Zhou, Tao
Self-adaptive vision-language model for 3D segmentation of pulmonary artery and vein
Guo, Xiaotong, Yang, Deqian, Wang, Dan, Zhao, Haochen, Li, Yuan, Sui, Zhilin, Zhou, Tao, Zhang, Lijun, Meng, Yanda
Accurate segmentation of pulmonary structures iscrucial in clinical diagnosis, disease study, and treatment planning. Significant progress has been made in deep learning-based segmentation techniques, but most require much labeled data for training. Consequently, developing precise segmentation methods that demand fewer labeled datasets is paramount in medical image analysis. The emergence of pre-trained vision-language foundation models, such as CLIP, recently opened the door for universal computer vision tasks. Exploiting the generalization ability of these pre-trained foundation models on downstream tasks, such as segmentation, leads to unexpected performance with a relatively small amount of labeled data. However, exploring these models for pulmonary artery-vein segmentation is still limited. This paper proposes a novel framework called Language-guided self-adaptive Cross-Attention Fusion Framework. Our method adopts pre-trained CLIP as a strong feature extractor for generating the segmentation of 3D CT scans, while adaptively aggregating the cross-modality of text and image representations. We propose a s pecially designed adapter module to fine-tune pre-trained CLIP with a self-adaptive learning strategy to effectively fuse the two modalities of embeddings. We extensively validate our method on a local dataset, which is the largest pulmonary artery-vein CT dataset to date and consists of 718 labeled data in total. The experiments show that our method outperformed other state-of-the-art methods by a large margin. Our data and code will be made publicly available upon acceptance.
Self-Calibrated Dual Contrasting for Annotation-Efficient Bacteria Raman Spectroscopy Clustering and Classification
Yao, Haiming, Luo, Wei, Zhou, Tao, Gao, Ang, Wang, Xue
Raman scattering is based on molecular vibration spectroscopy and provides a powerful technology for pathogenic bacteria diagnosis using the unique molecular fingerprint information of a substance. The integration of deep learning technology has significantly improved the efficiency and accuracy of intelligent Raman spectroscopy (RS) recognition. However, the current RS recognition methods based on deep neural networks still require the annotation of a large amount of spectral data, which is labor-intensive. This paper presents a novel annotation-efficient Self-Calibrated Dual Contrasting (SCDC) method for RS recognition that operates effectively with few or no annotation. Our core motivation is to represent the spectrum from two different perspectives in two distinct subspaces: embedding and category. The embedding perspective captures instance-level information, while the category perspective reflects category-level information. Accordingly, we have implemented a dual contrastive learning approach from two perspectives to obtain discriminative representations, which are applicable for Raman spectroscopy recognition under both unsupervised and semi-supervised learning conditions. Furthermore, a self-calibration mechanism is proposed to enhance robustness. Validation of the identification task on three large-scale bacterial Raman spectroscopy datasets demonstrates that our SCDC method achieves robust recognition performance with very few (5$\%$ or 10$\%$) or no annotations, highlighting the potential of the proposed method for biospectral identification in annotation-efficient clinical scenarios.
Enhancing Large-scale UAV Route Planing with Global and Local Features via Reinforcement Graph Fusion
Zhou, Tao, Ye, Kai, Shi, Zeyu, Lin, Jiajing, Xu, Dejun, Jiang, Min
Numerous remarkable advancements have been made in accuracy, speed, and parallelism for solving the Unmanned Aerial Vehicle Route Planing (UAVRP). However, existing UAVRP solvers face challenges when attempting to scale effectively and efficiently for larger instances. In this paper, we present a generalization framework that enables current UAVRP solvers to robustly extend their capabilities to larger instances, accommodating up to 10,000 points, using widely recognized test sets. The UAVRP under a large number of patrol points is a typical large-scale TSP problem.Our proposed framework comprises three distinct steps. Firstly, we employ Delaunay triangulation to extract subgraphs from large instances while preserving global features. Secondly, we utilize an embedded TSP solver to obtain sub-results, followed by graph fusion. Finally, we implement a decoding strategy customizable to the user's requirements, resulting in high-quality solutions, complemented by a warming-up process for the heatmap. To demonstrate the flexibility of our approach, we integrate two representative TSP solvers into our framework and conduct a comprehensive comparative analysis against existing algorithms using large TSP benchmark datasets. The results unequivocally demonstrate that our framework efficiently scales existing TSP solvers to handle large instances and consistently outperforms state-of-the-art (SOTA) methods. Furthermore, since our proposed framework does not necessitate additional training or fine-tuning, we believe that its generality can significantly advance research on end-to-end UAVRP solvers, enabling the application of a broader range of methods to real-world scenarios.
Bridging the User-side Knowledge Gap in Knowledge-aware Recommendations with Large Language Models
Hu, Zheng, Li, Zhe, Jiao, Ziyun, Nakagawa, Satoshi, Deng, Jiawen, Cai, Shimin, Zhou, Tao, Ren, Fuji
In recent years, knowledge graphs have been integrated into recommender systems as item-side auxiliary information, enhancing recommendation accuracy. However, constructing and integrating structural user-side knowledge remains a significant challenge due to the improper granularity and inherent scarcity of user-side features. Recent advancements in Large Language Models (LLMs) offer the potential to bridge this gap by leveraging their human behavior understanding and extensive real-world knowledge. Nevertheless, integrating LLM-generated information into recommender systems presents challenges, including the risk of noisy information and the need for additional knowledge transfer. In this paper, we propose an LLM-based user-side knowledge inference method alongside a carefully designed recommendation framework to address these challenges. Our approach employs LLMs to infer user interests based on historical behaviors, integrating this user-side information with item-side and collaborative data to construct a hybrid structure: the Collaborative Interest Knowledge Graph (CIKG). Furthermore, we propose a CIKG-based recommendation framework that includes a user interest reconstruction module and a cross-domain contrastive learning module to mitigate potential noise and facilitate knowledge transfer. We conduct extensive experiments on three real-world datasets to validate the effectiveness of our method. Our approach achieves state-of-the-art performance compared to competitive baselines, particularly for users with sparse interactions.
DiffRaman: A Conditional Latent Denoising Diffusion Probabilistic Model for Bacterial Raman Spectroscopy Identification Under Limited Data Conditions
Yao, Haiming, Luo, Wei, Gao, Ang, Zhou, Tao, Wang, Xue
Raman spectroscopy has attracted significant attention in various biochemical detection fields, especially in the rapid identification of pathogenic bacteria. The integration of this technology with deep learning to facilitate automated bacterial Raman spectroscopy diagnosis has emerged as a key focus in recent research. However, the diagnostic performance of existing deep learning methods largely depends on a sufficient dataset, and in scenarios where there is a limited availability of Raman spectroscopy data, it is inadequate to fully optimize the numerous parameters of deep neural networks. To address these challenges, this paper proposes a data generation method utilizing deep generative models to expand the data volume and enhance the recognition accuracy of bacterial Raman spectra. Specifically, we introduce DiffRaman, a conditional latent denoising diffusion probability model for Raman spectra generation. Experimental results demonstrate that synthetic bacterial Raman spectra generated by DiffRaman can effectively emulate real experimental spectra, thereby enhancing the performance of diagnostic models, especially under conditions of limited data. Furthermore, compared to existing generative models, the proposed DiffRaman offers improvements in both generation quality and computational efficiency. Our DiffRaman approach offers a well-suited solution for automated bacteria Raman spectroscopy diagnosis in data-scarce scenarios, offering new insights into alleviating the labor of spectroscopic measurements and enhancing rare bacteria identification.
Exploring the Interplay Between Video Generation and World Models in Autonomous Driving: A Survey
Fu, Ao, Zhou, Yi, Zhou, Tao, Yang, Yi, Gao, Bojun, Li, Qun, Wu, Guobin, Shao, Ling
World models and video generation are pivotal technologies in the domain of autonomous driving, each playing a critical role in enhancing the robustness and reliability of autonomous systems. World models, which simulate the dynamics of real-world environments, and video generation models, which produce realistic video sequences, are increasingly being integrated to improve situational awareness and decision-making capabilities in autonomous vehicles. This paper investigates the relationship between these two technologies, focusing on how their structural parallels, particularly in diffusion-based models, contribute to more accurate and coherent simulations of driving scenarios. We examine leading works such as JEPA, Genie, and Sora, which exemplify different approaches to world model design, thereby highlighting the lack of a universally accepted definition of world models. These diverse interpretations underscore the field's evolving understanding of how world models can be optimized for various autonomous driving tasks. Furthermore, this paper discusses the key evaluation metrics employed in this domain, such as Chamfer distance for 3D scene reconstruction and Fr\'echet Inception Distance (FID) for assessing the quality of generated video content. By analyzing the interplay between video generation and world models, this survey identifies critical challenges and future research directions, emphasizing the potential of these technologies to jointly advance the performance of autonomous driving systems. The findings presented in this paper aim to provide a comprehensive understanding of how the integration of video generation and world models can drive innovation in the development of safer and more reliable autonomous vehicles.
Rank Aggregation in Crowdsourcing for Listwise Annotations
Luo, Wenshui, Liu, Haoyu, Ding, Yongliang, Zhou, Tao, wan, Sheng, Wu, Runze, Lin, Minmin, Zhang, Cong, Fan, Changjie, Gong, Chen
Rank aggregation through crowdsourcing has recently gained significant attention, particularly in the context of listwise ranking annotations. However, existing methods primarily focus on a single problem and partial ranks, while the aggregation of listwise full ranks across numerous problems remains largely unexplored. This scenario finds relevance in various applications, such as model quality assessment and reinforcement learning with human feedback. In light of practical needs, we propose LAC, a Listwise rank Aggregation method in Crowdsourcing, where the global position information is carefully measured and included. In our design, an especially proposed annotation quality indicator is employed to measure the discrepancy between the annotated rank and the true rank. We also take the difficulty of the ranking problem itself into consideration, as it directly impacts the performance of annotators and consequently influences the final results. To our knowledge, LAC is the first work to directly deal with the full rank aggregation problem in listwise crowdsourcing, and simultaneously infer the difficulty of problems, the ability of annotators, and the ground-truth ranks in an unsupervised way. To evaluate our method, we collect a real-world business-oriented dataset for paragraph ranking. Experimental results on both synthetic and real-world benchmark datasets demonstrate the effectiveness of our proposed LAC method.
Towards Ground-truth-free Evaluation of Any Segmentation in Medical Images
Senbi, Ahjol, Huang, Tianyu, Lyu, Fei, Li, Qing, Tao, Yuhui, Shao, Wei, Chen, Qiang, Wang, Chengyan, Wang, Shuo, Zhou, Tao, Zhang, Yizhe
We explore the feasibility and potential of building a ground-truth-free evaluation model to assess the quality of segmentations generated by the Segment Anything Model (SAM) and its variants in medical imaging. This evaluation model estimates segmentation quality scores by analyzing the coherence and consistency between the input images and their corresponding segmentation predictions. Based on prior research, we frame the task of training this model as a regression problem within a supervised learning framework, using Dice scores (and optionally other metrics) along with mean squared error to compute the training loss. The model is trained utilizing a large collection of public datasets of medical images with segmentation predictions from SAM and its variants. We name this model EvanySeg (Evaluation of Any Segmentation in Medical Images). Our exploration of convolution-based models (e.g., ResNet) and transformer-based models (e.g., ViT) suggested that ViT yields better performance for this task. EvanySeg can be employed for various tasks, including: (1) identifying poorly segmented samples by detecting low-percentile segmentation quality scores; (2) benchmarking segmentation models without ground truth by averaging quality scores across test samples; (3) alerting human experts to poor-quality segmentation predictions during human-AI collaboration by applying a threshold within the score space; and (4) selecting the best segmentation prediction for each test sample at test time when multiple segmentation models are available, by choosing the prediction with the highest quality score. Models and code will be made available at https://github.com/ahjolsenbics/EvanySeg.
Improving Segment Anything on the Fly: Auxiliary Online Learning and Adaptive Fusion for Medical Image Segmentation
Huang, Tianyu, Zhou, Tao, Xie, Weidi, Wang, Shuo, Dou, Qi, Zhang, Yizhe
The current variants of the Segment Anything Model (SAM), which include the original SAM and Medical SAM, still lack the capability to produce sufficiently accurate segmentation for medical images. In medical imaging contexts, it is not uncommon for human experts to rectify segmentations of specific test samples after SAM generates its segmentation predictions. These rectifications typically entail manual or semi-manual corrections employing state-of-the-art annotation tools. Motivated by this process, we introduce a novel approach that leverages the advantages of online machine learning to enhance Segment Anything (SA) during test time. We employ rectified annotations to perform online learning, with the aim of improving the segmentation quality of SA on medical images. To improve the effectiveness and efficiency of online learning when integrated with large-scale vision models like SAM, we propose a new method called Auxiliary Online Learning (AuxOL). AuxOL creates and applies a small auxiliary model (specialist) in conjunction with SAM (generalist), entails adaptive online-batch and adaptive segmentation fusion. Experiments conducted on eight datasets covering four medical imaging modalities validate the effectiveness of the proposed method. Our work proposes and validates a new, practical, and effective approach for enhancing SA on downstream segmentation tasks (e.g., medical image segmentation).
Predicting ptychography probe positions using single-shot phase retrieval neural network
Du, Ming, Zhou, Tao, Deng, Junjing, Ching, Daniel J., Henke, Steven, Cherukara, Mathew J.
Ptychography is a powerful imaging technique that is used in a variety of fields, including materials science, biology, and nanotechnology. However, the accuracy of the reconstructed ptychography image is highly dependent on the accuracy of the recorded probe positions which often contain errors. These errors are typically corrected jointly with phase retrieval through numerical optimization approaches. When the error accumulates along the scan path or when the error magnitude is large, these approaches may not converge with satisfactory result. We propose a fundamentally new approach for ptychography probe position prediction for data with large position errors, where a neural network is used to make single-shot phase retrieval on individual diffraction patterns, yielding the object image at each scan point. The pairwise offsets among these images are then found using a robust image registration method, and the results are combined to yield the complete scan path by constructing and solving a linear equation. We show that our method can achieve good position prediction accuracy for data with large and accumulating errors on the order of $10^2$ pixels, a magnitude that often makes optimization-based algorithms fail to converge. For ptychography instruments without sophisticated position control equipment such as interferometers, our method is of significant practical potential.