Layer-Specific Prompt Fusion Discovery via Differentiable Search in Vision Foundation Models

Visual prompt tuning has emerged as a parameter-efficient fine-tuning approach for adapting large-scale Vision Transformers (ViTs) to downstream tasks. As its learnable prompts are applied in input and feature spaces, prior to jointly going through attention in transformer layers, the most commonly used scheme for fusing image and prompt tokens is concatenation or addition. In this paper, we aim to study a fundamental yet essential problem in visual prompt tuning: whether a single fusion scheme tends to yield better results, and whether that would be beneficial to develop a hybrid fusion scheme. To this end, we formulate the task as a bi-level optimization problem, and solve it leveraging differentiable architecture search. In this context, the learnable prompts and their fusion schemes are jointly optimized. To enrich the search space in the architecture search, we propose two additional fusion schemes, namely, affine transformation and cross-attention, in addition to concatenation and addition. Extensive experiments on 34 datasets spanning VTAB-1k, FGVC, and HTA show consistent gains over prompt-tuning baselines. With a frozen ViT backbone, our method delivers a favorable accuracy--latency--parameter trade-off compared with VPT-Deep and recent variants. Our findings reveal that how prompts fuse with image tokens plays a significant role in visual prompt tuning, and a hybrid fusion fashion can more effectively leverage layer semantics of ViTs, contributing a novel perspective for visual prompt-tuning research.

SciTrace: Trajectory-Aware Safety Reasoning for Scientific Discovery Agents

LLM-based scientific agents have shown strong capacity for autonomous research, yet their safety layers remain structurally divorced from core reasoning: they inspect pipeline outputs rather than shaping the deliberation that produces them. This separation opens two failure modes: safety signals accumulated at one stage are discarded before the next, and sequences of individually benign tool calls can compose into harmful outcomes that no single-step filter detects. To address these challenges, we introduce \textbf{SciTrace}, a framework that weaves safety reasoning into every stage of the scientific agent pipeline. SciTrace couples two complementary mechanisms: a \textit{Safety-Intrinsic Reasoning Loop} (SIR) that maintains a cumulative risk state across the Thinker, Experimenter, Writer, and Reviewer stages through joint task-and-safety deliberation, and a \textit{Compositional Tool-Chain Verifier} (CTV) that performs trajectory-aware safety checks before execution, catching risks that surface only across multi-step tool sequences. Evaluated on 240 high-risk research tasks and 120 tool-related risk tasks spanning six scientific domains, SciTrace achieves state-of-the-art (\textbf{SOTA}) safety among compared frameworks across four backbone models: it consistently improves tool call safety and adversarial robustness while preserving scientific output quality, and it uncovers \textbf{78.8\%} of the compositional tool-chain escapes that single-step monitors miss. The project website is available at https://opensciagent.github.io/SciTrace/.

Mind the Rarities: Can Rare Skin Diseases Be Reliably Diagnosed via Diagnostic Reasoning?

Large vision-language models (LVLMs) demonstrate strong performance in dermatology; however, evaluating diagnostic reasoning for rare conditions remains largely unexplored. Existing benchmarks focus on common diseases and assess only final accuracy, overlooking the clinical reasoning process, which is critical for complex cases. We address this gap by constructing DermCase, a long-context benchmark derived from peer-reviewed case reports. Our dataset contains 26,030 multi-modal image-text pairs and 6,354 clinically challenging cases, each annotated with comprehensive clinical information and step-by-step reasoning chains. To enable reliable evaluation, we establish DermLIP-based similarity metrics that achieve stronger alignment with dermatologists for assessing differential diagnosis quality. Benchmarking 22 leading LVLMs exposes significant deficiencies across diagnosis accuracy, differential diagnosis, and clinical reasoning. Fine-tuning experiments demonstrate that instruction tuning substantially improves performance while Direct Preference Optimization (DPO) yields minimal gains. Systematic error analysis further reveals critical limitations in current models' reasoning capabilities.

CryoCCD: Conditional Cycle-consistent Diffusion with Biophysical Modeling for Cryo-EM Synthesis

Cryo-electron microscopy (cryo-EM) offers near-atomic resolution imaging of macromolecules, but developing robust models for downstream analysis is hindered by the scarcity of high-quality annotated data. While synthetic data generation has emerged as a potential solution, existing methods often fail to capture both the structural diversity of biological specimens and the complex, spatially varying noise inherent in cryo-EM imaging. To overcome these limitations, we propose CryoCCD, a synthesis framework that integrates biophysical modeling with generative techniques. Specifically, CryoCCD produces multi-scale cryo-EM micrographs that reflect realistic biophysical variability through compositional heterogeneity, cellular context, and physics-informed imaging. To generate realistic noise, we employ a conditional diffusion model, enhanced by cycle consistency to preserve structural fidelity and mask-aware contrastive learning to capture spatially adaptive noise patterns. Extensive experiments show that CryoCCD generates structurally accurate micrographs and enhances performance in downstream tasks, outperforming state-of-the-art baselines in both particle picking and reconstruction.

Enhancing Weakly Supervised 3D Medical Image Segmentation through Probabilistic-aware Learning

3D medical image segmentation is a challenging task with crucial implications for disease diagnosis and treatment planning. Recent advances in deep learning have significantly enhanced fully supervised medical image segmentation. However, this approach heavily relies on labor-intensive and time-consuming fully annotated ground-truth labels, particularly for 3D volumes. To overcome this limitation, we propose a novel probabilistic-aware weakly supervised learning pipeline, specifically designed for 3D medical imaging. Our pipeline integrates three innovative components: a probability-based pseudo-label generation technique for synthesizing dense segmentation masks from sparse annotations, a Probabilistic Multi-head Self-Attention network for robust feature extraction within our Probabilistic Transformer Network, and a Probability-informed Segmentation Loss Function to enhance training with annotation confidence. Demonstrating significant advances, our approach not only rivals the performance of fully supervised methods but also surpasses existing weakly supervised methods in CT and MRI datasets, achieving up to 18.1% improvement in Dice scores for certain organs. The code is available at https://github.com/runminjiang/PW4MedSeg.