Large Language Model
Integrating Genomics into Multimodal EHR Foundation Models
Amar, Jonathan, Liu, Edward, Breschi, Alessandra, Zhang, Liangliang, Kheradpour, Pouya, Li, Sylvia, Lehmann, Lisa Soleymani, Giulianelli, Alessandro, Edwards, Matt, Jia, Yugang, Nola, David, Mani, Raghav, Vats, Pankaj, Tetreault, Jesse, Chen, T. J., McLean, Cory Y.
This paper introduces an innovative Electronic Health Record (EHR) foundation model that integrates Polygenic Risk Scores (PRS) as a foundational data modality, moving beyond traditional EHR-only approaches to build more holistic health profiles. Leveraging the extensive and diverse data from the All of Us (AoU) Research Program, this multimodal framework aims to learn complex relationships between clinical data and genetic predispositions. The methodology extends advancements in generative AI to the EHR foundation model space, enhancing predictive capabilities and interpretability. Evaluation on AoU data demonstrates the model's predictive value for the onset of various conditions, particularly Type 2 Diabetes (T2D), and illustrates the interplay between PRS and EHR data. The work also explores transfer learning for custom classification tasks, showcasing the architecture's versatility and efficiency. This approach is pivotal for unlocking new insights into disease prediction, proactive health management, risk stratification, and personalized treatment strategies, laying the groundwork for more personalized, equitable, and actionable real-world evidence generation in healthcare.
CompressionAttack: Exploiting Prompt Compression as a New Attack Surface in LLM-Powered Agents
Liu, Zesen, Zhang, Zhixiang, Xie, Yuchong, She, Dongdong
LLM-powered agents often use prompt compression to reduce inference costs, but this introduces a new security risk. Compression modules, which are optimized for efficiency rather than safety, can be manipulated by adversarial inputs, causing semantic drift and altering LLM behavior. This work identifies prompt compression as a novel attack surface and presents CompressionAttack, the first framework to exploit it. CompressionAttack includes two strategies: HardCom, which uses discrete adversarial edits for hard compression, and SoftCom, which performs latent-space perturbations for soft compression. Experiments on multiple LLMs show up to an average ASR of 83% and 87% in two tasks, while remaining highly stealthy and transferable. Case studies in three practical scenarios confirm real-world impact, and current defenses prove ineffective, highlighting the need for stronger protections.
Surface Reading LLMs: Synthetic Text and its Styles
Despite a potential plateau in ML advancement, the societal impact of large language models lies not in approaching superintelligence but in generating text surfaces indistinguishable from human writing. While Critical AI Studies provides essential material and socio-technical critique, it risks overlooking how LLMs phenomenologically reshape meaning-making. This paper proposes a semiotics of "surface integrity" as attending to the immediate plane where LLMs inscribe themselves into human communication. I distinguish three knowledge interests in ML research (epistemology, epistฤmฤ, and epistemics) and argue for integrating surface-level stylistic analysis alongside depth-oriented critique. Through two case studies examining stylistic markers of synthetic text, I argue how attending to style as a semiotic phenomenon reveals LLMs as cultural machines that transform the conditions of meaning emergence and circulation in contemporary discourse, independent of questions about machine consciousness.
Online Mixture of Experts: No-Regret Learning for Optimal Collective Decision-Making
We explore the use of expert-guided bandit learning, which we refer to as online mixture-of-experts (OMoE). In this setting, given a context, a candidate committee of experts must determine how to aggregate their outputs to achieve optimal results in terms of aggregate accuracy. We propose two algorithms to address this problem. The first algorithm combines aggregate voting with UCB-driven successive elimination, efficiently pruning suboptimal exploration actions. The second algorithm employs an online weighted-majority-voting mechanism, leveraging the respective voting power of each expert proportional to their predictive power. We derive theoretical guarantees for the regret properties in the bandit setting under ideal circumstances, and empirical results are provided accordingly. As a modern study on applications, these methods are applied to the online fine-tuning of a set of expert large language models (LLMs), where after each response, the generative LLM dynamically reweighs its set of experts and/or selects the optimal committee of experts to generate the most accurate response. Our results introduce new methodologies and no-regret guarantees for combining multiple experts to improve on the performance of the an aggregate model overall.
Magellan: Guided MCTS for Latent Space Exploration and Novelty Generation
Large Language Models (LLMs) often struggle with generating truly innovative ideas, typically defaulting to high-probability, familiar concepts within their training data's "gravity wells." While advanced search-based methods like Tree of Thoughts (ToT) attempt to mitigate this, they are fundamentally limited by their reliance on unprincipled, inconsistent self-evaluation heuristics to guide exploration. To address this gap, we introduce \textbf{Magellan}, a novel framework that reframes creative generation as a principled, guided exploration of an LLM's latent conceptual space. At its core, Magellan employs Monte Carlo Tree Search (MCTS) governed by a hierarchical guidance system. For long-range direction, a "semantic compass" vector, formulated via orthogonal projection, steers the search towards relevant novelty. For local, step-by-step decisions, a landscape-aware value function replaces flawed self-evaluation with an explicit reward structure that balances intrinsic coherence, extrinsic novelty, and narrative progress. Extensive experiments demonstrate that Magellan significantly outperforms strong baselines, including ReAct and ToT, in generating scientific ideas with superior plausibility and innovation. Our work shows that for creative discovery, a principled, guided search is more effective than unconstrained agency, paving the way for LLMs to become more capable partners in innovation.
When Facts Change: Probing LLMs on Evolving Knowledge with evolveQA
Nakshatri, Nishanth Sridhar, Roy, Shamik, Arivazhagan, Manoj Ghuhan, Zhou, Hanhan, Kumar, Vinayshekhar Bannihatti, Gangadharaiah, Rashmi
LLMs often fail to handle temporal knowledge conflicts--contradictions arising when facts evolve over time within their training data. Existing studies evaluate this phenomenon through benchmarks built on structured knowledge bases like Wikidata, but they focus on widely-covered, easily-memorized popular entities and lack the dynamic structure needed to fairly evaluate LLMs with different knowledge cut-off dates. We introduce evolveQA, a benchmark specifically designed to evaluate LLMs on temporally evolving knowledge, constructed from 3 real-world, time-stamped corpora: AWS updates, Azure changes, and WHO disease outbreak reports. Our framework identifies naturally occurring knowledge evolution and generates questions with gold answers tailored to different LLM knowledge cut-off dates. Through extensive evaluation of 12 open and closed-source LLMs across 3 knowledge probing formats, we demonstrate significant performance drops of up to 31% on evolveQA compared to static knowledge questions.
Timely Clinical Diagnosis through Active Test Selection
Estรฉvez, Silas Ruhrberg, Astorga, Nicolรกs, van der Schaar, Mihaela
There is growing interest in using machine learning (ML) to support clinical diagnosis, but most approaches rely on static, fully observed datasets and fail to reflect the sequential, resource-aware reasoning clinicians use in practice. Diagnosis remains complex and error prone, especially in high-pressure or resource-limited settings, underscoring the need for frameworks that help clinicians make timely and cost-effective decisions. We propose ACTMED (Adaptive Clinical Test selection via Model-based Experimental Design), a diagnostic framework that integrates Bayesian Experimental Design (BED) with large language models (LLMs) to better emulate real-world diagnostic reasoning. At each step, ACTMED selects the test expected to yield the greatest reduction in diagnostic uncertainty for a given patient. LLMs act as flexible simulators, generating plausible patient state distributions and supporting belief updates without requiring structured, task-specific training data. Clinicians can remain in the loop; reviewing test suggestions, interpreting intermediate outputs, and applying clinical judgment throughout. We evaluate ACTMED on real-world datasets and show it can optimize test selection to improve diagnostic accuracy, interpretability, and resource use. This represents a step toward transparent, adaptive, and clinician-aligned diagnostic systems that generalize across settings with reduced reliance on domain-specific data.
Chain-of-Conceptual-Thought Elicits Daily Conversation in Large Language Models
Gu, Qingqing, Wang, Dan, Zhao, Yue, Wang, Xiaoyu, Jiang, Zhonglin, Chen, Yong, Li, Hongyan, Ji, Luo
Chain-of-Thought (CoT) is widely applied to enhance the LLM capability in math, coding and reasoning tasks. However, its performance is limited for open-domain tasks, when there are no clearly defined reasoning steps or logical transitions. To mitigate such challenges, we propose a new prompt-based paradigm called Chain of Conceptual Thoughts (CoCT), which suggests the LLM first to produce the tag of concepts, then complete the detailed content following the concept. To encourage this hierarchical way of thinking, we implement the concepts with emotions, strategies and topics. We experiment with this paradigm in daily and emotional support conversations, covering tasks with both in-domain and out-of-domain concept settings. Automatic, human, and LLM-based evaluations reveal that CoCT surpasses several prompt-based baselines such as self-refine, ECoT, SoT and RAG, suggesting a potential solution of LLM prompting paradigm for a wider scope of tasks.
DeceptionBench: A Comprehensive Benchmark for AI Deception Behaviors in Real-world Scenarios
Huang, Yao, Sun, Yitong, Zhang, Yichi, Zhang, Ruochen, Dong, Yinpeng, Wei, Xingxing
Despite the remarkable advances of Large Language Models (LLMs) across diverse cognitive tasks, the rapid enhancement of these capabilities also introduces emergent deceptive behaviors that may induce severe risks in high-stakes deployments. More critically, the characterization of deception across realistic real-world scenarios remains underexplored. To bridge this gap, we establish DeceptionBench, the first benchmark that systematically evaluates how deceptive tendencies manifest across different societal domains, what their intrinsic behavioral patterns are, and how extrinsic factors affect them. Specifically, on the static count, the benchmark encompasses 150 meticulously designed scenarios in five domains, i.e., Economy, Healthcare, Education, Social Interaction, and Entertainment, with over 1,000 samples, providing sufficient empirical foundations for deception analysis. On the intrinsic dimension, we explore whether models exhibit self-interested egoistic tendencies or sycophantic behaviors that prioritize user appeasement. On the extrinsic dimension, we investigate how contextual factors modulate deceptive outputs under neutral conditions, reward-based incentivization, and coercive pressures. Moreover, we incorporate sustained multi-turn interaction loops to construct a more realistic simulation of real-world feedback dynamics. Extensive experiments across LLMs and Large Reasoning Models (LRMs) reveal critical vulnerabilities, particularly amplified deception under reinforcement dynamics, demonstrating that current models lack robust resistance to manipulative contextual cues and the urgent need for advanced safeguards against various deception behaviors. Code and resources are publicly available at https://github.com/Aries-iai/DeceptionBench.
DEXTER: Diffusion-Guided EXplanations with TExtual Reasoning for Vision Models
Carnemolla, Simone, Pennisi, Matteo, Samarasinghe, Sarinda, Bellitto, Giovanni, Palazzo, Simone, Giordano, Daniela, Shah, Mubarak, Spampinato, Concetto
Understanding and explaining the behavior of machine learning models is essential for building transparent and trustworthy AI systems. We introduce DEXTER, a data-free framework that employs diffusion models and large language models to generate global, textual explanations of visual classifiers. DEXTER operates by optimizing text prompts to synthesize class-conditional images that strongly activate a target classifier. These synthetic samples are then used to elicit detailed natural language reports that describe class-specific decision patterns and biases. Unlike prior work, DEXTER enables natural language explanation about a classifier's decision process without access to training data or ground-truth labels. We demonstrate DEXTER's flexibility across three tasks-activation maximization, slice discovery and debiasing, and bias explanation-each illustrating its ability to uncover the internal mechanisms of visual classifiers. Quantitative and qualitative evaluations, including a user study, show that DEXTER produces accurate, interpretable outputs. Experiments on ImageNet, Waterbirds, CelebA, and FairFaces confirm that DEXTER outperforms existing approaches in global model explanation and class-level bias reporting. Code is available at https://github.com/perceivelab/dexter.