Deep Learning
"Give a Positive Review Only": An Early Investigation Into In-Paper Prompt Injection Attacks and Defenses for AI Reviewers
Zhou, Qin, Zhang, Zhexin, Li, Zhi, Sun, Limin
With the rapid advancement of AI models, their deployment across diverse tasks has become increasingly widespread. A notable emerging application is leveraging AI models to assist in reviewing scientific papers. However, recent reports have revealed that some papers contain hidden, injected prompts designed to manipulate AI reviewers into providing overly favorable evaluations. In this work, we present an early systematic investigation into this emerging threat. We propose two classes of attacks: (1) static attack, which employs a fixed injection prompt, and (2) iterative attack, which optimizes the injection prompt against a simulated reviewer model to maximize its effectiveness. Both attacks achieve striking performance, frequently inducing full evaluation scores when targeting frontier AI reviewers. Furthermore, we show that these attacks are robust across various settings. To counter this threat, we explore a simple detection-based defense. While it substantially reduces the attack success rate, we demonstrate that an adaptive attacker can partially circumvent this defense. Our findings underscore the need for greater attention and rigorous safeguards against prompt-injection threats in AI-assisted peer review.
Adaptation of Foundation Models for Medical Image Analysis: Strategies, Challenges, and Future Directions
Phuntsho, Karma, Abdullah, null, Lee, Kyungmi, Lee, Ickjai, Ahn, Euijoon
Foundation models (FMs) have emerged as a transformative paradigm in medical image analysis, offering the potential to provide generalizable, task-agnostic solutions across a wide range of clinical tasks and imaging modalities. Their capacity to learn transferable representations from large-scale data has the potential to address the limitations of conventional task-specific models. However, adaptation of FMs to real-world clinical practice remains constrained by key challenges, including domain shifts, limited availability of high-quality annotated data, substantial computational demands, and strict privacy requirements. This review presents a comprehensive assessment of strategies for adapting FMs to the specific demands of medical imaging. We examine approaches such as supervised fine-tuning, domain-specific pretraining, parameter-efficient fine-tuning, self-supervised learning, hybrid methods, and multimodal or cross-modal frameworks. For each, we evaluate reported performance gains, clinical applicability, and limitations, while identifying trade-offs and unresolved challenges that prior reviews have often overlooked. Beyond these established techniques, we also highlight emerging directions aimed at addressing current gaps. These include continual learning to enable dynamic deployment, federated and privacy-preserving approaches to safeguard sensitive data, hybrid self-supervised learning to enhance data efficiency, data-centric pipelines that combine synthetic generation with human-in-the-loop validation, and systematic benchmarking to assess robust generalization under real-world clinical variability. By outlining these strategies and associated research gaps, this review provides a roadmap for developing adaptive, trustworthy, and clinically integrated FMs capable of meeting the demands of real-world medical imaging.
Lyapunov Stability Learning with Nonlinear Control via Inductive Biases
Lu, Yupu, Lin, Shijie, Xu, Hao, Zhang, Zeqing, Pan, Jia
Finding a control Lyapunov function (CLF) in a dynamical system with a controller is an effective way to guarantee stability, which is a crucial issue in safety-concerned applications. Recently, deep learning models representing CLFs have been applied into a learner-verifier framework to identify satisfiable candidates. However, the learner treats Lyapunov conditions as complex constraints for optimisation, which is hard to achieve global convergence. It is also too complicated to implement these Lyapunov conditions for verification. To improve this framework, we treat Lyapunov conditions as inductive biases and design a neural CLF and a CLF-based controller guided by this knowledge. This design enables a stable optimisation process with limited constraints, and allows end-to-end learning of both the CLF and the controller. Our approach achieves a higher convergence rate and larger region of attraction (ROA) in learning the CLF compared to existing methods among abundant experiment cases. We also thoroughly reveal why the success rate decreases with previous methods during learning.
When, What, and How: Rethinking Retrieval-Enhanced Speculative Decoding
Fang, Min, Fu, Zhihui, Zhao, Qibin, Wang, Jun
Speculative decoding (SD) has emerged as an effective technique to accelerate large language model (LLM) inference without compromising output quality. However, the achievable speedup largely depends on the effectiveness of the drafting model. While model-based methods like EAGLE-2 are accurate but costly, retrieval-enhanced methods like SAM-Decoding rely on heuristic switching strategies that often trigger unnecessary retrievals. To address this, we propose ReSpec (\textbf{Re}trieval-enhanced \textbf{Spe}culative Decoding), a novel framework that transforms heuristic drafter switching into adaptive decision-making. ReSpec features three core innovations: 1) An \textbf{entropy-guided adaptive trigger} quantifies contextual predictability to initiate retrieval only when uncertainty is low, avoiding costly low-quality speculations. 2) A \textbf{feedback-driven candidate selection} leverages historical feedback to organize multiple high-quality candidates for parallel verification, maximizing retrieval utility. 3) A source-aware \textbf{relaxed verification strategy} applies strict checks to model-generated drafts while using a relaxed verification for retrieved drafts, achieving a better balance between accuracy and efficiency. Extensive experiments on Spec-Bench demonstrate that ReSpec achieves state-of-the-art acceleration,outperforming EAGLE-2 and SAM-Decoding by over $33\%$ and $25\%$, respectively, while maintaining output quality.
Identification of Capture Phases in Nanopore Protein Sequencing Data Using a Deep Learning Model
Martin, Annabelle, Kontogiorgos-Heintz, Daphne, Nivala, Jeff
Nanopore protein sequencing produces long, noisy ionic current traces in which key molecular phases, such as protein capture and translocation, are embedded. Capture phases mark the successful entry of a protein into the pore and serve as both a checkpoint and a signal that a channel merits further analysis. However, manual identification of capture phases is time-intensive, often requiring several days for expert reviewers to annotate the data due to the need for domain-specific interpretation of complex signal patterns. To address this, a lightweight one-dimensional convolutional neural network (1D CNN) was developed and trained to detect capture phases in down-sampled signal windows. Evaluated against CNN-LSTM (Long Short-Term Memory) hybrids, histogram-based classifiers, and other CNN variants using run-level data splits, our best model, CaptureNet-Deep, achieved an F1 score of 0.94 and precision of 93.39% on held-out test data. The model supports low-latency inference and is integrated into a dashboard for Oxford Nanopore experiments, reducing the total analysis time from several days to under thirty minutes. These results show that efficient, real-time capture detection is possible using simple, interpretable architectures and suggest a broader role for lightweight ML models in sequencing workflows.
Adversarial Spatio-Temporal Attention Networks for Epileptic Seizure Forecasting
Li, Zan, Yeo, Kyongmin, Gifford, Wesley, Marcuse, Lara, Fields, Madeline, Yener, Bülent
Forecasting epileptic seizures from multivariate EEG signals represents a critical challenge in healthcare time series prediction, requiring high sensitivity, low false alarm rates, and subject-specific adaptability. We present STAN, an Adversarial Spatio-Temporal Attention Network that jointly models spatial brain connectivity and temporal neural dynamics through cascaded attention blocks with alternating spatial and temporal modules. Unlike existing approaches that assume fixed preictal durations or separately process spatial and temporal features, STAN captures bidirectional dependencies between spatial and temporal patterns through a unified cascaded architecture. Adversarial training with gradient penalty enables robust discrimination between interictal and preictal states learned from clearly defined 15-minute preictal windows. Continuous 90-minute pre-seizure monitoring reveals that the learned spatio-temporal attention patterns enable early detection: reliable alarms trigger at subject-specific times (typically 15-45 minutes before onset), reflecting the model's capacity to capture subtle preictal dynamics without requiring individualized training. Experiments on two benchmark EEG datasets (CHB-MIT scalp: 8 subjects, 46 events; MSSM intracranial: 4 subjects, 14 events) demonstrate state-of-the-art performance: 96.6% sensitivity with 0.011 false detections per hour and 94.2% sensitivity with 0.063 false detections per hour, respectively, while maintaining computational efficiency (2.3M parameters, 45 ms latency, 180 MB memory) for real-time edge deployment. Beyond epilepsy, the proposed framework provides a general paradigm for spatio-temporal forecasting in healthcare and other time series domains where individual heterogeneity and interpretability are crucial.
Rescuing the Unpoisoned: Efficient Defense against Knowledge Corruption Attacks on RAG Systems
Kim, Minseok, Lee, Hankook, Koo, Hyungjoon
Large language models (LLMs) are reshaping numerous facets of our daily lives, leading widespread adoption as web-based services. Despite their versatility, LLMs face notable challenges, such as generating hallucinated content and lacking access to up-to-date information. Lately, to address such limitations, Retrieval-Augmented Generation (RAG) has emerged as a promising direction by generating responses grounded in external knowledge sources. A typical RAG system consists of i) a retriever that probes a group of relevant passages from a knowledge base and ii) a generator that formulates a response based on the retrieved content. However, as with other AI systems, recent studies demonstrate the vulnerability of RAG, such as knowledge corruption attacks by injecting misleading information. In response, several defense strategies have been proposed, including having LLMs inspect the retrieved passages individually or fine-tuning robust retrievers. While effective, such approaches often come with substantial computational costs. In this work, we introduce RAGDefender, a resource-efficient defense mechanism against knowledge corruption (i.e., by data poisoning) attacks in practical RAG deployments. RAGDefender operates during the post-retrieval phase, leveraging lightweight machine learning techniques to detect and filter out adversarial content without requiring additional model training or inference. Our empirical evaluations show that RAGDefender consistently outperforms existing state-of-the-art defenses across multiple models and adversarial scenarios: e.g., RAGDefender reduces the attack success rate (ASR) against the Gemini model from 0.89 to as low as 0.02, compared to 0.69 for RobustRAG and 0.24 for Discern-and-Answer when adversarial passages outnumber legitimate ones by a factor of four (4x).
Speech-DRAME: A Framework for Human-Aligned Benchmarks in Speech Role-Play
Shi, Jiatong, Han, Jionghao, Lu, Yichen, Pascual, Santiago, Wu, Pengfei, Cui, Chenye, Watanabe, Shinji, Weng, Chao, Zhou, Cong
Role-play has become a key testbed for generative models, expanding from text-only dialogue to multimodal interaction. Extending role-play to speech captures prosody, emotion, and delivery, but also poses new evaluation challenges. Current pipelines often use audio large language models (ALLMs) as zero-shot judges, which miss paralinguistic cues, collapse multiple aspects into coarse scores, and rely on synthetic speech references that fail to reflect real-world roles. We present Speech-DRAME, a unified framework that contributes at three levels: (i) Speech-DRAME-EvalBench, an evaluation benchmark with bilingual human-annotated data and protocols for training and testing speech evaluation models (SEMs), (ii) DRAME-Eval, a fine-tuned evaluation model, which substantially outperforms zero-shot and few-shot ALLMs, and (iii) Speech-DRAME-RoleBench, a speech role-play benchmark that leverages DRAME-Eval as an automatic judge to compare speech foundation models (SFMs). Speech-DRAME distinguishes between two complementary evaluation strategies: Archetype Evaluation, a top-down approach measuring adherence to broad role archetypes, and Realism Evaluation, a bottom-up approach grounded in real human speech that emphasizes nuanced role quality. Compared to zero-shot ALLM judges, DRAME-Eval achieves stronger agreement with human ratings (Pearson correlation from 0.480 to 0.629 in archetypes, and 0.390 to 0.625 in realism). By integrating transparent benchmark resources, modeling approaches, and system-level evaluation, Speech-DRAME provides the first comprehensive, reproducible foundation for assessing spoken role-play.
Quantum Deep Learning Still Needs a Quantum Leap
Gundlach, Hans, Kukina, Hrvoje, Lynch, Jayson, Thompson, Neil
Quantum computing technology is advancing rapidly. Yet, even accounting for these trends, a quantum leap would be needed for quantum computers to meaningfully impact deep learning over the coming decade or two. We arrive at this conclusion based on a first-of-its-kind survey of quantum algorithms and how they match potential deep learning applications. This survey reveals three important areas where quantum computing could potentially accelerate deep learning, each of which faces a challenging roadblock to realizing its potential. First, quantum algorithms for matrix multiplication and other algorithms central to deep learning offer small theoretical improvements in the number of operations needed, but this advantage is overwhelmed on practical problem sizes by how slowly quantum computers do each operation. Second, some promising quantum algorithms depend on practical Quantum Random Access Memory (QRAM), which is underdeveloped. Finally, there are quantum algorithms that offer large theoretical advantages, but which are only applicable to special cases, limiting their practical benefits. In each of these areas, we support our arguments using quantitative forecasts of quantum advantage that build on the work by Choi et al. [2023] as well as new research on limitations and quantum hardware trends. Our analysis outlines the current scope of quantum deep learning and points to research directions that could lead to greater practical advances in the field.
KAT-GNN: A Knowledge-Augmented Temporal Graph Neural Network for Risk Prediction in Electronic Health Records
Lin, Kun-Wei, Kuo, Yu-Chen, Wang, Hsin-Yao, Tseng, Yi-Ju
Abstract-- Clinical risk prediction using electronic health records (EHRs) is vital to facilitate timely interventions and clinical decision support. However, modeling heterogeneous and irregular temporal EHR data presents significant challenges. We propose KAT -GNN (Knowledge-Augmented Temporal Graph Neural Network), a graph-based framework that integrates clinical knowledge and temporal dynamics for risk prediction. These graphs are then augmented using two knowledge sources: (1) ontology-driven edges derived from SNOMED CT and (2) co-occurrence priors extracted from EHRs. Subsequently, a time-aware transformer is employed to capture longitudinal dynamics from the graph-encoded patient representations. KAT -GNN is evaluated on three distinct datasets and tasks: coronary artery disease (CAD) prediction using the Chang Gung Research Database (CGRD) and in-hospital mortality prediction using the MIMIC-III and MIMIC-IV datasets. KAT - GNN achieves state-of-the-art performance in CAD prediction (AUROC: 0.9269 0.0029) and demonstrated strong results in mortality prediction in MIMIC-III (AUROC: 0.9230 0.0070) and MIMIC-IV (AUROC: 0.8849 0.0089), consistently outperforming established baselines such as GRASP and RETAIN. Ablation studies confirm that both knowledge-based augmentation and the temporal modeling component are significant contributors to performance gains. These findings demonstrate that the integration of clinical knowledge into graph representations, coupled with a time-aware attention mechanism, provides an effective and generalizable approach for risk prediction across diverse clinical tasks and datasets. NTRODUCTION This study was supported by grants from the National Science and T echnology Council, T aiwan (NSTC 114-2221-E-A49-061), the Higher Education Sprout Project of the National Y ang Ming Chiao T ung University and MOE, T aiwan (CGMH-NYCU-114-CORPG2P0072), and Chang Gung Memorial Hospital (CMRPG2P0342).