arXiv:2605.24489v1 Announce Type: new Abstract: Enzyme-reaction retrieval is a fundamental problem in computational biology, underpinning enzyme characterization, reaction mechanism elucidation, and the rational design of metabolic pathways and biocatalysts. As a bidirectional task, it entails both enzyme-to-reaction and reaction-to-enzyme mapping. However, existing approaches suffer from poor generalization across tasks and distributions, with performance highly sensitive to dataset splits and substantial asymmetry between retrieval directions. To address these challenges, we present TIGER, a Text-Informed Generalized Enzyme-Reaction Retrieval framework that leverages protein-to-text generation models to distill textual semantic knowledge from enzyme sequences, providing a generalized representation that bridges enzymes and biochemical reactions. To ensure the quality and reliability of textual semantics, we design a Dynamic Gating Network that adaptively fuses text-derived knowledge with sequence features, enabling more consistent and informative enzyme representations, while a Structure-Shared Feature Projector aligns enzyme and reaction representations within a unified latent space. Extensive experiments demonstrate that, under bidirectional retrieval supervision, TIGER significantly outperforms state-of-the-art baselines across diverse distributions and exhibits strong robustness and transferability across tasks.

arXiv:2605.25377v1 Announce Type: cross Abstract: Large Vision-Language Models (LVLMs) have advanced multimodal understanding, yet their reliability is limited by hallucination, where generated content conflicts with visual facts. Existing mitigation methods either rely on costly external interventions, such as instruction tuning and retrieval, or use internal mechanisms that remain limited by flawed attention weights and entangled hidden representations. We propose Adversarial Orthogonal Disentanglement (AOD), a latent geometric framework for mitigating LVLM hallucinations. AOD learns a hallucination-related direction through a minimax objective: a classifier concentrates hallucination signals into the projected component, while an adversary removes them from the orthogonal residual space via a Gradient Reversal Layer. The learned direction enables a training-free dual-forward-pass contrastive decoding strategy that suppresses hallucinations while preserving general capabilities. Experiments on three LVLMs across four hallucination and four utility benchmarks show that AOD consistently outperforms strong baselines. It improves POPE accuracy by over 6\% on average, boosts AMBER by 6\%, and maintains strong performance on utility tasks such as MMMU. Further analysis shows robust transfer across datasets, suggesting that AOD captures general hallucination-related biases rather than dataset-specific artifacts. Our source code and datasets are available at https://github.com/Hunter-Wrynn/AOD.

arXiv:2602.02495v3 Announce Type: replace-cross Abstract: Direct alignment methods are increasingly used to align large language models (LLMs) with human preferences. However, many real-world alignment problems involve multiple conflicting objectives, where naive aggregation of preferences can lead to unstable training and poor trade-offs. In particular, weighted loss methods may fail to identify update directions that simultaneously improve all objectives, and existing multi-objective approaches often rely on explicit reward models, introducing additional complexity and distorting user-specified preferences. The contributions of this paper are two-fold. First, we propose a Reward-free Alignment framework for Conflicted Objectives (RACO) that directly leverages pairwise preference data and resolves gradient conflicts via a novel clipped variant of conflict-averse gradient descent. We provide convergence guarantees to Pareto-critical points that respect user-specified objective weights, and further show that clipping can strictly improve convergence rate in the two-objective setting. Second, we improve our method using some heuristics and conduct experiments to demonstrate the compatibility of the proposed framework for LLM alignment. Both qualitative and quantitative evaluations on multi-objective summarization and safety alignment tasks across multiple LLM families (Qwen 3, Llama 3, Gemma 3) show that our method consistently achieves better Pareto trade-offs compared to existing multi-objective alignment baselines.

Oncogene, Published online: 24 March 2026; doi:10.1038/s41388-026-03728-6

TRIM21-mediated degradation of HILPDA overcomes anti-PD-1 immunotherapy resistance in breast cancer by limiting PD-L1 palmitoylation

arXiv:2503.05031v2 Announce Type: replace-cross Abstract: Alzheimer's disease (AD) is a major neurodegenerative condition that affects millions around the world. As one of the main biomarkers in the AD diagnosis procedure, brain amyloid positivity is typically identified by positron emission tomography (PET), which is costly and invasive. Brain structural magnetic resonance imaging (sMRI) may provide a safer and more convenient solution for the AD diagnosis. Recent advances in geometric deep learning have facilitated sMRI analysis and early diagnosis of AD. However, determining AD pathology, such as brain amyloid deposition, in preclinical stage remains challenging, as less significant morphological changes can be observed. As a result, few AD classification models are generalizable to the brain amyloid positivity classification task. Blood-based biomarkers (BBBMs), on the other hand, have recently achieved remarkable success in predicting brain amyloid positivity and identifying individuals with high risk of being brain amyloid positive. However, individuals in medium risk group still require gold standard tests such as Amyloid PET for further evaluation. Inspired by the recent success of transformer architectures, we propose a geometric deep learning model based on transformer that is both scalable and robust to variations in input volumetric mesh size. Our work introduced a novel tokenization scheme for tetrahedral meshes, incorporating anatomical landmarks generated by a pre-trained Gaussian process model. Our model achieved superior classification performance in AD classification task. In addition, we showed that the model was also generalizable to the brain amyloid positivity prediction with individuals in the medium risk class, where BM alone cannot achieve a clear classification. Our work may enrich geometric deep learning research and improve AD diagnosis accuracy without using expensive and invasive PET scans.

arXiv:2603.03296v1 Announce Type: cross Abstract: Long-term memory is essential for large language model (LLM) agents operating in complex environments, yet existing memory designs are either task-specific and non-transferable, or task-agnostic but less effective due to low task-relevance and context explosion from raw memory retrieval. We propose PlugMem, a task-agnostic plugin memory module that can be attached to arbitrary LLM agents without task-specific redesign. Motivated by the fact that decision-relevant information is concentrated as abstract knowledge rather than raw experience, we draw on cognitive science to structure episodic memories into a compact, extensible knowledge-centric memory graph that explicitly represents propositional and prescriptive knowledge. This representation enables efficient memory retrieval and reasoning over task-relevant knowledge, rather than verbose raw trajectories, and departs from other graph-based methods like GraphRAG by treating knowledge as the unit of memory access and organization instead of entities or text chunks. We evaluate PlugMem unchanged across three heterogeneous benchmarks (long-horizon conversational question answering, multi-hop knowledge retrieval, and web agent tasks). The results show that PlugMem consistently outperforms task-agnostic baselines and exceeds task-specific memory designs, while also achieving the highest information density under a unified information-theoretic analysis. Code and data are available at https://github.com/TIMAN-group/PlugMem.

arXiv:2603.04128v1 Announce Type: cross Abstract: Developing Audio-Visual Large Language Models (AV-LLMs) for unified scene understanding is pivotal in multimodal intelligence. While instruction tuning enables pre-trained models with multi-task abilities, we observe that conventional multi-task unification methods often suffer from severe negative transfer, where nearly 55% of tasks degrade compared to single-task training. We attribute this phenomenon to audio-visual task heterogeneity, characterized by disparate task granularity and divergent capability demands, which lead to negative interference under joint training. To tackle this, we present Crab$^{+}$, a scalable and unified audio-visual scene understanding model that addresses task heterogeneity through explicit cooperation from both data and model perspectives. On the data side, we introduce AV-UIE v2, a comprehensive Audio-Visual Unified Instruction-tuning dataset with Explicit reasoning processes. It contains approximately 222K samples spanning 17 datasets and 7 tasks, enabling the model to capture cross-task relationships at different levels of granularity. On the model side, we design a unified interface to align heterogeneous task formulations, and propose Interaction-aware LoRA (I-LoRA), which explicitly models inter-task relationships via dynamic routing to coordinate distinct audio-visual interaction patterns, mitigating parameter interference. Extensive experiments show Crab$^{+}$ covers broader tasks than existing unified models while outperforming specialized models on various benchmarks. We successfully reverse the negative transfer trend, achieving positive transfer where multi-task learning surpasses single-task baselines in nearly 88% of tasks. These results hold across diverse AV-LLM paradigms and are validated through in-depth visualization, positioning Crab$^{+}$ as a robust step towards holistic audio-visual scene understanding.

arXiv:2504.20505v2 Announce Type: replace Abstract: Recent progress in Large Language Models (LLMs) has enabled advanced reasoning and zero-shot recognition for human activity understanding with ambient sensor data. However, widely used multi-resident datasets such as CASAS, ARAS, and MARBLE lack natural language context and fine-grained annotation, limiting the full exploitation of LLM capabilities in realistic smart environments. To address this gap, we present MuRAL (Multi-Resident Ambient sensor dataset with natural Language), comprising over 21 hours of multi-user sensor data from 21 sessions in a smart home. MuRAL uniquely features detailed natural language descriptions, explicit resident identities, and rich activity labels, all situated in complex, dynamic, multi-resident scenarios. We benchmark state-of-the-art LLMs on MuRAL for three core tasks: subject assignment, action description, and activity classification. Results show that current LLMs still face major challenges on MuRAL, especially in maintaining accurate resident assignment over long sequences, generating precise action descriptions, and effectively integrating context for activity prediction. The dataset is publicly available at: https://mural.imag.fr/.

arXiv:2505.19892v3 Announce Type: replace Abstract: Foundation models update slowly due to resource-intensive training, whereas domain-specific models evolve rapidly between releases. Model merging seeks to combine multiple expert models into a single, more capable model, reducing storage and serving costs while supporting decentralized development. Despite its potential, previous studies have primarily focused on merging visual classification models or Large Language Models (LLMs) for code and math tasks. Recently, Multimodal LLMs (MLLMs) that extend LLMs through large-scale multimodal training have gained traction. However, there lacks a benchmark for model merging research that clearly divides the tasks for MLLM training and evaluation. In this paper, $\textbf{(i)}$ we introduce a model merging benchmark for MLLMs, which includes multiple tasks such as VQA, Geometry, Chart, OCR, and Grounding, studying both LoRA and full fine-tuning models. Moreover, we explore how model merging can combine different modalities (e.g., vision-language, audio-language, and video-language models), moving toward the Omni-language model. $\textbf{(ii)}$ We implement 10 model merging algorithms on the benchmark. Furthermore, we propose a novel method that removes noise from task vectors and robustly optimizes the merged vector based on a loss defined over task vector interactions, achieving an average performance gain of 2.48%. $\textbf{(iii)}$ We find that model merging offers a promising way for building improved MLLMs without requiring training data. Our results also demonstrate that the complementarity among multiple modalities outperforms individual modalities.

arXiv:2507.19234v2 Announce Type: replace-cross Abstract: Resource allocation (RA) is critical to efficient service deployment in Network Function Virtualization (NFV), a transformative networking paradigm. Recently, deep Reinforcement Learning (RL)-based methods have been showing promising potential to address this complexity. However, the lack of a systematic benchmarking framework and thorough analysis hinders the exploration of emerging networks and the development of more robust algorithms while causing inconsistent evaluation. In this paper, we introduce Virne, a comprehensive benchmarking framework for the NFV-RA problem, with a focus on supporting deep RL-based methods. Virne provides customizable simulations for diverse network scenarios, including cloud, edge, and 5G environments. It also features a modular and extensible implementation pipeline that supports over 30 methods of various types, and includes practical evaluation perspectives beyond effectiveness, such as scalability, generalization, and scalability. Furthermore, we conduct in-depth analysis through extensive experiments to provide valuable insights into performance trade-offs for efficient implementation and offer actionable guidance for future research directions. Overall, with its diverse simulations, rich implementations, and extensive evaluation capabilities, Virne could serve as a comprehensive benchmark for advancing NFV-RA methods and deep RL applications. The code is publicly available at https://github.com/GeminiLight/virne.