driving, where even a brief advance warning can enable critical evasive actions. However, two key challenges hinder real-world deployment: (1) noisy or degraded sensory inputs from weather, motion blur, or hardware limitations, and (2) the need to issue timely yet reliable predictions that balance early alerts with false-alarm suppression. We propose a unified framework that integrates diffusion-based denoising with a time-aware actor-critic model to address these challenges. The diffusion module reconstructs noise-resilient image and object features through iterative refinement, preserving critical motion and interaction cues under sensor degradation. In parallel, the actor-critic architecture leverages long-horizon temporal reasoning and time-weighted rewards to determine the optimal moment to raise an alert, aligning early detection with reliability. Experiments on three benchmark datasets (DAD, CCD, A3D) demonstrate state-of-the-art accuracy and significant gains in mean time-to-accident, while maintaining robust performance under Gaussian and impulse noise. Qualitative analyses further show that our model produces earlier, more stable, and human-aligned predictions in both routine and highly complex traffic scenarios, highlighting its potential for real-world, safety-critical deployment.
ProtSAE: Disentangling and Interpreting Protein Language Models via Semantically-Guided Sparse Autoencoders
PDF ↗Sparse Autoencoder (SAE) has emerged as a powerful tool for mechanistic interpretability of large language models. Recent works apply SAE to protein language models (PLMs), aiming to extract and analyze biologically meaningful features from their latent spaces. However, SAE suffers from semantic entanglement, where individual neurons often mix multiple nonlinear concepts, making it difficult to reliably interpret or manipulate model behaviors. In this paper, we propose a semantically-guided SAE, called ProtSAE. Unlike existing SAE which requires annotation datasets to filter and interpret activations, we guide semantic disentanglement during training using both annotation datasets and domain knowledge to mitigate the effects of entangled attributes. We design interpretability experiments showing that ProtSAE learns more biologically relevant and interpretable hidden features compared to previous methods. Performance analyses further demonstrate that ProtSAE maintains high reconstruction fidelity while achieving better results in interpretable probing. We also show the potential of ProtSAE in steering PLMs for downstream generation tasks.