arXiv subjects

Jing Cai

Publications and source records attributed to Jing Cai.

At least 19 recordsLinked to original sources

arXiv2026

StainPresetNet: Stain Preset Network for Fast Multi-to-Multi Stain Normalization

Stain normalization reduces color variations caused by variations in staining protocols and imaging conditions, thereby enhancing computer-aided diagnostic system performance. Traditional methods derive mapping relationships from individual or limited reference images through pixel-wise transformation, offering style flexibility but suffering from inaccurate color mapping extraction. While existing deep-learning-based approaches achieve accurate dataset-wide color mapping through complex neural networks, they face challenges including computational inefficiency, artifact generation, and fixed normalization directions requiring model retraining for directional changes. To address these limitations, we propose StainPresetNet - a novel framework that combines structural preservation with dataset-level color mapping while maintaining computational efficiency. Our method implements pixel-wise normalization guided by preset reference images, enabling multi-directional adaptability without retraining. Evaluations on cytopathology and histopathology datasets demonstrate that StainPresetNet achieves superior color mapping accuracy compared to conventional methods, effectively improves classifier generalization in diagnostic tasks, and reduces computational overhead by 90\% versus existing deep learning approaches. The proposed preset-guided mechanism facilitates flexible adjustment of normalization directions through simple reference image replacement, overcoming the directional rigidity of current deep-learning-based solutions.

cs.CV↗

arXiv2026

Risk-Routed Implicit Boundary Refinement for Robust Ultrasound Image Segmentation

Medical ultrasound (US) image segmentation faces significant challenges due to speckle noise, low-contrast boundaries, acoustic shadowing, and acquisition variation across operators and clinical centers. Although encoder-decoder and transformer-based networks have achieved strong performance, many methods recover boundary details through dense decoders or larger backbones, which may still produce over-smoothed contours or unstable predictions under external distribution shifts. In this article, we propose Risk-routed Implicit Boundary Refinement (RIBR), a compact segmentation framework that uses implicit neural representation as a risk-routed residual correction rather than an unconstrained full-mask predictor. RIBR combines boundary-refinement implicit residuals, risk-routed residual control, and geometry- and speckle-aware boundary regularization to refine uncertain contours while suppressing non-boundary oscillations. Evaluation on nine US datasets covering lymph nodes, breast lesions, thyroid nodules, and prostate shows that RIBR achieves the best overall macro-average and consistently reduces boundary error across grouped and organ-specific comparisons under a compact parameter budget. These findings suggest that controlled implicit residual learning is a practical strategy for resource-constrained and boundary-sensitive US segmentation. Source code is available at https://github.com/jinggqu/ribr.

cs.CV↗

arXiv2026

ChemHyperMag: Physics-informed magnetic hypergraph learning improves molecular ADMET prediction

Accurate prediction of ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) is important for drug discovery. Most predictors use undirected molecular graphs and pairwise edges. This choice misses asymmetric interactions, nonreversible dynamics, and motif level effects from functional groups and ring systems. We propose ChemHyperMag for multitask ADMET prediction under missing labels. ChemHyperMag builds a functional group hypergraph from rings, BRICS fragments, Bemis-Murcko scaffolds, and bonds. It also defines a potential driven nonreversible flow guided by electronegativity and Gasteiger partial charges. The resulting circulation is encoded by a Hermitian magnetic Laplacian and processed with a magnetic Chebyshev encoder. We perturb magnetic phases to form stochastic views and train with an InfoNCE objective. Experiments on multiple ADMET benchmarks show improvements over recent methods with fewer labeled samples and no conformers. ChemHyperMag is scalable and provides interpretable directional signals through its magnetic phases.

cs.LG↗

arXiv2026

Scaling Multi-Reference Image Generation with Dynamic Reward Optimization

While personalized image generation has achieved remarkable progress, multi-reference image generation (MRIG) remains a challenging task. Most existing benchmarks fail to adequately evaluate complex MRIG scenarios, hindering further progress in this area. To better assess model performance on complex MRIG tasks, we introduce OmniRef-Bench, a benchmark that covers complex combinations of reference image types and a large number of reference images. Evaluations on OmniRef-Bench show that mainstream open-source models struggle in complex MRIG scenarios, and their performance deteriorates significantly as the number of mixed-type reference images increases. To address this issue, we propose DyRef, a two-stage training framework. In the first stage, supervised fine-tuning equips the model with the basic capability to handle complex MRIG tasks. In the second stage, we introduce Difficulty-aware Advantage Reweighting (DAR) and Discriminative Reward Scaling (DRS). DAR dynamically adjusts the optimization objective to improve performance when handling a large number of mixed-type reference images. DRS enlarges intra-group reward differences for more effective policy optimization. Experiments demonstrate that DyRef significantly improves the performance of open-source models on OmniRef-Bench and single-image editing benchmarks, demonstrating the effectiveness and generalization capability of our approach.

cs.CV↗

arXiv2026

Multiscale Switch for Semi-Supervised and Contrastive Learning in Medical Ultrasound Image Segmentation

Medical ultrasound image segmentation faces significant challenges due to limited labeled data and characteristic imaging artifacts including speckle noise and low-contrast boundaries. While semi-supervised learning (SSL) approaches have emerged to address data scarcity, existing methods suffer from suboptimal unlabeled data utilization and lack robust feature representation mechanisms. In this paper, we propose Switch, a novel SSL framework with two key innovations: (1) Multiscale Switch (MSS) strategy that employs hierarchical patch mixing to achieve uniform spatial coverage; (2) Frequency Domain Switch (FDS) with contrastive learning that performs amplitude switching in Fourier space for robust feature representations. Our framework integrates these components within a teacher-student architecture to effectively leverage both labeled and unlabeled data. Comprehensive evaluation across six diverse ultrasound datasets (lymph nodes, breast lesions, thyroid nodules, and prostate) demonstrates consistent superiority over state-of-the-art methods. At 5\% labeling ratio, Switch achieves remarkable improvements: 80.04\% Dice on LN-INT, 85.52\% Dice on DDTI, and 83.48\% Dice on Prostate datasets, with our semi-supervised approach even exceeding fully supervised baselines. The method maintains parameter efficiency (1.8M parameters) while delivering superior performance, validating its effectiveness for resource-constrained medical imaging applications. The source code is publicly available at https://github.com/jinggqu/Switch

cs.CV↗

arXiv2026

PGVMS: A Prompt-Guided Unified Framework for Virtual Multiplex IHC Staining with Pathological Semantic Learning

Immunohistochemical (IHC) staining enables precise molecular profiling of protein expression, with over 200 clinically available antibody-based tests in modern pathology. However, comprehensive IHC analysis is frequently limited by insufficient tissue quantities in small biopsies. Therefore, virtual multiplex staining emerges as an innovative solution to digitally transform H&E images into multiple IHC representations, yet current methods still face three critical challenges: (1) inadequate semantic guidance for multi-staining, (2) inconsistent distribution of immunochemistry staining, and (3) spatial misalignment across different stain modalities. To overcome these limitations, we present a prompt-guided framework for virtual multiplex IHC staining using only uniplex training data (PGVMS). Our framework introduces three key innovations corresponding to each challenge: First, an adaptive prompt guidance mechanism employing a pathological visual language model dynamically adjusts staining prompts to resolve semantic guidance limitations (Challenge 1). Second, our protein-aware learning strategy (PALS) maintains precise protein expression patterns by direct quantification and constraint of protein distributions (Challenge 2). Third, the prototype-consistent learning strategy (PCLS) establishes cross-image semantic interaction to correct spatial misalignments (Challenge 3).

cs.CV↗

arXiv2026

Any-to-All MRI Synthesis: A Unified Foundation Model for Nasopharyngeal Carcinoma and Its Downstream Applications

Magnetic resonance imaging (MRI) is essential for nasopharyngeal carcinoma (NPC) radiotherapy (RT), but practical constraints, such as patient discomfort, long scan times, and high costs often lead to incomplete modalities in clinical practice, compromising RT planning accuracy. Traditional MRI synthesis methods are modality-specific, limited in anatomical adaptability, and lack clinical interpretability-failing to meet NPC's RT needs. Here, we developed a unified foundation model integrating contrastive visual representation learning and vision-language alignment (VLA) to enable any-to-all MRI synthesis. The model uses a contrastive encoder for modality-invariant representations and a CLIP-based text-informed decoder for semantically consistent synthesis, supporting any-to-all MRI synthesis via one unified foundation model. Trained on 40,825 images from 13 institutions, it achieves consistently high performance (average SSIM 0.90, PSNR 27) across 26 internal/external validation sites (15,748 images), with superior synthesis fidelity and robustness to noise and domain shifts. Meanwhile, its unified representation enhances downstream RT-relevant tasks (e.g., segmentation). This work advances digital medicine solutions for NPC care by leveraging foundation models to bridge technical synthesis and clinical utility.

cs.CV↗

arXiv2026

DeepMoLM: Leveraging Visual and Geometric Structural Information for Molecule-Text Modeling

AI models for drug discovery and chemical literature mining must interpret molecular images and generate outputs consistent with 3D geometry and stereochemistry. Most molecular language models rely on strings or graphs, while vision-language models often miss stereochemical details and struggle to map continuous 3D structures into discrete tokens. We propose DeepMoLM: Deep Molecular Language M odeling, a dual-view framework that grounds high-resolution molecular images in geometric invariants derived from molecular conformations. DeepMoLM preserves high-frequency evidence from 1024 $\times$ 1024 inputs, encodes conformer neighborhoods as discrete Extended 3-Dimensional Fingerprints, and fuses visual and geometric streams with cross-attention, enabling physically grounded generation without atom coordinates. DeepMoLM improves PubChem captioning with a 12.3% relative METEOR gain over the strongest generalist baseline while staying competitive with specialist methods. It produces valid numeric outputs for all property queries and attains MAE 13.64 g/mol on Molecular Weight and 37.89 on Complexity in the specialist setting. On ChEBI-20 description generation from images, it exceeds generalist baselines and matches state-of-the-art vision-language models. Code is available at https://github.com/1anj/DeepMoLM.

cs.CV↗

arXiv2025

Structure-Aware Contrastive Learning with Fine-Grained Binding Representations for Drug Discovery

Accurate identification of drug-target interactions (DTI) remains a central challenge in computational pharmacology, where sequence-based methods offer scalability. This work introduces a sequence-based drug-target interaction framework that integrates structural priors into protein representations while maintaining high-throughput screening capability. Evaluated across multiple benchmarks, the model achieves state-of-the-art performance on Human and BioSNAP datasets and remains competitive on BindingDB. In virtual screening tasks, it surpasses prior methods on LIT-PCBA, yielding substantial gains in AUROC and BEDROC. Ablation studies confirm the critical role of learned aggregation, bilinear attention, and contrastive alignment in enhancing predictive robustness. Embedding visualizations reveal improved spatial correspondence with known binding pockets and highlight interpretable attention patterns over ligand-residue contacts. These results validate the framework's utility for scalable and structure-aware DTI prediction.

cs.LG↗

arXiv2025

REACT-KD: Region-Aware Cross-modal Topological Knowledge Distillation for Interpretable Medical Image Classification

Reliable and interpretable tumor classification from clinical imaging remains a core challenge. The main difficulties arise from heterogeneous modality quality, limited annotations, and the absence of structured anatomical guidance. We present REACT-KD, a Region-Aware Cross-modal Topological Knowledge Distillation framework that transfers supervision from high-fidelity multi-modal sources into a lightweight CT-based student model. The framework employs a dual teacher design. One branch captures structure-function relationships through dual-tracer PET/CT, while the other models dose-aware features using synthetically degraded low-dose CT. These branches jointly guide the student model through two complementary objectives. The first achieves semantic alignment through logits distillation, and the second models anatomical topology through region graph distillation. A shared CBAM3D module ensures consistent attention across modalities. To improve reliability in deployment, REACT-KD introduces modality dropout during training, which enables robust inference under partial or noisy inputs. As a case study, we applied REACT-KD to hepatocellular carcinoma staging. The framework achieved an average AUC of 93.5\% on an internal PET/CT cohort and maintained 76.6\% to 81.5\% AUC across varying levels of dose degradation in external CT testing. Decision curve analysis further shows that REACT-KD consistently provides the highest net clinical benefit across all thresholds, confirming its value in real-world diagnostic practice. Code is available at: https://github.com/Kinetics-JOJO/REACT-KD

eess.IV↗

arXiv2025

Contrastive Multi-Task Learning with Solvent-Aware Augmentation for Drug Discovery

Accurate prediction of protein-ligand interactions is essential for computer-aided drug discovery. However, existing methods often fail to capture solvent-dependent conformational changes and lack the ability to jointly learn multiple related tasks. To address these limitations, we introduce a pre-training method that incorporates ligand conformational ensembles generated under diverse solvent conditions as augmented input. This design enables the model to learn both structural flexibility and environmental context in a unified manner. The training process integrates molecular reconstruction to capture local geometry, interatomic distance prediction to model spatial relationships, and contrastive learning to build solvent-invariant molecular representations. Together, these components lead to significant improvements, including a 3.7% gain in binding affinity prediction, an 82% success rate on the PoseBusters Astex docking benchmarks, and an area under the curve of 97.1% in virtual screening. The framework supports solvent-aware, multi-task modeling and produces consistent results across benchmarks. A case study further demonstrates sub-angstrom docking accuracy with a root-mean-square deviation of 0.157 angstroms, offering atomic-level insight into binding mechanisms and advancing structure-based drug design.

q-bio.BM↗

arXiv2025

Decoding the Alzheimer's Continuum: Interpretable Multi-Gate Routing for Diagnosis and Transition Prediction

Alzheimer's disease (AD) manifests as a continuous progression from normal cognition (NC) through mild cognitive impairment (MCI) to dementia. However, most deep learning approaches reduce this continuum to disjointed classification tasks, largely ignoring dynamic stage transitions. To decode this complex progression, we propose M$^3$AD, a unified framework that jointly addresses three-class diagnosis classification and diagnosis stage transition prediction using only T1-weighted sMRI. M$^3$AD leverages an interpretable multi-gate mixture of experts architecture, employing specialized routing mechanisms to dynamically capture both diagnosis-specific pathological patterns and shared structural features across the continuum. It further integrates clinical priors (age, sex, eTIV) via adaptive attention fusion to enhance generalization. M$^3$AD achieves 95.13% accuracy, compared to 90.44% reported by MCLNC under its original experimental setting, and 94.87% for transition prediction. Crucially, analyzing the multi-gate routing reveals distinct expert activation signatures distinguishing stable from progressive MCI, providing a mechanistic basis for individual-level progression risk stratification. Code is available at https://github.com/csyfjiang/M3AD.

eess.IV↗

arXiv2025

USIGAN: Unbalanced Self-Information Feature Transport for Weakly Paired Image IHC Virtual Staining

Immunohistochemical (IHC) virtual staining is a task that generates virtual IHC images from H\&E images while maintaining pathological semantic consistency with adjacent slices. This task aims to achieve cross-domain mapping between morphological structures and staining patterns through generative models, providing an efficient and cost-effective solution for pathological analysis. However, under weakly paired conditions, spatial heterogeneity between adjacent slices presents significant challenges. This can lead to inaccurate one-to-many mappings and generate results that are inconsistent with the pathological semantics of adjacent slices. To address this issue, we propose a novel unbalanced self-information feature transport for IHC virtual staining, named USIGAN, which extracts global morphological semantics without relying on positional correspondence.By removing weakly paired terms in the joint marginal distribution, we effectively mitigate the impact of weak pairing on joint distributions, thereby significantly improving the content consistency and pathological semantic consistency of the generated results. Moreover, we design the Unbalanced Optimal Transport Consistency (UOT-CTM) mechanism and the Pathology Self-Correspondence (PC-SCM) mechanism to construct correlation matrices between H\&E and generated IHC in image-level and real IHC and generated IHC image sets in intra-group level.. Experiments conducted on two publicly available datasets demonstrate that our method achieves superior performance across multiple clinically significant metrics, such as IoD and Pearson-R correlation, demonstrating better clinical relevance.

cs.CV↗

arXiv2025

IC-Custom: Diverse Image Customization via In-Context Learning

Image customization, a crucial technique for industrial media production, aims to generate content that is consistent with reference images. However, current approaches conventionally separate image customization into position-aware and position-free customization paradigms and lack a universal framework for diverse customization, limiting their applications across various scenarios. To overcome these limitations, we propose IC-Custom, a unified framework that seamlessly integrates position-aware and position-free image customization through in-context learning. IC-Custom concatenates reference images with target images to a polyptych, leveraging DiT's multi-modal attention mechanism for fine-grained token-level interactions. We propose the In-context Multi-Modal Attention (ICMA) mechanism, which employs learnable task-oriented register tokens and boundary-aware positional embeddings to enable the model to effectively handle diverse tasks and distinguish between inputs in polyptych configurations. To address the data gap, we curated a 12K identity-consistent dataset with 8K real-world and 4K high-quality synthetic samples, avoiding the overly glossy, oversaturated look typical of synthetic data. IC-Custom supports various industrial applications, including try-on, image insertion, and creative IP customization. Extensive evaluations on our proposed ProductBench and the publicly available DreamBench demonstrate that IC-Custom significantly outperforms community workflows, closed-source models, and state-of-the-art open-source approaches. IC-Custom achieves about 73\% higher human preference across identity consistency, harmony, and text alignment metrics, while training only 0.4\% of the original model parameters. Project page: https://liyaowei-stu.github.io/project/IC_Custom

cs.CV↗

arXiv2025

Score-based Diffusion Model for Unpaired Virtual Histology Staining

Hematoxylin and eosin (H&E) staining visualizes histology but lacks specificity for diagnostic markers. Immunohistochemistry (IHC) staining provides protein-targeted staining but is restricted by tissue availability and antibody specificity. Virtual staining, i.e., computationally translating the H&E image to its IHC counterpart while preserving the tissue structure, is promising for efficient IHC generation. Existing virtual staining methods still face key challenges: 1) effective decomposition of staining style and tissue structure, 2) controllable staining process adaptable to diverse tissue and proteins, and 3) rigorous structural consistency modelling to handle the non-pixel-aligned nature of paired H&E and IHC images. This study proposes a mutual-information (MI)-guided score-based diffusion model for unpaired virtual staining. Specifically, we design 1) a global MI-guided energy function that disentangles the tissue structure and staining characteristics across modalities, 2) a novel timestep-customized reverse diffusion process for precise control of the staining intensity and structural reconstruction, and 3) a local MI-driven contrastive learning strategy to ensure the cellular level structural consistency between H&E-IHC images. Extensive experiments demonstrate the our superiority over state-of-the-art approaches, highlighting its biomedical potential. Codes will be open-sourced upon acceptance.

eess.IV↗

arXiv2025

Adapting Vision-Language Foundation Model for Next Generation Medical Ultrasound Image Analysis

Vision-Language Foundation Models (VLFMs) exhibit remarkable generalization, yet their direct application to medical ultrasound is severely hindered by a profound modality gap. The unique acoustic physics of ultrasound, characterized by speckle noise, shadowing, and heterogeneous textures, often degrades the performance of off-the-shelf VLFMs. To bridge this gap, we propose a novel Hybrid Tuning (HT) strategy for the parameter-efficient adaptation of CLIP-based models to ultrasound analysis. Instead of updating the pre-trained weights, HT freezes the visual backbone and integrates a specialized lightweight adapter. This adapter features a Frequency Filtering module to suppress domain-specific periodic artifacts and a Noise Estimation module to dynamically calibrate feature representations. Extensive evaluations across six multi-center datasets demonstrate that our HT-enhanced models significantly outperform existing state-of-the-art adapters and medical VLFMs in both segmentation and classification tasks. Notably, HT exhibits exceptional data efficiency in few-shot scenarios and robust cross-dataset generalization. Our findings prove that preserving pre-trained semantic priors while explicitly modeling ultrasound-specific noise is key to unlocking foundational intelligence in automated ultrasound diagnosis. The source code is available at https://github.com/jinggqu/NextGen-UIA.

cs.CV↗

arXiv2025

The Application of Deep Learning for Lymph Node Segmentation: A Systematic Review

Automatic lymph node segmentation is the cornerstone for advances in computer vision tasks for early detection and staging of cancer. Traditional segmentation methods are constrained by manual delineation and variability in operator proficiency, limiting their ability to achieve high accuracy. The introduction of deep learning technologies offers new possibilities for improving the accuracy of lymph node image analysis. This study evaluates the application of deep learning in lymph node segmentation and discusses the methodologies of various deep learning architectures such as convolutional neural networks, encoder-decoder networks, and transformers in analyzing medical imaging data across different modalities. Despite the advancements, it still confronts challenges like the shape diversity of lymph nodes, the scarcity of accurately labeled datasets, and the inadequate development of methods that are robust and generalizable across different imaging modalities. To the best of our knowledge, this is the first study that provides a comprehensive overview of the application of deep learning techniques in lymph node segmentation task. Furthermore, this study also explores potential future research directions, including multimodal fusion techniques, transfer learning, and the use of large-scale pre-trained models to overcome current limitations while enhancing cancer diagnosis and treatment planning strategies.

eess.IV↗

arXiv2025

DB-GNN: Dual-Branch Graph Neural Network with Multi-Level Contrastive Learning for Jointly Identifying Within- and Cross-Frequency Coupled Brain Networks

Within-frequency coupling (WFC) and cross-frequency coupling (CFC) in brain networks reflect neural synchronization within the same frequency band and cross-band oscillatory interactions, respectively. Their synergy provides a comprehensive understanding of neural mechanisms underlying cognitive states such as emotion. However, existing multi-channel EEG studies often analyze WFC or CFC separately, failing to fully leverage their complementary properties. This study proposes a dual-branch graph neural network (DB-GNN) to jointly identify within- and cross-frequency coupled brain networks. Firstly, DBGNN leverages its unique dual-branch learning architecture to efficiently mine global collaborative information and local cross-frequency and within-frequency coupling information. Secondly, to more fully perceive the global information of cross-frequency and within-frequency coupling, the global perception branch of DB-GNN adopts a Transformer architecture. To prevent overfitting of the Transformer architecture, this study integrates prior within- and cross-frequency coupling information into the Transformer inference process, thereby enhancing the generalization capability of DB-GNN. Finally, a multi-scale graph contrastive learning regularization term is introduced to constrain the global and local perception branches of DB-GNN at both graph-level and node-level, enhancing its joint perception ability and further improving its generalization performance. Experimental validation on the emotion recognition dataset shows that DB-GNN achieves a testing accuracy of 97.88% and an F1- score of 97.87%, reaching the state-of-the-art performance.

q-bio.NC↗