IVAug 18, 2024Code
Flemme: A Flexible and Modular Learning Platform for Medical ImagesGuoqing Zhang, Jingyun Yang, Yang Li
As the rapid development of computer vision and the emergence of powerful network backbones and architectures, the application of deep learning in medical imaging has become increasingly significant. Unlike natural images, medical images lack huge volumes of data but feature more modalities, making it difficult to train a general model that has satisfactory performance across various datasets. In practice, practitioners often suffer from manually creating and testing models combining independent backbones and architectures, which is a laborious and time-consuming process. We propose Flemme, a FLExible and Modular learning platform for MEdical images. Our platform separates encoders from the model architectures so that different models can be constructed via various combinations of supported encoders and architectures. We construct encoders using building blocks based on convolution, transformer, and state-space model (SSM) to process both 2D and 3D image patches. A base architecture is implemented following an encoder-decoder style, with several derived architectures for image segmentation, reconstruction, and generation tasks. In addition, we propose a general hierarchical architecture incorporating a pyramid loss to optimize and fuse vertical features. Experiments demonstrate that this simple design leads to an average improvement of 5.60% in Dice score and 7.81% in mean interaction of units (mIoU) for segmentation models, as well as an enhancement of 5.57% in peak signal-to-noise ratio (PSNR) and 8.22% in structural similarity (SSIM) for reconstruction models. We further utilize Flemme as an analytical tool to assess the effectiveness and efficiency of various encoders across different tasks. Code is available at https://github.com/wlsdzyzl/flemme.
LGJul 26, 2024
Practical Marketplace Optimization at Uber Using Causally-Informed Machine LearningBobby Chen, Siyu Chen, Jason Dowlatabadi et al.
Budget allocation of marketplace levers, such as incentives for drivers and promotions for riders, has long been a technical and business challenge at Uber; understanding lever budget changes' impact and estimating cost efficiency to achieve predefined budgets is crucial, with the goal of optimal allocations that maximize business value; we introduce an end-to-end machine learning and optimization procedure to automate budget decision-making for cities, relying on feature store, model training and serving, optimizers, and backtesting; proposing state-of-the-art deep learning (DL) estimator based on S-Learner and a novel tensor B-Spline regression model, we solve high-dimensional optimization with ADMM and primal-dual interior point convex optimization, substantially improving Uber's resource allocation efficiency.
CVDec 4, 2025
Identity Clue Refinement and Enhancement for Visible-Infrared Person Re-IdentificationGuoqing Zhang, Zhun Wang, Hairui Wang et al.
Visible-Infrared Person Re-Identification (VI-ReID) is a challenging cross-modal matching task due to significant modality discrepancies. While current methods mainly focus on learning modality-invariant features through unified embedding spaces, they often focus solely on the common discriminative semantics across modalities while disregarding the critical role of modality-specific identity-aware knowledge in discriminative feature learning. To bridge this gap, we propose a novel Identity Clue Refinement and Enhancement (ICRE) network to mine and utilize the implicit discriminative knowledge inherent in modality-specific attributes. Initially, we design a Multi-Perception Feature Refinement (MPFR) module that aggregates shallow features from shared branches, aiming to capture modality-specific attributes that are easily overlooked. Then, we propose a Semantic Distillation Cascade Enhancement (SDCE) module, which distills identity-aware knowledge from the aggregated shallow features and guide the learning of modality-invariant features. Finally, an Identity Clues Guided (ICG) Loss is proposed to alleviate the modality discrepancies within the enhanced features and promote the learning of a diverse representation space. Extensive experiments across multiple public datasets clearly show that our proposed ICRE outperforms existing SOTA methods.
ROMar 27
Integrated Shape-Force Estimation for Continuum Robots: A Virtual-Work and Polynomial-Curvature FrameworkGuoqing Zhang, Zihan Chen, Long Wang
Cable-driven continuum robots (CDCRs) are widely used in surgical and inspection tasks that require dexterous manipulation in confined spaces. Existing model-based estimation methods either assume constant curvature or rely on geometry-space interpolants, both of which struggle with accuracy under large deformations and sparse sensing. This letter introduces an integrated shape-force estimation framework that combines cable-tension measurements with tip-pose data to reconstruct backbone shape and estimate external tip force simultaneously. The framework employs polynomial curvature kinematics (PCK) and a virtual-work-based static formulation expressed directly in curvature space, where polynomial modal coefficients serve as generalized coordinates. The proposed method is validated through Cosserat-rod-based simulations and hardware experiments on a torque-cell-enabled CDCR prototype. Results show that the second-order PCK model achieves superior shape and force accuracy, combining a lightweight shape optimization with a closed-form, iteration-free force estimation, offering a compact and robust alternative to prior constant-curvature and geometry-space approaches.
CVSep 19, 2024
PVContext: Hybrid Context Model for Point Cloud CompressionGuoqing Zhang, Wenbo Zhao, Jian Liu et al.
Efficient storage of large-scale point cloud data has become increasingly challenging due to advancements in scanning technology. Recent deep learning techniques have revolutionized this field; However, most existing approaches rely on single-modality contexts, such as octree nodes or voxel occupancy, limiting their ability to capture information across large regions. In this paper, we propose PVContext, a hybrid context model for effective octree-based point cloud compression. PVContext comprises two components with distinct modalities: the Voxel Context, which accurately represents local geometric information using voxels, and the Point Context, which efficiently preserves global shape information from point clouds. By integrating these two contexts, we retain detailed information across large areas while controlling the context size. The combined context is then fed into a deep entropy model to accurately predict occupancy. Experimental results demonstrate that, compared to G-PCC, our method reduces the bitrate by 37.95\% on SemanticKITTI LiDAR point clouds and by 48.98\% and 36.36\% on dense object point clouds from MPEG 8i and MVUB, respectively.
CVApr 17, 2025Code
Hierarchical Feature Learning for Medical Point Clouds via State Space ModelGuoqing Zhang, Jingyun Yang, Yang Li
Deep learning-based point cloud modeling has been widely investigated as an indispensable component of general shape analysis. Recently, transformer and state space model (SSM) have shown promising capacities in point cloud learning. However, limited research has been conducted on medical point clouds, which have great potential in disease diagnosis and treatment. This paper presents an SSM-based hierarchical feature learning framework for medical point cloud understanding. Specifically, we down-sample input into multiple levels through the farthest point sampling. At each level, we perform a series of k-nearest neighbor (KNN) queries to aggregate multi-scale structural information. To assist SSM in processing point clouds, we introduce coordinate-order and inside-out scanning strategies for efficient serialization of irregular points. Point features are calculated progressively from short neighbor sequences and long point sequences through vanilla and group Point SSM blocks, to capture both local patterns and long-range dependencies. To evaluate the proposed method, we build a large-scale medical point cloud dataset named MedPointS for anatomy classification, completion, and segmentation. Extensive experiments conducted on MedPointS demonstrate that our method achieves superior performance across all tasks. The dataset is available at https://flemme-docs.readthedocs.io/en/latest/medpoints.html. Code is merged to a public medical imaging platform: https://github.com/wlsdzyzl/flemme.
CVMar 8Code
High-Fidelity Medical Shape Generation via Skeletal Latent DiffusionGuoqing Zhang, Jingyun Yang, Siqi Chen et al.
Anatomy shape modeling is a fundamental problem in medical data analysis. However, the geometric complexity and topological variability of anatomical structures pose significant challenges to accurate anatomical shape generation. In this work, we propose a skeletal latent diffusion framework that explicitly incorporates structural priors for efficient and high-fidelity medical shape generation. We introduce a shape auto-encoder in which the encoder captures global geometric information through a differentiable skeletonization module and aggregates local surface features into shape latents, while the decoder predicts the corresponding implicit fields over sparsely sampled coordinates. New shapes are generated via a latent-space diffusion model, followed by neural implicit decoding and mesh extraction. To address the limited availability of medical shape data, we construct a large-scale dataset, \textit{MedSDF}, comprising surface point clouds and corresponding signed distance fields across multiple anatomical categories. Extensive experiments on MedSDF and vessel datasets demonstrate that the proposed method achieves superior reconstruction and generation quality while maintaining a higher computational efficiency compared with existing approaches. Code is available at: https://github.com/wlsdzyzl/meshage.
CVFeb 3, 2025Code
Adapting Foundation Models for Few-Shot Medical Image Segmentation: Actively and SequentiallyJingyun Yang, Guoqing Zhang, Jingge Wang et al.
Recent advances in foundation models have brought promising results in computer vision, including medical image segmentation. Fine-tuning foundation models on specific low-resource medical tasks has become a standard practice. However, ensuring reliable and robust model adaptation when the target task has a large domain gap and few annotated samples remains a challenge. Previous few-shot domain adaptation (FSDA) methods seek to bridge the distribution gap between source and target domains by utilizing auxiliary data. The selection and scheduling of auxiliaries are often based on heuristics, which can easily cause negative transfer. In this work, we propose an Active and Sequential domain AdaPtation (ASAP) framework for dynamic auxiliary dataset selection in FSDA. We formulate FSDA as a multi-armed bandit problem and derive an efficient reward function to prioritize training on auxiliary datasets that align closely with the target task, through a single-round fine-tuning. Empirical validation on diverse medical segmentation datasets demonstrates that our method achieves favorable segmentation performance, significantly outperforming the state-of-the-art FSDA methods, achieving an average gain of 27.75% on MRI and 7.52% on CT datasets in Dice score. Code is available at the git repository: https://github.com/techicoco/ASAP.
CVAug 28, 2025Code
Learning What is Worth Learning: Active and Sequential Domain Adaptation for Multi-modal Gross Tumor Volume SegmentationJingyun Yang, Guoqing Zhang, Jingge Wang et al.
Accurate gross tumor volume segmentation on multi-modal medical data is critical for radiotherapy planning in nasopharyngeal carcinoma and glioblastoma. Recent advances in deep neural networks have brought promising results in medical image segmentation, leading to an increasing demand for labeled data. Since labeling medical images is time-consuming and labor-intensive, active learning has emerged as a solution to reduce annotation costs by selecting the most informative samples to label and adapting high-performance models with as few labeled samples as possible. Previous active domain adaptation (ADA) methods seek to minimize sample redundancy by selecting samples that are farthest from the source domain. However, such one-off selection can easily cause negative transfer, and access to source medical data is often limited. Moreover, the query strategy for multi-modal medical data remains unexplored. In this work, we propose an active and sequential domain adaptation framework for dynamic multi-modal sample selection in ADA. We derive a query strategy to prioritize labeling and training on the most valuable samples based on their informativeness and representativeness. Empirical validation on diverse gross tumor volume segmentation tasks demonstrates that our method achieves favorable segmentation performance, significantly outperforming state-of-the-art ADA methods. Code is available at the git repository: \href{https://github.com/Hiyoochan/mmActS}{mmActS}.
CVAug 24, 2025Code
Condition Weaving Meets Expert Modulation: Towards Universal and Controllable Image GenerationGuoqing Zhang, Xingtong Ge, Lu Shi et al.
The image-to-image generation task aims to produce controllable images by leveraging conditional inputs and prompt instructions. However, existing methods often train separate control branches for each type of condition, leading to redundant model structures and inefficient use of computational resources. To address this, we propose a Unified image-to-image Generation (UniGen) framework that supports diverse conditional inputs while enhancing generation efficiency and expressiveness. Specifically, to tackle the widely existing parameter redundancy and computational inefficiency in controllable conditional generation architectures, we propose the Condition Modulated Expert (CoMoE) module. This module aggregates semantically similar patch features and assigns them to dedicated expert modules for visual representation and conditional modeling. By enabling independent modeling of foreground features under different conditions, CoMoE effectively mitigates feature entanglement and redundant computation in multi-condition scenarios. Furthermore, to bridge the information gap between the backbone and control branches, we propose WeaveNet, a dynamic, snake-like connection mechanism that enables effective interaction between global text-level control from the backbone and fine-grained control from conditional branches. Extensive experiments on the Subjects-200K and MultiGen-20M datasets across various conditional image generation tasks demonstrate that our method consistently achieves state-of-the-art performance, validating its advantages in both versatility and effectiveness. The code has been uploaded to https://github.com/gavin-gqzhang/UniGen.
CVJul 21, 2025Code
Hierarchical Part-based Generative Model for Realistic 3D Blood VesselSiqi Chen, Guoqing Zhang, Jiahao Lai et al.
Advancements in 3D vision have increased the impact of blood vessel modeling on medical applications. However, accurately representing the complex geometry and topology of blood vessels remains a challenge due to their intricate branching patterns, curvatures, and irregular shapes. In this study, we propose a hierarchical part-based frame work for 3D vessel generation that separates the global binary tree-like topology from local geometric details. Our approach proceeds in three stages: (1) key graph generation to model the overall hierarchical struc ture, (2) vessel segment generation conditioned on geometric properties, and (3) hierarchical vessel assembly by integrating the local segments according to the global key graph. We validate our framework on real world datasets, demonstrating superior performance over existing methods in modeling complex vascular networks. This work marks the first successful application of a part-based generative approach for 3D vessel modeling, setting a new benchmark for vascular data generation. The code is available at: https://github.com/CybercatChen/PartVessel.git.
CVFeb 20, 2024Code
A Geometric Algorithm for Tubular Shape Reconstruction from Skeletal RepresentationGuoqing Zhang, Yang Li
We introduce a novel approach for the reconstruction of tubular shapes from skeletal representations. Our method processes all skeletal points as a whole, eliminating the need for splitting input structure into multiple segments. We represent the tubular shape as a truncated signed distance function (TSDF) in a voxel hashing manner, in which the signed distance between a voxel center and the object is computed through a simple geometric algorithm. Our method does not involve any surface sampling scheme or solving large matrix equations, and therefore is a faster and more elegant solution for tubular shape reconstruction compared to other approaches. Experiments demonstrate the efficiency and effectiveness of the proposed method. Code is avaliable at https://github.com/wlsdzyzl/Dragon.
CVMay 25, 2021Code
Deep High-Resolution Representation Learning for Cross-Resolution Person Re-identificationGuoqing Zhang, Yu Ge, Zhicheng Dong et al.
Person re-identification (re-ID) tackles the problem of matching person images with the same identity from different cameras. In practical applications, due to the differences in camera performance and distance between cameras and persons of interest, captured person images usually have various resolutions. We name this problem as Cross-Resolution Person Re-identification which brings a great challenge for matching correctly. In this paper, we propose a Deep High-Resolution Pseudo-Siamese Framework (PS-HRNet) to solve the above problem. Specifically, in order to restore the resolution of low-resolution images and make reasonable use of different channel information of feature maps, we introduce and innovate VDSR module with channel attention (CA) mechanism, named as VDSR-CA. Then we reform the HRNet by designing a novel representation head to extract discriminating features, named as HRNet-ReID. In addition, a pseudo-siamese framework is constructed to reduce the difference of feature distributions between low-resolution images and high-resolution images. The experimental results on five cross-resolution person datasets verify the effectiveness of our proposed approach. Compared with the state-of-the-art methods, our proposed PS-HRNet improves 3.4\%, 6.2\%, 2.5\%,1.1\% and 4.2\% at Rank-1 on MLR-Market-1501, MLR-CUHK03, MLR-VIPeR, MLR-DukeMTMC-reID, and CAVIAR datasets, respectively. Our code is available at \url{https://github.com/zhguoqing}.
CVMay 25, 2021Code
TIPCB: A Simple but Effective Part-based Convolutional Baseline for Text-based Person SearchYuhao Chen, Guoqing Zhang, Yujiang Lu et al.
Text-based person search is a sub-task in the field of image retrieval, which aims to retrieve target person images according to a given textual description. The significant feature gap between two modalities makes this task very challenging. Many existing methods attempt to utilize local alignment to address this problem in the fine-grained level. However, most relevant methods introduce additional models or complicated training and evaluation strategies, which are hard to use in realistic scenarios. In order to facilitate the practical application, we propose a simple but effective end-to-end learning framework for text-based person search named TIPCB (i.e., Text-Image Part-based Convolutional Baseline). Firstly, a novel dual-path local alignment network structure is proposed to extract visual and textual local representations, in which images are segmented horizontally and texts are aligned adaptively. Then, we propose a multi-stage cross-modal matching strategy, which eliminates the modality gap from three feature levels, including low level, local level and global level. Extensive experiments are conducted on the widely-used benchmark dataset (CUHK-PEDES) and verify that our method outperforms the state-of-the-art methods by 3.69%, 2.95% and 2.31% in terms of Top-1, Top-5 and Top-10. Our code has been released in https://github.com/OrangeYHChen/TIPCB.
CVSep 16, 2020Code
Hybrid-Attention Guided Network with Multiple Resolution Features for Person Re-IdentificationGuoqing Zhang, Junchuan Yang, Yuhui Zheng et al.
Extracting effective and discriminative features is very important for addressing the challenging person re-identification (re-ID) task. Prevailing deep convolutional neural networks (CNNs) usually use high-level features for identifying pedestrian. However, some essential spatial information resided in low-level features such as shape, texture and color will be lost when learning the high-level features, due to extensive padding and pooling operations in the training stage. In addition, most existing person re-ID methods are mainly based on hand-craft bounding boxes where images are precisely aligned. It is unrealistic in practical applications, since the exploited object detection algorithms often produce inaccurate bounding boxes. This will inevitably degrade the performance of existing algorithms. To address these problems, we put forward a novel person re-ID model that fuses high- and low-level embeddings to reduce the information loss caused in learning high-level features. Then we divide the fused embedding into several parts and reconnect them to obtain the global feature and more significant local features, so as to alleviate the affect caused by the inaccurate bounding boxes. In addition, we also introduce the spatial and channel attention mechanisms in our model, which aims to mine more discriminative features related to the target. Finally, we reconstruct the feature extractor to ensure that our model can obtain more richer and robust features. Extensive experiments display the superiority of our approach compared with existing approaches. Our code is available at https://github.com/libraflower/MutipleFeature-for-PRID.
CVAug 27, 2024
Diffusion-Occ: 3D Point Cloud Completion via Occupancy DiffusionGuoqing Zhang, Jian Liu
Point clouds are crucial for capturing three-dimensional data but often suffer from incompleteness due to limitations such as resolution and occlusion. Traditional methods typically rely on point-based approaches within discriminative frameworks for point cloud completion. In this paper, we introduce \textbf{Diffusion-Occ}, a novel framework for Diffusion Point Cloud Completion. Diffusion-Occ utilizes a two-stage coarse-to-fine approach. In the first stage, the Coarse Density Voxel Prediction Network (CDNet) processes partial points to predict coarse density voxels, streamlining global feature extraction through voxel classification, as opposed to previous regression-based methods. In the second stage, we introduce the Occupancy Generation Network (OccGen), a conditional occupancy diffusion model based on a transformer architecture and enhanced by our Point-Voxel Fuse (PVF) block. This block integrates coarse density voxels with partial points to leverage both global and local features for comprehensive completion. By thresholding the occupancy field, we convert it into a complete point cloud. Additionally, our method employs diverse training mixtures and efficient diffusion parameterization to enable effective one-step sampling during both training and inference. Experimental results demonstrate that Diffusion-Occ outperforms existing discriminative and generative methods.
AIJan 7, 2025
AI-Driven Reinvention of Hydrological Modeling for Accurate Predictions and Interpretation to Transform Earth System ModelingCuihui Xia, Lei Yue, Deliang Chen et al.
Traditional equation-driven hydrological models often struggle to accurately predict streamflow in challenging regional Earth systems like the Tibetan Plateau, while hybrid and existing algorithm-driven models face difficulties in interpreting hydrological behaviors. This work introduces HydroTrace, an algorithm-driven, data-agnostic model that substantially outperforms these approaches, achieving a Nash-Sutcliffe Efficiency of 98% and demonstrating strong generalization on unseen data. Moreover, HydroTrace leverages advanced attention mechanisms to capture spatial-temporal variations and feature-specific impacts, enabling the quantification and spatial resolution of streamflow partitioning as well as the interpretation of hydrological behaviors such as glacier-snow-streamflow interactions and monsoon dynamics. Additionally, a large language model (LLM)-based application allows users to easily understand and apply HydroTrace's insights for practical purposes. These advancements position HydroTrace as a transformative tool in hydrological and broader Earth system modeling, offering enhanced prediction accuracy and interpretability.
CVMar 8, 2024
REPS: Reconstruction-based Point Cloud SamplingGuoqing Zhang, Wenbo Zhao, Jian Liu et al.
Sampling is widely used in various point cloud tasks as it can effectively reduce resource consumption. Recently, some methods have proposed utilizing neural networks to optimize the sampling process for various task requirements. Currently, deep downsampling methods can be categorized into two main types: generative-based and score-based. Generative-based methods directly generate sampled point clouds using networks, whereas score-based methods assess the importance of points according to specific rules and then select sampled point clouds based on their scores. However, these methods often result in noticeable clustering effects in high-intensity feature areas, compromising their ability to preserve small-scale features and leading to the loss of some structures, thereby affecting the performance of subsequent tasks. In this paper, we propose REPS, a reconstruction-based scoring strategy that evaluates the importance of each vertex by removing and reconstructing them using surrounding vertices. Our reconstruction process comprises point reconstruction and shape reconstruction. The two aforementioned reconstruction methods effectively evaluate the importance of vertices by removing them at different scales for reconstruction. These reconstructions ensure that our method maintains the overall geometric features of the point cloud and avoids disturbing small-scale structures during sampling. Additionally, we propose the Global-Local Fusion Attention (GLFA) module, which aggregates local and global attention features of point clouds, ensuring high-quality reconstruction and sampling effects. Our method outperforms previous approaches in preserving the structural features of the sampled point clouds. Furthermore, abundant experimental results demonstrate the superior performance of our method across various common tasks.
CVApr 8
Not all tokens contribute equally to diffusion learningGuoqing Zhang, Lu Shi, Wanru Xu et al.
With the rapid development of conditional diffusion models, significant progress has been made in text-to-video generation. However, we observe that these models often neglect semantically important tokens during inference, leading to biased or incomplete generations under classifier-free guidance. We attribute this issue to two key factors: distributional bias caused by the long-tailed token frequency in training data, and spatial misalignment in cross-attention where semantically important tokens are overshadowed by less informative ones. To address these issues, we propose Distribution-Aware Rectification and Spatial Ensemble (DARE), a unified framework that improves semantic guidance in diffusion models from the perspectives of distributional debiasing and spatial consistency. First, we introduce Distribution-Rectified Classifier-Free Guidance (DR-CFG), which regularizes the training process by dynamically suppressing dominant tokens with low semantic density, encouraging the model to better capture underrepresented semantic cues and learn a more balanced conditional distribution. This design mitigates the risk of the model distribution overfitting to tokens with low semantic density. Second, we propose Spatial Representation Alignment (SRA), which adaptively reweights cross-attention maps according to token importance and enforces representation consistency, enabling semantically important tokens to exert stronger spatial guidance during generation. This mechanism effectively prevents low semantic-density tokens from dominating the attention allocation, thereby avoiding the dilution of the spatial and distributional guidance provided by high semantic-density tokens. Extensive experiments on multiple benchmark datasets demonstrate that DARE consistently improves generation fidelity and semantic alignment, achieving significant gains over existing approaches.
CVFeb 4, 2025
Transfer Risk Map: Mitigating Pixel-level Negative Transfer in Medical SegmentationShutong Duan, Jingyun Yang, Yang Tan et al.
How to mitigate negative transfer in transfer learning is a long-standing and challenging issue, especially in the application of medical image segmentation. Existing methods for reducing negative transfer focus on classification or regression tasks, ignoring the non-uniform negative transfer risk in different image regions. In this work, we propose a simple yet effective weighted fine-tuning method that directs the model's attention towards regions with significant transfer risk for medical semantic segmentation. Specifically, we compute a transferability-guided transfer risk map to quantify the transfer hardness for each pixel and the potential risks of negative transfer. During the fine-tuning phase, we introduce a map-weighted loss function, normalized with image foreground size to counter class imbalance. Extensive experiments on brain segmentation datasets show our method significantly improves the target task performance, with gains of 4.37% on FeTS2021 and 1.81% on iSeg2019, avoiding negative transfer across modalities and tasks. Meanwhile, a 2.9% gain under a few-shot scenario validates the robustness of our approach.
BMJul 30, 2025
zERExtractor:An Automated Platform for Enzyme-Catalyzed Reaction Data Extraction from Scientific LiteratureRui Zhou, Haohui Ma, Tianle Xin et al.
The rapid expansion of enzyme kinetics literature has outpaced the curation capabilities of major biochemical databases, creating a substantial barrier to AI-driven modeling and knowledge discovery. We present zERExtractor, an automated and extensible platform for comprehensive extraction of enzyme-catalyzed reaction and activity data from scientific literature. zERExtractor features a unified, modular architecture that supports plug-and-play integration of state-of-the-art models, including large language models (LLMs), as interchangeable components, enabling continuous system evolution alongside advances in AI. Our pipeline combines domain-adapted deep learning, advanced OCR, semantic entity recognition, and prompt-driven LLM modules, together with human expert corrections, to extract kinetic parameters (e.g., kcat, Km), enzyme sequences, substrate SMILES, experimental conditions, and molecular diagrams from heterogeneous document formats. Through active learning strategies integrating AI-assisted annotation, expert validation, and iterative refinement, the system adapts rapidly to new data sources. We also release a large benchmark dataset comprising over 1,000 annotated tables and 5,000 biological fields from 270 P450-related enzymology publications. Benchmarking demonstrates that zERExtractor consistently outperforms existing baselines in table recognition (Acc 89.9%), molecular image interpretation (up to 99.1%), and relation extraction (accuracy 94.2%). zERExtractor bridges the longstanding data gap in enzyme kinetics with a flexible, plugin-ready framework and high-fidelity extraction, laying the groundwork for future AI-powered enzyme modeling and biochemical knowledge discovery.
AINov 13, 2024
Optimizing Automatic Summarization of Long Clinical Records Using Dynamic Context Extension:Testing and Evaluation of the NBCE MethodGuoqing Zhang, Keita Fukuyama, Kazumasa Kishimoto et al.
Summarizing patient clinical notes is vital for reducing documentation burdens. Current manual summarization makes medical staff struggle. We propose an automatic method using LLMs, but long inputs cause LLMs to lose context, reducing output quality especially in small size model. We used a 7B model, open-calm-7b, enhanced with Native Bayes Context Extend and a redesigned decoding mechanism to reference one sentence at a time, keeping inputs within context windows, 2048 tokens. Our improved model achieved near parity with Google's over 175B Gemini on ROUGE-L metrics with 200 samples, indicating strong performance using less resources, enhancing automated EMR summarization feasibility.
CVMay 26, 2021
Low Resolution Information Also Matters: Learning Multi-Resolution Representations for Person Re-IdentificationGuoqing Zhang, Yuhao Chen, Weisi Lin et al.
As a prevailing task in video surveillance and forensics field, person re-identification (re-ID) aims to match person images captured from non-overlapped cameras. In unconstrained scenarios, person images often suffer from the resolution mismatch problem, i.e., \emph{Cross-Resolution Person Re-ID}. To overcome this problem, most existing methods restore low resolution (LR) images to high resolution (HR) by super-resolution (SR). However, they only focus on the HR feature extraction and ignore the valid information from original LR images. In this work, we explore the influence of resolutions on feature extraction and develop a novel method for cross-resolution person re-ID called \emph{\textbf{M}ulti-Resolution \textbf{R}epresentations \textbf{J}oint \textbf{L}earning} (\textbf{MRJL}). Our method consists of a Resolution Reconstruction Network (RRN) and a Dual Feature Fusion Network (DFFN). The RRN uses an input image to construct a HR version and a LR version with an encoder and two decoders, while the DFFN adopts a dual-branch structure to generate person representations from multi-resolution images. Comprehensive experiments on five benchmarks verify the superiority of the proposed MRJL over the relevent state-of-the-art methods.
CVMar 21, 2021
Reference-Aided Part-Aligned Feature Disentangling for Video Person Re-IdentificationGuoqing Zhang, Yuhao Chen, Yang Dai et al.
Recently, video-based person re-identification (re-ID) has drawn increasing attention in compute vision community because of its practical application prospects. Due to the inaccurate person detections and pose changes, pedestrian misalignment significantly increases the difficulty of feature extraction and matching. To address this problem, in this paper, we propose a \textbf{R}eference-\textbf{A}ided \textbf{P}art-\textbf{A}ligned (\textbf{RAPA}) framework to disentangle robust features of different parts. Firstly, in order to obtain better references between different videos, a pose-based reference feature learning module is introduced. Secondly, an effective relation-based part feature disentangling module is explored to align frames within each video. By means of using both modules, the informative parts of pedestrian in videos are well aligned and more discriminative feature representation is generated. Comprehensive experiments on three widely-used benchmarks, i.e. iLIDS-VID, PRID-2011 and MARS datasets verify the effectiveness of the proposed framework. Our code will be made publicly available.
CVAug 24, 2020
Cascade Convolutional Neural Network for Image Super-ResolutionJianwei Zhang, zhenxing Wang, yuhui Zheng et al.
With the development of the super-resolution convolutional neural network (SRCNN), deep learning technique has been widely applied in the field of image super-resolution. Previous works mainly focus on optimizing the structure of SRCNN, which have been achieved well performance in speed and restoration quality for image super-resolution. However, most of these approaches only consider a specific scale image during the training process, while ignoring the relationship between different scales of images. Motivated by this concern, in this paper, we propose a cascaded convolution neural network for image super-resolution (CSRCNN), which includes three cascaded Fast SRCNNs and each Fast SRCNN can process a specific scale image. Images of different scales can be trained simultaneously and the learned network can make full use of the information resided in different scales of images. Extensive experiments show that our network can achieve well performance for image SR.
CRJul 3, 2020
A New Theoretical Framework of Pyramid Markov Processes for Blockchain Selfish MiningQuan-Lin Li, Yan-Xia Chang, Xiaole Wu et al.
In this paper, we provide a new theoretical framework of pyramid Markov processes to solve some open and fundamental problems of blockchain selfish mining under a rigorous mathematical setting. We first describe a more general model of blockchain selfish mining with both a two-block leading competitive criterion and a new economic incentive mechanism. Then we establish a pyramid Markov process and show that it is irreducible and positive recurrent, and its stationary probability vector is matrix-geometric with an explicitly representable rate matrix. Also, we use the stationary probability vector to study the influence of many orphan blocks on the waste of computing resource. Next, we set up a pyramid Markov reward process to investigate the long-run average profits of the honest and dishonest mining pools, respectively. As a by-product, we build three approximative Markov processes and provide some new interesting interpretation on the Markov chain and the revenue analysis reported in the seminal work by Eyal and Sirer (2014). Note that the pyramid Markov (reward) processes can open up a new avenue in the study of blockchain selfish mining. Thus we hope that the methodology and results developed in this paper shed light on the blockchain selfish mining such that a series of promising research can be developed potentially.